chl.bib
@misc{Michailidis:2007,
author = {G Michailidis},
journal = {Miscellaneous},
title = {Multilevel Homogeneity Analysis},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Michailidis-2007-Miscellaneous_Multilevel%20Homogenei.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1940},
rating = {0}
}
@article{Arpinelli:2006p4450,
author = {Fabio Arpinelli and Francesco Bamfi},
journal = {Health Qual Life Outcomes},
title = {The FDA guidance for industry on PROs: the point of view of a pharmaceutical company},
abstract = {The importance of the patients point of view on their health status is widely recognised. Patient-reported outcomes is a broad term encompassing a large variety of different health data reported by patients, as symptoms, functional status, Quality of Life and Health-Related Quality of Life. Measurements of Health-Related Quality of Life have been developed during many years of researches, and a lot of validated questionnaires exist. However, few attempts have been made to standardise the evaluation of instruments characteristics, no recommendations are made about interpretation on Health-Related Quality of Life results, especially regarding the clinical significance of a change leading a therapeutic approach. Moreover, the true value of Health-Related Quality of Life evaluations in clinical trials has not yet been completely defined. An important step towards a more structured and frequent use of Patient-Reported Outcomes in drug development is represented by the FDA Guidance, issued on February 2006. In our paper we aim to report some considerations on this Guidance. Our comments focus especially on the characteristics of instruments to use, the Minimal Important Difference, and the methods to calculate it. Furthermore, we present the advantages and opportunities of using the Patient-Reported Outcomes in drug development, as seen by a pharmaceutical company. The Patient-Reported Outcomes can provide additional data to make a drug more competitive than others of the same pharmacological class, and a well demonstrated positive impact on the patient' health status and daily life might allow a higher price and/or the inclusion in a reimbursement list. Applying extensively the FDA Guidance in the next trials could lead to a wider culture of subjective measurement, and to a greater consideration for the patient's opinions on his/her care. Moreover, prescribing doctors and payers could benefit from subjective information to better define the value of drugs.},
affiliation = {Health Technology Assessment, Medical Department, GSK S.p.A. Verona, Italy. fabio.a.arpinelli@gsk.com},
pages = {85},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Drug Industry, Guidelines as Topic, Self Concept, United States, Sickness Impact Profile, Attitude to Health, Quality of Life, Clinical Trials as Topic, Outcome Assessment (Health Care), United States Food and Drug Administration, Humans},
date-added = {2010-01-29 21:36:54 +0100},
date-modified = {2010-01-29 21:36:55 +0100},
doi = {10.1186/1477-7525-4-85},
pii = {1477-7525-4-85},
pmid = {17076891},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arpinelli-2006-Health%20and%20Quality%20of%20Life%20Outcomes_The%20FDA%20guidance%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4450},
rating = {0}
}
@article{Galfalvy:2009p9649,
author = {Hanga Galfalvy and Yung-Yu Huang and Maria A Oquendo and Dianne Currier and J John Mann},
journal = {J Affect Disord},
title = {Increased risk of suicide attempt in mood disorders and TPH1 genotype},
abstract = {BACKGROUND: The tryptophan hydroxylase 1 (TPH1) gene is reported to be associated with suicidal behavior. This has not been confirmed by prospective studies of suicide and clinical or biological mediators of this genetic risk have not been identified. METHODS: 343 subjects (Caucasian, African-American, Hispanic) presenting with a Major Depressive Episode were genotyped for polymorphisms A218C in intron 7 and A-6526G in the promoter region of TPH1, and monitored for suicide attempts for up to one year. Clinical correlates of suicidal behavior and CSF-HIAA, HVA and MHPG levels were explored as possible mediators of genetic risk. Analyses were adjusted for ethnicity. RESULTS: The AA genotype on intron 7 and the AA genotype on the promoter (both more prevalent in Caucasians) predicted suicide attempts during the 1 year follow-up, and were associated with past attempts of high medical lethality, regardless of ethnicity. The intron 7 genotype was associated with fewer reported reasons for living, and lower impulsivity. Haplotype analysis indicated significant increase in risk of suicide attempts for subjects with four risk alleles. TPH1 genotype was not associated with CSF metabolite levels. LIMITATIONS: The TPH1 gene is likely one of several genes associated with suicidal behavior. Power to detect differential genotype effects by ethnicity is low. CONCLUSIONS: Polymorphisms of TPH1 may assist in identifying a subgroup of mood disorder patients that is at higher risk for suicidal behavior.},
affiliation = {Division of Molecular Imaging and Neuropathology, Department of Psychiatry, Columbia University,; and New York State Psychiatric Institute, New York, NY 10032, USA. hcg2002@columbia.edu},
number = {3},
pages = {331--8},
volume = {115},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Adolescent, Haplotypes, African Americans, Homovanillic Acid, Tryptophan Hydroxylase, Depressive Disorder: Major, Female, Sex Factors, Hydroxyindoleacetic Acid, Humans, European Continental Ancestry Group, Hispanic Americans, Mood Disorders, Young Adult, Male, Prospective Studies, Methoxyhydroxyphenylglycol, Polymorphism: Single Nucleotide, Risk Factors, Middle Aged, Bipolar Disorder, Aged, Adult, Genetic Predisposition to Disease, Suicide: Attempted, New York},
date-added = {2010-03-25 14:53:49 +0100},
date-modified = {2010-03-25 14:53:49 +0100},
doi = {10.1016/j.jad.2008.09.019},
pii = {S0165-0327(08)00370-4},
pmid = {18977032},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T2X-4TTDYRV-1&_user=2432700&_coverDate=06%252F30%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=73227bbe6d5fb35916d066219d279467},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Galfalvy-2009-J%20Affect%20Disord_Increased%20risk%20of%20su.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9649},
rating = {0}
}
@article{Cumming:2008,
author = {G Cumming and S Finch},
journal = {American Psychologist},
title = {Inference by eye: Confidence intervals, and how to read pictures of data},
year = {2008},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1995},
rating = {0}
}
@article{Rothman:2008p12312,
author = {A J Rothman and P J Bickel and E Levina and J Zhu},
journal = {Electronic Journal of Statistics},
title = {Sparse permutation invariant covariance
estimation},
abstract = {The paper proposes a method for constructing a sparse estimator for the inverse covariance (concentration) matrix in high-dimensional settings. The estimator uses a penalized normal likelihood approach and forces sparsity by using a lasso-type penalty. We establish a rate of con- vergence in the Frobenius norm as both data dimension p and sample size n are allowed to grow, and show that the rate depends explicitly on how sparse the true concentration matrix is. We also show that a correlation- based version of the method exhibits better rates in the operator norm. We also derive a fast iterative algorithm for computing the estimator, which relies on the popular Cholesky decomposition of the inverse but produces a permutation-invariant estimator. The method is compared to other es- timators on simulated data and on a real data example of tumor tissue classification using gene expression data.},
pages = {494--515},
volume = {2},
year = {2008},
date-added = {2010-06-12 09:29:19 +0200},
date-modified = {2010-06-12 09:32:25 +0200},
doi = {10.1214/08-EJS176},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rothman-2008-Electronic%20Journal%20of%20Statistics_Sparse%20permutation%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12312},
rating = {0}
}
@article{ChicoLibran:2006p11396,
author = {Eliseo Chico Libr{\'a}n},
journal = {Span J Psychol},
title = {Personality dimensions and subjective well-being},
abstract = {This work examines the association between personality dimensions (extraversion and neuroticism) and subjective well-being. Subjective well-being is associated both with extraversion and neuroticism, and currently, neuroticism is generally considered the more important. A total of 368 students from the University of Rovira i Virgili completed the Extraversion and Neuroticism subscales of the revised Eysenck Personality Questionnaire (Eysenck, Eysenck, and Barrett, 1985), the Satisfaction with Life Scale (SWLS; Diener, Emmons, Larsen, and Griffin, 1985), and the Positive and Negative Affect Scale (Watson, Clark, and Tellegen, 1988). Regression analyses revealed the personality variable of neuroticism as one of the most important correlates of subjective well-being. Regression analyses also showed that 44% of the variance of subjective well-being was accounted for by neuroticism, whereas extraversion only explained 8% of the variance.},
affiliation = {Universidad Rovira i Virgili, Facultad de Psicolog{\'\i}a, Carretera de Valls s/n, 43007 Tarragona, Spain. eliseo.chico@urv.net},
number = {1},
pages = {38--44},
volume = {9},
year = {2006},
month = {May},
language = {eng},
keywords = {Personal Satisfaction, Male, Neurotic Disorders, Extraversion (Psychology), Affect, Regression Analysis, Female, Questionnaires, Adult, Humans, Personality, Multivariate Analysis},
date-added = {2010-05-01 16:28:02 +0200},
date-modified = {2010-07-29 19:53:35 +0200},
pmid = {16673621},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chico%20Libr%C3%A1n-2006-Span%20J%20Psychol_Personality%20dimensio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11396},
rating = {0}
}
@article{Rufer:2010p7834,
author = {M Rufer and R Albrecht and O Schmidt and J Zaum and U Schnyder and I Hand and C Mueller-Pfeiffer},
journal = {Eur Psychiatry},
title = {Changes in quality of life following cognitive-behavioral group therapy for panic disorder},
abstract = {BACKGROUND: Data about quality of life (QoL) are important to estimate the impact of diseases on functioning and well-being. The present study was designed to assess the association of different aspects of panic disorder (PD) with QoL and to examine the relationship between QoL and symptomatic outcome following brief cognitive-behavioral group therapy (CBGT). METHOD: The sample consisted of 55 consecutively recruited outpatients suffering from PD who underwent CBGT. QoL was assessed by the Medical Outcomes Study 36-item Short-Form Health Survey (SF-36) at baseline, post-treatment and six months follow-up. SF-36 baseline scores were compared with normative data obtained from a large German population sample. RESULTS: Agoraphobia, disability, and worries about health were significantly associated with decreased QoL, whereas frequency, severity and duration of panic attacks were not. Treatment responders showed significantly better QoL than non-responders. PD symptom reduction following CBGT was associated with considerable improvement in emotional and physical aspects of QoL. However, the vitality subscale of the SF-36 remained largely unchanged over time. CONCLUSIONS: Our results are encouraging for cognitive-behavior therapists who treat patients suffering from PD in groups, since decrease of PD symptoms appears to be associated with considerable improvements in QoL. Nevertheless, additional interventions designed to target specific aspects of QoL, in particular vitality, may be useful to enhance patients' well-being.},
affiliation = {Department of Psychiatry, University Hospital of Z{\"u}rich, Culmannstrasse 8, 8091 Z{\"u}rich, Switzerland. michael.rufer@usz.ch},
number = {1},
pages = {8--14},
volume = {25},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-17 21:01:33 +0100},
date-modified = {2010-03-17 21:01:34 +0100},
doi = {10.1016/j.eurpsy.2009.05.003},
pii = {S0924-9338(09)00084-4},
pmid = {19545979},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rufer-2010-Eur%20Psychiatry_Changes%20in%20quality%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7834},
rating = {0}
}
@article{Thompson:2002,
author = {B Thompson},
journal = {Journal of Counseling and Development},
title = {"Statistical," "practical," and "clinical": How many kinds of significance do counselors need to consider?},
pages = {64--71},
volume = {80},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2017},
rating = {0}
}
@article{Yu:2008p2904,
author = {Wei Yu and Melinda Clyne and Siobhan M Dolan and Ajay Yesupriya and Anja Wulf and Tiebin Liu and Muin J Khoury and Marta Gwinn},
journal = {BMC Bioinformatics},
title = {GAPscreener: an automatic tool for screening human genetic association literature in PubMed using the support vector machine technique},
abstract = {BACKGROUND: Synthesis of data from published human genetic association studies is a critical step in the translation of human genome discoveries into health applications. Although genetic association studies account for a substantial proportion of the abstracts in PubMed, identifying them with standard queries is not always accurate or efficient. Further automating the literature-screening process can reduce the burden of a labor-intensive and time-consuming traditional literature search. The Support Vector Machine (SVM), a well-established machine learning technique, has been successful in classifying text, including biomedical literature. The GAPscreener, a free SVM-based software tool, can be used to assist in screening PubMed abstracts for human genetic association studies. RESULTS: The data source for this research was the HuGE Navigator, formerly known as the HuGE Pub Lit database. Weighted SVM feature selection based on a keyword list obtained by the two-way z score method demonstrated the best screening performance, achieving 97.5% recall, 98.3% specificity and 31.9% precision in performance testing. Compared with the traditional screening process based on a complex PubMed query, the SVM tool reduced by about 90% the number of abstracts requiring individual review by the database curator. The tool also ascertained 47 articles that were missed by the traditional literature screening process during the 4-week test period. We examined the literature on genetic associations with preterm birth as an example. Compared with the traditional, manual process, the GAPscreener both reduced effort and improved accuracy. CONCLUSION: GAPscreener is the first free SVM-based application available for screening the human genetic association literature in PubMed with high recall and specificity. The user-friendly graphical user interface makes this a practical, stand-alone application. The software can be downloaded at no charge.},
affiliation = {National Office of Public Health Genomics, Coordinating Center for Health Promotion, Centers for Disease Control and Prevention, Atlanta, GA, USA. WYu@cdc.gov},
pages = {205},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Chromosome Mapping, Artificial Intelligence, Periodicals as Topic, Natural Language Processing, PubMed, Software, Linkage (Genetics), Humans, Pattern Recognition: Automated, Genome: Human},
date-added = {2010-01-13 15:01:08 +0100},
date-modified = {2010-01-13 15:01:08 +0100},
doi = {10.1186/1471-2105-9-205},
pii = {1471-2105-9-205},
pmid = {18430222},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2008-BMC%20Bioinformatics_GAPscreener%20an%20auto.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2904},
rating = {0}
}
@article{Berthoz:2008p13995,
author = {Sylvie Berthoz and Michele Wessa and Gayannee Kedia and Bruno Wicker and Julie Gr{\`e}zes},
journal = {Can J Psychiatry},
title = {Cross-cultural validation of the empathy quotient in a French-speaking sample},
abstract = {OBJECTIVE: The Empathy Quotient (EQ) is a self-report that was developed to measure the cognitive and affective aspects of empathy. We further evaluated its validity in 2 studies. METHOD: The psychometric qualities of the French version of the EQ, and its correspondence with 2 other measures of empathy (Interpersonal Reactivity Index and the Empathy Scale of the Impulsiveness-Venturesomeness-Empathy Questionnaire), and with dimensions of the emotional state (depression and anxiety), were evaluated in a sample of 410 students (201 men and 209 women). Second, the clinical validity of the EQ was investigated in participants expected to have dysfunctional empathy. For this purpose, EQ scores of 16 people with autistic spectrum disorder (ASD) were collected. RESULTS: The EQ showed satisfying internal, convergent, test-retest and discriminant validity. The confirmatory factorial analyses suggested a 3-factor structure offered a good fit to the data. The women's superiority in empathy was replicated. As expected, the ASD EQ scores were very low. CONCLUSION: This study provides further evidence that the EQ is reliable in this population and should be recommended to estimate empathy problems, notably in individuals with troubled interpersonal interaction patterns.},
affiliation = {Department of Psychiatry for Adolescents and Young Adults, Institut Mutualiste Montsouris, University Rene Descartes, Paris, France. sylvie.berthoz@imm.fr},
number = {7},
pages = {469--77},
volume = {53},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Factor Analysis: Statistical, Empathy, Language, Cross-Cultural Comparison, Female, France, Canada, Male, Adult, Reproducibility of Results, Humans},
date-added = {2010-08-04 09:22:53 +0200},
date-modified = {2010-08-04 09:22:54 +0200},
pmid = {18674405},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Berthoz-2008-Can%20J%20Psychiatry_Cross-cultural%20valid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13995},
rating = {0}
}
@article{Strobl:2009p8187,
author = {C Strobl},
journal = {The R Journal},
title = {Party on!},
abstract = {Random forests are one of the most popular statistical learning algorithms, and a variety of methods for fitting random forests and related recursive partitioning approaches is available in R. This paper points out two impor- tant features of the random forest implementa- tion cforest available in the party package: The resulting forests are unbiased and thus prefer- able to the randomForest implementation avail- able in randomForest if predictor variables are of different types. Moreover, a conditional per- mutation importance measure has recently been added to the party package, which can help eval- uate the importance of correlated predictor vari- ables. The rationale of this new measure is illus- trated and hands-on advice is given for the usage of recursive partitioning tools in R.},
volume = {1/2},
year = {2009},
date-added = {2010-03-20 19:52:08 +0100},
date-modified = {2010-07-29 19:53:30 +0200},
pii = {2073-4859},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Strobl-2009-The%20R%20Journal_Party%20on!.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8187},
rating = {0}
}
@misc{Zou:2004,
author = {H Zou and T Hastie and R Tibshirani},
journal = {Miscellaneous},
title = {Sparse principal component analysis},
year = {2004},
month = {Apr},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zou-2004-Miscellaneous_Sparse%20principal%20com.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2061},
rating = {0}
}
@article{Mosimann:2002p5478,
author = {Urs P Mosimann and Susanne C Marr{\'e} and Stefan Werlen and Wolfgang Schmitt and Christian W Hess and Hans U Fisch and Thomas E Schlaepfer},
journal = {Arch Gen Psychiatry},
title = {Antidepressant effects of repetitive transcranial magnetic stimulation in the elderly: correlation between effect size and coil-cortex distance},
number = {6},
pages = {560--1},
volume = {59},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Tomography: X-Ray Computed, Brain, Treatment Outcome, Psychiatric Status Rating Scales, Methods, Aged, Cerebral Cortex, Transcranial Magnetic Stimulation, Humans, Depressive Disorder},
date-added = {2010-02-12 14:38:43 +0100},
date-modified = {2010-02-12 14:38:44 +0100},
pii = {ylt0602-1},
pmid = {12044199},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mosimann-2002-Arch%20Gen%20Psychiatry_Antidepressant%20effec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5478},
rating = {0}
}
@article{Mathias:2007p8433,
author = {Susan D Mathias and James B Bussel and James N George and Robert McMillan and Gary J Okano and Janet L Nichol},
journal = {Health Qual Life Outcomes},
title = {A disease-specific measure of health-related quality of life for use in adults with immune thrombocytopenic purpura: its development and validation},
abstract = {BACKGROUND: No validated disease-specific measures are available to assess health-related quality of life (HRQoL) in adult subjects with immune thrombocytopenic purpura (ITP). Therefore, we sought to develop and validate the ITP-Patient Assessment Questionnaire (ITP-PAQ) for adult subjects with ITP. METHODS: Information from literature reviews, focus groups with subjects, and clinicians were used to develop 50 ITP-PAQ items. Factor analyses were conducted to develop the scale structure and reduce the number of items. The final 44-item ITP-PAQ, which includes ten scales [Symptoms (S), Bother-Physical Health (B), Fatigue/Sleep (FT), Activity (A), Fear (FR), Psychological Health (PH), Work (W), Social Activity (SA), Women's Reproductive Health (RH), and Overall (QoL)], was self-administered to adult ITP subjects at baseline and 7-10 days later. Test-retest reliability, internal consistency reliability, construct and known groups validity of the final ITP-PAQ were evaluated. RESULTS: Seventy-three subjects with ITP completed the questionnaire twice. Test-retest reliability, as measured by the intra-class correlation, ranged from 0.52-0.90. Internal consistency reliability was demonstrated with Cronbach's alpha for all scales above the acceptable level of 0.70 (range: 0.71-0.92), except for RH (0.66). Construct validity, assessed by correlating ITP-PAQ scales with established measures (Short Form-36 v.1, SF-36 and Center for Epidemiologic Studies Depression Scale, CES-D), was demonstrated through moderate correlations between the ITP-PAQ SA and SF-36 Social Function scales (r = 0.67), and between ITP-PAQ PH and SF-36 Mental Health Scales (r = 0.63). Moderate to strong inter-scale correlations were reported between ITP-PAQ scales and the CES-D, except for the RH scale. Known groups validity was evaluated by comparing mean scores for groups that differed clinically. Statistically significant differences (p < 0.01) were observed when subjects were categorized by treatment status [S, FT, B, A, PH, and QoL, perceived effectiveness of ITP treatment [S], and time elapsed since ITP diagnosis [PH]. CONCLUSION: Results provide preliminary evidence of the reliability and validity of the ITP-PAQ in adult subjects with ITP. Further work should be conducted to assess the responsiveness and to estimate the minimal clinical important difference of the ITP-PAQ to more fully understand the impact of ITP and its treatments on HRQoL.},
affiliation = {Ovation Research Group, 188 Embarcadero, San Francisco, CA 94105, USA. smathias@ovation.org},
pages = {11},
volume = {5},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Middle Aged, Male, Reproducibility of Results, Questionnaires, Humans, Female, Factor Analysis: Statistical, Adult, Purpura: Thrombocytopenic, Quality of Life, Splenectomy},
date-added = {2010-03-21 17:53:06 +0100},
date-modified = {2010-03-21 17:53:06 +0100},
doi = {10.1186/1477-7525-5-11},
pii = {1477-7525-5-11},
pmid = {17316442},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mathias-2007-Health%20and%20Quality%20of%20Life%20Outcomes_A%20disease-specific%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8433},
rating = {0}
}
@article{Bigos:2010p5732,
author = {Kristin L Bigos and Daniel R Weinberger},
journal = {Neuroimage},
title = {Imaging genetics-days of future past},
abstract = {Imaging genetics provides a unique tool with which to explore and evaluate the functional impact of brain-relevant genetic polymorphisms with the potential to understand their impact on behavior. Because statistical association with clinical diagnosis does not establish biological significance nor identify a mechanism of risk, imaging genetics is a uniquely valuable strategy for extending statistical evidence with biological data. Applications include identifying biologic mechanisms and pathways that mediate individual differences in complex behaviors and vulnerability to disease, and conversely identifying genes that contribute to functional variation in brain circuitry. Additionally, neuroimaging genetics can validate data that suggest an association with psychiatric illness as well as providing evidence of the mechanism of risk. This review also outlines several critical principles of imaging genetics including a rational approach to the selection of candidate genes, the selection of task paradigms that could be plausibly linked to the biology of the gene of interest, and careful control of non-genetic factors. The future of imaging genetics holds great promise for brain research and for biologic validation of genetic validation in CNS disorders, but a disciplined application of the basic principles outlined in this review is critical.},
affiliation = {Clinical Brain Disorders Branch, Genes Cognition and Psychosis Program, Division of Intramural Research Program, National Institute of Mental Health, National Institutes of Health, 10 Center Drive, MSC 1379, Bethesda, MD 20892, USA.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-15 20:28:26 +0100},
date-modified = {2010-03-21 19:31:42 +0100},
doi = {10.1016/j.neuroimage.2010.01.035},
pii = {S1053-8119(10)00055-8},
pmid = {20080192},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5732},
rating = {4}
}
@article{Meinshausen:2010p12329,
author = {N Meinshausen},
title = {Hierarchical Testing of Variable Importance},
abstract = {Abstract. tion of relevant variables. Variable selection suffers from instability and the power to detect relevant variables is typically low if predictor variables are highly correlated. When taking the multiplicity of the testing problem into account, the power diminishes even further. To gain power and insight, it can be advantageous to look for influence not at the level of individual variables but rather at the level of clusters of highly correlated variables. We propose a hierarchical approach. Variable importance is first tested at the coarsest level, corresponding to the global null hypothesis. If possible, the method tries then to attribute any effect to smaller sub-clusters or even individual variables. The smallest possible clusters which still exhibit a significant influence on the response variable are retained. It is shown that the proposed testing procedure controls the family-wise error rate at a pre- specified level, simultaneously over all resolution levels. The method has comparable power to Bonferroni-Holm on the level of individual variables and dramatically larger power for coarser resolution levels. The best resolution level is selected adaptively.},
date-added = {2010-06-12 10:06:22 +0200},
date-modified = {2010-06-12 10:07:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meinshausen--_Hierarchical%20Testing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12329},
rating = {4}
}
@article{Ghosh:2009p905,
author = {D Ghosh},
title = {Discrete nonparametric algorithms for outlier detection with genomic data},
abstract = {In high-throughput studies involving genetic data such as from gene expression microarrays, differential expression analysis between two or more experimental conditions has been a very common analytical task. Much of the resulting literature on multiple comparisons has paid relatively little attention to the choice of test statistic. In this article, we focus on the issue of choice of test statistic based on a special pattern of differential expression. The approach here is based on recasting multiple comparisons procedures for assessing outlying expression values. A major complication is that the resulting p-values are discrete; some theoretical properties of sequential testing procedures in this context are explored. We propose the use of q-value estimation procedures in this setting. Data from a gene expression profiling experiment in prostate cancer are used to illustrate the methodology.},
affiliation = {Penn State University},
year = {2009},
date-added = {2010-01-03 18:39:30 +0100},
date-modified = {2010-01-03 18:40:35 +0100},
url = {http://works.bepress.com/debashis_ghosh/38},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ghosh-2009-_Discrete%20nonparametr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p905},
rating = {0}
}
@article{Shapiro:2000,
author = {Alexander Shapiro and Jos M F Ten Berge},
journal = {Psychometrika},
title = {The asymptotic bias of minimum trace factor analysis, with applications to the greatest lower bound to reliability},
number = {3},
pages = {413--425},
volume = {65},
year = {2000},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shapiro-2000-Psychometrika_The%20asymptotic%20bias.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1924},
rating = {0}
}
@article{Benjamini:2009p2899,
author = {Yoav Benjamini and Yulia Gavrilov},
journal = {arXiv},
title = {A simple forward selection procedure based on false discovery rate control},
abstract = { We propose the use of a new false discovery rate (FDR) controlling procedure as a model selection penalized method, and compare its performance to that of other penalized methods over a wide range of realistic settings: nonorthogonal design matrices, moderate and large pool of explanatory variables, and both sparse and nonsparse models, in the sense that they may include a small and large fraction of the potential variables (and even all). The comparison is done by a comprehensive simulation study, using a quantitative framework for performance comparisons in the form of empirical minimaxity relative to a "random oracle": the oracle model selection performance on data dependent forward selected family of potential models. We show that FDR based procedures have good performance, and in particular the newly proposed method, emerges as having empirical minimax performance. Interestingly, using FDR level of 0.05 is a global best. },
annote = {Published in: Annals of Applied Statistics 2009, Vol. 3, No. 1, 179-198
Published in at http://dx.doi.org/10.1214/08-AOAS194 the Annals of
Applied Statistics (http://www.imstat.org/aoas/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {0905.2819v1},
volume = {stat.AP},
year = {2009},
month = {Jan},
keywords = {stat.AP},
date-added = {2010-01-13 14:59:31 +0100},
date-modified = {2010-01-13 14:59:31 +0100},
doi = {10.1214/08-AOAS194},
pmid = {0905.2819v1},
url = {http://arxiv.org/abs/0905.2819v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Benjamini-2009-arXiv_A%20simple%20forward%20sel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2899},
rating = {0}
}
@article{Bradlow:1999p12797,
author = {E T Bradlow and H Wainer and X Wang},
journal = {Psychometrika},
title = {A bayesian random effects model for testlets},
abstract = {Standard item response theory (IRT) models fit to dichotomous examination responses ignore the fact that sets of items (testlets) often come from a single common stimuli (e.g. a reading comprehension passage). In this setting, all items given to an examinee are unlikely to be conditionally independent (given examinee proficiency). Models that assume conditional independence will overestimate the precision with which examinee proficiency is measured. Overstatement of precision may lead to inaccurate inferences such as prematurely ending an examination in which the stopping rule is based on the estimated standard error of examinee proficiency (e.g., an adaptive test). To model examinations that may be a mixture of independent items and testlets, we modified one standard IRT model to include an additional random effect for items nested within the same testlet. We use a Bayesian framework to facilitate posterior inference via a Data Augmented Gibbs Sampler (DAGS; Tanner {\&} Wong, 1987). The modified and standard IRT models are both applied to a data set from a disclosed form of the SAT. We also provide simulation results that indicates that the degree of precision bias is a function of the variability of the testlet effects, as well as the testlet design.},
number = {2},
pages = {153--168},
volume = {64},
year = {1999},
date-added = {2010-06-18 21:19:14 +0200},
date-modified = {2010-06-18 21:20:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bradlow-1999-Psychometrika_A%20bayesian%20random%20ef.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12797},
rating = {0}
}
@article{Goldberg:2006p13886,
author = {L R Goldberg and J A Johnson and H W Eber and R Hogan and M C Ashton and C R Cloninger and H G Gough},
journal = {Journal of Research in Personality},
title = {The international personality item pool and the future of public-domain personality measures},
abstract = {Seven experts on personality measurement here discuss the viability of public-domain personality measures, focusing on the International Personality Item Pool (IPIP) as a prototype. Since its incep- tion in 1996, the use of items and scales from the IPIP has increased dramatically. Items from the IPIP have been translated from English into more than 25 other languages. Currently over 80 publications using IPIP scales are listed at the IPIP Web site (http://ipip.ori.org), and the rate of IPIP- related publications has been increasing rapidly. The growing popularity of the IPIP can be attrib- uted to Wve factors: (1) It is cost free; (2) its items can be obtained instantaneously via the Internet; (3) it includes over 2000 items, all easily available for inspection; (4) scoring keys for IPIP scales are provided; and (5) its items can be presented in any order, interspersed with other items, reworded, translated into other languages, and administered on the World Wide Web without asking permis- sion of anyone. The unrestricted availability of the IPIP raises concerns about possible misuse by unqualiWed persons, and the freedom of researchers to use the IPIP in idiosyncratic ways raises the possibility of fragmentation rather than scientiWc uniWcation in personality research.},
pages = {84--96},
volume = {40},
year = {2006},
date-added = {2010-07-29 18:05:48 +0200},
date-modified = {2010-07-29 18:08:09 +0200},
doi = {10.1016/j.jrp.2005.08.007},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-2006-Journal%20of%20Research%20in%20Personality_The%20international%20pe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13886},
rating = {3}
}
@article{McArdle:2003p7206,
author = {John J McArdle and Fumiaki Hamagami},
journal = {Behav Genet},
title = {Structural equation models for evaluating dynamic concepts within longitudinal twin analyses},
abstract = {A great deal of prior research using structural equation models has focused on longitudinal analyses and biometric analyses. Some of this research has even considered the simultaneous analysis of both kinds of analytic problems. The key benefits of these kinds of analyses come from the estimation of novel parameters, such as the heritability of changes. This paper discusses some recent extensions of longitudinal multivariate models that can be informative within biometric designs. In the methods section we review a previous latent growth structural equation analysis of the New York Twin (NYT) longitudinal data (from McArdle et al., 1998). In the models section we recast this growth model in terms of latent difference scores, add several new dynamic components, including coupling parameters, and consider biometric components and examine model stability. In the results section we present new univariate and bivariate dynamic estimates and tests of various dynamic hypotheses for the NYT data, and we consider a few ways to interpret the age-related biometric components of these models. In the discussion we consider our limitations and present suggestions for future dynamic-genetic research.},
affiliation = {Department of Psychology, University of Virginia, Charlottesville, VA, USA. jjm@virginia.edu},
number = {2},
pages = {137--59},
volume = {33},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Twin Studies as Topic, Models: Theoretical, Longitudinal Studies, Humans, Intelligence Tests},
date-added = {2010-03-08 19:21:53 +0100},
date-modified = {2010-07-29 20:09:07 +0200},
pii = {460863},
pmid = {14574148},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McArdle-2003-Behav%20Genet_Structural%20equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7206},
rating = {0}
}
@inproceedings{Thomas:2002c,
author = {D R Thomas and A Cyr},
journal = {Proceedings},
title = {Applying item response theory methods to complex survey data},
year = {2002},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thomas-2002-Proceedings_Applying%20item%20respon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2182},
rating = {0}
}
@article{Pereda:2005p12023,
author = {Ernesto Pereda and Rodrigo Quian Quiroga and Joydeep Bhattacharya},
journal = {Prog Neurobiol},
title = {Nonlinear multivariate analysis of neurophysiological signals},
abstract = {Multivariate time series analysis is extensively used in neurophysiology with the aim of studying the relationship between simultaneously recorded signals. Recently, advances on information theory and nonlinear dynamical systems theory have allowed the study of various types of synchronization from time series. In this work, we first describe the multivariate linear methods most commonly used in neurophysiology and show that they can be extended to assess the existence of nonlinear interdependence between signals. We then review the concepts of entropy and mutual information followed by a detailed description of nonlinear methods based on the concepts of phase synchronization, generalized synchronization and event synchronization. In all cases, we show how to apply these methods to study different kinds of neurophysiological data. Finally, we illustrate the use of multivariate surrogate data test for the assessment of the strength (strong or weak) and the type (linear or nonlinear) of interdependence between neurophysiological signals.},
affiliation = {Department of Basic Physics, College of Physics and Mathematics, University of La Laguna, Avda. Astrof{\'\i}sico Fco. S{\'a}nchez s/n, 38205 La Laguna, Tenerife, Spain. eperdepa@ull.es},
number = {1-2},
pages = {1--37},
volume = {77},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Nonlinear Dynamics, Neurophysiology, Signal Processing: Computer-Assisted, Multivariate Analysis, Electroencephalography, Diagnosis: Computer-Assisted, Neurons, Computer Simulation, Animals, Models: Statistical, Humans, Models: Neurological, Action Potentials, Data Interpretation: Statistical},
date-added = {2010-05-24 10:16:05 +0200},
date-modified = {2010-05-24 10:16:06 +0200},
doi = {10.1016/j.pneurobio.2005.10.003},
pii = {S0301-0082(05)00119-X},
pmid = {16289760},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pereda-2005-Prog%20Neurobiol_Nonlinear%20multivaria.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12023},
rating = {0}
}
@article{Lochner:2005p13007,
author = {Christine Lochner and Sian M J Hemmings and Craig J Kinnear and Dana J H Niehaus and Daniel G Nel and Valerie A Corfield and Johanna C Moolman-Smook and Soraya Seedat and Dan J Stein},
journal = {Compr Psychiatry},
title = {Cluster analysis of obsessive-compulsive spectrum disorders in patients with obsessive-compulsive disorder: clinical and genetic correlates},
abstract = {BACKGROUND: Comorbidity of certain obsessive-compulsive spectrum disorders (OCSDs; such as Tourette's disorder) in obsessive-compulsive disorder (OCD) may serve to define important OCD subtypes characterized by differing phenomenology and neurobiological mechanisms. Comorbidity of the putative OCSDs in OCD has, however, not often been systematically investigated. METHODS: The Structured Clinical Interview for Diagnostic and Statistical Manual of Mental Disorders, Fourth Edition , Axis I Disorders-Patient Version as well as a Structured Clinical Interview for Putative OCSDs (SCID-OCSD) were administered to 210 adult patients with OCD (N = 210, 102 men and 108 women; mean age, 35.7 +/- 13.3). A subset of Caucasian subjects (with OCD, n = 171; control subjects, n = 168), including subjects from the genetically homogeneous Afrikaner population (with OCD, n = 77; control subjects, n = 144), was genotyped for polymorphisms in genes involved in monoamine function. Because the items of the SCID-OCSD are binary (present/absent), a cluster analysis (Ward's method) using the items of SCID-OCSD was conducted. The association of identified clusters with demographic variables (age, gender), clinical variables (age of onset, obsessive-compulsive symptom severity and dimensions, level of insight, temperament/character, treatment response), and monoaminergic genotypes was examined. RESULTS: Cluster analysis of the OCSDs in our sample of patients with OCD identified 3 separate clusters at a 1.1 linkage distance level. The 3 clusters were named as follows: (1) "reward deficiency" (including trichotillomania, Tourette's disorder, pathological gambling, and hypersexual disorder), (2) "impulsivity" (including compulsive shopping, kleptomania, eating disorders, self-injury, and intermittent explosive disorder), and (3) "somatic" (including body dysmorphic disorder and hypochondriasis). Several significant associations were found between cluster scores and other variables; for example, cluster I scores were associated with earlier age of onset of OCD and the presence of tics, cluster II scores were associated with female gender and childhood emotional abuse, and cluster III scores were associated with less insight and with somatic obsessions and compulsions. However, none of these clusters were associated with any particular genetic variant. CONCLUSION: Analysis of comorbid OCSDs in OCD suggested that these lie on a number of different dimensions. These dimensions are partially consistent with previous theoretical approaches taken toward classifying OCD spectrum disorders. The lack of genetic validation of these clusters in the present study may indicate the involvement of other, as yet untested, genes. Further genetic and cluster analyses of comorbid OCSDs in OCD may ultimately contribute to a better delineation of OCD endophenotypes.},
affiliation = {MRC Unit on Anxiety and Stress Disorders, Department of Psychiatry, University of Stellenbosch, PO Box 19063, Tygerberg, 7505, Cape Town, South Africa. cl2@sun.ac.za},
number = {1},
pages = {14--9},
volume = {46},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Genotype, Tourette Syndrome, Adult, Adolescent, Questionnaires, Interview: Psychological, Trichotillomania, Female, Polymorphism: Genetic, Comorbidity, Obsessive-Compulsive Disorder, Male, Cluster Analysis, Monoamine Oxidase, Middle Aged, Self-Injurious Behavior, Severity of Illness Index, Humans, Aged, Gambling, Serotonin, Impulse Control Disorders},
date-added = {2010-06-25 22:37:34 +0200},
date-modified = {2010-07-29 19:24:13 +0200},
doi = {10.1016/j.comppsych.2004.07.020},
pmid = {15714189},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lochner-2005-Compr%20Psychiatry_Cluster%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13007},
rating = {0}
}
@article{Suhr:2005p4092,
author = {D D Suhr},
journal = {SUGI 30},
title = {Principal Component Analysis vs. Exploratory Factor Analysis},
abstract = {Principal Component Analysis (PCA) and Exploratory Factor Analysis (EFA) are both variable reduction techniques and sometimes mistaken as the same statistical method. However, there are distinct differences between PCA and EFA. Similarities and differences between PCA and EFA will be examined. Examples of PCA and EFA with PRINCOMP and FACTOR will be illustrated and discussed.},
number = {203-30},
year = {2005},
date-added = {2010-01-19 23:21:05 +0100},
date-modified = {2010-01-19 23:21:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Suhr-2005-SUGI%2030_Principal%20Component.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4092},
rating = {0}
}
@article{Cella:2005p13616,
author = {David Cella},
journal = {J Support Oncol},
title = {Quality of life outcomes: measurement and intervention},
number = {2},
pages = {133--4},
volume = {3},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Outcome Assessment (Health Care), Quality of Life, Meta-Analysis as Topic, Melanoma, Review Literature as Topic, Humans},
date-added = {2010-07-07 21:18:43 +0200},
date-modified = {2010-07-07 21:18:43 +0200},
pmid = {15796445},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cella-2005-J%20Support%20Oncol_Quality%20of%20life%20outc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13616},
rating = {0}
}
@article{vanAbswoude:2004p3420,
author = {A A H van Abswoude and J K Vermunt and B T Hemker and L Andries van der Ark},
journal = {Applied Psychological Measurement},
title = {Mokken Scale Analysis Using Hierarchical Clustering Procedures},
abstract = {Mokken scale analysis (MSA) can be used to assess and build unidimensional scales from an item pool that is sensitive to multiple dimensions. These scales satisfy a set of scaling conditions, one of which follows from the model of monotone homogeneity. An important drawback of the MSA program is that the sequential item selection and scale construction procedure may not find the dominant underlying dimensionality of the responses to a set of items. The authors investigated alternative hierarchical item selection procedures and compared the performance of four hierarchical methods and the sequential clustering method in the MSA context. The results showed that hierarchical clustering methods can improve the search process of the dominant dimensionality of a data matrix. In particular, the complete linkage and scale linkage methods were promising in finding the dimensionality of the item response data from a set of items.},
number = {5},
pages = {332--354},
volume = {28},
year = {2004},
date-added = {2010-01-15 14:56:14 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Abswoude-2004-Applied%20Psychological%20Measurement_Mokken%20Scale%20Analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3420},
rating = {0}
}
@article{Sparapani:2008p2366,
author = {R A Sparapani and P W Laud},
title = {A Recent History of Bayesian Statistical Software},
year = {2008},
date-added = {2010-01-10 13:42:25 +0100},
date-modified = {2010-01-10 13:43:04 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sparapani-2008-_A%20Recent%20History%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2366},
rating = {0}
}
@article{Gal:2003p3697,
author = {I Gal and M van Groenestijn and M Manly and M J Schmitt and D Tout},
title = {Adult numeracy and its assessment in the ALL survey: A conceptual framework and pilot results},
year = {2003},
date-added = {2010-01-16 20:49:34 +0100},
date-modified = {2010-01-16 20:50:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gal-2003-_Adult%20numeracy%20and%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3697},
rating = {0}
}
@article{Boughton:2001p11153,
author = {K A Boughton and D A Klinger and M J Gierl},
journal = {Annual meeting of the National Council on Measurement in Education},
title = {Effects of Random Rater Error on Parameter Recovery of the Generalized Partial Credit Model and Graded Response Model},
year = {2001},
date-added = {2010-04-25 19:20:17 +0200},
date-modified = {2010-07-29 19:15:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boughton-2001-Annual%20meeting%20of%20the%20National%20Council%20on%20Measurement%20in%20Education_Effects%20of%20Random%20Ra-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11153},
rating = {0}
}
@article{Palomo:2004p7563,
author = {Tomas Palomo and R M Kostrzewa and R J Beninger and T Archer},
journal = {Neurotox Res},
title = {Gene-environment interplay in alcoholism and other substance abuse disorders: expressions of heritability and factors influencing vulnerability},
abstract = {Factors that confer predisposition and vulnerability for alcoholism and other substance abuse disorders may be described usefully within the gene-environment interplay framework. Thus, it is postulated that heritability provides a major contribution not only to alcohol but also to other substances of abuse. Studies of evoked potential amplitude reduction have provided a highly suitable and testable method for the assessment of both environmentally-determined and heritable characteristics pertaining to substance use and dependence. The different personal attributes that may co-exist with parental influence or exist in a shared, monozygotic relationship contribute to the final expression of addiction. In this connection, it appears that personality disorders are highly prevalent co-morbid conditions among addicted individuals, and, this co-morbidity is likely to be accounted for by multiple complex etiological relationships, not least in adolescent individuals. Co-morbidity associated with deficient executive functioning may be observed too in alcohol-related aggressiveness and crimes of violence. The successful intervention into alcohol dependence and craving brought about by baclofen in both human and animal studies elucidates glutamatergic mechanisms in alcoholism whereas the role of the dopamine transporter, in conjunction with both the noradrenergic and serotonergic transporters, are implicated in cocaine dependence and craving. The role of the cannabinoids in ontogeny through an influence upon the expression of key genes for the development of neurotransmitter systems must be considered. Finally, the particular form of behaviour/characteristic outcome due to childhood circumstance may lie with biological, gene-based determinants, for example individual characteristics of monoamine oxidase (MAO) activity levels, thereby rendering simple predictive measures both redundant and misguiding.},
affiliation = {Servicio Psiqui{\'a}trico, Hospital Universitario 12 de Octubre, Avda. de C{\'o}rdoba s/n, 28041 Madrid, Spain.},
number = {5},
pages = {343--61},
volume = {6},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Alcoholism, gamma-Aminobutyric Acid, Personality, Humans, Event-Related Potentials: P300, Violence, Substance-Related Disorders, Biogenic Monoamines},
date-added = {2010-03-14 10:56:49 +0100},
date-modified = {2010-03-14 10:56:49 +0100},
pmid = {15545018},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Palomo-2004-Neurotox%20Res_Gene-environment%20int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7563},
rating = {0}
}
@article{Bullinger:1993p8436,
author = {M Bullinger and R Anderson and D Cella and Neil K Aaronson},
journal = {Qual Life Res},
title = {Developing and evaluating cross-cultural instruments from minimum requirements to optimal models},
abstract = {In the age of increased international collaboration in medical research, the necessity of having at hand cross-culturally applicable instruments for the assessment of health-related quality of life (HRQL) in clinical trials has been voiced. Several important theoretical bases leading to cultural bias in HRQL measurement include differences in definitions of HRQL across national and cultural contexts, levels of observation relied upon to indicate HRQL states, and the significance or weight placed upon the various HRQL states or dimensions measured. Despite a growing literature on the development and evaluation of existing HRQL measures in other cultures, comprehensive sets of procedures or requirements for the international part of development and evaluation are lacking. This paper reviews major approaches to developing international HRQL measures, and discusses various methods and criteria that have been recommended for evaluating measurement equivalence in comparisons of research across national and cultural contexts. A summary of recent trends and advances in international HRQL assessment is presented.},
affiliation = {Institute for Medical Psychology, University of Munich, Germany.},
number = {6},
pages = {451--9},
volume = {2},
year = {1993},
month = {Dec},
language = {eng},
keywords = {Psychometrics, Health Surveys, International Cooperation, Evaluation Studies as Topic, Cross-Cultural Comparison, Bias (Epidemiology), Reproducibility of Results, Research, Translating, Quality of Life, Questionnaires},
date-added = {2010-03-21 17:55:27 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
pmid = {8161979},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bullinger-1993-Qual%20Life%20Res_Developing%20and%20evalu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8436},
rating = {5}
}
@article{Hesterberg:2008p2319,
author = {T Hesterberg and N H Choi and L Meier and C Fraley},
journal = {Statistics Surveys},
title = {Least angle and l1 penalized regression: A review},
abstract = {Least Angle Regression is a promising technique for variable selection applications, offering a nice alternative to stepwise regression. It provides an explanation for the similar behavior of LASSO (l1-penalized regression) and forward stagewise regression, and provides a fast imple- mentation of both. The idea has caught on rapidly, and sparked a great deal of research interest. In this paper, we give an overview of Least Angle Regression and the current state of related research.},
pages = {61--93},
volume = {2},
year = {2008},
date-added = {2010-01-10 12:37:18 +0100},
date-modified = {2010-01-10 12:38:46 +0100},
doi = {10.1214/08-SS035},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hesterberg-2008-Statistics%20Surveys_Least%20angle%20and%20l1%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2319},
rating = {0}
}
@article{Gomez:2009p13089,
author = {V Gomez and F Krings and A Bangerter and A Grob},
journal = {Journal of Research in Personality},
title = {The influence of personality and life events on subjective well-being from a life span perspective},
abstract = {We investigate the relation between personality (Big Five) and positive and negative life events as pre- dictors of subjective well-being (SWB) in a sample of 766 young, middle-aged, and old adults. Analyses comprised data on personality, SWB, and reconstructed positive and negative life events. Results for the total sample indicate a strong relation between neuroticism and SWB, and an important influence of reconstructed life events on SWB with a stronger effect for negative as compared to positive events. Age differences in the prediction of SWB emerge for personality and life events: extraversion is only a predictor of SWB in young adults and the effect of neuroticism is more pronounced in old adults. More- over, the influence of negative life events on SWB is stronger in young and middle-aged adults as com- pared to old adults. These results emphasize the need to study dispositional and situational variables across the life span in order to better understand the underlying mechanisms of SWB.},
pages = {345--354},
volume = {43},
year = {2009},
date-added = {2010-06-26 10:19:06 +0200},
date-modified = {2010-07-29 19:36:11 +0200},
doi = {10.1016/j.jrp.2008.12.014},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gomez-2009-Journal%20of%20Research%20in%20Personality_The%20influence%20of%20per.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13089},
rating = {0}
}
@article{Hoh:2001p1608,
author = {J Hoh and A Wille and J Ott},
journal = {Genome Res},
title = {Trimming, weighting, and grouping SNPs in human case-control association studies},
abstract = {The search for genes underlying complex traits has been difficult and often disappointing. The main reason for these difficulties is that several genes, each with rather small effect, might be interacting to produce the trait. Therefore, we must search the whole genome for a good chance to find these genes. Doing this with tens of thousands of SNP markers, however, greatly increases the overall probability of false-positive results, and current methods limiting such error probabilities to acceptable levels tend to reduce the power of detecting weak genes. Investigating large numbers of SNPs inevitably introduces errors (e.g., in genotyping), which will distort analysis results. Here we propose a simple strategy that circumvents many of these problems. We develop a set-association method to blend relevant sources of information such as allelic association and Hardy-Weinberg disequilibrium. Information is combined over multiple markers and genes in the genome, quality control is improved by trimming, and an appropriate testing strategy limits the overall false-positive rate. In contrast to other available methods, our method to detect association to sets of SNP markers in different genes in a real data application has shown remarkable success.},
affiliation = {Laboratory of Statistical Genetics, Rockefeller University, New York, New York 10021, USA.},
number = {12},
pages = {2115--9},
volume = {11},
year = {2001},
month = {Dec},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Case-Control Studies, Humans, Phenotype, Linkage Disequilibrium, Models: Statistical, Models: Genetic, Genotype},
date-added = {2010-01-07 17:04:30 +0100},
date-modified = {2010-01-07 17:04:30 +0100},
doi = {10.1101/gr.204001},
pmid = {11731502},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoh-2001-Genome%20Res_Trimming%20weighting.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1608},
rating = {0}
}
@article{Burdick:2006p2483,
author = {Katherine E Burdick and Todd Lencz and Birgit Funke and Christine T Finn and Philip R Szeszko and John M Kane and Raju Kucherlapati and Anil K Malhotra},
journal = {Hum Mol Genet},
title = {Genetic variation in DTNBP1 influences general cognitive ability},
abstract = {Human intelligence is a trait that is known to be significantly influenced by genetic factors, and recent linkage data provide positional evidence to suggest that a region on chromosome 6p, previously associated with schizophrenia, may be linked to variation in intelligence. The gene for dysbindin-1 (DTNBP1) is located at 6p and has also been implicated in schizophrenia, a neuropsychiatric disorder characterized by cognitive dysfunction. We report an association between DTNBP1 genotype and general cognitive ability (g) in two independent cohorts, including 213 patients with schizophrenia or schizo-affective disorder and 126 healthy volunteers. These data suggest that DTNBP1 genetic variation influences human intelligence.},
affiliation = {Department of Psychiatry Research, The Zucker Hillside Hospital, North Shore-Long Island Jewish Health System, Albert Einstein College of Medicine, Glen Oaks, NY 11004, USA. kburdick@lij.edu},
number = {10},
pages = {1563--8},
volume = {15},
year = {2006},
month = {May},
language = {eng},
keywords = {Chromosomes: Human: Pair 6, Psychotic Disorders, Genotype, Humans, Intelligence, Carrier Proteins, Genetic Markers, Adult, Cognition, Aged, Genetic Variation, Female, Schizophrenic Psychology, Middle Aged, Schizophrenia, Male},
date-added = {2010-01-12 13:31:49 +0100},
date-modified = {2010-07-29 19:28:52 +0200},
doi = {10.1093/hmg/ddi481},
pii = {ddi481},
pmid = {16415041},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burdick-2006-Hum%20Mol%20Genet_Genetic%20variation%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2483},
rating = {0}
}
@article{Petersen:2008p3004,
author = {Maya L Petersen and Mark J van der Laan and Sonia Napravnik and Joseph J Eron and Richard D Moore and Steven G Deeks},
journal = {AIDS},
title = {Long-term consequences of the delay between virologic failure of highly active antiretroviral therapy and regimen modification},
abstract = {OBJECTIVES: Current treatment guidelines recommend immediate modification of antiretroviral therapy in HIV-infected individuals with incomplete viral suppression. These recommendations have not been tested in observational studies or large randomized trials. We evaluated the consequences of delayed modification following virologic failure. DESIGN/METHODS: We used prospective data from two clinical cohorts to estimate the effect of time until regimen modification following first regimen failure on all-cause mortality. The impact of regimen type was also assessed. As the effect of delayed switching can be confounded if patients with a poor prognosis modify therapy earlier than those with a good prognosis, we used a statistical methodology - marginal structural models - to control for time-dependent confounding. RESULTS: A total of 982 patients contributed 3414 person-years of follow-up following first regimen failure. Delay until treatment modification was associated with an elevated hazard of all-cause mortality among patients failing a reverse transcriptase inhibitor-based regimen (hazard ratio per additional 3 months delay = 1.23, 95% confidence interval: 1.08, 1.40), but appeared to have a small protective effect among patients failing a protease inhibitor-based regimen (hazard ratio per additional 3 months delay = 0.93, 95% confidence interval: 0.87, 0.99). CONCLUSION: Delay in modification after failure of regimens that do not contain a protease inhibitor is associated with increased mortality. Protease inhibitor-based regimens are less dependent on early versus delayed switching strategies. Efforts should be made to minimize delay until treatment modification in resource-poor regions, where the majority of patients are starting reverse transcriptase inhibitor-based regimens and HIV RNA monitoring may not be available.},
affiliation = {Division of Biostatistics, Berkeley School of Public Health, Berkeley, California 94720, USA. mayaliv@berkeley.edu},
number = {16},
pages = {2097--106},
volume = {22},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Middle Aged, Antiretroviral Therapy: Highly Active, United States, HIV Infections, Drug Resistance: Viral, Treatment Outcome, CD4 Lymphocyte Count, HIV Protease Inhibitors, Drug Administration Schedule, Treatment Failure, Female, Humans, Reverse Transcriptase Inhibitors, Male, Adult, Anti-HIV Agents},
date-added = {2010-01-13 23:14:35 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
doi = {10.1097/QAD.0b013e32830f97e2},
pii = {00002030-200810180-00007},
pmid = {18832873},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petersen-2008-AIDS_Long-term%20consequenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3004},
rating = {0}
}
@article{Huebner:2010p4183,
author = {A Huebner},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {An Overview of Recent Developments in Cognitive Diagnostic Computer Adaptive Assessments},
abstract = {Cognitive diagnostic modeling has become an exciting new field of psychometric research. These models aim to diagnose examinees' mastery status of a group of discretely defined skills, or attributes, thereby providing them with detailed information regarding their specific strengths and weaknesses. Combining cognitive diagnosis with computer adaptive assessments has emerged as an important part of this new field. This article aims to provide practitioners and researchers with an introduction to and overview of recent developments in cognitive diagnostic computer adaptive assessments.},
number = {3},
volume = {15},
year = {2010},
date-added = {2010-01-21 07:52:03 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huebner-2010-Practical%20Assessment%20Research%20%20&%20Evaluation_An%20Overview%20of%20Recen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4183},
rating = {0}
}
@techreport{Brown:2005,
author = {N J S Brown},
journal = {Techreport},
title = {The Multidimensional Measure of Conceptual Complexity},
affiliation = {BEAR Center},
year = {2005},
month = {Apr},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brown-2005-Techreport_The%20Multidimensional.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1912},
rating = {0}
}
@article{Mokkink:2010p10574,
author = {Lidwine B Mokkink and Caroline B Terwee and Donald L Patrick and Jordi Alonso and Paul W Stratford and Dirk L Knol and Lex M Bouter and Henrica C W de Vet},
journal = {Qual Life Res},
title = {The COSMIN checklist for assessing the methodological quality of studies on measurement properties of health status measurement instruments: an international Delphi study},
abstract = {BACKGROUND: Aim of the COSMIN study (COnsensus-based Standards for the selection of health status Measurement INstruments) was to develop a consensus-based checklist to evaluate the methodological quality of studies on measurement properties. We present the COSMIN checklist and the agreement of the panel on the items of the checklist. METHODS: A four-round Delphi study was performed with international experts (psychologists, epidemiologists, statisticians and clinicians). Of the 91 invited experts, 57 agreed to participate (63%). Panel members were asked to rate their (dis)agreement with each proposal on a five-point scale. Consensus was considered to be reached when at least 67% of the panel members indicated 'agree' or 'strongly agree'. RESULTS: Consensus was reached on the inclusion of the following measurement properties: internal consistency, reliability, measurement error, content validity (including face validity), construct validity (including structural validity, hypotheses testing and cross-cultural validity), criterion validity, responsiveness, and interpretability. The latter was not considered a measurement property. The panel also reached consensus on how these properties should be assessed. CONCLUSIONS: The resulting COSMIN checklist could be useful when selecting a measurement instrument, peer-reviewing a manuscript, designing or reporting a study on measurement properties, or for educational purposes.},
affiliation = {Department of Epidemiology and Biostatistics and the EMGO Institute for Health and Care Research, VU University Medical Center, Van der Boechorststraat 7, 1081 BT, Amsterdam, The Netherlands, w.mokkink@vumc.nl.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-04-07 11:40:01 +0200},
date-modified = {2010-07-29 19:48:31 +0200},
doi = {10.1007/s11136-010-9606-8},
pmid = {20169472},
url = {http://www.springerlink.com/content/76u6574071x7v084/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mokkink-2010-Qual%20Life%20Res_The%20COSMIN%20checklist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10574},
rating = {0}
}
@article{Sarkar:2008p4357,
author = {Sanat K Sarkar},
journal = {arXiv},
title = {Generalizing Simes' test and Hochberg's stepup procedure},
abstract = { In a multiple testing problem where one is willing to tolerate a few false rejections, procedure controlling the familywise error rate (FWER) can potentially be improved in terms of its ability to detect false null hypotheses by generalizing it to control the {\$}k{\$}-FWER, the probability of falsely rejecting at least {\$}k{\$} null hypotheses, for some fixed {\$}k>1{\$}. Simes' test for testing the intersection null hypothesis is generalized to control the {\$}k{\$}-FWER weakly, that is, under the intersection null hypothesis, and Hochberg's stepup procedure for simultaneous testing of the individual null hypotheses is generalized to control the {\$}k{\$}-FWER strongly, that is, under any configuration of the true and false null hypotheses. The proposed generalizations are developed utilizing joint null distributions of the {\$}k{\$}-dimensional subsets of the {\$}p{\$}-values, assumed to be identical. The generalized Simes' test is proved to control the {\$}k{\$}-FWER weakly under the multivariate totally positive of order two (MTP{\$}_2{\$}) condition [J. Multivariate Analysis 10 (1980) 467-498] of the joint null distribution of the {\$}p{\$}-values by generalizing the original Simes' inequality. It is more powerful to detect {\$}k{\$} or more false null hypotheses than the original Simes' test when the {\$}p{\$}-values are independent. A stepdown procedure strongly controlling the {\$}k{\$}-FWER, a version of generalized Holm's procedure that is different from and more powerful than [Ann. Statist. 33 (2005) 1138-1154] with independent {\$}p{\$}-values, is derived before proposing the generalized Hochberg's procedure. The strong control of the {\$}k{\$}-FWER for the generalized Hochberg's procedure is established in situations where the generalized Simes' test is known to control its {\$}k{\$}-FWER weakly. },
annote = {Published in: Annals of Statistics 2008, Vol. 36, No. 1, 337-363
Published in at http://dx.doi.org/10.1214/009053607000000550 the
Annals of Statistics (http://www.imstat.org/aos/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {0803.1961v1},
volume = {math.ST},
year = {2008},
month = {Jan},
keywords = {math.ST, stat.TH, 62J15 (Primary)},
date-added = {2010-01-27 18:30:00 +0100},
date-modified = {2010-01-27 18:30:00 +0100},
doi = {10.1214/009053607000000550},
pmid = {0803.1961v1},
url = {http://arxiv.org/abs/0803.1961v1},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4357},
rating = {0}
}
@article{Matsunaga:2010p9139,
author = {Miki Matsunaga and Yasumasa Okamoto and Shin-Ichi Suzuki and Akiko Kinoshita and Shinpei Yoshimura and Atsuo Yoshino and Yoshihiko Kunisato and Shigeto Yamawaki},
journal = {BMC Psychiatry},
title = {Psychosocial functioning in patients with treatment-resistant depression after group cognitive behavioral therapy},
abstract = {ABSTRACT: BACKGROUND: Although patients with Treatment Resistant Depression (TRD) often have impaired social functioning, few studies have investigated the effectiveness of psychosocial treatment for these patients. We examined whether adding group cognitive behavioral therapy (group-CBT) to medication would improve both the depressive symptoms and the social functioning of patient with mild TRD, and whether any improvements would be maintained over one year. METHODS: Forty-three patients with TRD were treated with 12 weekly sessions of group-CBT. Patients were assessed with the Global Assessment of Functioning scale (GAF), the 36-item Short-Form Health Survey (SF-36), the Hamilton Rating Scale for Depression (HRSD), the Dysfunctional Attitudes Scale (DAS), and the Automatic Thought Questionnaire-Revised (ATQ-R) at baseline, at the termination of treatment, and at the 12-month follow-up. RESULTS: Thirty-eight patients completed treatment; five dropped out. For the patients who completed treatment, post-treatment scores on the GAF and SF-36 were significantly higher than baseline scores. Scores on the HRSD, DAS, and ATQ-R were significantly lower after the treatment. Thus patients improved on all measurements of psychosocial functioning and mood symptoms. Twenty patients participated in the 12-month follow-up. Their improvements for psychosocial functioning, depressive symptoms, and dysfunctional cognitions were sustained at 12 months following the completion of group-CBT. CONCLUSIONS: These findings suggest a positive effect that the addition of cognitive behavioural group therapy to medication on depressive symptoms and social functioning of mildly depressed patients, showing treatment resistance.},
number = {1},
pages = {22},
volume = {10},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-22 13:31:09 +0100},
date-modified = {2010-03-22 13:31:09 +0100},
doi = {10.1186/1471-244X-10-22},
pii = {1471-244X-10-22},
pmid = {20230649},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Matsunaga-2010-BMC%20Psychiatry_Psychosocial%20functio-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9139},
rating = {0}
}
@article{Harris:2006p4601,
author = {M Harris and J Richters},
journal = {Social research Briefs},
title = {Psychosocial aspects of living with hepatitis C},
affiliation = {National Centre in HIV Social Research, University of New South Wales},
volume = {8},
year = {2006},
date-added = {2010-01-29 22:34:19 +0100},
date-modified = {2010-01-29 22:35:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harris-2006-Social%20research%20Briefs_Psychosocial%20aspects.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4601},
rating = {0}
}
@article{Kornr:2007p8368,
author = {Hege Korn{\o}r and Hilmar Nordvik},
journal = {BMC Psychiatry},
title = {Five-factor model personality traits in opioid dependence},
abstract = {BACKGROUND: Personality traits may form a part of the aetiology of opioid dependence. For instance, opioid dependence may result from self-medication in emotionally unstable individuals, or from experimenting with drugs in sensation seekers. The five factor model (FFM) has obtained a central position in contemporary personality trait theory. The five factors are: Neuroticism, Extraversion, Openness to Experience, Agreeableness and Conscientiousness. Few studies have examined whether there is a distinct personality pattern associated with opioid dependence. METHODS: We compared FFM personality traits in 65 opioid dependent persons (mean age 27 years, 34% females) in outpatient counselling after a minimum of 5 weeks in buprenorphine replacement therapy, with those in a non-clinical, age- and sex-matched sample selected from a national database. Personality traits were assessed by a Norwegian version of the Revised NEO Personality Inventory (NEO PI-R), a 240-item self-report questionnaire. Cohen's d effect sizes were calculated for the differences in personality trait scores. RESULTS: The opioid-dependent sample scored higher on Neuroticism, lower on Extraversion and lower on Conscientiousness (d = -1.7, 1.2 and 1.7, respectively) than the controls. Effects sizes were small for the difference between the groups in Openness to experience scores and Agreeableness scores. CONCLUSION: We found differences of medium and large effect sizes between the opioid dependent group and the matched comparison group, suggesting that the personality traits of people with opioid dependence are in fact different from those of non-clinical peers.},
affiliation = {Norwegian Knowledge Centre for the Health Services, Olavsplass, Oslo, Norway. hege.kornor@kunnskapssenteret.no},
pages = {37},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Outpatients, Personality Assessment, Case-Control Studies, Female, Adult, Male, Models: Psychological, Personality, Humans, Opioid-Related Disorders},
date-added = {2010-03-21 13:01:26 +0100},
date-modified = {2010-07-11 09:52:52 +0200},
doi = {10.1186/1471-244X-7-37},
pii = {1471-244X-7-37},
pmid = {17683593},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Korn%C3%B8r-2007-BMC%20Psychiatry_Five-factor%20model%20pe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8368},
rating = {3}
}
@article{Borrmann:2008p6471,
author = {Steffen Borrmann and Tim Peto and Robert W Snow and Win Gutteridge and Nicholas J White},
journal = {PLoS Med},
title = {Revisiting the design of phase III clinical trials of antimalarial drugs for uncomplicated Plasmodium falciparum malaria},
affiliation = {Steffen Borrmann is with the Kenya Medical Research Institute, Wellcome Trust Research Programme, Centre for Geographical Medicine Research, Coast, Kilifi, Kenya. sborrmann@kilifi.kemri-wellcome.org},
number = {11},
pages = {e227},
volume = {5},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Humans, Survival Analysis, Animals, Drug Therapy: Combination, Plasmodium falciparum, Clinical Trials: Phase III as Topic, Treatment Outcome, Malaria: Falciparum, Antimalarials, Recurrence},
date-added = {2010-02-23 08:35:37 +0100},
date-modified = {2010-07-29 19:43:47 +0200},
doi = {10.1371/journal.pmed.0050227},
pii = {07-PLME-PF-0212},
pmid = {19018658},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borrmann-2008-PLoS%20Med_Revisiting%20the%20desig.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6471},
rating = {0}
}
@article{Eggen:1998aa,
author = {T J H M Eggen},
title = {On the Loss of Information in Conditional Maximum Likelihood Estimation of Item Parameters},
abstract = {In item response models of the Rasch type (Fischer {\&} Molenaar, 1995), item parameters are often estimated by the conditional maximum likelihood (CML) method. This paper addresses the loss of information in CML estimation by using the information concept of F-information (Liang, 1983). This concept makes it possible to specify the conditions for no loss of information and to define a quantification of information loss. For the dichotomous Rasch model, the derivations will be given in detail to show the use of the F-information concept for making efficiency comparisons for different estimation methods. It is shown that by using CML for item parameter estimation, some information is almost always lost. But compared to JML (joint maximum likelihood) as well as to MML (marginal maximum likelihood) the loss is very small. The reported efficiency of CML to JML and to MML in several comparisons is always larger than 93%, and in tests with a length of 20 items or more, larger than 99%.},
year = {1998},
month = {Sep},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eggen-1998-_On%20the%20Loss%20of%20Infor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1224},
rating = {0}
}
@article{Griffiths:2006p8373,
author = {Kathleen M Griffiths and Yoshibumi Nakane and Helen Christensen and Kumiko Yoshioka and Anthony F Jorm and Hideyuki Nakane},
journal = {BMC Psychiatry},
title = {Stigma in response to mental disorders: a comparison of Australia and Japan},
abstract = {BACKGROUND: There are few national or cross-cultural studies of the stigma associated with mental disorders. Australia and Japan have different systems of psychiatric health care, and distinct differences in cultural values, but enjoy similar standards of living. This study seeks to compare the nature and extent of stigma among the public in the two countries. METHODS: A household survey of the public was conducted in each country using similar methodologies. The Australian study comprised a national survey of 3998 adults aged over 18 years. The Japanese survey involved 2000 adults aged 20 to 69 from 25 regional sites distributed across the country. Interviewees reported their personal attitudes (personal stigma, social distance) and perceptions of the attitudes of others (perceived stigma, perceived discrimination) in the community with respect to four case vignettes. These vignettes described a person with: depression; depression with suicidal ideation; early schizophrenia; and chronic schizophrenia. RESULTS: Personal stigma and social distance were typically greater among the Japanese than the Australian public whereas the reverse was true with respect to the perception of the attitudes and discriminatory behaviour of others. In both countries, personal stigma was significantly greater than perceived stigma. The public in both countries showed evidence of greater social distance, greater personal stigma and greater perceived stigma for schizophrenia (particularly in its chronic form) than for depression. There was little evidence of a difference in stigma for depression with and without suicide for either country. However, social distance was greater for chronic compared to early schizophrenia for the Australian public. CONCLUSION: Stigmatising attitudes were common in both countries, but negative attitudes were greater among the Japanese than the Australian public. The results suggest that there is a need to implement national public awareness interventions tailored to the needs of each country. The current results provide a baseline for future tracking of national stigma levels in each country.},
affiliation = {Centre for Mental Health Research, The Australian National University, Canberra, ACT, 0200, Australia. kathy.griffiths@anu.edu.au},
pages = {21},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Male, Mental Disorders, Middle Aged, Australia, Cross-Cultural Comparison, Aged, Female, Data Collection, Humans, Public Opinion, Prejudice, Social Conditions, Adult, Japan},
date-added = {2010-03-21 13:05:04 +0100},
date-modified = {2010-03-21 13:05:04 +0100},
doi = {10.1186/1471-244X-6-21},
pii = {1471-244X-6-21},
pmid = {16716231},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Griffiths-2006-BMC%20Psychiatry_Stigma%20in%20response%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8373},
rating = {0}
}
@article{AgasiIdenburg:2010p7357,
author = {Carla Agasi-Idenburg and Miranda Velthuis and Harriet Wittink},
journal = {Journal of Clinical Epidemiology},
title = {Quality criteria and user-friendliness in self-reported questionnaires on cancer-related fatigue: a review},
abstract = {OBJECTIVE: Cancer-related fatigue (CRF) is a distressing, persistent, subjective sense of tiredness or exhaustion that occurs in 70-100% of cancer patients. The purpose of this review was to provide an overview of the quality of research performed on existing CRF self-report questionnaires and compare their reported psychometric properties and user-friendliness. METHODS: Database searches of CINAHL, Cochrane Library, EMBASE, MEDLINE, Scopus, PEDro, and PsycINFO were undertaken to find published scales. Standardized criteria were used to assess quality and user-friendliness. RESULTS: Thirty-five articles were included that described 18 questionnaires-seven one-dimensional questionnaires and 11 multidimensional questionnaires. The mean item count was 20.8 (range: 3-83). The mean overall score of the one-dimensional questionnaires was 10.4 of a maximum of 18 points (range: 7.6-14.3). The mean overall score of the multidimensional questionnaires was 9.4 of a maximum of 18 points (range: 4.3-14.4). CONCLUSION: Recommendations were made for the selection of a scale. We argue in favor of repeatedly reassessing psychometric properties of even established questionnaires to ensure they comply with evermore increasing stringent quality criteria.},
affiliation = {Department of Physiotherapy, The Netherlands Cancer Institute - Antoni van Leeuwenhoek Hospital, Amsterdam, The Netherlands; University of Applied Sciences, Utrecht, The Netherlands.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-10 20:28:07 +0100},
date-modified = {2010-03-10 20:28:07 +0100},
doi = {10.1016/j.jclinepi.2009.08.027},
pii = {S0895-4356(09)00313-8},
pmid = {20172691},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Agasi-Idenburg-2010-Journal%20of%20Clinical%20Epidemiology_Quality%20criteria%20and-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7357},
rating = {0}
}
@article{GonzalezSaiz:2009p12788,
author = {Francisco Gonz{\'a}lez-Saiz and Oscar Lozano Rojas and Ioseba Iraurgi Castillo},
journal = {Curr Drug Abuse Rev},
title = {Measuring the impact of psychoactive substance on health-related quality of life: an update},
abstract = {BACKGROUND: The number of publications dealing with measurement of the quality of life and health in the area of drug dependence has increased in recent years. Its main application is as an indicator of the effectiveness of intervention in harm reduction, although there are also comparative and methodological studies. DATA SOURCES AND STUDY SELECTION: The literature was reviewed to identify studies on abuse or substance dependence and HRQoL. The bibliographic sources used for the review are PubMed, EMBASE, CINAHL and PsycInfo. Additional articles were identified from references to relevant articles. RESULTS: 111 articles were identified. The HRQoL of people who abuse or are dependent on substances is lower than the general population. The presence of physical and psychiatric comorbidity also affects patients dependent on opiates, and substitution programs improve HRQoL. CONCLUSION: The measurement of HRQoL in the area of drug dependence is a suitable complement for finding out the deterioration caused by substance use, abuse or dependence. It is also a useful indicator for evaluating therapeutic results in this population.},
affiliation = {Fundaci{\'o}n Andaluza para Atenci{\'o}n e Incorporaci{\'o}n Social, Junta de Andaluc{\'\i}a, Sevilla, EU, Spain. pacogonzalez@comcadiz.com},
number = {1},
pages = {5--10},
volume = {2},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Harm Reduction, Diagnosis: Dual (Psychiatry), Substance-Related Disorders, Quality of Life, Opioid-Related Disorders},
date-added = {2010-06-18 21:02:13 +0200},
date-modified = {2010-06-18 21:02:13 +0200},
pmid = {19630733},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonz%C3%A1lez-Saiz-2009-Curr%20Drug%20Abuse%20Rev_Measuring%20the%20impact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12788},
rating = {0}
}
@phdthesis{Hamon:2000,
author = {Agn{\`e}s Hamon},
journal = {PhD Thesis},
title = {Mod{\`e}le de Rasch et validation de questionnaires de qualit{\'e} de vie},
affiliation = {Universit{\'e} de Bretagne Sud},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamon-2000-PhD%20Thesis_Mod%C3%A8le%20de%20Rasch%20et%20v.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1865},
rating = {0}
}
@article{Ligtvoet:2010p13812,
author = {R Ligtvoet and L Andries van der Ark and J M te Marvelde and K Sijtsma},
journal = {Educational and Psychological Measurement},
title = {Investigating an Invariant Item Ordering for Polytomously Scored Items},
abstract = {This article discusses the concept of an invariant item ordering (IIO) for polytom- ously scored items and proposes methods for investigating an IIO in real test data. Method manifest IIO is proposed for assessing whether item response functions intersect. Coefficient HT is defined for polytomously scored items. Given that an IIO holds, coefficient HT expresses the accuracy of the item ordering. Method manifest IIO and coefficient HT are used together to analyze a real data set. Topics for future research are discussed.},
year = {2010},
date-added = {2010-07-29 12:35:57 +0200},
date-modified = {2010-07-29 20:42:55 +0200},
doi = {10.1177/0013164409355697},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ligtvoet-2010-Educational%20and%20Psychological%20Measurement_Investigating%20an%20Inv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13812},
rating = {0}
}
@article{Foltz:1998,
author = {Peter W Foltz and Walter Kintsch and Thomas K Landauer},
journal = {Discourse Processes},
title = {The measurement of textual coherence with latent semantic analysis},
number = {2\{\&}3},
pages = {285--307},
volume = {25},
year = {1998},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 19:25:23 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Foltz-1998-Discourse%20Processes_The%20measurement%20of%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2201},
rating = {0}
}
@article{Cheung:2006p11616,
author = {V Cheung and I Givoni and D Dueck and B J Frey},
title = {Factorgrams: A tool for visualizing multi-way associations in biological data},
abstract = {Effective visualization of biological data is often critical for subsequent analy- sis. The popular clustergram/dendrogram visualization rearranges rows and columns of a data matrix so as to highlight clusters of similar responses, but assumes each row or column belongs to only one cluster and cannot associate each row or column with multiple clusters. Such multi-way associations oc- cur frequently, e.g., when a gene plays multiple biological roles. We describe the 'factorgram' visualization, which rearranges the data into an expanded view, associating each row (or column) with multiple clusters of rows (or columns) and elucidating potentially new biological relationships. Factor- grams for mouse gene expression and yeast synthetic-lethal gene-interaction datasets detect a larger number of statistically-significant clusters than clus- tergrams, plus a larger number of clusters enriched for gene ontology annota- tions. Experimentally-verified associations previously identified by manual rearrangement of rows and columns not grouped together by clustergrams, are readily identified by the factorgram.},
year = {2006},
date-added = {2010-05-11 21:45:42 +0200},
date-modified = {2010-05-11 21:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cheung-2006-_Factorgrams%20A%20tool.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11616},
rating = {0}
}
@article{Ponce:2009p2490,
author = {Guillermo Ponce and Roc{\'\i}o P{\'e}rez-Gonz{\'a}lez and Mar{\'\i}a Arag{\"u}{\'e}s and Tom{\'a}s Palomo and Roberto Rodr{\'\i}guez-Jim{\'e}nez and Miguel Angel Jim{\'e}nez-Arriero and Janet Hoenicka},
journal = {Neurotox Res},
title = {The ANKK1 kinase gene and psychiatric disorders},
abstract = {The TaqIA single nucleotide polymorphism (SNP, rs1800497), which is located in the gene that codes for the putative kinase ANKK1 (ANKK1) near the termination codon of the D2 dopamine receptor gene (DRD2; chromosome 11q22-q23), is the most studied genetic variation in a broad range of psychiatric disorders and personality traits. A large number of individual genetic association studies have found that the TaqIA SNP is linked to alcoholism and antisocial traits. In addition, it has also been related to other conditions such as schizophrenia, eating disorders, and some behavioral childhood disorders. The TaqIA A1 allele is mainly associated with addictions, antisocial disorders, eating disorders, and attention-deficit/hyperactivity disorders, while the A2 allele occurs more frequently in schizophrenic and obsessive-compulsive patients. Current data show that the TaqIA polymorphism may be a marker of both DRD2 and ANKK1 genetic variants. ANKK1 would belong to a family of kinases involved in signal transduction. This raises the question of whether signaling players intervene in the pathophysiology of psychiatric disorders. Basic research on the ANKK1 protein and its putative interaction with the D2 dopamine receptor could shed light on this issue.},
affiliation = {Unidad de Alcoholismo y Patolog{\'\i}a Dual, Servicio de Psiquiatr{\'\i}a, Hospital Universitario, 12 de Octubre, Av. de C{\'o}rdoba s/n, Madrid, E-28041, Spain.},
number = {1},
pages = {50--9},
volume = {16},
year = {2009},
month = {Jul},
language = {eng},
date-added = {2010-01-12 13:33:10 +0100},
date-modified = {2010-01-13 10:06:59 +0100},
doi = {10.1007/s12640-009-9046-9},
pmid = {19526298},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ponce-2009-Neurotox%20Res_The%20ANKK1%20kinase%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2490},
rating = {3}
}
@article{Quene:2008p3544,
author = {H Quen{\'e} and H van den Bergh},
title = {Examples of mixed-effects modeling with crossed random effects and with binomial data},
abstract = {Psycholinguistic data are often analyzed with repeated-measures analyses of variance (ANOVA), but this paper argues that mixed-effects (multilevel) models provide a better alternative method. First, models are discussed in which the two random factors of participants and items are crossed, and not nested. Traditional ANOVAs are compared against these crossed mixed-effects models, for simulated and real data. Results indicate that the mixed-effects method has a lower risk of capitalization on chance (Type I error). Second, mixed-effects models of logistic regression (generalized linear mixed models, GLMM) are discussed and demonstrated with simulated binomial data. Mixed-effects models effectively solve the ``language-as-fixed-effect-fallacy'', and have several other advantages. In conclusion, mixed-effects models provide a superior method for analyzing psycholinguistic data.},
year = {2008},
date-added = {2010-01-15 20:57:13 +0100},
date-modified = {2010-01-15 20:58:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Quen%C3%A9-2008-_Examples%20of%20mixed-ef.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3544},
rating = {0}
}
@article{Houseman:2006p10006,
author = {E Andr{\'e}s Houseman and Brent A Coull and Rebecca A Betensky},
journal = {Biometrics},
title = {Feature-specific penalized latent class analysis for genomic data},
abstract = {Genomic data are often characterized by a moderate to large number of categorical variables observed for relatively few subjects. Some of the variables may be missing or noninformative. An example of such data is loss of heterozygosity (LOH), a dichotomous variable, observed on a moderate number of genetic markers. We first consider a latent class model where, conditional on unobserved membership in one of k classes, the variables are independent with probabilities determined by a regression model of low dimension q. Using a family of penalties including the ridge and LASSO, we extend this model to address higher-dimensional problems. Finally, we present an orthogonal map that transforms marker space to a space of "features" for which the constrained model has better predictive power. We demonstrate these methods on LOH data collected at 19 markers from 93 brain tumor patients. For this data set, the existing unpenalized latent class methodology does not produce estimates. Additionally, we show that posterior classes obtained from this method are associated with survival for these patients.},
affiliation = {Department of Biostatistics, Harvard School of Public Health, 655 Huntington Avenue, Boston, Massachusetts 02115, USA. ahousema@hsph.harvard.edu},
number = {4},
pages = {1062--70},
volume = {62},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Loss of Heterozygosity, Genes: Tumor Suppressor, Brain Neoplasms, Genetic Markers, Genomics, Likelihood Functions, Humans, Biometry, Models: Statistical, Data Interpretation: Statistical},
date-added = {2010-03-31 19:48:28 +0200},
date-modified = {2010-03-31 19:48:34 +0200},
doi = {10.1111/j.1541-0420.2006.00566.x},
pii = {BIOM566},
pmid = {17156280},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Houseman-2006-Biometrics_Feature-specific%20pen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10006},
rating = {4}
}
@article{Miettunen:2008p4368,
author = {Jouko Miettunen and Erika Lauronen and Liisa Kantoj{\"a}rvi and Juha Veijola and Matti Joukamaa},
journal = {Psychiatry Res},
title = {Inter-correlations between Cloninger's temperament dimensions-- a meta-analysis},
abstract = {The Temperament and Character Inventory (TCI) was developed to measure the following temperament dimensions: novelty seeking (NS), harm avoidance (HA), reward dependence (RD) and persistence (P). These four dimensions of temperament were originally proposed to be independent of one another. In this study the inter-relationships between the dimensions were studied with meta-analytic techniques. We also studied the effects of sociodemographic factors (location of the study, mean age and gender distribution) on correlations between temperament dimensions. We searched studies on healthy (non-clinical) populations that used the TCI (version 9), and that had a required sample size of at least 100. The search resulted in 16 articles. The resulted pooled correlation coefficient was medium level between NS and HA (-0.27). Correlations were small for HA-P (-0.20), NS-P (-0.14), NS-RD (0.10), RD-P (0.05) and HA-RD (0.04). In meta-regression, the correlation NS-P was significantly affected by the location of the study (Asian/other) and by the gender distribution of the sample. In the HA-P correlation, the mean age of the sample affected the correlation. In conclusion, we found a medium level negative correlation between NS and HA; other correlations between the dimensions were small. These findings mainly support Cloninger's theory of independent dimensions.},
affiliation = {Department of Psychiatry, Oulu University and Oulu University Hospital, PO Box 5000, Oulu, Finland. jouko.miettunen@oulu.fi},
number = {1},
pages = {106--14},
volume = {160},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Sex Distribution, Age Distribution, Sample Size, Aged, Female, Adult, Male, Character, Continental Population Groups, Research Design, Aged: 80 and over, Diagnostic and Statistical Manual of Mental Disorders, Middle Aged, Cross-Cultural Comparison, Temperament, Adolescent, Control Groups, Humans, Psychometrics, Personality Inventory, Reproducibility of Results, Personality Assessment},
date-added = {2010-01-28 16:30:42 +0100},
date-modified = {2010-01-28 16:30:42 +0100},
doi = {10.1016/j.psychres.2007.05.003},
pii = {S0165-1781(07)00150-3},
pmid = {18513802},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miettunen-2008-Psychiatry%20Res_Inter-correlations%20b.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4368},
rating = {0}
}
@article{Zee:1998p5984,
author = {B C Zee},
journal = {Stat Med},
title = {Growth curve model analysis for quality of life data},
abstract = {There is increasing interest in measuring health related quality of life in cancer clinical trials. Most quality of life data are measured repeatedly over a fixed time schedule to capture changes and to reflect relative advantages of study treatments. A multivariate repeated measures model is usually used to analyse this type of data. However, one of the difficulties of this analysis is that quality of life may be affected by the occurrence of some critical events experienced by patients. We may separate a patient's lifetime during study into different 'health states'. The duration of these health states may vary among patients, and may relate to the efficacy of the study treatment. In some cases quality of life data may be missing due to one of the many different types of missing data mechanisms specific for a health state. It is reasonable to assume that the missing data mechanism for a treatment arm is homogeneous within a defined health state, and to control for the potential confounding effect to appropriately assess the impact of treatment on the quality of life. In this paper, we propose a growth curve model conditional on a time-dependent variable of defined health states in order to assess the overall treatment effect while taking into account occurrences of missing data and measurements from irregular visits. A specific contrast can be drawn within the overall model for testing a specific hypothesis without relying on the analysis of subgroups of patients based on a smaller number of repeated measurements. Quality of life data from a recently completed small-cell lung cancer randomized trial are used to illustrate this method.},
affiliation = {National Cancer Institute of Canada Clinical Trials Group, Queen's University, Kingston, Ontario. zeeb@ncic.ctg.queensu.ca},
number = {5-7},
pages = {757--66},
volume = {17},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Clinical Trials as Topic, Antineoplastic Combined Chemotherapy Protocols, Humans, Longitudinal Studies, Models: Statistical, Lung Neoplasms, Quality of Life, Carcinoma: Small Cell, Health Status, Neoplasms, Research Design},
date-added = {2010-02-18 23:30:36 +0100},
date-modified = {2010-02-18 23:30:36 +0100},
pii = {10.1002/(SICI)1097-0258(19980315/15)17:5/7<757::AID-SIM819>3.0.CO;2-N},
pmid = {9549821},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5984},
rating = {0}
}
@article{Suarez-Falcon:2003,
author = {J C Suarez-Falcon and C A W Glas},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Evaluation of Global Testing Procedures for item fit to the Rasch Model},
abstract = {Two types of global testing procedures for item fit to the Rasch model were evaluated using simulation studies. The first type incorporates three tests based on first-order statistics: van den Wollenberg's Q(1) test, Glas's R(1) test, and Andersen's LR test. The second type incorporates three tests based on second-order statistics: van den Wollenberg's Q(2) test, Glas's R(2) test, and a non-parametric test proposed by Ponocny. The Type I error rates and the power against the violation of parallel item response curves, unidimensionality and local independence were analysed in relation to sample size and test length. In general, the outcomes indicate a satisfactory performance of all tests, except the Q(2) test which exhibits an inflated Type I error rate. Further, it was found that both types of tests have power against all three types of model violation. A possible explanation is the interdependencies among the assumptions underlying the model.},
pages = {127--143},
volume = {56},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 19:22:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Suarez-Falcon-2003-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Evaluation%20of%20Global.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1881},
rating = {0}
}
@article{Simeoni:2007p6628,
author = {Marie-Claude Simeoni and Silke Schmidt and Holger Muehlan and David Debensason and Monika Bullinger and DISABKIDS Group},
journal = {Qual Life Res},
title = {Field testing of a European quality of life instrument for children and adolescents with chronic conditions: the 37-item DISABKIDS Chronic Generic Module},
abstract = {OBJECTIVES: The aim of this study was to shorten the Health-Related Quality of Life (HRQL) DISABKIDS Chronic Generic Measure (DCGM) for children and adolescents and to test its reliability, construct, and external validity. STUDY DESIGN: 1153 children and adolescents (8-16 years) with chronic health conditions (asthma, arthritis, epilepsy, cerebral palsy, diabetes, atopic dermatitis, cystic fibrosis) and their family were recruited from different paediatric clinical settings in seven European countries. A two-time assessment comprised reports on sociodemographics, health status and HRQL of children/adolescents. RESULTS: The 37-item DCGM describes six dimensions (Independence, Physical Limitation, Emotion, Social Inclusion, Social Exclusion and Treatment) confirmed by Confirmatory Factor Analysis, multi-item scaling and item-goodness of fit to Rasch model. Internal consistency (Cronbach's alpha: 0.70-0.87) and test-retest reliability (ICC: 0.71-0.83) were satisfactory. Correlations between DCGM-37 and other HRQL instruments were the highest between dimensions evaluating similar concepts. Regarding discriminant validity of the DCGM-37, girls and older adolescents reported lower emotional we ll-being. Children belonging to families with low level of affluence and those with severe health conditions were found to have worse HRQL in all domains. CONCLUSION: Reliability, construct validity as well as convergent and discriminant validity of the DCGM-37 were shown.},
affiliation = {Public Health Department, University Hospital of Marseille, Marseille, France. marie-claude.simeoni@medecine.univ-mrs.fr},
number = {5},
pages = {881--93},
volume = {16},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Questionnaires, Female, Culture, Europe, Demography, Adolescent, Male, Chronic Disease, Psychometrics, Sickness Impact Profile, Humans, Quality of Life, Child},
date-added = {2010-03-03 20:34:08 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-007-9188-2},
pmid = {17404899},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Simeoni-2007-Qual%20Life%20Res_Field%20testing%20of%20a%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6628},
rating = {0}
}
@article{Bertschy:2010p7837,
author = {G Bertschy and E Haffen and N Gervasoni and M Gex-Fabry and C Osiek and D Marra and J-M Aubry and G Bondolfi},
journal = {Eur Psychiatry},
title = {Self-rated residual symptoms do not predict 1-year recurrence of depression},
abstract = {BACKGROUND: Residual depressive symptoms are generally documented as a risk factor for recurrence. In the absence of a specific instrument for the assessment of residual symptoms, a new 25-item Depression Residual Symptom Scale (DRSS) was elaborated and tested for recurrence prediction over a 1-year follow-up. SAMPLING AND METHODS: Fifty-nine patients in remission after a major depressive episode (MDE) were recruited in two centres. They were assessed with the DRSS and the Montgomery-Asberg Depression Rating Scale (MADRS) at inclusion and followed for 1 year according to a seminaturalistic design. The DRSS included specific depressive symptoms and subjective symptoms of vulnerability, lack of return to usual self and premorbid level of functioning. RESULTS: Severity of residual symptoms was not significantly associated with increased risk of recurrence. However, DRSS score was significantly higher among patients with three or more episodes than one to two episodes. Number of previous episodes and treatment interruption were not identified as significant predictors of recurrence. CONCLUSION: The proposed instrument is not predictive of depressive recurrence, but is sensitive to increased perception of vulnerability associated with consecutive episodes. Limitations include small sample size, seminaturalistic design (no standardisation of treatment) and content of the instrument.},
affiliation = {Division of adult psychiatry, Department of psychiatry, University Hospitals of Geneva, 2, chemin du Petit-Bel-Air, 1225 Ch{\^e}ne-Bourg, Geneva, Switzerland. gilles.bertschy@hcuge.ch},
number = {1},
pages = {52--7},
volume = {25},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-17 21:01:55 +0100},
date-modified = {2010-03-17 21:01:58 +0100},
doi = {10.1016/j.eurpsy.2009.05.009},
pii = {S0924-9338(09)00116-3},
pmid = {19695844},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bertschy-2010-Eur%20Psychiatry_Self-rated%20residual.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7837},
rating = {3}
}
@article{Ohaeri:2007p8392,
author = {Jude U Ohaeri and Abdel W Awadalla and Abdul-Hamid M El-Abassi and Anila Jacob},
journal = {BMC Med Res Methodol},
title = {Confirmatory factor analytical study of the WHOQOL-Bref: experience with Sudanese general population and psychiatric samples},
abstract = {BACKGROUND: The widespread international use of the 26-item WHO Quality of Life Instrument (WHOQOL-Bref) necessitates the assessment of its factor structure across cultures. For, alternative factor models may provide a better explanation of the data than the WHO 4- and 6-domain models. The objectives of the study were: to assess the factor structure of the WHOQOL-Bref in a Sudanese general population sample; and use confirmatory factor analysis (CFA) and path analysis (PA) to see how well the model thus generated fits into the WHOQOL-Bref data of Sudanese psychiatric patients and their family caregivers. METHOD: In exploratory factor analysis (FA) with all items, data from 623 general population subjects were used to generate a 5-domain model. In CFA and PA, the model was tested on the data of 300 psychiatric outpatients and their caregivers, using four goodness of fit (GOF) criteria in Analysis of Moment Structures (AMOS). In the path relationships for our model, the dependent variable was the item on overall QOL (OQOL). For the WHO 6-domain model, the general facet on health and QOL was the dependent variable. RESULTS: Two of the five factors ("personal relations" and "environment") from our FA were similar to the WHO's. In CFA, the four GOF criteria were met by our 5-domain model and WHO's 4-domain model on the psychiatric data. In PA, these two models met the GOF criteria on the general population data. The direct predictors of OQOL were our factors: "life satisfaction" and "sense of enjoyment". For the general facet, predictors were WHO domains: "environment", "physical health" and "independence'. CONCLUSION: The findings support the credentials of WHO's 4-domain model as a universal QOL construct; and the impression that analysis of WHOQOL-Bref could benefit from including all the items in FA and using OQOL as a dependent variable. The clinical significance is that by more of such studies, a combination of domains from the WHO models and the local models would be generated and used to develop rigorous definitions of QOL, from which primary targets for subjective QOL interventions could be delineated that would have cross-cultural relevance.},
affiliation = {Department of Psychiatry, Psychological Medicine Hospital, Gamal Abdul Naser Road, Safat, Kuwait. judeohaeri@hotmail.com},
pages = {37},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {World Health Organization, Cross-Cultural Comparison, Humans, Questionnaires, Sudan, Interpersonal Relations, Quality of Life, Happiness, Social Environment, Female, Caregivers, Psychometrics, Adult, Personal Satisfaction, Mental Disorders, Activities of Daily Living, Middle Aged, Culture, Factor Analysis: Statistical, Male},
date-added = {2010-03-21 13:08:56 +0100},
date-modified = {2010-04-25 21:32:11 +0200},
doi = {10.1186/1471-2288-7-37},
pii = {1471-2288-7-37},
pmid = {17678527},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ohaeri-2007-BMC%20Med%20Res%20Methodol_Confirmatory%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8392},
rating = {4}
}
@article{Preston:2000p13747,
author = {C C Preston and A M Colman},
journal = {Acta Psychol (Amst)},
title = {Optimal number of response categories in rating scales: reliability, validity, discriminating power, and respondent preferences},
abstract = {Using a self-administered questionnaire, 149 respondents rated service elements associated with a recently visited store or restaurant on scales that differed only in the number of response categories (ranging from 2 to 11) and on a 101-point scale presented in a different format. On several indices of reliability, validity, and discriminating power, the two-point, three-point, and four-point scales performed relatively poorly, and indices were significantly higher for scales with more response categories, up to about 7. Internal consistency did not differ significantly between scales, but test-retest reliability tended to decrease for scales with more than 10 response categories. Respondent preferences were highest for the 10-point scale, closely followed by the seven-point and nine-point scales. Implications for research and practice are discussed.},
affiliation = {Department of General Practice and Primary Health Care, University of Leicester, UK.},
number = {1},
pages = {1--15},
volume = {104},
year = {2000},
month = {Mar},
language = {eng},
keywords = {Questionnaires, Adult, Reproducibility of Results, Adolescent, Psychological Tests, Humans, Observer Variation, Female, Male, Psychometrics},
date-added = {2010-07-24 12:34:06 +0200},
date-modified = {2010-07-24 12:34:19 +0200},
pii = {S0001-6918(99)00050-5},
pmid = {10769936},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Preston-2000-Acta%20Psychol%20(Amst)_Optimal%20number%20of%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13747},
rating = {4}
}
@article{Miglioretti:2004,
author = {D L Miglioretti and P J Heagerty},
journal = {Biostatistics},
title = {Marginal modeling of multilevel binary data with time varying covariates},
number = {3},
pages = {381--398},
volume = {5},
year = {2004},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miglioretti-2004-Biostatistics_Marginal%20modeling%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1120},
rating = {0}
}
@inproceedings{Camiz:2005,
author = {S Camiz and J Pag{\`e}s},
journal = {Proceedings},
title = {Application de l'analyse factorielle multiple pour le traitement de caract{\`e}res en {\'e}chelle dans les enqu{\^e}tes},
year = {2005},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Camiz-2005-Proceedings_Application%20de%20l'ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1917},
rating = {0}
}
@article{Borsboom:2002p5475,
author = {D Borsboom and Gideon J Mellenbergh and van Heerden J},
journal = {Applied Psychological Measurement},
title = {Different Kinds of DIF: A Distinction Between Absolute and Relative Forms of Measurement Invariance and Bias},
abstract = {In this article, a distinction is made between absolute and relative measurement. Absolute measurement refers to the measurement of traits on a group-invariant scale, and relative measurement refers to the within-group measurement of traits, where the scale of measurement is expressed in terms of the within-group position on a trait. Relative measurement occurs, for example, if an item induces a within-group comparison in respondents. These distinctions are discussed within the framework of measurement invariance, differentiating between absolute and relative forms of measurement invariance and bias. It is shown that items for relative measurement will produce bias as classically defined
if the mean and/or variance of the trait distribution differ between groups. This form of bias, however, does not result from multidimensionality but from the fact that measurement is on a relative scale. A logistic regression procedure for the detection of relative measurement invariance and bias is proposed, as well as a model that allows for the incorporation of items for relative measurement in test analysis. Implications of the distinction between absolute and relative measurement are discussed and prove to be especially relevant for the domain of personality research.},
affiliation = {Department of Psychological Methods, University of Amsterdam},
number = {4},
pages = {433--450},
volume = {26},
year = {2002},
date-added = {2010-02-12 14:17:58 +0100},
date-modified = {2010-02-12 14:24:48 +0100},
doi = {10.1177/014662102237798},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2002-Applied%20Psychological%20Measurement_Different%20Kinds%20of%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5475},
rating = {0}
}
@article{Ono:1999p12130,
author = {Y Ono and K Yoshimura and H Mizushima and H Manki and G Yagi and S Kanba and J Nathan and M Asai},
journal = {Psychol Rep},
title = {Environmental and possible genetic contributions to character dimensions of personality},
abstract = {The relationship between dimensions of personality characteristics and the perceived rearing attitude of parents in the Japanese population were investigated. The scores on a measure of perceived parental attitude of 153 normal female students, measured on the Parker Parental Bonding Instrument, were correlated with personality features from the Japanese version of the Cloninger Temperament and Character Inventory. Self-directedness, especially the subclasses of Responsibility vs Blaming and Congruent Second Nature vs Incongruent Habits, was significantly related to high scores on Maternal Care and low scores on Maternal Overprotection. The subscale of Self-acceptance vs Self-striving correlated only with low scores on Maternal Overprotection. Paternal Care was only related to the total scale scores on Self-directedness. Results suggest that some personality traits may be related to the perceived attitudes of parents, especially of the mother, during childhood.},
affiliation = {Department of Neuropsychiatry, Keio University School of Medicine, Tokyo, Japan.},
number = {2},
pages = {689--96},
volume = {84},
year = {1999},
month = {Apr},
language = {eng},
keywords = {Adolescent, Environment, Parenting, Personality Development, Adult, Genetics, Female, Japan, Personality Inventory, Humans, Character},
date-added = {2010-05-30 10:18:31 +0200},
date-modified = {2010-05-30 10:18:31 +0200},
pmid = {10335084},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12130},
rating = {0}
}
@article{Gold:1991p5170,
author = {K F Gold and B O Muth{\'e}n},
journal = {American Educational Research Association Meeting},
title = {Extensions of covariance structure analysis: Hierarchical modeling of multidimensional achievement data},
year = {1991},
date-added = {2010-02-07 12:35:31 +0100},
date-modified = {2010-07-29 19:13:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gold-1991-American%20Educational%20Research%20Association%20Meeting_Extensions%20of%20covari.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5170},
rating = {0}
}
@misc{Zhang:1996,
author = {J Zhang and D D Boos},
journal = {Miscellaneous},
title = {Generalized Cochran-Mantel-Haenszel Test Statistics for Correlated Categorical Data},
year = {1996},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-1996-Miscellaneous_Generalized%20Cochran.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1873},
rating = {0}
}
@article{Faraone:1994p6674,
author = {S V Faraone and M T Tsuang},
journal = {Am J Psychiatry},
title = {Measuring diagnostic accuracy in the absence of a "gold standard"},
abstract = {OBJECTIVE: As the nation debates issues of national health care reform, psychiatrists seek equal status with other medical colleagues. To defend psychiatry in the national arena, the accuracy of psychiatric diagnoses must be measured. Indexes of accuracy such as sensitivity and specificity provide valuable information, yet they are rarely computed because there is no "gold standard" with which to compare them. The goal of this article is to show how this problem can be overcome and to encourage nosologists to use accuracy statistics in assessing the adequacy of psychiatric diagnoses. METHOD: The authors reviewed the literature on medical decision making to find methodological approaches to assessing diagnostic accuracy in the absence of gold standards. RESULTS: A lack of such standards is not unique to psychiatry and has been addressed with a variety of novel analytic procedures. Although these methods differ in many respects, each recognizes that the conventional 2 x 2 table of interrater agreement does not provide enough data for estimating diagnostic accuracy. After defining the data needed, each method provides a mathematical model that estimates accuracy statistics and the prevalence of a disorder. Most of these methods are variants of latent class analysis. The authors reanalyzed data from one of the reviewed papers to show that similar inferences about accuracy of diagnoses could be drawn from a conventional latent class analysis. CONCLUSIONS: There are potential pitfalls in using latent structure methods, but their cautious use would provide valuable information for psychiatric nosology. These methods supplement, but do not replace, data about outcome, family history, laboratory studies, and other validating criteria in making accurate diagnoses.},
affiliation = {Harvard Institute of Psychiatric Epidemiology and Genetics, Department of Psychiatry, Harvard Medical School, Massachusetts Mental Health Center, Boston.},
number = {5},
pages = {650--7},
volume = {151},
year = {1994},
month = {May},
language = {eng},
keywords = {Male, Female, Reproducibility of Results, ROC Curve, Humans, Mental Disorders, Sex Factors, Prevalence, Sensitivity and Specificity},
date-added = {2010-03-05 22:07:51 +0100},
date-modified = {2010-07-29 19:51:28 +0200},
pmid = {8166304},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6674},
rating = {0}
}
@article{Zhu:2006p8396,
author = {Bin Zhu and Stephen D Walter and Peter L Rosenbaum and Dianne J Russell and Parminder Raina},
journal = {BMC Med Res Methodol},
title = {Structural equation and log-linear modeling: a comparison of methods in the analysis of a study on caregivers' health},
abstract = {BACKGROUND: In this paper we compare the results in an analysis of determinants of caregivers' health derived from two approaches, a structural equation model and a log-linear model, using the same data set. METHODS: The data were collected from a cross-sectional population-based sample of 468 families in Ontario, Canada who had a child with cerebral palsy (CP). The self-completed questionnaires and the home-based interviews used in this study included scales reflecting socio-economic status, child and caregiver characteristics, and the physical and psychological well-being of the caregivers. Both analytic models were used to evaluate the relationships between child behaviour, caregiving demands, coping factors, and the well-being of primary caregivers of children with CP. RESULTS: The results were compared, together with an assessment of the positive and negative aspects of each approach, including their practical and conceptual implications. CONCLUSION: No important differences were found in the substantive conclusions of the two analyses. The broad confirmation of the Structural Equation Modeling (SEM) results by the Log-linear Modeling (LLM) provided some reassurance that the SEM had been adequately specified, and that it broadly fitted the data.},
affiliation = {Centre for Clinical Epidemiology and Community Studies, Sir Mortimer B, Davis-Jewish General Hospital, Montreal, Quebec, Canada. bzhu@epid.jgh.mcgill.ca},
pages = {49},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Linear Models, Male, Ontario, Cross-Sectional Studies, Disabled Children, Female, Social Support, Questionnaires, Health Status, Child, Cerebral Palsy, Humans, Self Concept, Logistic Models, Family, Socioeconomic Factors, Caregivers, Adaptation: Psychological, Adult},
date-added = {2010-03-21 13:35:23 +0100},
date-modified = {2010-03-21 13:35:23 +0100},
doi = {10.1186/1471-2288-6-49},
pii = {1471-2288-6-49},
pmid = {17038188},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhu-2006-BMC%20Med%20Res%20Methodol_Structural%20equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8396},
rating = {0}
}
@article{Glas:1988a,
author = {C A W Glas},
journal = {Journal of Educational Statistics},
title = {The Rasch model and multi-stage testing},
pages = {45--52},
volume = {13},
year = {1988},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 19:33:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-1988-Journal%20of%20Educational%20Statistics_The%20Rasch%20model%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2138},
rating = {0}
}
@article{Cavallo:2009p6601,
author = {Sabrina Cavallo and Debbie Ehrmann Feldman and Bonnie Swaine and Garbis Meshefedjian and Peter N Malleson and Ciar{\'a}n M Duffy},
journal = {Pediatric rheumatology online journal},
title = {Is parental coping associated with quality of life in juvenile idiopathic arthritis?},
abstract = {ABSTRACT: Parents of children with a chronic condition such as juvenile arthritis must cope with greater demands than those living with a healthy child. They must adopt different behaviours in order to lessen the impact on the family structure. Parental coping refers to the parent's specific cognitive and behavioural efforts to reduce or manage a demand on the family system. The aims of this study were: to describe coping in a cohort of parents of children with JIA; to determine whether quality of life is associated with parental coping; to explore whether socio-demographic factors such as child's age, family socioeconomic status and family structure are associated with parental coping. One hundred eighty-two parents caring for a child with JIA completed a postal survey at three times over a one-year period, which included the Juvenile Arthritis Quality of Life Questionnaire (JAQQ), the Coping Health Inventory for Parents (CHIP) and questionnaires describing socio-demographic characteristics. Linear mixed models were employed to analyse the association between the child's quality of life and parental coping. Mean total QoL scores (JAQQ) showed that children experienced difficulty in completing specified activities at most just below 25% of the time and results fall off slightly following the 6 month time point. Mean parental coping scores for the CHIP subscales at baseline were 38.4 +/- 9.0, 33.4 +/- 11.6, 16.5 +/- 6.1, for Maintaining Family Integration (maximum score 57), Maintaining Social Support (maximum score 54) and Understanding the Medical Situation (maximum score 24), respectively. Understanding the Medical Situation was deemed most useful. The child's QoL was associated with parental coping. Parents of children with greater psychosocial dysfunction used more coping behaviours related to Understanding the Medical Situation (beta coefficient, 0.73; 95% CI, 0.01, 1.45). These findings underscore the importance of helping parents of children with JIA better understand their child's medical situation.},
affiliation = {Ecole de R{\'e}adaptation, Facult{\'e} de M{\'e}decine, Universit{\'e} de Montr{\'e}al, the Montreal Children's Hospital, Groupe de Recherche Interdisciplinaire en Sant{\'e} and the Public Health Department, Montreal, Quebec, Canada. debbie.feldman@umontreal.ca.},
pages = {7},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-03 19:41:38 +0100},
date-modified = {2010-03-03 19:41:38 +0100},
doi = {10.1186/1546-0096-7-7},
pii = {1546-0096-7-7},
pmid = {19284585},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cavallo-2009-Pediatric%20rheumatology%20online%20journal_Is%20parental%20coping%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6601},
rating = {0}
}
@article{Zong:2010p13750,
author = {Ji-Gang Zong and Xiao-Yan Cao and Yuan Cao and Yan-Fang Shi and Yu-Na Wang and Chao Yan and John Rz Abela and Yi-Qun Gan and Qi-Yong Gong and Raymond Ck Chan},
journal = {Health Qual Life Outcomes},
title = {Coping flexibility in college students with depressive symptoms},
abstract = {ABSTRACT: BACKGROUND: The current study explored the prevalence of depressed mood among Chinese undergraduate students and examined the coping patterns and degree of flexibility of flexibility of such patterns associated with such mood. METHODS: A set of questionnaire assessing coping patterns, coping flexibility, and depressive symptoms were administered to 428 students (234 men and 194 women). RESULTS: A total of 266 participants both completed the entire set of questionnaires and reported a frequency of two or more stressful life events (the criterion needed to calculate variance in perceived controllability). Findings showed that higher levels of depressive symptoms were significantly associated with higher levels of both event frequency (r = .368, p < .001) and event impact (r = .245, p < .001) and lower levels of perceived controllability (r = -.261, p < .001), coping effectiveness (r = -.375, p < .001), and ratio of strategy to situation fit (r = -.108, p < .05). Depressive symptoms were not significantly associated with cognitive flexibility (variance of perceived controllability; r = .031, p = .527), Gender was not a significant moderator of any of the reported associations. CONCLUSIONS: Findings indicate that Chinese university students with depressive symptoms reported experiencing a greater number of negative events than did non-depressed university students. In addition, undergraduates with depressive symptoms were more likely than other undergraduates to utilize maladaptive coping methods. Such findings highlight the potential importance of interventions aimed at helping undergraduate students with a lower coping flexibility develop skills to cope with stressful life events.},
number = {1},
pages = {66},
volume = {8},
year = {2010},
month = {Jul},
language = {ENG},
date-added = {2010-07-24 12:42:20 +0200},
date-modified = {2010-07-24 12:42:21 +0200},
doi = {10.1186/1477-7525-8-66},
pii = {1477-7525-8-66},
pmid = {20626865},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zong-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Coping%20flexibility%20i-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13750},
rating = {0}
}
@article{Holte:1993p2806,
author = {R C Holte},
journal = {Machine Learning},
title = {Very Simple Classification Rules Perform Well
on Most Commonly Used Datasets},
pages = {63--91},
volume = {11},
year = {1993},
date-added = {2010-01-13 14:50:43 +0100},
date-modified = {2010-01-13 14:51:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holte-1993-Machine%20Learning_Very%20Simple%20Classifi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2806},
rating = {0}
}
@article{Levy:2009p14059,
author = {Yonata Levy and Richard P Ebstein},
journal = {J Child Psychol Psychiatry},
title = {Research review: crossing syndrome boundaries in the search for brain endophenotypes},
abstract = {The inherent imprecision of behavioral phenotyping is the single most important factor contributing to the failure to discover the biological factors that are involved in psychiatric and neurodevelopmental disorders (e.g., Bearden {\&} Freimer, 2006). In this review article we argue that in addition to an appreciation of the inherent complexity at the biological level, a rather urgent task facing behavioral scientists involves a reconsideration of the role that clinical syndromes play in psychological theorizing, as well as in research into the biological basis of cognition and personality. Syndrome heterogeneity, cross-syndrome similarities and syndrome comorbidities question the relevance of syndromes to biological research. It is suggested that the search for brain endophenotypes, intermediate between genes and behavior, should be based on cross-syndrome, trait classification. Cohort selection should rest on behavioral homogeneity, enabling, when necessary, syndrome heterogeneity.},
affiliation = {Psychology Department, Hebrew University, Jerusalem, Israel. msyonata@huji.ac.il},
number = {6},
pages = {657--68},
volume = {50},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Personality Disorders, Comorbidity, Syndrome, Genotype, Cognition Disorders, Developmental Disabilities, Child, Autistic Disorder, Brain, Attention Deficit Disorder with Hyperactivity, Phenotype, Humans, Language Disorders},
date-added = {2010-08-18 10:08:21 +0200},
date-modified = {2010-08-18 10:08:21 +0200},
doi = {10.1111/j.1469-7610.2008.01986.x},
pii = {JCPP1986},
pmid = {19175806},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2009-J%20Child%20Psychol%20Psychiatry_Research%20review%20cro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14059},
rating = {0}
}
@article{Wu:2009p1485,
author = {Zhijin Wu},
journal = {Stat Methods Med Res},
title = {A review of statistical methods for preprocessing oligonucleotide microarrays},
abstract = {Microarrays have become an indispensable tool in biomedical research. This powerful technology not only makes it possible to quantify a large number of nucleic acid molecules simultaneously, but also produces data with many sources of noise. A number of preprocessing steps are therefore necessary to convert the raw data, usually in the form of hybridisation images, to measures of biological meaning that can be used in further statistical analysis. Preprocessing of oligonucleotide arrays includes image processing, background adjustment, data normalisation/transformation and sometimes summarisation when multiple probes are used to target one genomic unit. In this article, we review the issues encountered in each preprocessing step and introduce the statistical models and methods in preprocessing.},
affiliation = {Center for Statistical Sciences and Department of Community Health, Brown University, RI 02912, USA. zhijin_wu@brown.edu},
number = {6},
pages = {533--41},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:25:42 +0100},
date-modified = {2010-01-07 12:25:42 +0100},
doi = {10.1177/0962280209351924},
pii = {18/6/533},
pmid = {20048383},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2009-Stat%20Methods%20Med%20Res_A%20review%20of%20statisti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1485},
rating = {0}
}
@article{Yuan:2009p7376,
author = {Yuhong Yuan and Richard H Hunt},
journal = {Am J Gastroenterol},
title = {Systematic reviews: the good, the bad, and the ugly},
abstract = {Systematic reviews systematically evaluate and summarize current knowledge and have many advantages over narrative reviews. Meta-analyses provide a more reliable and enhanced precision of effect estimate than do individual studies. Systematic reviews are invaluable for defining the methods used in subsequent studies, but, as retrospective research projects, they are subject to bias. Rigorous research methods are essential, and the quality depends on the extent to which scientific review methods are used. Systematic reviews can be misleading, unhelpful, or even harmful when data are inappropriately handled; meta-analyses can be misused when the difference between a patient seen in the clinic and those included in the meta-analysis is not considered. Furthermore, systematic reviews cannot answer all clinically relevant questions, and their conclusions may be difficult to incorporate into practice. They should be reviewed on an ongoing basis. As clinicians, we need proper methodological training to perform good systematic reviews and must ask the appropriate questions before we can properly interpret such a review and apply its conclusions to our patients. This paper aims to assist in the reading of a systematic review.},
affiliation = {Division of Gastroenterology, Department of Medicine, McMaster University Health Science Centre, Hamilton, Ontario, Canada.},
number = {5},
pages = {1086--92},
volume = {104},
year = {2009},
month = {May},
language = {eng},
keywords = {Review Literature as Topic, Research Design, Randomized Controlled Trials as Topic, Gastroenterology, Reproducibility of Results, Female, Humans, Bias (Epidemiology), Male, Sensitivity and Specificity, Evidence-Based Medicine, Meta-Analysis as Topic},
date-added = {2010-03-10 20:34:32 +0100},
date-modified = {2010-03-10 20:34:32 +0100},
doi = {10.1038/ajg.2009.118},
pii = {ajg2009118},
pmid = {19417748},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7376},
rating = {0}
}
@article{Ziegenhagen:2007p10908,
author = {U Ziegenhagen},
journal = {The PracTEX Journal},
title = {LATEX Document Management with Subversion},
abstract = {From the single-author composition of a Bachelor thesis to the creation of a book by a team there are many occasions, where version management of a document may be helpful. With the aim of overcoming the shortcomings of CVS (Concurrent Version System) the Subversion version control system was implemented.
In this article I will describe the Subversion setup on Windows and Linux systems, the elementary steps of document management and various LATEX packages working hand in hand with Subversion.},
volume = {3},
year = {2007},
date-added = {2010-04-11 21:27:03 +0200},
date-modified = {2010-07-29 19:52:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ziegenhagen-2007-The%20PracTEX%20Journal_LATEX%20Document%20Manag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10908},
rating = {0}
}
@article{Janes:2008p5209,
author = {Holly Janes and Margaret S Pepe},
journal = {Am J Epidemiol},
title = {Adjusting for covariates in studies of diagnostic, screening, or prognostic markers: an old concept in a new setting},
abstract = {The concept of covariate adjustment is well established in therapeutic and etiologic studies. However, it has received little attention in the growing area of medical research devoted to the development of markers for disease diagnosis, screening, or prognosis, where classification accuracy, rather than association, is of primary interest. In this paper, the authors demonstrate the need for covariate adjustment in studies of classification accuracy, discuss methods for adjusting for covariates, and distinguish covariate adjustment from several other related, but fundamentally different, uses for covariates. They draw analogies and contrasts throughout with studies of association.},
affiliation = {Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA 98109, USA. hjanes@scharp.org},
number = {1},
pages = {89--97},
volume = {168},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Tumor Markers: Biological, Randomized Controlled Trials as Topic, Prostatic Neoplasms, Humans, Sensitivity and Specificity, Prostate-Specific Antigen, Epidemiologic Methods, ROC Curve, Middle Aged, Aged, Male},
date-added = {2010-02-08 19:26:23 +0100},
date-modified = {2010-02-08 19:26:23 +0100},
doi = {10.1093/aje/kwn099},
pii = {kwn099},
pmid = {18477651},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Janes-2008-Am%20J%20Epidemiol_Adjusting%20for%20covari.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5209},
rating = {0}
}
@article{Yuan:2009p12319,
author = {X Yuan},
journal = {20th International Symposium of Mathematical Program- ming},
title = {Alternating direction methods for sparse covariance selection},
abstract = {The mathematical model of the widely-used sparse covariance selection problem (SCSP) is an NP-hard combinatorial problem, whereas it can be well approximately by a convex relaxation problem whose maximum likelihood estimation is penalized by the L1 norm. This convex relaxation problem, however, is still numerically challenging, especially for large-scale cases. Recently, some efficient first-order methods inspired by Nesterov's work have been proposed to solve the convex relaxation problem of SCSP. This paper is to apply the well-known alternating direction method (ADM), which is also a first-order method, to solve the convex relaxation of SCSP. Due to the full exploitation to the separable structure of a simple reformulation of the convex relaxation problem, the ADM approach is very efficient for solving large-scale SCSP. Our preliminary numerical results show that the ADM approach substantially outperforms existing first-order methods for SCSP.},
year = {2009},
date-added = {2010-06-12 09:37:43 +0200},
date-modified = {2010-06-12 09:38:27 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yuan-2009-20th%20International%20Symposium%20of%20Mathematical%20Program-%20ming_Alternating%20directio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12319},
rating = {0}
}
@article{Stephenson:2006p5654,
author = {Michael T Stephenson and R Lance Holbert and Rick S Zimmerman},
journal = {Health Commun},
title = {On the use of structural equation modeling in health communication research},
abstract = {Structural equation modeling (SEM) is a multivariate technique suited for testing proposed relations between variables. In this article, the authors discuss the potential for SEM as a tool to advance health communication research both statistically and conceptually. Specifically, the authors discuss the advantages that latent variable modeling in SEM affords researchers by extracting measurement error. In addition, they argue that SEM is useful in understanding communication as a complex set of relations between variables. Moreover, the authors articulate the possibility for examining communication as an agent, mediator, and an outcome. Finally, they review the application of SEM to recursive models, interactions, and confirmatory factor analysis.},
affiliation = {Department of Communication, Texas A{\&}M University, College Station, 77843-4234, USA. mstephenson@tamu.edu},
number = {2},
pages = {159--67},
volume = {20},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Research Design, Humans, Factor Analysis: Statistical, Models: Statistical, Health Education, Communication},
date-added = {2010-02-12 20:20:16 +0100},
date-modified = {2010-02-12 20:20:17 +0100},
doi = {10.1207/s15327027hc2002_7},
pmid = {16965253},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stephenson-2006-Health%20Commun_On%20the%20use%20of%20struct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5654},
rating = {0}
}
@article{Biau:2008p13231,
author = {G Biau and L Devroye and G Lugosi},
journal = {Journal of Machine Learning},
title = {Consistency of Random Forests and Other Averaging Classifiers},
abstract = {In the last years of his life, Leo Breiman promoted random forests for use in classification. He suggested using averaging as a means of obtaining good discrimination rules. The base classifiers used for averaging are simple and randomized, often based on random samples from the data. He left a few questions unanswered regarding the consistency of such rules. In this paper, we give a number of theorems that establish the universal consistency of averaging rules. We also show that some popular classifiers, including one suggested by Breiman, are not universally consistent.},
pages = {2015--2033},
volume = {9},
year = {2008},
date-added = {2010-07-01 17:26:53 +0200},
date-modified = {2010-07-29 19:34:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Biau-2008-Journal%20of%20Machine%20Learning_Consistency%20of%20Rando.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13231},
rating = {0}
}
@article{Randi:2010p6031,
author = {Judi Randi and Tina Newman and Elena L Grigorenko},
journal = {J Autism Dev Disord},
title = {Teaching Children with Autism to Read for Meaning: Challenges and Possibilities},
abstract = {The purpose of this literature review is to examine what makes reading for understanding especially challenging for children on the autism spectrum, most of whom are skilled at decoding and less skilled at comprehension. This paper first summarizes the research on reading comprehension with a focus on the cognitive skills and processes that are involved in gaining meaning from text and then reviews studies of reading comprehension deficits in children on the spectrum. The paper concludes with a review of reading comprehension interventions for children on the spectrum. These children can especially benefit from interventions addressing particular cognitive processes, such as locating antecedent events, generating and answering questions, locating referents, and rereading to repair understanding.},
affiliation = {University of New Haven, West Haven, CT, USA.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-19 17:00:11 +0100},
date-modified = {2010-02-19 17:00:11 +0100},
doi = {10.1007/s10803-010-0938-6},
pmid = {20101452},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6031},
rating = {0}
}
@article{Michaelides:2008p3062,
author = {M P Michaelides},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {An Illustration of a Mantel-Haenszel Procedure to Flag Misbehaving Common Items in Test Equating},
abstract = {In this study the Mantel-Haenszel procedure, widely used in studies for identifying differential item functioning, is proposed as an alternative to the delta-plot method and applied in a test-equating context for flagging common items that behave differentially across cohorts of examinees. The Mantel-Haenszel procedure has the advantage of conditioning on ability when making comparisons of performance of two examinee groups on an item. There are schemes for interpreting the effect size of differential performance, which can inform the decision as to whether to retain those items in the common-item pool, or to discard them. Data from a statewide assessment are analyzed to illustrate the use of this procedure. Advantages of this methodology are discussed and limitations regarding test design that may make its application difficult are described.},
number = {7},
volume = {13},
year = {2008},
date-added = {2010-01-14 11:28:22 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Michaelides-2008-Practical%20Assessment%20Research%20%20&%20Evaluation_An%20Illustration%20of%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3062},
rating = {0}
}
@article{Odent:2010p7675,
author = {Michel Odent},
journal = {Med Hypotheses},
title = {Attention deficit hyperactivity disorder (ADHD) and obesity: two facets of the same disease?},
abstract = {We hypothesize that when two pathological conditions or personality traits share the same critical period for gene-environment interaction, we should expect further similarities, particularly from clinical and pathophysiological perspectives. They should therefore be considered as two facets of the same disease. To test this hypothesis we compiled data included in the Primal Health Research Database. This database (www.primalhealthresearch.com) is specialised in studies exploring correlations between what happens during the 'primal period' (fetal life, perinatal period and year following birth) and what happens later on in life in terms of health and personality traits. After mentioning the links between autism and anorexia nervosa, we explore more in depth the links between attention deficit hyperactivity disorder (ADHD) and obesity. We suggest from such examples that the nature of an environmental factor is often less important than the timing of the interaction. We conclude that the concept of gene expression, combined with Primal Health Research, might lead to reconsider conventional nosological classifications. Some previously well-defined pathological entities should be included into the framework of multifaceted diseases. On the other hand some existing pathological entities should be dismantled.},
affiliation = {Primal Health Research Centre, 72 Savernake Road, London NW3 2JR, UK. modent@aol.com},
number = {1},
pages = {139--41},
volume = {74},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-15 23:48:13 +0100},
date-modified = {2010-03-15 23:48:13 +0100},
doi = {10.1016/j.mehy.2009.07.020},
pii = {S0306-9877(09)00510-6},
pmid = {19665851},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7675},
rating = {0}
}
@article{Dowell:2010p11483,
author = {Robin D Dowell and Owen Ryan and An Jansen and Doris Cheung and Sudeep Agarwala and Timothy Danford and Douglas A Bernstein and P Alexander Rolfe and Lawrence E Heisler and Brian Chin and Corey Nislow and Guri Giaever and Patrick C Phillips and Gerald R Fink and David K Gifford and Charles Boone},
journal = {Science},
title = {Genotype to phenotype: a complex problem},
abstract = {We generated a high-resolution whole-genome sequence and individually deleted 5100 genes in Sigma1278b, a Saccharomyces cerevisiae strain closely related to reference strain S288c. Similar to the variation between human individuals, Sigma1278b and S288c average 3.2 single-nucleotide polymorphisms per kilobase. A genome-wide comparison of deletion mutant phenotypes identified a subset of genes that were conditionally essential by strain, including 44 essential genes unique to Sigma1278b and 13 unique to S288c. Genetic analysis indicates the conditional phenotype was most often governed by complex genetic interactions, depending on multiple background-specific modifiers. Our comprehensive analysis suggests that the presence of a complex set of modifiers will often underlie the phenotypic differences between individuals.},
affiliation = {Computer Science and Artificial Intelligence Laboratory, Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology (MIT), Cambridge, MA 02139, USA.},
number = {5977},
pages = {469},
volume = {328},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-05-01 17:27:19 +0200},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1189015},
pii = {328/5977/469},
pmid = {20413493},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dowell-2010-Science_Genotype%20to%20phenotyp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11483},
rating = {0}
}
@article{Haley:2006p7365,
author = {Stephen M Haley and Pengsheng Ni and Ronald K Hambleton and Mary D Slavin and Alan M Jette},
journal = {Journal of Clinical Epidemiology},
title = {Computer adaptive testing improved accuracy and precision of scores over random item selection in a physical functioning item bank},
abstract = {BACKGROUND AND OBJECTIVE: Measuring physical functioning (PF) within and across postacute settings is critical for monitoring outcomes of rehabilitation; however, most current instruments lack sufficient breadth and feasibility for widespread use. Computer adaptive testing (CAT), in which item selection is tailored to the individual patient, holds promise for reducing response burden, yet maintaining measurement precision. We calibrated a PF item bank via item response theory (IRT), administered items with a post hoc CAT design, and determined whether CAT would improve accuracy and precision of score estimates over random item selection. METHODS: 1,041 adults were interviewed during postacute care rehabilitation episodes in either hospital or community settings. Responses for 124 PF items were calibrated using IRT methods to create a PF item bank. We examined the accuracy and precision of CAT-based scores compared to a random selection of items. RESULTS: CAT-based scores had higher correlations with the IRT-criterion scores, especially with short tests, and resulted in narrower confidence intervals than scores based on a random selection of items; gains, as expected, were especially large for low and high performing adults. CONCLUSION: The CAT design may have important precision and efficiency advantages for point-of-care functional assessment in rehabilitation practice settings.},
affiliation = {Department of Rehabilitation Sciences, Sargent College of Health and Rehabilitation Sciences, Boston University, 635 Commanwealth Ave, Boston, MA 02215, USA. smhaley@bu.edu},
number = {11},
pages = {1174--82},
volume = {59},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Aged: 80 and over, Confidence Intervals, Reproducibility of Results, Activities of Daily Living, Software, Female, Adult, Humans, Recovery of Function, Adolescent, Male, Rehabilitation, Factor Analysis: Statistical, Aged, Middle Aged, Outcome Assessment (Health Care)},
date-added = {2010-03-10 20:30:58 +0100},
date-modified = {2010-03-10 20:30:58 +0100},
doi = {10.1016/j.jclinepi.2006.02.010},
pii = {S0895-4356(06)00112-0},
pmid = {17027428},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haley-2006-Journal%20of%20Clinical%20Epidemiology_Computer%20adaptive%20te.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7365},
rating = {0}
}
@article{Yao:2008p13193,
author = {Jianchao Yao and Chunqi Chang and Mari L Salmi and Yeung Sam Hung and Ann Loraine and Stanley J Roux},
journal = {BMC Bioinformatics},
title = {Genome-scale cluster analysis of replicated microarrays using shrinkage correlation coefficient},
abstract = {BACKGROUND: Currently, clustering with some form of correlation coefficient as the gene similarity metric has become a popular method for profiling genomic data. The Pearson correlation coefficient and the standard deviation (SD)-weighted correlation coefficient are the two most widely-used correlations as the similarity metrics in clustering microarray data. However, these two correlations are not optimal for analyzing replicated microarray data generated by most laboratories. An effective correlation coefficient is needed to provide statistically sufficient analysis of replicated microarray data. RESULTS: In this study, we describe a novel correlation coefficient, shrinkage correlation coefficient (SCC), that fully exploits the similarity between the replicated microarray experimental samples. The methodology considers both the number of replicates and the variance within each experimental group in clustering expression data, and provides a robust statistical estimation of the error of replicated microarray data. The value of SCC is revealed by its comparison with two other correlation coefficients that are currently the most widely-used (Pearson correlation coefficient and SD-weighted correlation coefficient) using statistical measures on both synthetic expression data as well as real gene expression data from Saccharomyces cerevisiae. Two leading clustering methods, hierarchical and k-means clustering were applied for the comparison. The comparison indicated that using SCC achieves better clustering performance. Applying SCC-based hierarchical clustering to the replicated microarray data obtained from germinating spores of the fern Ceratopteris richardii, we discovered two clusters of genes with shared expression patterns during spore germination. Functional analysis suggested that some of the genetic mechanisms that control germination in such diverse plant lineages as mosses and angiosperms are also conserved among ferns. CONCLUSION: This study shows that SCC is an alternative to the Pearson correlation coefficient and the SD-weighted correlation coefficient, and is particularly useful for clustering replicated microarray data. This computational approach should be generally useful for proteomic data or other high-throughput analysis methodology.},
affiliation = {Institute for Cellular and Molecular Biology and Department of Mathematics, University of Texas at Austin, Austin, Texas 78712, USA. jcyao@mail.utexas.edu},
pages = {288},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genomics, Germination, Confidence Intervals, Probability, Computer Simulation, Pteridaceae, Oligonucleotide Array Sequence Analysis, Research Design, Saccharomyces cerevisiae, Cluster Analysis, Gene Expression, Computational Biology, Gene Expression Profiling, Artificial Intelligence},
date-added = {2010-07-01 15:27:54 +0200},
date-modified = {2010-07-01 15:27:54 +0200},
doi = {10.1186/1471-2105-9-288},
pii = {1471-2105-9-288},
pmid = {18564431},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yao-2008-BMC%20Bioinformatics_Genome-scale%20cluster.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13193},
rating = {0}
}
@article{Balbi:2006p12033,
author = {S Balbi and M Misuraca},
journal = {8emes Journ{\'e}es internationales d'Analyse statistique des Donn{\'e}es Textuelles},
title = {Rotated Canonical Correlation Analysis for Multilingual Corpora},
abstract = {This paper aims at proposing the joint use of Canonical Correlation Analysis and Procrustes Rotations (RCA), when we deal with a text and its translation into another language. The basic idea is representing words in the two different natural languages on a common reference space. The main characteristic of this space is to be lan- guage independent, although Procrustes Rotation is performed transforming the lexical table derived from trans- lation by minimizing its distance from the lexical table belonging to the original corpus, while the subsequent Canonical Correlation Analysis treats symmetrically the two word sets. The most interesting RCA feature is building a unique reference space for representing the correlation structure in the data, inducing the two systems of canonical factors to lie on the same space. These graphical representations enables us to read distances be- tween corresponding points in terms of different way of translating the same word in relation with the general context defined by the canonical variates. Trying to understand the distances between matched points could rep- resent an useful tool for enriching lexical resources in a translation procedure. In this paper we propose the com- parison of the most frequent content bearing words in the two languages, analyzing one year (2003) of Le Monde Diplomatique and its Italian edition.},
year = {2006},
date-added = {2010-05-24 10:28:39 +0200},
date-modified = {2010-05-24 10:29:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Balbi-2006-8emes%20Journe%CC%81es%20internationales%20d%E2%80%99Analyse%20statistique%20des%20Donne%CC%81es%20Textuelles_Rotated%20Canonical%20Co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12033},
rating = {0}
}
@article{Mathers:2004p13489,
author = {William D Mathers and Dongseok Choi},
journal = {Arch Ophthalmol},
title = {Cluster analysis of patients with ocular surface disease, blepharitis, and dry eye},
abstract = {OBJECTIVE: To develop a classification system for blepharitis and dry eye based on a classification-tree model of a large group of subjects who were given a variety of objective physiologic tests. METHODS: We evaluated 513 subjects, some healthy and some with blepharitis and dry eye,with tests for tear volume, tear flow, and tear turnover and the Schirmer test for dry eye. Meibomian gland function was evaluated by meibomian gland lipid expression for lipid volume and lipid viscosity, evaporation, and eyelid transillumination for meibomian gland drop out. We subjected these data to cluster analysis and formulated a classification tree. MAIN OUTCOME MEASURE: The outcome measure of this study was the statistically valid groups of subjects with and without ocular surface symptoms identified by their physiologic characteristics. RESULTS: Cluster analysis most successfully grouped subjects by initially dividing them into 2 groups based on the presence or absence of gland drop out and then by lipid viscosity and volume, Schirmer test results, and evaporation. The analysis created 9 categories. This division created an objective classification system that was found to have clinical relevance. Normal subjects were distributed across several groups. CONCLUSIONS: Using a classification tree, blepharitis and dry eye can be classified with objective physiologic tests into clinically relevant groups that have common characteristics. The analysis establishes the central role of meibomian gland dysfunction in blepharitis and demonstrates the diverse characteristics of the normal population.},
affiliation = {Department of Ophthalmology, Casey Eye Institute, Oregon Health and Science University, Portland 97201, USA. mathersw@ohsu.edu},
number = {11},
pages = {1700--4},
volume = {122},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Meibomian Glands, Middle Aged, Humans, Fluorophotometry, Eyelid Diseases, Dry Eye Syndromes, Adult, Blepharitis, Osmolar Concentration, Decision Trees, Male, Tears, Female, Cluster Analysis},
date-added = {2010-07-01 22:23:51 +0200},
date-modified = {2010-07-01 22:23:51 +0200},
doi = {10.1001/archopht.122.11.1700},
pii = {122/11/1700},
pmid = {15534133},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mathers-2004-Arch%20Ophthalmol_Cluster%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13489},
rating = {0}
}
@article{Thompson:2008p3528,
author = {G L Thompson},
journal = {Tutorial in Quantitative Methods for Psychology},
title = {Eliminating Aggregation Bias in Experimental Research: Random Coefficient Analysis as an Alternative to Performing a `by‐subjects' and/or `by‐items' ANOVA},
abstract = {Experimental psychologists routinely simplify the structure of their data by computing means for each experimental condition so that the basic assumptions of regression/ANOVA are satisfied. Typically, these means represent the performance (e.g. reaction time or RT) of a participant over several items that share some target characteristic (e.g. Mean RT for high‐frequency words). Regrettably, analyses based on such aggregated data are biased toward rejection of the null hypothesis, inflating Type‐I error beyond the nominal level. A preferable strategy for analyzing such data is random coefficient analysis (RCA), which can be performed using a simple method proposed by Lorch {\&} Myers (1990). An easy to use SPSS implementation of this method is presented using a concrete example. In addition, a technique for evaluating the magnitude of potential aggregation bias in a dataset is demonstrated. Finally, suggestions are offered concerning the reporting of RCA results in empirical articles.},
number = {1},
pages = {21--34},
volume = {4},
year = {2008},
date-added = {2010-01-15 15:53:05 +0100},
date-modified = {2010-07-29 19:54:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thompson-2008-Tutorial%20in%20Quantitative%20Methods%20for%20Psychology_Eliminating%20Aggregat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3528},
rating = {0}
}
@article{Rinaldo:2010p12315,
author = {A Rinaldo},
title = {Properties and Refinements of The Fused Lasso},
abstract = {We consider estimating an unknown signal, which is both blocky and sparse, corrupted by additive noise. We study three interrelated least squares procedures and their asymptotic properties. The first procedure is the fused lasso, put forward by Friedman et al. (2007), which we modify into a different estimator, called the fused adaptive lasso, with better properties. The other two estimators we discuss solve least squares problems on sieves, one constraining the maximal l1 norm and the maximal total variation seminorm, the other restricting the number of blocks and the number of of nonzero coordinates of the signal. We derive conditions for the recovery of the true block partition and the true sparsity patterns by the fused lasso and the fused adaptive lasso, and convergence rates for the sieve estimators, explicitly in terms of the constraining parameters.},
date-added = {2010-06-12 09:34:21 +0200},
date-modified = {2010-06-12 09:35:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rinaldo--_Properties%20and%20Refin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12315},
rating = {0}
}
@article{Danoff:2006p4541,
author = {Ann Danoff and Oona Khan and David W Wan and Lainie Hurst and Daniel Cohen and Craig T Tenner and Edmund J Bini},
journal = {Am J Gastroenterol},
title = {Sexual dysfunction is highly prevalent among men with chronic hepatitis C virus infection and negatively impacts health-related quality of life},
abstract = {OBJECTIVES: Although sexual dysfunction has been reported in patients with hepatitis C virus (HCV) infection, little is known about this association. The aims of this study were to determine the prevalence of sexual dysfunction among men with chronic HCV infection and to evaluate the impact of sexual dysfunction on health-related quality of life (HRQOL). METHODS: We prospectively enrolled 112 HCV positive men and 239 HCV negative controls, and all patients completed validated questionnaires to assess sexual function (Brief Male Sexual Function Inventory [BMSFI]), depression (Beck Depression Inventory), and HRQOL (Medical Outcomes Study Short Form-36). The BMSFI assessed sexual drive, erection, ejaculation, sexual problem assessment, and overall sexual satisfaction. RESULTS: HCV positive men had significantly more sexual dysfunction than control subjects across all five domains of the BMFSI. In addition, HCV-infected men were significantly more likely than controls to not be sexually satisfied (53.6% vs 28.9%, p<0.001) and this remained statistically significant after adjusting for age, race, and other potential confounding variables (OR=3.36; 95% CI, 1.59-7.13). In the 241 individuals without depression, HCV positive men were significantly more likely to not be sexually satisfied as compared with control subjects (47.5% vs 11.0%, p<0.001). HCV-infected men who were not sexually satisfied scored significantly worse in six of eight domains of HRQOL as compared with HCV-infected men who were sexually satisfied. CONCLUSIONS: Sexual dysfunction is highly prevalent in men with chronic HCV infection, is independent of depression, and is associated with a marked reduction in HRQOL.},
affiliation = {Division of Endocrinology, VA New York Harbor Healthcare System, and NYU School of Medicine, New York, New York 10010, USA.},
number = {6},
pages = {1235--43},
volume = {101},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Hepatitis C: Chronic, Male, Logistic Models, Prospective Studies, Sexual Dysfunction: Physiological, Questionnaires, Aged, Humans, Prevalence, Chi-Square Distribution, Depression, Sexual Dysfunctions: Psychological, Middle Aged, Quality of Life, Statistics: Nonparametric},
date-added = {2010-01-29 22:29:45 +0100},
date-modified = {2010-01-29 22:29:45 +0100},
doi = {10.1111/j.1572-0241.2006.00544.x},
pii = {AJG544},
pmid = {16771944},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4541},
rating = {0}
}
@article{Lenroot:2009p5757,
author = {Rhoshel K Lenroot and James E Schmitt and Sarah J Ordaz and Gregory L Wallace and Michael C Neale and Jason P Lerch and Kenneth S Kendler and Alan C Evans and Jay N Giedd},
journal = {Hum Brain Mapp},
title = {Differences in genetic and environmental influences on the human cerebral cortex associated with development during childhood and adolescence},
abstract = {In this report, we present the first regional quantitative analysis of age-related differences in the heritability of cortical thickness using anatomic MRI with a large pediatric sample of twins, twin siblings, and singletons (n = 600, mean age 11.1 years, range 5-19). Regions of primary sensory and motor cortex, which develop earlier, both phylogenetically and ontologically, show relatively greater genetic effects earlier in childhood. Later developing regions within the dorsal prefrontal cortex and temporal lobes conversely show increasingly prominent genetic effects with maturation. The observation that regions associated with complex cognitive processes such as language, tool use, and executive function are more heritable in adolescents than children is consistent with previous studies showing that IQ becomes increasingly heritable with maturity(Plomin et al. 1997: Psychol Sci 8:442-447). These results suggest that both the specific cortical region and the age of the population should be taken into account when using cortical thickness as an intermediate phenotype to link genes, environment, and behavior.},
affiliation = {Child Psychiatry Branch, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892-9692, USA. lenrootr@mail.nih.gov},
number = {1},
pages = {163--74},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Cognition, Gene Expression Regulation: Developmental, Age Factors, Aging, Temporal Lobe, Female, Somatosensory Cortex, Intelligence, Humans, Magnetic Resonance Imaging, Child: Preschool, Prefrontal Cortex, Male, Young Adult, Child, Inheritance Patterns, Adolescent, Motor Cortex, Environment, Cerebral Cortex, Phenotype},
date-added = {2010-02-15 20:29:49 +0100},
date-modified = {2010-02-15 20:29:49 +0100},
doi = {10.1002/hbm.20494},
pmid = {18041741},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5757},
rating = {0}
}
@article{Bechger:2001p14009,
author = {Timo M Bechger and Wies Akkermans},
journal = {Psychometrika},
title = {A note on the equivalence of the graded response model and the sequential model},
number = {3},
pages = {461--464},
volume = {66},
year = {2001},
date-added = {2010-08-04 09:34:29 +0200},
date-modified = {2010-08-04 09:35:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2001-Psychometrika_A%20note%20on%20the%20equiva.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14009},
rating = {0}
}
@article{Rueda:2008p2976,
author = {O M Rueda and R Diaz-Uriarte},
journal = {COBRA Preprint Series},
title = {Finding Recurrent Regions of Copy Number Variation: A Review},
abstract = {Copy number variation (CNV) in genomic DNA is linked to a variety of human diseases, and array-based CGH (aCGH) is currently the main technology to lo- cate CNVs. Although many methods have been developed to analyze aCGH from a single array/subject, disease-critical genes are more likely to be found in regions that are common or recurrent among subjects. Unfortunately, finding recurrent CNV regions remains a challenge. We review existing methods for the identifi- cation of recurrent CNV regions. The working definition of ``common'' or ``recurrent'' region differs between methods, leading to approaches that use different types of input (discretized output from a previous CGH segmentation analysis or intensity ratios), or that incorporate to varied degrees biological considerations (which play a role in the identification of ``interesting'' regions and in the details of null models used to assess statistical significance). Very few approaches use and/or return probabilities, and code is not easily available for several methods. We suggest that finding recurrent CNVs could benefit from reframing the problem in a biclustering context. We also emphasize that, when analyzing data from complex diseases with significant among-subject heterogeneity, methods should be able to identify CNVs that affect only a subset of subjects. We make some recommendations about choice among existing methods, and we suggest further methodological research.},
number = {42},
year = {2008},
date-added = {2010-01-13 23:07:39 +0100},
date-modified = {2010-01-13 23:08:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rueda-2008-COBRA%20Preprint%20Series_Finding%20Recurrent%20Re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2976},
rating = {0}
}
@article{Stojanovski:2010p5657,
author = {E Stojanovski and K Mengersen},
title = {Bayesian Structural Equation Models: A Health Application},
date-added = {2010-02-12 20:21:28 +0100},
date-modified = {2010-06-24 12:35:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stojanovski--_Bayesian%20Structural.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5657},
read = {Yes},
rating = {0}
}
@article{Williams:1994p6828,
author = {L J Williams and P J Holahan},
journal = {Structural Equation Modeling},
title = {Parsimony-based fit indices for multiple-indicator models: Do they work?},
number = {2},
pages = {161--189},
volume = {1},
year = {1994},
date-added = {2010-03-05 22:33:16 +0100},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-1994-Structural%20Equation%20Modeling_Parsimony-based%20fit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6828},
rating = {0}
}
@article{Reverter:1997p7855,
author = {A Reverter and C J Kaiser},
journal = {J Anim Sci},
title = {The role of different pedigree structures on the sampling variance of heritability estimates},
abstract = {A computer-intensive process was performed to simulate 12,600 data sets each with n = 5,000 individuals from distinct pedigree structures to assess the effect of pedigree information on the sampling variance of heritability (h2) estimates. Pedigree structures were determined by varying the proportion of foundation animals (PF), percentage replacement rates for males (RM) and females (RF), and ratio of females to male (F2M). A 2(3) factorial design was modeled; levels of RM and RF were 10 and 20%, and levels of F2M were 10 and 20. For each of the eight cells, 60 foundation animals were simulated, each with 10 replicates. The required mating seasons (MS) to obtain the number of individuals was simulated based on PF and F2M. A REML algorithm was used to estimate h2 and its associated SE. The effect of all factors was analyzed in a regression model with linear and quadratic components for PF. An alternative model with MS replacing PF was also investigated. There was a non-monotonic association (P < .01) between PF and h2 SE. The minimum h2 SE occurred when PF ranged from 20 to 40%. Here, the proportion of first-generation progeny was near its maximum with rapid increases in the proportion of subsequent descendants. Among the class effects, F2M yielded the highest mean square (P < .001). When considering more than one MS, h2 SE was positively associated (P < .01) with RF and F2M and negatively associated with RM. Results suggest that h2 is most accurately estimated when there is performance information on many animals closely related to foundation animals.},
affiliation = {Animal Genetics and Breeding Unit, University of New England, Armidale, NSW, Australia.},
number = {9},
pages = {2355--61},
volume = {75},
year = {1997},
month = {Sep},
language = {eng},
keywords = {Male, Seasons, Models: Genetic, Models: Statistical, Computer Simulation, Pedigree, Animals, Female, Genetic Variation, Algorithms, Breeding},
date-added = {2010-03-17 21:02:20 +0100},
date-modified = {2010-07-29 19:31:49 +0200},
pmid = {9303453},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reverter-1997-J%20Anim%20Sci_The%20role%20of%20differen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7855},
rating = {0}
}
@article{Taguchi:2005p885,
author = {Y-H Taguchi and Y Oono},
journal = {Bioinformatics},
title = {Relational patterns of gene expression via non-metric multidimensional scaling analysis},
abstract = {MOTIVATION: Microarray experiments result in large-scale data sets that require extensive mining and refining to extract useful information. We demonstrate the usefulness of (non-metric) multidimensional scaling (MDS) method in analyzing a large number of genes. Applying MDS to the microarray data is certainly not new, but the existing works are all on small numbers (< 100) of points to be analyzed. We have been developing an efficient novel algorithm for non-metric MDS (nMDS) analysis for very large data sets as a maximally unsupervised data mining device. We wish to demonstrate its usefulness in the context of bioinformatics (unraveling relational patterns among genes from time series data in this paper). RESULTS: The Pearson correlation coefficient with its sign flipped is used to measure the dissimilarity of the gene activities in transcriptional response of cell-cycle-synchronized human fibroblasts to serum. These dissimilarity data have been analyzed with our nMDS algorithm to produce an almost circular relational pattern of the genes. The obtained pattern expresses a temporal order in the data in this example; the temporal expression pattern of the genes rotates along this circular arrangement and is related to the cell cycle. For the data we analyze in this paper we observe the following. If an appropriate preparation procedure is applied to the original data set, linear methods such as the principal component analysis (PCA) could achieve reasonable results, but without data preprocessing linear methods such as PCA cannot achieve a useful picture. Furthermore, even with an appropriate data preprocessing, the outcomes of linear procedures are not as clear-cut as those by nMDS without preprocessing.},
affiliation = {Department of Physics, Faculty of Science and Technology, Chuo University, 1-13-27 Kasuga, Tokyo 112-8551, Japan. tag@granular.com},
number = {6},
pages = {730--40},
volume = {21},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Numerical Analysis: Computer-Assisted, Humans, Models: Biological, Cells: Cultured, Fibroblasts, Gene Expression Profiling, Oligonucleotide Array Sequence Analysis, Transcription Factors, Models: Genetic, Signal Transduction, Models: Statistical, Gene Expression Regulation, Pattern Recognition: Automated, Algorithms},
date-added = {2010-01-03 18:25:24 +0100},
date-modified = {2010-01-03 18:25:24 +0100},
doi = {10.1093/bioinformatics/bti067},
pii = {bti067},
pmid = {15509613},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Taguchi-2005-Bioinformatics_Relational%20patterns.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p885},
rating = {0}
}
@article{Maxwell:2008p10044,
author = {Scott E Maxwell and Ken Kelley and Joseph R Rausch},
journal = {Annual Review of Psychology},
title = {Sample size planning for statistical power and accuracy in parameter estimation},
abstract = {This review examines recent advances in sample size planning, not only from the perspective of an individual researcher, but also with regard to the goal of developing cumulative knowledge. Psychologists have traditionally thought of sample size planning in terms of power analysis. Although we review recent advances in power analysis, our main focus is the desirability of achieving accurate parameter estimates, either instead of or in addition to obtaining sufficient power. Accuracy in parameter estimation (AIPE) has taken on increasing importance in light of recent emphasis on effect size estimation and formation of confidence intervals. The review provides an overview of the logic behind sample size planning for AIPE and summarizes recent advances in implementing this approach in designs commonly used in psychological research.},
affiliation = {Department of Psychology, University of Notre Dame, Notre Dame, Indiana 46556, USA. smaxwell@nd.edu},
pages = {537--63},
volume = {59},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Confidence Intervals, Sampling Studies, Linear Models, Psychology, Humans, Models: Psychological},
date-added = {2010-03-31 20:15:36 +0200},
date-modified = {2010-03-31 20:15:37 +0200},
doi = {10.1146/annurev.psych.59.103006.093735},
pmid = {17937603},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maxwell-2008-Annual%20Review%20of%20Psychology_Sample%20size%20planning.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10044},
rating = {0}
}
@webpage{Thompson:1998a,
author = {B Thompson},
title = {Five methodology errors in educational research: The pantheon of statistical significance and other faux pas},
year = {1998},
month = {Apr},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
url = {http://www.coe.tamu.edu/~bthompson/aeraaddr.htm},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1869},
rating = {0}
}
@article{Ashton:2009p13931,
author = {Michael C Ashton and Kibeom Lee and Lewis R Goldberg and Reinout E de Vries},
journal = {Pers Soc Psychol Rev},
title = {Higher order factors of personality: do they exist?},
abstract = {Scales that measure the Big Five personality factors are often substantially intercorrelated. These correlations are sometimes interpreted as implying the existence of two higher order factors of personality. The authors show that correlations between measures of broad personality factors do not necessarily imply the existence of higher order factors and might instead be due to variables that represent same-signed blends of orthogonal factors. Therefore, the hypotheses of higher order factors and blended variables can only be tested with data on lower level personality variables that define the personality factors. The authors compared the higher order factor model and the blended variable model in three participant samples using the Big Five Aspect Scales, and found better fit for the latter model. In other analyses using the HEXACO Personality Inventory, they identified mutually uncorrelated markers of six personality factors. The authors conclude that correlations between personality factor scales can be explained without postulating any higher order dimensions of personality.},
affiliation = {Department of Psychology, Brock University, St. Catharines, Ontario, Canada. mashton@ brocku.ca},
number = {2},
pages = {79--91},
volume = {13},
year = {2009},
month = {May},
language = {eng},
keywords = {Humans, Factor Analysis: Statistical, Personality Inventory, Personality, Psychometrics, Personality Assessment, Questionnaires, Models: Statistical, Statistics as Topic, Models: Psychological},
date-added = {2010-07-29 18:58:45 +0200},
date-modified = {2010-07-29 18:58:48 +0200},
doi = {10.1177/1088868309338467},
pii = {1088868309338467},
pmid = {19458345},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ashton-2009-Pers%20Soc%20Psychol%20Rev_Higher%20order%20factors.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13931},
rating = {4}
}
@article{Skinner:1950,
author = {BF Skinner},
journal = {Psychological Review},
title = {Are theories of learning necessary?},
pages = {193--216},
volume = {57},
year = {1950},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p948},
rating = {0}
}
@article{Liang:2010p13624,
author = {T Liang},
title = {An Assessment of The Nonparametric Approach for Evaluating The Fit of Item Response Models},
year = {2010},
date-added = {2010-07-07 21:23:13 +0200},
date-modified = {2010-07-07 21:23:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liang-2010-_An%20Assessment%20of%20The.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13624},
rating = {0}
}
@article{Mechelli:2009p3437,
author = {Andrea Mechelli and Stefania Tognin and Philip K McGuire and Diana Prata and Giuseppe Sartori and Paolo Fusar-Poli and Stephane De Brito and Ahmad R Hariri and Essi Viding},
journal = {Biol Psychiatry},
title = {Genetic vulnerability to affective psychopathology in childhood: a combined voxel-based morphometry and functional magnetic resonance imaging study},
abstract = {BACKGROUND: The majority of affective psychopathology is rooted early in life and first emerges during childhood and adolescence. However, little is known about how genetic vulnerability affects brain structure and function in childhood since the vast majority of studies published so far have been conducted on adult participants. The present investigation examined for the first time the effects of catechol-O-methyltransferase (COMT) valine (val) 158 methionine (met) (val158met) polymorphism, which has been shown to moderate predisposition to negative mood and affective disorders, on brain structure and function in children. METHODS: Voxel-based morphometry and functional magnetic resonance imaging were used to measure gray matter volume and emotional reactivity in 50 children aged between 10 and 12 years. We tested the hypothesis that met158 allele affects structural brain development and confers heightened reactivity within the affective frontolimbic circuit in children. RESULTS: The met158 allele was positively associated with gray matter volume in the left hippocampal head where genotype accounted for 59% of interindividual variance. In addition, the met158 allele was positively associated with neuronal responses to fearful relative to neutral facial expressions in the right parahippocampal gyrus where genotype accounted for 14% of the interindividual variance. CONCLUSIONS: These results indicate that the met158 allele is associated with increased gray matter volume and heightened reactivity during emotional processing within the limbic system in children as young as 10 to 12 years of age. These findings are consistent with the notion that genetic factors affect brain function to moderate vulnerability to affective psychopathology from childhood.},
affiliation = {Department of Psychology, Institute of Psychiatry, PO Box 67, Division of Psychological Medicine and Psychiatry, King's College London, 103 Denmark Hill, London SE5 8AF, United Kingdom. a.mechelli@iop.kcl.ac.uk},
number = {3},
pages = {231--7},
volume = {66},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Methionine, Brain, Polymorphism: Genetic, Reaction Time, Valine, Magnetic Resonance Imaging, Catechol O-Methyltransferase, Twin Studies as Topic, Male, Neuropsychological Tests, Photic Stimulation, Longitudinal Studies, Child, Image Processing: Computer-Assisted, Brain Mapping, Affective Disorders: Psychotic, Genotype, Oxygen, Humans},
date-added = {2010-01-15 15:18:42 +0100},
date-modified = {2010-01-15 15:18:42 +0100},
doi = {10.1016/j.biopsych.2009.01.033},
pii = {S0006-3223(09)00156-5},
pmid = {19278671},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3437},
rating = {0}
}
@techreport{Festy:2008,
author = {P Festy and L Prokofieva},
journal = {Techreport},
title = {MESURES, FORMES ET FACTEURS DE LA PAUVRET{\'E}. APPROCHES COMPARATIVES},
affiliation = {INED},
year = {2008},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Festy-2008-Techreport_MESURES%20FORMES%20ET%20F.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2090},
rating = {0}
}
@article{Davis:2007p9021,
author = {Elise Davis and Caroline Nicolas and Elizabeth Waters and Kay Cook and Lisa Gibbs and Angela Gosch and Ulrike Ravens-Sieberer},
journal = {Qual Life Res},
title = {Parent-proxy and child self-reported health-related quality of life: using qualitative methods to explain the discordance},
abstract = {BACKGROUND: Although parent-proxy reports of health-related quality of life (HRQOL) are only moderately correlated with child reported HRQOL, it remains unknown why these scores differ. The aim of this study was to use a qualitative methodology to examine why parents and children report different levels of HRQOL. METHOD: The sample consisted of 15 parent-child pairs. A think-aloud technique was used where parents and children were given a generic HRQOL instrument (KIDSCREEN) and instructed to share their thoughts with the interviewer. Qualitative analyses were conducted to assess whether parents and children base their answer on different experiences or reasoning, have different response styles, or interpret the items differently. RESULTS: There was discordance between parents and children, in terms of rating scale and in terms of the reasoning for their answer. Children tended to have different response styles to parents, where for example, children tended to provide extreme scores (highest or lowest score) and base their response on one single example, more than parents. Parents and children interpreted the meaning of the items very similarly. DISCUSSION: This study provides evidence to suggest that discordance among parent-child pairs on KIDSCREEN scores may be as a result of different reasoning and different response styles, rather than interpretation of items. These findings have important implications when parent-proxy reported HRQOL is used to guide clinical/treatment decisions.},
affiliation = {School of Health and Social Development, Faculty of Health, Medicine, Nursing and Behavioural Sciences, Deakin University, Burwood, Victoria, 3125, Australia. elise.davis@deakin.edu.au},
number = {5},
pages = {863--71},
volume = {16},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Victoria, Proxy, Quality of Life, Psychometrics, Adult, Parents, Reproducibility of Results, Parent-Child Relations, Self Disclosure, Child Psychology, Male, Female, Child Rearing, Adolescent, Humans, Qualitative Research, Pilot Projects, Questionnaires, Interviews as Topic, Child},
date-added = {2010-03-22 13:14:23 +0100},
date-modified = {2010-07-29 19:48:31 +0200},
doi = {10.1007/s11136-007-9187-3},
pmid = {17351822},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Davis-2007-Qual%20Life%20Res_Parent-proxy%20and%20chi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9021},
rating = {0}
}
@article{Rauch:2008p7867,
author = {W A Rauch and K Schweizer and H Moosbrugger},
journal = {European Journal of Psychology of Education},
title = {An IRT Analysis of the Personal Optimism Scale},
abstract = {In this study the psychometric properties of the Personal Optimism scale of the POSO-E questionnaire (Schweizer {\&} Koch, 2001) for the assessment of dispositional optimism are evaluated by applying Samejima's (1969) graded response model, a parametric item response theory (IRT) model for polytomous data. Model fit is extensively evaluated via fit checks on the lower-order margins of the contingency table of observed and expected responses and visual checks of fit plots comparing observed and expected category response functions. The model proves appropriate for the data; a small amount of misfit is interpreted in terms of previous research using other measures for optimism. Item parameters and information functions show that optimism can be measured accurately, especially at moderately low to middle levels of the latent trait scale, and particularly by the negatively worded items.},
number = {1},
pages = {49--56},
volume = {24},
year = {2008},
date-added = {2010-03-20 19:03:55 +0100},
date-modified = {2010-07-29 19:26:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rauch-2008-European%20Journal%20of%20Psychology%20of%20Education_An%20IRT%20Analysis%20of%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7867},
rating = {0}
}
@article{Mackay:2009p11225,
author = {T F C Mackay},
journal = {Journal of Biology},
title = {Genetic analysis of quantitative traits },
number = {23},
volume = {8},
year = {2009},
date-added = {2010-04-25 21:28:31 +0200},
date-modified = {2010-04-25 21:29:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mackay-2009-Journal%20of%20Biology_Genetic%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11225},
rating = {0}
}
@article{Niccols:2002p8599,
author = {A Niccols and A Latchman},
journal = {The British Journal of Developmental Disabilities},
title = {STABILITY OF THE BAYLEY MENTAL SCALE OF INFANT DEVELOPMENT WITH HIGH RISK INFANTS},
number = {94},
pages = {3--13},
volume = {48},
year = {2002},
date-added = {2010-03-22 00:23:00 +0100},
date-modified = {2010-03-22 00:23:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Niccols-2002-The%20British%20Journal%20of%20Developmental%20Disabilities_STABILITY%20OF%20THE%20BAY.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8599},
rating = {0}
}
@article{Kim:2006p3913,
author = {Sung Kim and Keyan Zhao and Rong Jiang and John Molitor and Justin O Borevitz and Magnus Nordborg and Paul Marjoram},
journal = {Genetics},
title = {Association mapping with single-feature polymorphisms},
abstract = {We develop methods for exploiting "single-feature polymorphism" data, generated by hybridizing genomic DNA to oligonucleotide expression arrays. Our methods enable the use of such data, which can be regarded as very high density, but imperfect, polymorphism data, for genomewide association or linkage disequilibrium mapping. We use a simulation-based power study to conclude that our methods should have good power for organisms like Arabidopsis thaliana, in which linkage disequilibrium is extensive, the reason being that the noisiness of single-feature polymorphism data is more than compensated for by their great number. Finally, we show how power depends on the accuracy with which single-feature polymorphisms are called.},
affiliation = {Department of Molecular and Computational Biology, University of Southern California, Los Angeles, CA 90089-2910, USA.},
number = {2},
pages = {1125--33},
volume = {173},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Haplotypes, Data Interpretation: Statistical, Genetic Markers, Cluster Analysis, Algorithms, Linkage Disequilibrium, Arabidopsis, Chromosome Mapping, Models: Genetic, Polymorphism: Genetic, Alleles},
date-added = {2010-01-16 21:05:05 +0100},
date-modified = {2010-01-16 21:05:05 +0100},
doi = {10.1534/genetics.105.052720},
pii = {genetics.105.052720},
pmid = {16510789},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3913},
rating = {0}
}
@article{Vickers:2001,
author = {AJ Vickers and Douglas G Altman},
journal = {British Medical Journal},
title = {Analysing controlled trials with baseline and follow up measurements},
abstract = {In many randomised trials researchers measure a continuous variable at baseline and again as an outcome assessed at follow up. Baseline measurements are common in trials of chronic conditions where researchers want to see whether a treatment can reduce pre-existing levels of pain, anxiety, hypertension, and the like. Statistical comparisons in such trials can be made in several ways. Comparison of follow up (post-treatment) scores will give a result such as "at the end of the trial, mean pain scores were 15 mm (95% confidence interval 10 to 20 mm) lower in the treatment group." Alternatively a change score can be calculated by subtracting the follow up score from the baseline score, leading to a statement such as "pain reductions were 20 mm (16 to 24 mm) greater on treatment than control." If the average baseline scores are the same in each group the estimated treatment effect will be the same using these two simple approaches. If the treatment is effective the statistical significance of the treatment effect by the two methods will depend on the correlation between baseline and follow up scores. If the correlation is low using the change score will add variation and the follow up score is more likely to show a significant result. Conversely, if the correlation is high using only the follow up score will lose information and the change score is more likely to be significant. It is incorrect, however, to choose whichever analysis gives a more significant finding. The method of analysis should be specified in the trial protocol.},
pages = {1123--1124},
volume = {323},
year = {2001},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1048},
rating = {0}
}
@article{Igl:2010p5370,
author = {Wilmar Igl and Asa Johansson and James F Wilson and Sarah H Wild and Ozren Polasek and Caroline Hayward and Veronique Vitart and Nicholas Hastie and Pavao Rudan and Carsten Gnewuch and Gerd Schmitz and Thomas Meitinger and Peter P Pramstaller and Andrew A Hicks and Ben A Oostra and Cornelia M van Duijn and Igor Rudan and Alan Wright and Harry Campbell and Ulf Gyllensten and EUROSPAN Consortium},
journal = {PLoS Genet},
title = {Modeling of environmental effects in genome-wide association studies identifies SLC2A2 and HP as novel loci influencing serum cholesterol levels},
abstract = {Genome-wide association studies (GWAS) have identified 38 larger genetic regions affecting classical blood lipid levels without adjusting for important environmental influences. We modeled diet and physical activity in a GWAS in order to identify novel loci affecting total cholesterol, LDL cholesterol, HDL cholesterol, and triglyceride levels. The Swedish (SE) EUROSPAN cohort (N(SE) = 656) was screened for candidate genes and the non-Swedish (NS) EUROSPAN cohorts (N(NS) = 3,282) were used for replication. In total, 3 SNPs were associated in the Swedish sample and were replicated in the non-Swedish cohorts. While SNP rs1532624 was a replication of the previously published association between CETP and HDL cholesterol, the other two were novel findings. For the latter SNPs, the p-value for association was substantially improved by inclusion of environmental covariates: SNP rs5400 (p(SE,unadjusted) = 3.6 x 10(-5), p(SE,adjusted) = 2.2 x 10(-6), p(NS,unadjusted) = 0.047) in the SLC2A2 (Glucose transporter type 2) and rs2000999 (p(SE,unadjusted) = 1.1 x 10(-3), p(SE,adjusted) = 3.8 x 10(-4), p(NS,unadjusted) = 0.035) in the HP gene (Haptoglobin-related protein precursor). Both showed evidence of association with total cholesterol. These results demonstrate that inclusion of important environmental factors in the analysis model can reveal new genetic susceptibility loci.},
affiliation = {Department of Genetics and Pathology, Rudbeck Laboratory, University of Uppsala, Uppsala, Sweden. wilmar.igl@genpat.uu.se},
number = {1},
pages = {e1000798},
volume = {6},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-11 09:22:46 +0100},
date-modified = {2010-02-11 09:22:46 +0100},
doi = {10.1371/journal.pgen.1000798},
pmid = {20066028},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Igl-2010-PLoS%20Genet_Modeling%20of%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5370},
rating = {0}
}
@article{Maisto:2010p13384,
author = {Stephen A Maisto and Kathleen McGinnis and Robert Cook and Joseph Conigliaro and Kendall Bryant and Amy C Justice},
journal = {AIDS Behav},
title = {Factor structure of Leigh's (1990) alcohol sex expectancies scale in individuals in treatment for HIV disease},
abstract = {The purpose of this study was to validate the use of Leigh's (1990) alcohol sex expectancies scale among HIV-infected individuals presenting for treatment as a way to facilitate research on sexual risk reduction among individuals in that population. The participants were 944 men who presented for treatment at infectious disease or general medicine clinics across 8 different VA Medical Center sites. A total of 534 of these men were HIV-positive and 410 were HIV-negative. The total sample was randomly divided in half within each HIV group to form exploratory (Sample 1) and confirmatory (Sample 2) subsamples. A principal components factor analysis with oblique rotation of the original 13-item Leigh scale within each HIV group in Sample 1 revealed a 2-factor (7 and 4 items, respectively) solution that was consistent across both HIV groups. These factors were named "More Open to Sexual Pleasure" (Factor 1) and "Reduced Inhibitions about Sex (Factor 2)." A confirmatory factor analysis of the 11-item, 2-factor solution on the full Sample 2 showed a modest fit to the data, excellent internal consistency reliability of both factors, a high correlation between the factors, and strong evidence for construct validity. These results were interpreted as supporting the use of the 11-item, 2-factor version of Leigh's scale in studies of clinical samples of HIV-positive adults, and directions for research on further scale refinement are discussed.},
affiliation = {Department of Psychology, Syracuse University, Syracuse, NY 13244, USA. samaisto@syr.edu},
number = {1},
pages = {174--80},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Alcohol Drinking, Sexual Behavior, Humans, Factor Analysis: Statistical, Ethnic Groups, Prevalence, Middle Aged, Male, HIV Infections, Risk-Taking, Follow-Up Studies, Questionnaires, Risk Factors, HIV Seropositivity, Reproducibility of Results, Female},
date-added = {2010-07-01 19:24:23 +0200},
date-modified = {2010-07-01 19:24:23 +0200},
doi = {10.1007/s10461-008-9457-2},
pmid = {18791863},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maisto-2010-AIDS%20Behav_Factor%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13384},
rating = {0}
}
@article{Guinot:2001p4081,
author = {C Guinot and J Latreille and M Tenenhaus},
journal = {Chemometrics and Intelligent Laboratory Systems},
title = {PLS Path modelling and multiple table analysis. Application to the cosmetic habits of women in Ile-de-France},
abstract = {Many statistical methods can be used to study data presented in the form of J blocks of variables observed on the same subjects. The most well-known methods are the following: Horst's generalised canonical correlation analysis, Carroll's gen- eralised canonical correlation analysis, Escofier and Page`s' multiple factor analysis and second order confirmatory factor analysis. The aim of all these methods is to identify a common structure among the J data tables. The partial least squares {\v Z}PLS. Path modelling approach of Herman Wold can also be used on this type of data. Generalised canonical correlation analyses of Horst and Carroll and multiple factor analysis are special cases of PLS Path modelling, but this approach also leads to new useful methods. In the first part of this paper, we briefly review PLS Path modelling, then we look in greater detail at the specific case of tables without structural relations. In the second part, we have applied PLS Path modelling to a study of the cosmetic habits of women in the Ile-de-France region. Lohmo ̈ller's LVPLS software release 1.8 allowed us to carry out the application without too many difficulties.},
pages = {247--259},
volume = {58},
year = {2001},
date-added = {2010-01-19 15:59:53 +0100},
date-modified = {2010-01-19 16:00:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guinot-2001-Chemometrics%20and%20Intelligent%20Laboratory%20Systems_PLS%20Path%20modelling%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4081},
rating = {0}
}
@article{Novartis:2006p1719,
author = {Novartis},
title = {Guidance for the Use of Bayesian Statistics in Medical Device Clinical Trials},
year = {2006},
date-added = {2010-01-09 20:26:46 +0100},
date-modified = {2010-01-09 20:27:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Novartis-2006-_Guidance%20for%20the%20Use.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1719},
rating = {0}
}
@article{Schroeder:2001p4354,
author = {J C Schroeder and C R Weinberg},
journal = {Am J Epidemiol},
title = {Use of missing-data methods to correct bias and improve precision in case-control studies in which cases are subtyped but subtype information is incomplete},
abstract = {Histologic and genetic markers can sometimes make it possible to refine a disease into subtypes. In a case-control study, an attempt to subcategorize a disease in this way can be important to elucidating its etiology if the subtypes tend to result from distinct causal pathways. Using subtyped case outcomes, one can carry out either a case-case analysis to investigate etiologic heterogeneity or do polytomous logistic regression to estimate odds ratios specific to subtypes. Unfortunately, especially when such an analysis is undertaken after the study has been completed, it may be compromised by the unavailability of tissue specimens, resulting in missing subtype data for many enrolled cases. The authors propose that one can more fully use the available data, including that provided by cases with missing subtype, by using the expectation-maximization algorithm to estimate risk parameters. For illustration, they apply the method to a study of non-Hodgkin's lymphoma in the midwestern United States. The simulations then demonstrate that, under assumptions likely to hold in many settings, the approach eliminates bias that would arise if unclassified cases were ignored and also improves the precision of estimation. Under the same assumptions, empirical confidence interval coverage is consistent with the nominal 95%.},
affiliation = {Epidemiology Branch, National Institute of Environmental Health Sciences, Research Triangle Park, NC27709, USA. schroed1@niehs.nih.gov},
number = {10},
pages = {954--62},
volume = {154},
year = {2001},
month = {Nov},
language = {eng},
keywords = {Likelihood Functions, Algorithms, Analysis of Variance, Bias (Epidemiology), Outcome Assessment (Health Care), Odds Ratio, Lymphoma: Non-Hodgkin, Humans, Computer Simulation, Case-Control Studies, Models: Statistical, Midwestern United States},
date-added = {2010-01-27 18:27:46 +0100},
date-modified = {2010-01-27 18:27:46 +0100},
pmid = {11700251},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schroeder-2001-Am%20J%20Epidemiol_Use%20of%20missing-data.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4354},
rating = {0}
}
@article{Kloosterman:2010p7566,
author = {Bjorn Kloosterman and Marian Oortwijn and Jan Uitdewilligen and Twan America and Ric de Vos and Richard G F Visser and Christian W B Bachem},
journal = {BMC Genomics},
title = {From QTL to candidate gene: Genetical genomics of simple and complex traits in potato using a pooling strategy},
abstract = {ABSTRACT: BACKGROUND: Utilization of the natural genetic variation in traditional breeding programs remains a major challenge in crop plants. The identification of candidate genes underlying, or associated with, phenotypic trait QTLs is desired for effective marker assisted breeding. With the advent of high throughput -omics technologies, screening of entire populations for association of gene expression with targeted traits is becoming feasible but remains costly. Here we present the identification of novel candidate genes for different potato tuber quality traits by employing a pooling approach reducing the number of hybridizations needed. Extreme genotypes for a quantitative trait are collected and the RNA from contrasting bulks is then profiled with the aim of finding differentially expressed genes. RESULTS: We have successfully implemented the pooling strategy for potato quality traits and identified candidate genes associated with potato tuber flesh color and tuber cooking type. Elevated expression level of a dominant allele of the beta-carotene hydroxylase (bch) gene was associated with yellow flesh color through mapping of the gene under a major QTL for flesh color on chromosome 3. For a second trait, a candidate gene with homology to a tyrosine-lysine rich protein (TLRP) was identified based on allele specificity of the probe on the microarray. TLRP was mapped on chromosome 9 in close proximity to a QTL for potato cooking type strengthening its significance as a candidate gene. Furthermore, we have performed a profiling experiment targeting a polygenic trait, by pooling individual genotypes based both on phenotypic and marker data, allowing the identification of candidate genes associated with the two different linkage groups. CONCLUSIONS: A pooling approach for RNA-profiling with the aim of identifying novel candidate genes associated with tuber quality traits was successfully implemented. The identified candidate genes for tuber flesh color (bch) and cooking type (tlrp) can provide useful markers for breeding schemes in the future. Strengths and limitations of the approach are discussed.},
number = {1},
pages = {158},
volume = {11},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-14 10:57:43 +0100},
date-modified = {2010-03-14 10:57:43 +0100},
doi = {10.1186/1471-2164-11-158},
pii = {1471-2164-11-158},
pmid = {20210995},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kloosterman-2010-BMC%20Genomics_From%20QTL%20to%20candidat-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7566},
rating = {0}
}
@article{Rose:2002p7931,
author = {Susan A Rose and Judith F Feldman and Jeffery J Jankowski},
journal = {Dev Psychol},
title = {Processing speed in the 1st year of life: a longitudinal study of preterm and full-term infants},
abstract = {Processing speed was assessed at 5, 7, and 12 months in full-term and preterm infants (birth-weight < 1,750 g). Speed was gauged directly in a new task by presenting infants with a series of paired faces, one that remained the same across trials and one that changed; trials continued until infants showed a consistent novelty preference. At all ages, preterms required about 20% more trials and 30% more time than full-terms to reach criterion. Among preterms, slower processing was associated with greater medical risk (e.g., respiratory distress syndrome). Developmental trajectories for speed (and attention) were similar for both groups. Thus, the deficits in processing speed previously found for preterms in childhood are already present in the 1st year of life.},
affiliation = {Department of Pediatrics, Albert Einstein College of Medicine/Children's Hospital at Montefiore, Bronx, New York 10461, USA. srose@aecom.yu.edu},
number = {6},
pages = {895--902},
volume = {38},
year = {2002},
month = {Nov},
language = {eng},
keywords = {Humans, Face, Reaction Time, Infant: Newborn, Infant, Longitudinal Studies, Prospective Studies, Concept Formation, Pattern Recognition: Visual, Attention, Discrimination Learning, Retention (Psychology), Respiratory Distress Syndrome: Newborn, Risk Factors, Male, Mental Recall, Female},
date-added = {2010-03-20 19:23:19 +0100},
date-modified = {2010-07-29 19:25:17 +0200},
pmid = {12428702},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rose-2002-Dev%20Psychol_Processing%20speed%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7931},
rating = {0}
}
@article{Kayaalp:2007p6066,
author = {Levent Kayaalp and Aysin Dervent and Sema Saltik and Derya Uluduz and Inci Vural Kayaalp and Veysi Demirbilek and Mohammad Ghaziuddin},
journal = {Brain Dev},
title = {EEG abnormalities in West syndrome: correlation with the emergence of autistic features},
abstract = {Autism may develop in children with West syndrome. This study was conducted to determine if EEG abnormalities in patients with West syndrome predict the later onset of autism. Two groups of patients with West syndrome, older than 6 years of age, were studied. One group consisted of those with a past history of West syndrome plus autism (N=14); the control group consisted of those with a past history of West syndrome but without autism (N=14). Patients were followed at regular intervals and video-EEG recordings were done. A total of 108 (autistic group) and 123 (non-autistic group) video-EEGs were examined. The two groups were compared with respect to age, presence or absence of hypsarrhythmia, and characteristics and localization of the epileptogenic foci. chi2 and Fisher's exact tests were used. The number of patients with at least one hypsarrhythmic EEG at the age of one year or later was significantly higher in autistic subjects (86%) than in non-autistic controls (29%). The incidence of EEGs with hypsarrhythmia was also higher in the autistic group, especially in older children (autistic, 49% versus non-autistic, 18% at age 3 years and later). Frontal predominance of the primary foci on EEGs with or without hypsarrhythmia was seen in 95.3% of the autistic group and 28.8% of the non-autistic group (p=0.001). Frontal abnormalities on the EEGs, which were mainly bilateral, and the persistence of hypsarrhythmia were significantly related to the emergence of autistic behavior in patients with West syndrome. These findings suggest that paroxysmal discharges in the cortical areas undergoing rapid maturation may be involved in the development of autistic features.},
affiliation = {Istanbul University, Cerrahpasa Medical Faculty, Child Psychiatry Department, Istanbul, Turkey.},
number = {6},
pages = {336--45},
volume = {29},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Age of Onset, Child, Chi-Square Distribution, Infant, Male, Electroencephalography, Child: Preschool, Functional Laterality, Female, Brain Mapping, Spasms: Infantile, Humans, Autistic Disorder},
date-added = {2010-02-19 17:03:06 +0100},
date-modified = {2010-02-19 17:03:06 +0100},
doi = {10.1016/j.braindev.2006.10.002},
pii = {S0387-7604(06)00238-5},
pmid = {17113261},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6066},
rating = {0}
}
@article{Vermunt:2010p11670,
author = {J K Vermunt and J Magidson},
title = {Latent Class Analysis},
date-added = {2010-05-14 21:09:36 +0200},
date-modified = {2010-05-14 21:09:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt--_Latent%20Class%20Analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11670},
read = {Yes},
rating = {0}
}
@article{Williams:2006p5237,
author = {Christopher J Williams and Joe C Christian},
journal = {Behav Genet},
title = {Frequentist model-averaged estimators and tests for univariate twin models},
abstract = {Parameter estimates from analyses of univariate twin data usually do not reflect the uncertainty due to the model selection phase of the data analysis. To address the effect of model selection uncertainty on parameter estimates, we introduce frequentist model-averaged estimators for univariate twin data analysis that use information-theoretic criteria to assign model weights. We conduct simulation studies to examine the performance of model-averaged estimators of additive genetic variance, and for tests for additive genetic variance based on model-averaged estimators. In simulation studies with small or moderate sample sizes, model-averaged estimators of additive genetic variance typically have lower mean-squared error than either (i) estimators from individual twin models, or (ii) estimators obtained from a decision procedure where the best-fitting model from likelihood-ratio testing is used to estimate additive genetic variance. For each sample size simulated, bootstrap tests based on model-averaged estimators have higher power to detect additive genetic variance than currently-used tests in most cases.},
affiliation = {Department of Statistics, University of Idaho, Moscow, ID 83844-1104, USA. chrisw@uidaho.edu},
number = {5},
pages = {687--96},
volume = {36},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Models: Genetic, Humans, Computer Simulation, Twins, Reproducibility of Results, Genetic Variation, Gene Frequency, Analysis of Variance},
date-added = {2010-02-08 19:38:00 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9065-8},
pmid = {16710780},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5237},
rating = {0}
}
@article{Malet:2006p12769,
author = {Laurent Malet and Pierre-Michel Llorca and B{\'e}r{\'e}nice Beringuier and Philippe Lehert and Bruno Falissard},
journal = {Alcohol Alcohol},
title = {AlQoL 9 for measuring quality of life in alcohol dependence},
abstract = {AIMS: Quality of life (QoL) is an important factor of outcome tracking and treatment in alcohol misuse. A 9-item QoL scale, AlQoL 9, obtained from the generic SF 36, is proposed as a measure that characterizes the QoL of alcohol-dependent patients. Our objective was to study the psychometric properties of this subscale. METHODS: AlQoL 9 was evaluated in two study groups of patients with DSM-IV diagnosis of dependence: 104 inpatients, and 114 outpatients. Severity of dependence, alcohol consumption, psychiatric, and somatic comorbidities were assessed. We studied the global properties of AlQoL 9 and its structure. RESULTS: Cronbach alpha-coefficients in both populations indicated good internal consistency (0.71 and 0.85). Test-retest intraclass coefficients for a 2-day interval in hospital were in the range 0.57-0.78. Principal component analysis found a unidimensional scale. This subscale has properties that are consistent with the concept of QoL in alcohol dependence, i.e. lowered QoL compared with the general population, influenced by gender, and depression. CONCLUSIONS: AlQoL 9 epitomizes QoL in alcohol-dependence. It gives a global measurement with good psychometric properties. It could be used in clinical practice as a diagnosis and management support instrument and may also be useful in research for evaluating treatment efficacy.},
affiliation = {Centre Hospitalier Universitaire, Department of Psychiatry-B, rue Montalembert BP 69, 63003 Clermont-Ferrand cedex 1, France. lmalet@chu-clermontferrand.fr},
number = {2},
pages = {181--7},
volume = {41},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Alcoholism, Middle Aged, Adolescent, Adult, Psychometrics, Male, Treatment Outcome, Questionnaires, Aged, Diagnostic and Statistical Manual of Mental Disorders, Humans, Female},
date-added = {2010-06-18 20:32:49 +0200},
date-modified = {2010-07-29 19:12:56 +0200},
doi = {10.1093/alcalc/agl001},
pii = {agl001},
pmid = {16455795},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Malet-2006-Alcohol%20Alcohol_AlQoL%209%20for%20measurin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12769},
rating = {3}
}
@article{Ciuciu:2003p2316,
author = {P Ciuciu and J B Poline and G Marrelec and J Idier and C Pallier and H Benali},
journal = {IEEE Transactions on Medical Imaging},
title = {Unsupervised robust non-parametric estimation of
the hemodynamic response function for any fMRI
experiment},
abstract = {This paper deals with the estimation of the Blood Oxygen Level-Dependent (BOLD) response to a stimulus, as measured in Functional Magnetic Resonance Imaging (fMRI) data. A precise estimation is essential for a better understanding of cerebral activations. The most recent works have used a non-parametric framework for this estimation, considering each brain region as a system characterized by its impulse response, the so-called Hemodynamic Response Function (HRF). However, the use of these techniques has remained limited since they are not well-adapted to real fMRI data. Here, we develop a threefold extension to previous works. We consider asyn- chronous event-related paradigms, account for different trial types and integrate several fMRI sessions into the estimation.
These generalizations are simultaneously addressed through a badly-conditioned observation model. Bayesian formalism is used to model temporal prior information of the underlying physiological process of the brain hemodynamic response. By this way, the HRF estimate results from a tradeoff between information brought by the data and by our prior knowledge. This tradeoff is modeled with hyperparameters that are set to the maximum-likelihood estimate using an Expectation Conditional Maximization (ECM) algorithm. The proposed unsupervised approach is validated on both synthetic and real fMRI data, the latter originating from a speech perception experiment.},
number = {10},
pages = {1235--1251},
volume = {22},
year = {2003},
date-added = {2010-01-10 12:32:53 +0100},
date-modified = {2010-01-10 12:34:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ciuciu-2003-IEEE%20Transactions%20on%20Medical%20Imaging_Unsupervised%20robust.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2316},
rating = {0}
}
@misc{Socan:2000,
author = {Gregor Socan},
journal = {Miscellaneous},
title = {Assessment of reliability when test items are not essentially tau-equivalent},
year = {2000},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Socan-2000-Miscellaneous_Assessment%20of%20reliab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2147},
rating = {0}
}
@article{Bookman:2002p9056,
author = {E B Bookman and R E Taylor and L Adams-Campbell and R A Kittles},
journal = {Mol Psychiatry},
title = {DRD4 promoter SNPs and gender effects on Extraversion in African Americans},
abstract = {There is strong evidence for genetic influences on personality traits. Interest in one such gene, the dopamine D4 receptor (DRD4) grew after an exon III polymorphism was associated with Novelty Seeking and related measures of Extraversion. However, the findings were not confirmed in later studies. Recently, a -521C/T single nucleotide polymorphism (SNP) within the promoter region of the DRD4 gene was found to be related to Novelty Seeking scores in populations from Japan and Hungary. Since little is known about the role DRD4 plays in personality in other populations we evaluated if two DRD4 promoter SNPs, -521C/T and -616C/G, were related to personality traits in African Americans. Personality traits were measured by the NEO-FFI in 71 unrelated African Americans. Genotyping was performed using PCR-RFLP. Multivariate analyses of variance (MANOVA) were performed to evaluate the effects of gender and -616 and -521 genotypes on personality traits. A significant three-way interaction effect from gender, -616 genotype, and -521 genotype was observed for Extraversion scores (F(1,54) 5.86, P < 0.02). Subsequent analyses revealed that the association was mainly due to -521C/T genotype among females (P = 0.01). This study provides further evidence that genetic variation within the DRD4 promoter and gender differences contribute to variation in Novelty Seeking behaviors such as Extraversion.},
affiliation = {Department of Genetics and Human Genetics, Howard University, Washington, DC 20060, USA.},
number = {7},
pages = {786--9},
volume = {7},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Humans, Gene Frequency, Receptors: Dopamine D2, Adult, Male, Polymorphism: Single Nucleotide, Sex Factors, Extraversion (Psychology), African Continental Ancestry Group, Genotype, Receptors: Dopamine D4, Female, Promoter Regions: Genetic},
date-added = {2010-03-22 13:18:17 +0100},
date-modified = {2010-03-22 13:18:17 +0100},
doi = {10.1038/sj.mp.4001075},
pmid = {12192624},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bookman-2002-Mol%20Psychiatry_DRD4%20promoter%20SNPs%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9056},
rating = {0}
}
@article{Ginkel:2007b,
author = {Joost R van Ginkel and L Andries van der Ark and Klaas Sijtsma},
journal = {Multivariate Behavioral Research},
title = {Multiple Imputation of Item Scores in Test and Questionnaire Data, and Influence on Psychometric Results},
abstract = {The performance of five simple multiple imputation methods for dealing with missing data were compared. In addition, random imputation and multivariate normal imputation were used as lower and upper benchmark, respectively. Test data were simulated and item scores were deleted such that they were either missing completely at random, missing at random, or not missing at random. Cronbach's alpha, Loevinger's scalability coefficient H, and the item cluster solution from Mokken scale analysis of the complete data were compared with the corresponding results based on the data including imputed scores. The multiple-imputation methods, two-way with normally distributed errors, corrected item-mean substitution with normally distributed errors, and response function, produced discrepancies in Cronbach's coefficient alpha, Loevinger's coefficient H, and the cluster solution from Mokken scale analysis, that were smaller than the discrepancies in upper benchmark multivariate normal imputation.},
number = {2},
pages = {387--414},
volume = {42},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ginkel-2007-Multivariate%20Behavioral%20Research_Multiple%20Imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2023},
rating = {0}
}
@article{Jevtovic:2009p5147,
author = {Dj Jevtovi{\'c} and V Vanovac and M Veselinovi{\'c} and D Salemovi{\'c} and J Ranin and E Stefanova},
journal = {Biomed Pharmacother},
title = {The incidence of and risk factors for HIV-associated cognitive-motor complex among patients on HAART},
abstract = {BACKGROUND: While highly active antiretroviral therapy (HAART) allows for the considerable decline in the incidence of HIV-related opportunistic infections and tumors, its effect on treating HIV infection of the brain, such as HIV-associated dementias (HADs), remains unclear. METHODS: A cross-sectional study of consecutive series of 96 patients from the Serbian HIV/AIDS cohort, treated with HAART in our HIV unit was performed to evaluate the incidence of and risk factors for cognitive/motor complex during HAART. CD4+T cell counts and pVL values at the time of neurological evaluation were parameters of the response to HAART. The mini-mental test and neurologic examination were performed at one point of time during treatment to reveal cognitive and/or motor disorders. RESULTS: After mean HAART duration of 47 months, unimpaired cognition, minor cognitive impairment, and HIV-associated dementia were recorded in 56 (58.3%), 27 (28.1%), and 13 (13.5%), respectively. Motor abnormalities had 39 (40.6%) patients. Of these, 21, 12, and 6 patients belong to the subgroups with normal cognition, minor cognitive impairment and HAD patients, respectively. Factors predictive for HAD were age over 40 (OR 3.7, 95% CI 1.07-13.28, P=0.039), and AIDS diagnosis prior to HAART initiation (OR 14.19, 95% CI 1.76-114.16, P=0.013). Conversely, factors shown to be protective against HAD were the usage of AZT and NNRTIs, as components of HAART regimens (OR 0.18, 95% CI 0.046-0.76, P=0.019, and OR 0.14, 95% CI 0.034-0.6, P=0.008). CONCLUSION: Cognitive/motor complex has still remained a significant neuropathology among late presenters and elder HIV/AIDS patients. Certain HAART regimens containing AZT, and/or NNRTIs, could be protective for these patients.},
affiliation = {HIV/AIDS Department, Institute for Infectious and Tropical Diseases, Belgrade University School of Medicine, Clinical Centre of Serbia, Bulevar Oslobodjenja 16, 11000 Belgrade, Serbia. djordjejevtovic@hotmail.com},
number = {8},
pages = {561--5},
volume = {63},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Incidence, Time Factors, Motor Skills, Risk Factors, AIDS Dementia Complex, HIV Infections, Female, Adolescent, Male, Psychiatric Status Rating Scales, Middle Aged, RNA: Viral, Treatment Outcome, Odds Ratio, Neurologic Examination, Cognition, HIV, CD4 Lymphocyte Count, Young Adult, Humans, Logistic Models, Cross-Sectional Studies, Risk Assessment, Neuroprotective Agents, Viral Load, Adult, Age Factors, Anti-HIV Agents, Antiretroviral Therapy: Highly Active, Aged, Serbia},
date-added = {2010-02-05 20:19:44 +0100},
date-modified = {2010-02-05 20:19:44 +0100},
doi = {10.1016/j.biopha.2008.09.015},
pii = {S0753-3322(08)00365-X},
pmid = {19026516},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5147},
rating = {0}
}
@article{Rousson:2002p14018,
author = {Valentin Rousson and Theo Gasser and Burkhardt Seifert},
journal = {Stat Med},
title = {Assessing intrarater, interrater and test-retest reliability of continuous measurements},
abstract = {In this paper we review the problem of defining and estimating intrarater, interrater and test-retest reliability of continuous measurements. We argue that the usual notion of product-moment correlation is well adapted in a test-retest situation, whereas the concept of intraclass correlation should be used for intrarater and interrater reliability. The key difference between these two approaches is the treatment of systematic error, which is often due to a learning effect for test-retest data. We also consider the reliability of a sum and a difference of variables and illustrate the effects on components. Further, we compare these approaches of reliability with the concept of limits of agreement proposed by Bland and Altman (for evaluating the agreement between two methods of clinical measurements) and show how product-moment correlation is related to it. We then propose new kinds of limits of agreement which are related to intraclass correlation. A test battery to study the development of neuro-motor functions in children and adolescents illustrates our purpose throughout the paper.},
affiliation = {Department of Biostatistics, Institute for Social and Preventive Medicine, University of Zurich, Sumatrastrasse 30, CH-8006 Zurich, Switzerland. rousson@ifspm.unizh.ch},
number = {22},
pages = {3431--46},
volume = {21},
year = {2002},
month = {Nov},
language = {eng},
keywords = {Child, Models: Statistical, Female, Humans, Reproducibility of Results, Motor Skills, Male, Observer Variation},
date-added = {2010-08-07 10:08:26 +0200},
date-modified = {2010-08-07 10:08:35 +0200},
doi = {10.1002/sim.1253},
pmid = {12407682},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rousson-2002-Stat%20Med_Assessing%20intrarater.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14018},
rating = {3}
}
@article{WillemsenSwinkels:2002p6196,
author = {Sophie H N Willemsen-Swinkels and Jan K Buitelaar},
journal = {Psychiatr Clin North Am},
title = {The autistic spectrum: subgroups, boundaries, and treatment},
abstract = {There is consensus about the disorders that comprise the autistic spectrum, with autistic disorder, Asperger's disorder, and PDD-NOS as the most typical examples and Rett's disorder and disintegrative disorder as the other components. Important controversies regarding the precise definitions of autistic spectrum disorders and the boundaries between the milder manifestations of those disorders, particularly PDD-NOS, and non-autistic conditions have not been and cannot be resolved fully as long as there is no known biologic cause or consistent biologic or psychological marker. This includes issues as basic as whether the autistic spectrum is a predominantly unitary entity or a collection of more or less similar phenotypes with multiple, varying etiologies. This is why the highest long-term priority in the area of definite diagnosis is the search for biologic marker(s) for autism and related autism spectrum disorders [91]. In the absence of a medical test to unequivocally diagnose autism, definitions of autism and related conditions are based only on manifestations in overt behavior, with all the unreliability this entails. In the future, the discovery of biologic correlates, causes, and pathogenetic pathways will undoubtedly change the way in which autism is diagnosed and lead to a new nosology [95]. Until that time the definitions in the current versions of the classification systems should be considered in a state of evolution. The key problem of the current classification systems is the fact that the boundaries between the various disorders are fuzzy. Instead of a categorical approach, a more useful description might be that of "autistic spectrum disorder," which reflects the range of severity of symptoms. Such a dimensional understanding of PDD is useful to clinicians, who may otherwise use nonspecific terms to avoid the categorical diagnosis of autism [31]. Rutter and Schopler [96] argued for separate clinical and research schemes because clinical and research needs are different. For research purposes it is desirable to have as much direct comparability across studies as possible. The focus is on a high degree of homogeneity within diagnostic groupings. A price must be paid for this detailed specification, and the main cost lies in the proportion of cases left undiagnosed. For example, there may be good scientific reasons for a narrowly defined categorical diagnosis that includes only individuals who definitely and clearly have a specifically defined condition and excludes individuals who may have the condition. For clinicians and educators, classification helps guide the selection of treatments for an individual. From this point of view, broader diagnostic concepts may be most appropriate [95].},
affiliation = {Department of Child and Adolescent Psychiatry, University Medical Center, PO Box 85500, 3508 GA Utrecht, The Netherlands. s.h.n.willemsen@psych.azu.nl},
number = {4},
pages = {811--36},
volume = {25},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Autistic Disorder, Infant, Syndrome, Child, Treatment Outcome, Humans, Diagnosis: Differential},
date-added = {2010-02-19 20:22:13 +0100},
date-modified = {2010-07-29 19:53:27 +0200},
pmid = {12462862},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6196},
rating = {0}
}
@article{JohnsonKozlow:2010p10008,
author = {Marilyn Johnson-Kozlow and Dennis R Wahlgren and Melbourne F Hovell and Danette M Flores and Sandy Liles and C Richard Hofstetter and Jennifer Zellner and Joy M Zakarian},
journal = {Journal of Clinical Epidemiology},
title = {Adolescents validly report their exposure to secondhand smoke},
abstract = {OBJECTIVE: This study examined the validity of child-reported exposure to secondhand smoke (SHS) and investigated factors, such as child's age, which might affect accuracy of recall. STUDY DESIGN AND SETTING: Participants were drawn from a nonprobability sample of 380 families who completed baseline assessment as part of a randomized trial of an SHS reduction intervention conducted in an urban setting in Southern California. Parents and children (aged 8-13 years) retrospectively reported child's exposure to SHS using timeline followback methodology; reports were compared with child's urine cotinine. RESULTS: Validity coefficients for parents and children were comparable (r=0.58 vs. r=0.53), but parents recalled three times more exposure than children (2.2 vs. 0.8 cigarettes per day; P<0.001). Regression models predicting cotinine indicated that including child in addition to parent reports resulted in better prediction than either alone. CONCLUSION: When there is a choice, parent reports are preferable over child reports because of decreased underreporting. However, child-reported SHS exposure had adequate validity (r>0.50) and might be appropriate in some situations. Researchers might consider collecting both parent and child reports because each made a unique contribution to the prediction of cotinine.},
affiliation = {Center for Behavioral Epidemiology and Community Health, Graduate School of Public Health, San Diego State University, San Diego, CA 92123, USA.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-31 20:00:04 +0200},
date-modified = {2010-03-31 20:00:04 +0200},
doi = {10.1016/j.jclinepi.2009.11.015},
pii = {S0895-4356(09)00391-6},
pmid = {20346628},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnson-Kozlow-2010-Journal%20of%20Clinical%20Epidemiology_Adolescents%20validly-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10008},
rating = {0}
}
@article{Bolker:2008p2295,
author = {B Bolker},
title = {GLMM simulation and p-value computation in lme4},
year = {2008},
date-added = {2010-01-10 12:09:55 +0100},
date-modified = {2010-01-10 12:10:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bolker-2008-_GLMM%20simulation%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2295},
rating = {0}
}
@article{Chavent:2007p4096,
author = {M Chavent and V Kuentz and J Saracco},
journal = {Modulad},
title = {Analyse en Facteurs : pr ́esentation et comparaison des logiciels SAS, SPAD et SPSS},
abstract = {In data analysis, factorial methods are essential. These techniques can be used as an end in themselves, seeking to highlight underlying common factors in a group of variables. They can also be used as input to another analysis. Then, they consist in data dimension reduction and operate by replacing the original variables, sometimes highly correlated, by a smaller number of linearly independent variables. Factor Analysis (F.A.) is one possible method for quantitative data. This article aims at presenting in a synthetic way the F.A. model, rarely described in French books, but frequent in the Anglo-Saxon literature, and often available in softwares. The presentation of the estimation techniques for the F.A. model enables to estab- lish the existing connection between Principal Component Analysis (P.C.A.) and F.A. The usefulness of rotation techniques, which can facilitate the interpretation of the results, will also be shown. An application on crime data of American cities will be carried out and will allow to describe the results provided by three of the most used statistical softwares : SAS, SPAD and SPSS. Then it will help to clarify the vocabulary, sometimes confused for the user.},
number = {37},
year = {2007},
date-added = {2010-01-19 23:27:45 +0100},
date-modified = {2010-07-29 19:40:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chavent-2007-Modulad_Analyse%20en%20Facteurs.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4096},
rating = {0}
}
@article{Kendler:2003p2903,
author = {Kenneth S Kendler and Carol A Prescott and John Myers and Michael C Neale},
journal = {Arch Gen Psychiatry},
title = {The structure of genetic and environmental risk factors for common psychiatric and substance use disorders in men and women},
abstract = {BACKGROUND: Patterns of comorbidity suggest that the common psychiatric and substance use syndromes may be divisible into 2 broad groups of internalizing and externalizing disorders. We do not know how genetic and environmental risk factors contribute to this pattern of comorbidity or whether the etiologic structure of these groups differ in men and women. METHODS: Lifetime diagnoses for 10 psychiatric syndromes were obtained at a personal interview in more than 5600 members of male-male and female-female twin pairs ascertained from a population-based registry. Multivariate twin modeling was performed using the program Mx. RESULTS: We first fit models to the following 7 syndromes: major depression, generalized anxiety disorder, phobia, alcohol dependence, drug abuse/dependence, adult antisocial behavior, and conduct disorder. The full model, which could be constrained to equality in male and female subjects, identified 2 genetic factors. The first had strongest loadings on alcohol dependence, drug abuse/dependence, adult antisocial behavior, and conduct disorder; the second, on major depression, generalized anxiety disorder, and phobia. Alcohol dependence and drug abuse/dependence had substantial disorder-specific genetic risk factors. Shared environmental factors were most pronounced for conduct disorder and adult antisocial behavior. No clear internalizing/externalizing structure was seen for the unique environmental common factors. We then fit models to 5 internalizing syndromes. The full model, which could also be constrained to equality in men and women, revealed one genetic factor loading most heavily on major depression and generalized anxiety disorder and another loading most strongly on animal and situational phobia. CONCLUSIONS: The underlying structure of the genetic and environmental risk factors for the common psychiatric and drug abuse disorders in men and women is very similar. Genetic risk factors predispose to 2 broad groups of internalizing and externalizing disorders. Within the internalizing disorders, 2 genetic factors are seen that predispose to disorders dominated by anxious-misery and fear. Substance use disorders have disorder-specific genetic risks. The externalizing disorders of conduct disorder and adult antisocial behavior are significantly influenced by the shared environment. The pattern of lifetime comorbidity of common psychiatric and substance use disorders results largely from the effects of genetic risk factors.},
affiliation = {Virginia Institute for Psychiatry and Behavioral Genetics and the Department of Psychiatry, Medical College of Virginia, Virginia Commonwealth University, Richmond 23298-0126, USA.},
number = {9},
pages = {929--37},
volume = {60},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Genetic Predisposition to Disease, Phenotype, Middle Aged, Sex Factors, Diseases in Twins, Social Environment, Research Design, Mental Disorders, Risk Factors, Female, Models: Statistical, Humans, Prevalence, Substance-Related Disorders, Multivariate Analysis, Male, Comorbidity, Adult, Models: Genetic},
date-added = {2010-01-13 15:00:30 +0100},
date-modified = {2010-01-13 15:00:30 +0100},
doi = {10.1001/archpsyc.60.9.929},
pii = {60/9/929},
pmid = {12963675},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kendler-2003-Arch%20Gen%20Psychiatry_The%20structure%20of%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2903},
rating = {0}
}
@article{Sugiura:2000p12150,
author = {M Sugiura and R Kawashima and M Nakagawa and K Okada and T Sato and R Goto and K Sato and S Ono and T Schormann and K Zilles and H Fukuda},
journal = {Neuroimage},
title = {Correlation between human personality and neural activity in cerebral cortex},
abstract = {Personality traits are a variance of behavioral patterns among individuals and may reflect a variance of brain activity, but their neurobiological explanation is still a matter of debate. Cloninger proposed three dimensions of personality traits, each of which has strong correlation with activity in a specific central monoaminergic system. Although this theory has been supported by physiological and genetic studies, it is still unclear how these personality parameters are correlated with the activity of the cortical networks which control human behavior. Here we measured the regional cerebral blood flow (rCBF) at rest in 30 normal volunteers who completed the personality inventory of Cloninger. Voxel-by-voxel analysis was employed to identify cortical regions where the rCBF showed significant correlation with any of the three personality parameters. Statistically significant correlation was observed in several paralimbic and neocortical regions and was consistent with the assumed monoaminergic influence on neural activity and the distribution of its projections, in each personality dimension. The results suggest that activity in a variety of cortical regions is associated with human personality traits and lend support to Cloninger's theory concerning central monoaminergic influence on human personality traits.},
affiliation = {Department of Nuclear Medicine and Radiology, Institute of Development, Aging, and Cancer, Tohoku University, 4-1 Seiryomachi, Aoba-ku, Sendai, 980-8575, Japan.},
number = {5 Pt 1},
pages = {541--6},
volume = {11},
year = {2000},
month = {May},
language = {eng},
keywords = {Cerebral Cortex, Humans, Male, Tomography: Emission-Computed: Single-Photon, Neural Pathways, Rest, Adult, Middle Aged, Personality, Reference Values, Female, Cerebrovascular Circulation},
date-added = {2010-05-30 10:36:04 +0200},
date-modified = {2010-05-30 10:36:18 +0200},
doi = {10.1006/nimg.2000.0564},
pii = {S1053-8119(00)90564-0},
pmid = {10806039},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sugiura-2000-Neuroimage_Correlation%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12150},
rating = {4}
}
@article{Dennis:2008p11570,
author = {S Dennis and M D Lee and A Kinnell},
journal = {Journal of Memory and Language},
title = {Bayesian analysis of recognition memory: The case of the list-length effect},
abstract = {Recognition memory experiments are an important source of empirical constraints for the- ories of memory. Unfortunately, standard methods for analyzing recognition memory data have problems that are often severe enough to prevent clear answers being obtained. A key example is whether longer lists lead to poorer recognition performance. The presence or absence of such a list-length effect is a critical test of competing item- and context-noise based theories of interference and bares on whether recognition involves ``recall-like'' com- ponents as dual process theories would contend. However, the issue has remained unre- solved, in part, because of the weaknesses of the standard analysis. In this paper, we develop a Bayesian method of analysis and apply it to new data on the list-length effect. The analysis allows us to find positive evidence in favor of a null list-length effect as pre- dicted by context noise models. The data also illustrate the importance of the contextual reinstatement process on recognition performance and show how previous work demon- strating a list-length effect may have been contaminated by reinstatement confounds. By contrasting our new method against the standard approach we highlight the advantages of the Bayesian framework when inferring the values of psychologically meaningful vari- ables, and in choosing between models representing different theoretical assumptions about memory.},
pages = {361--376},
volume = {59},
year = {2008},
date-added = {2010-05-01 17:38:35 +0200},
date-modified = {2010-05-01 17:39:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dennis-2008-Journal%20of%20Memory%20and%20Language_Bayesian%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11570},
rating = {0}
}
@article{Wray:2010p6648,
author = {Naomi R Wray and Jian Yang and Michael E Goddard and Peter M Visscher},
journal = {PLoS Genet},
title = {The Genetic Interpretation of Area under the ROC Curve in Genomic Profiling},
abstract = {Genome-wide association studies in human populations have facilitated the creation of genomic profiles which combine the effects of many associated genetic variants to predict risk of disease. The area under the receiver operator characteristic (ROC) curve is a well established measure for determining the efficacy of tests in correctly classifying diseased and non-diseased individuals. We use quantitative genetics theory to provide insight into the genetic interpretation of the area under the ROC curve (AUC) when the test classifier is a predictor of genetic risk. Even when the proportion of genetic variance explained by the test is 100%, there is a maximum value for AUC that depends on the genetic epidemiology of the disease, i.e. either the sibling recurrence risk or heritability and disease prevalence. We derive an equation relating maximum AUC to heritability and disease prevalence. The expression can be reversed to calculate the proportion of genetic variance explained given AUC, disease prevalence, and heritability. We use published estimates of disease prevalence and sibling recurrence risk for 17 complex genetic diseases to calculate the proportion of genetic variance that a test must explain to achieve AUC = 0.75; this varied from 0.10 to 0.74. We provide a genetic interpretation of AUC for use with predictors of genetic risk based on genomic profiles. We provide a strategy to estimate proportion of genetic variance explained on the liability scale from estimates of AUC, disease prevalence, and heritability (or sibling recurrence risk) available as an online calculator.},
affiliation = {Genetic Epidemiology and Queensland Statistical Genetics, Queensland Institute of Medical Research, Brisbane, Australia.},
number = {2},
pages = {e1000864},
volume = {6},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-03-03 20:35:49 +0100},
date-modified = {2010-03-03 20:35:49 +0100},
doi = {10.1371/journal.pgen.1000864},
pmid = {20195508},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wray-2010-PLoS%20Genet_The%20Genetic%20Interpre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6648},
rating = {0}
}
@techreport{Antonietti:2004,
author = {J-P Antonietti},
journal = {Techreport},
title = {Comment s'assurer de l'alignement d'un ensemble d'items},
affiliation = {Institut de Math{\'e}matiques Appliqu{\'e}es},
year = {2004},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 20:42:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Antonietti-2004-Techreport_Comment%20s'assurer%20de.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2107},
rating = {0}
}
@article{HenjeBlom:2010p12781,
author = {Eva C Henje Blom and Eva Serlachius and Jan-Olov Larsson and Tores Theorell and Martin Ingvar},
journal = {Health Qual Life Outcomes},
title = {Low Sense of Coherence (SOC) is a mirror of general anxiety and persistent depressive symptoms in adolescent girls - a cross-sectional study of a clinical and a non-clinical cohort},
abstract = {ABSTRACT: BACKGROUND: The Sense of Coherence (SOC) scale is assumed to measure a distinct salutogenic construct separated from measures of anxiety and depression. Our aim was to challenge this concept. METHOD: The SOC-scale, Beck's Depression Inventory (BDI), Beck's Anxiety Inventory (BAI), the emotional subscale of the Strengths and Difficulties Questionnaire (SDQ-em) and self-assessed health-related and physiological parameters were collected from a sample of non-clinical adolescent females (n=66, mean age 16.5 years with a range of 15.9-17.7 years) and from female psychiatric patients (n=73), mean age 16.8 years with a range of 14.5-18.4 years), with diagnoses of major depressive disorders (MDD) and anxiety disorders. RESULTS: The SOC scores showed high inverse correlations to BDI, BAI and SDQ-em. In the non-clinical sample the correlation coefficient was -0.86 to -0.73 and in the clinical sample -0.74 to -0.53 (p<0.001). Multiple regression models showed that BDI was the strongest predictor of SOC in the non-clinical (beta coefficient -0.47) and clinical sample (beta coefficient -0.52). The total degree of explanation of self-assessed anxiety and depression on the SOC variance estimated by multiple R2=0.74, adjusted R2=0.73 in the non-clinical sample and multiple R2=0.66, adjusted R2=0.65 in the clinical sample. Multivariate analyses failed to isolate SOC as a separate construct and the SOC-scale, BDI, BAI and SDQ-em showed similar patterns of correlations to self-reported and physiological health parameters in both samples. The SOC-scale was the most stable measure over six months. CONCLUSIONS: The SOC-scale did not appear to be a measure of a distinct salutogenic construct, but an inverse measure of persistent depressive symptoms and generalized social anxiety similar to the diagnostic criteria for major depressive disorder (MDD), dysthymic disorder, generalized anxiety disorder (GAD) or generalized social anxiety disorder (SAD) according to DSM-IV. These symptoms were better captured with SOC than by the specialized scales for anxiety and depression. Self-assessment scales that adequately identify MDD, dysthymic disorder, GAD and SAD need to be implemented. Comorbidity of these disorders is common in adolescent females and corresponds to a more severe symptomatology and impaired global function.},
number = {1},
pages = {58},
volume = {8},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-06-18 20:46:17 +0200},
date-modified = {2010-06-18 20:46:17 +0200},
doi = {10.1186/1477-7525-8-58},
pii = {1477-7525-8-58},
pmid = {20537185},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Henje%20Blom-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Low%20Sense%20of%20Coheren-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12781},
rating = {0}
}
@article{Sugiyama:2008p14223,
author = {M Sugiyama and N Rubens},
title = {Active Learning with Model Selection in Linear Regression},
abstract = {Optimally designing the location of training input points (active learning) and choosing the best model (model selection) are two important components of su- pervised learning and have been studied extensively. However, these two issues seem to have been investi- gated separately as two independent problems. If train- ing input points and models are simultaneously opti- mized, the generalization performance would be further improved. In this paper, we propose a new approach called ensemble active learning for solving the problems of active learning and model selection at the same time. We demonstrate by numerical experiments that the pro- posed method compares favorably with alternative ap- proaches such as iteratively performing active learning and model selection in a sequential manner.},
year = {2008},
date-added = {2010-08-22 21:06:45 +0200},
date-modified = {2010-08-22 21:07:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sugiyama-2008-_Active%20Learning%20with.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14223},
rating = {0}
}
@article{Tomer:2008p10524,
author = {Rachel Tomer and Rita Z Goldstein and Gene-Jack Wang and Christopher Wong and Nora D Volkow},
journal = {Biol Psychol},
title = {Incentive motivation is associated with striatal dopamine asymmetry},
abstract = {Dopamine plays an important role in modulating incentive motivation, expressed behaviorally as approach behavior. EEG studies report association between approach behavior and asymmetric pattern of activation in anterior cortical regions (as measured by the inverse of EEG alpha power). Therefore, individual differences in incentive motivation may reflect asymmetries in dopaminergic systems. We examined this hypothesis by studying the relationship between self-reported degree of incentive motivation, and asymmetry of D2 receptor availability in healthy volunteers. Nineteen healthy participants were studied with positron emission tomography (PET) and [11C]raclopride to assess the availability of dopamine D2 receptors in left and right striatum. Incentive motivation was assessed by the Achievement scale of the Multidimensional Personality Questionnaire. The Achievement score was negatively correlated with the Asymmetry Index ([R-L]/[R+L]) of D2 receptor availability (r=-.721, p=.001), suggesting that greater positive incentive motivation is associated with higher receptor availability in the left relative to the right hemisphere.},
affiliation = {Department of Psychology {\&} Brain and Behavior Center, University of Haifa, Mount Carmel 31905, Israel. rtomer@psy.haifa.ac.il},
number = {1},
pages = {98--101},
volume = {77},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Positron-Emission Tomography, Image Processing: Computer-Assisted, Adult, Individuality, Neostriatum, Functional Laterality, Humans, Motivation, Receptors: Dopamine D3, Dopamine Plasma Membrane Transport Proteins, Middle Aged, Synaptic Transmission, Dopamine Antagonists, Raclopride, Male, Receptors: Dopamine D2, Female, Dopamine, Parkinson Disease, Aged},
date-added = {2010-04-07 11:22:30 +0200},
date-modified = {2010-04-07 11:22:30 +0200},
doi = {10.1016/j.biopsycho.2007.08.001},
pii = {S0301-0511(07)00125-1},
pmid = {17868972},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T4T-4PF1WKH-1&_user=2432700&_coverDate=01%252F31%252F2008&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=772e07a54bc39980cdc8d7aadfb351ad},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tomer-2008-Biol%20Psychol_Incentive%20motivation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10524},
rating = {0}
}
@article{Ginkel:2007,
author = {Joost R van Ginkel and L Andries van der Ark and Klaas Sijtsma and Jeroen K Vermunt},
journal = {Computational Statistics},
title = {Two-way imputation: A bayesian method for estimating missing scores in tests and questionnaires, and an accurate approximation},
pages = {4013--4027},
volume = {51},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ginkel-2007-Computational%20Statistics_Two-way%20imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1856},
rating = {0}
}
@article{Eiser:2001p8499,
author = {C Eiser and R Morse},
journal = {Health Technol Assess},
title = {Quality-of-life measures in chronic diseases of childhood},
abstract = {SCOPE OF THE REPORT: This report is concerned with the evaluation of measures broadly designed to measure quality of life (QoL) in children and adolescents, either by self-report or proxy raters. Four research questions were identified: (1) To what extent are adult measures used in the evaluation of healthcare interventions in children? (2) How appropriate are adult measures for use with children? (3) To what extent do child self-reports correspond with assessments made by parents and carers? (4) How feasible and reliable are proxy measures of QoL in different disease contexts? OBJECTIVES: (1) To review the state of the art with regard to measurement of QoL for children. (2) To make recommendations regarding the value of currently available measures for different purposes. (3) To identify further research needs. METHOD: Electronic databases were searched for the period 1980-July 1999 for articles relating to measures of QoL, health status or well-being in children (under 18 years) with chronic disease. Handsearching of relevant journals and cross-referencing with reference lists in identified articles was also carried out. Key workers in the field were contacted for additional information, and the Internet was searched for relevant websites. RESULTS: Forty-three measures were identified (19 generic and 24 disease-specific). Sixteen measures allowed for completion by children and parent/caregiver; seven only allowed for completion by a proxy, and the remainder (n = 17) allowed only for child completion. The measures were described as QoL (n = 30), health status, (n = 2), perception of illness (n = 1), life satisfaction (n = 1) and quality of well-being (n = 1). RESULTS - TO WHAT EXTENT ARE ADULT MEASURES USED IN THE EVALUATION OF HEALTHCARE INTERVENTIONS IN CHILDREN?: Three studies were identified where adult measures were used with very few changes made for children. In 11 studies involving nine separate measures of QoL, adult measures were used as a model for work with children. RESULTS - HOW APPROPRIATE ARE ADULT MEASURES FOR USE WITH CHILDREN?: Adult measures may fail to tap the specific aspects of QoL that are important to the child. Measures based on adult work impose considerable response burden for children, in terms of length, reading skills and response scale. Wording and format of adult measures may need to be modified to account for children's cognitive and language skills. More basic research is needed to determine the level of response burden that children of different ages can manage. Assessments of difficulty (e.g. reading age) need to be routinely included with information about new measures. RESULTS - TO WHAT EXTENT DO CHILD SELF-REPORTS CORRESPOND WITH ASSESSMENTS MADE BY PARENTS AND CARERS?: Fourteen studies were identified in which concor-dance between child and parent was investigated, often as part of the development of a new measure. There was some evidence for greater concordance between child and parent for physical functioning compared with social and emotional domains, but greater heterogeneity in the latter measures may contribute to inconsistent results. There was no simple relationship between concordance and moderating variables such as age, gender and illness, but this conclusion was addressed only very rarely. RESULTS - HOW FEASIBLE AND RELIABLE ARE PROXY MEASURES OF QOL IN DIFFERENT DISEASE CONTEXTS?: Only five papers fulfilled the review criteria. Evaluation is difficult because authors fail to justify their choice of measures, and do not report critical information such as completion rates or missing data. Use of existing measures can potentially eliminate the time and expense required to develop a comprehensive measure of QoL, but a full battery of standardised tests may be expensive in terms of time for administration and scoring. In addition, battery measures tend to be lengthy and therefore demanding for sick patients. They are not recommended for work with children. RECOMMENDATIONS FOR RESEARCH - MINIMUM CRITERIA FOR NEW MEASURES: A set of procedures needs to be established for the development of new measures. These need to draw on the experience gained in development of child and adult measures to date. Basic research to enhance understanding of how children interpret questions in QoL measures is recommended. We need to understand the differences in meaning of items between children and adults, and between children of different ages. Some attempt to develop measures for children of 6 years or more have been reported, and these should be further developed. (ABSTRACT TRUNCATED)},
affiliation = {Department of Pyschology, University of Sheffield, UK.},
number = {4},
pages = {1--157},
volume = {5},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Self Assessment (Psychology), Quality of Life, Adolescent, Female, Chronic Disease, Child: Preschool, Male, Health Status Indicators, Health Services Research, Child, Disabled Children, Humans, Great Britain},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-07-29 19:28:35 +0200},
pmid = {11262421},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8499},
rating = {0}
}
@article{Velez:2010p7654,
author = {Lady Velez and Greta Sokoloff and Klaus A Miczek and Abraham A Palmer and Stephanie C Dulawa},
journal = {Behav Genet},
title = {Differences in aggressive behavior and DNA copy number variants between BALB/cJ and BALB/cByJ substrains},
abstract = {Some BALB/c substrains exhibit different levels of aggression. We compared aggression levels between male BALB/cJ and BALB/cByJ substrains using the resident intruder paradigm. These substrains were also assessed in other tests of emotionality and information processing including the open field, forced swim, fear conditioning, and prepulse inhibition tests. We also evaluated single nucleotide polymorphisms (SNPs) previously reported between these BALB/c substrains. Finally, we compared BALB/cJ and BALB/cByJ mice for genomic deletions or duplications, collectively termed copy number variants (CNVs), to identify candidate genes that might underlie the observed behavioral differences. BALB/cJ mice showed substantially higher aggression levels than BALB/cByJ mice; however, only minor differences in other behaviors were observed. None of the previously reported SNPs were verified. Eleven CNV regions were identified between the two BALB/c substrains. Our findings identify a robust difference in aggressive behavior between BALB/cJ and BALB/cByJ substrains, which could be the result of the identified CNVs.},
affiliation = {Department of Psychiatry and Behavioral Neuroscience, University of Chicago, 924 East 57th Street, Room R018, MC 3077, Chicago, IL, 60637, USA.},
number = {2},
pages = {201--10},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:24:23 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9325-5},
pmid = {20033273},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Velez-2010-Behav%20Genet_Differences%20in%20aggre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7654},
rating = {0}
}
@article{Schmier:1998p8811,
author = {J K Schmier and K S Chan and N K Leidy},
journal = {J Asthma},
title = {The impact of asthma on health-related quality of life},
abstract = {Although a substantial body of epidemiological and economic literature on asthma exists, relatively little is known about the impact of asthma on health-related quality of life (HRQL). The purpose of this review was to synthesize results from recent studies, profile the factors influencing HRQL in asthmatics, discuss the impact of treatment on HRQL outcomes, and offer recommendations for further research. The results of this review support the premise that asthma can adversely affect the physical, psychological, and social domains of HRQL. Published data suggest that females, those from lower socioeconomic groups, and ethnic minorities experience poorer quality of life as a result of their asthma symptoms. Results of published clinical trials indicate treatment regimens can have a significant impact on HRQL outcomes. Pharmacological interventions appear to effect change primarily in the physical domain and behavioral interventions lead to improvements in both physical and psychosocial domains. Future research should focus on precise a priori delineation of research hypotheses, including the selection of primary and secondary endpoints, the clarification and consistent application of criteria for defining asthma severity, thoughtful selection of HRQL instruments appropriate for the research hypotheses and target population, and careful delineation of clinically meaningful change scores of asthma-specific outcome measures.},
affiliation = {Center for Health Outcomes Research, MEDTAP International Inc., Bethesda, Maryland 20814, USA. schmier@medtap.com},
number = {7},
pages = {585--97},
volume = {35},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Humans, Health Status, Asthma, Sickness Impact Profile},
date-added = {2010-03-22 12:11:34 +0100},
date-modified = {2010-03-22 12:11:35 +0100},
pmid = {9777885},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8811},
rating = {0}
}
@article{Suykens:2010p14293,
author = {J A K Suykens and C Alzate and K Pelckmans},
journal = {Statistics Surveys},
title = {Primal and dual model representations in kernel-based learning},
abstract = {This paper discusses the role of primal and (Lagrange) dual model representations in problems of supervised and unsupervised learning. The specification of the estimation problem is conceived at the primal level as a constrained optimization problem. The constraints relate to the model which is expressed in terms of the feature map. From the conditions for optimality one jointly finds the optimal model representation and the model estimate. At the dual level the model is expressed in terms of a positive definite kernel function, which is characteristic for a support vector machine methodology. It is discussed how least squares support vector machines are playing a central role as core models across problems of regression, classification, principal component analysis, spectral clustering, canonical correlation analysis, dimensionality reduction and data visualization.},
pages = {148--183},
volume = {4},
year = {2010},
date-added = {2010-08-24 14:08:53 +0200},
date-modified = {2010-08-24 14:11:11 +0200},
doi = {10.1214/09-SS052},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Suykens-2010-Statistics%20Surveys_Primal%20and%20dual%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14293},
rating = {0}
}
@article{Chao:2009p11826,
author = {Herta H A Chao and Xi Luo and Jeremy L K Chang and Chiang-Shan R Li},
journal = {BMC Neurosci},
title = {Activation of the pre-supplementary motor area but not inferior prefrontal cortex in association with short stop signal reaction time--an intra-subject analysis},
abstract = {BACKGROUND: Our previous work described the neural processes of motor response inhibition during a stop signal task (SST). Employing the race model, we computed the stop signal reaction time (SSRT) to index individuals' ability in inhibitory control. The pre-supplementary motor area (preSMA), which shows greater activity in individuals with short as compared to those with long SSRT, plays a role in mediating response inhibition. In contrast, the right inferior prefrontal cortex (rIFC) showed greater activity during stop success as compared to stop error. Here we further pursued this functional differentiation of preSMA and rIFC on the basis of an intra-subject approach. RESULTS: Of 65 subjects who participated in four sessions of the SST, we identified 30 individuals who showed a difference in SSRT but were identical in other aspects of stop signal performance between the first ("early") and last two ("late") sessions. By comparing regional brain activation between the two sessions, we confirmed greater preSMA but not rIFC activity during short as compared to long SSRT session within individuals. Furthermore, putamen, anterior cerebellum and middle/posterior cingulate cortex also showed greater activity in association with short SSRT. CONCLUSION: These results are consistent with a role of medial prefrontal cortex in controlled action and inferior frontal cortex in orienting attention. We discussed these findings with respect to the process of attentional monitoring and inhibitory motor control during stop signal inhibition.},
affiliation = {Department of Psychiatry, Yale University School of Medicine, New Haven, CT 06519, USA. herta.chao@yale.edu},
pages = {75},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Magnetic Resonance Imaging, Adult, Neuropsychological Tests, Female, Motor Cortex, Prefrontal Cortex, Reaction Time, Middle Aged, Humans, Male},
date-added = {2010-05-23 10:46:56 +0200},
date-modified = {2010-05-23 10:46:57 +0200},
doi = {10.1186/1471-2202-10-75},
pii = {1471-2202-10-75},
pmid = {19602259},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chao-2009-BMC%20Neurosci_Activation%20of%20the%20pr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11826},
rating = {0}
}
@article{Hays:2000,
author = {R D Hays and L S Morales and S P Reise},
journal = {Med Care},
title = {Item response theory and health outcomes measurement in the 21st century.},
abstract = {Item response theory (IRT) has a number of potential advantages over classical test theory in assessing self-reported health outcomes. IRT models yield invariant item and latent trait estimates (within a linear transformation), standard errors conditional on trait level, and trait estimates anchored to item content. IRT also facilitates evaluation of differential item functioning, inclusion of items with different response formats in the same scale, and assessment of person fit and is ideally suited for implementing computer adaptive testing. Finally, IRT methods can be helpful in developing better health outcome measures and in assessing change over time. These issues are reviewed, along with a discussion of some of the methodological and practical challenges in applying IRT methods.},
affiliation = {UCLA, School of Medicine, Los Angeles, California, USA. hays\char64rand.org},
number = {9 Suppl},
pages = {II28--42},
volume = {38},
year = {2000},
month = {Sep},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
pmid = {10982088},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hays-2000-Med%20Care_Item%20response%20theory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1181},
read = {Yes},
rating = {0}
}
@misc{Hedeker:2000,
author = {D Hedeker and R J Mermelstein and B R Flay},
journal = {Miscellaneous},
title = {Application of item response theory models for longitudinal data},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hedeker-2000-Miscellaneous_Application%20of%20item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2171},
rating = {0}
}
@article{Fitzpatrick:2004p5881,
author = {R Fitzpatrick and J M Norquist and C Jenkinson and B C Reeves and R W Morris and D W Murray and P J Gregg},
journal = {Qual Life Res},
title = {A comparison of Rasch with Likert scoring to discriminate between patients' evaluations of total hip replacement surgery},
abstract = {The purpose of this study was to examine whether there are advantages in terms of outcome assessment of using Rasch methods of scoring the 12-item Oxford Hip Score (OHS) questionnaire over conventionally Likert scores. As part of a prospective cohort study of total hip replacements in five former regions of England the OHS was sent to patients pre-operatively, at 3 months and 1 year post-operatively. Post-operative data was collected on over 5000 cases. Based on the level of satisfaction with surgery, patients were divided into satisfied and dissatisfied. Analyses were performed to test the relative precision (RP) of Rasch scoring vs. conventionally Likert scores in discriminating the groups experiencing different level of satisfaction. Considerable gains in precision were achieved with Rasch scoring methods when groups were compared 3 and 12 months post-operatively. The results from the current study suggest that in some situations there may be substantial gains in measuring health related outcomes using Rasch-based scoring methods.},
affiliation = {Department of Public Health, Institute of Health Sciences, University of Oxford, Headington, Oxford, UK. raymond.fitzpatrick@nuffield.oxford.ac.uk},
number = {2},
pages = {331--8},
volume = {13},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Quality of Life, Activities of Daily Living, Patient Satisfaction, Outcome Assessment (Health Care), Arthroplasty: Replacement: Hip, England, Follow-Up Studies, Pain Measurement, Humans, Prospective Studies, Questionnaires, Psychometrics},
date-added = {2010-02-17 15:07:15 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
pmid = {15085905},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fitzpatrick-2004-Qual%20Life%20Res_A%20comparison%20of%20Rasc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5881},
rating = {4}
}
@article{Symington:2002p7326,
author = {Amanda Symington and Janet M Pinelli},
journal = {Adv Neonatal Care},
title = {Distilling the evidence on developmental care: a systematic review},
abstract = {PURPOSE: To determine whether developmental care interventions reduce neurodevelopmental delay, poor weight gain, length of hospital stay, length of mechanical ventilation, physiologic stress, and other clinically relevant adverse outcomes in preterm infants. SUBJECTS: Infants born at less than 37 weeks postconceptional age. This review consisted of 31 studies in 4 categories of developmental care interventions, 19 subgroups, and multiple clinical outcomes. The total sample sizes in the individual studies ranged from 16 to 259; the sample size in 18 of the studies was less than 50. DESIGN AND METHODS: A systematic review, based on the Cochrane Collaboration format, of all randomized trials in which elements of developmental care are compared with routine nursery care and that measured clinically relevant outcomes. Searches were made of MEDLINE from 1966 to July 2000. Additional databases were also searched electronically. Reference lists and bibliographies of relevant articles were hand-searched. Experts in the field were contracted. If more than one study in an outcome category existed, a meta-analysis was conducted. PRIMARY OUTCOME MEASURES: Outcome measures included the following: length of hospital stay, weight at discharge, neurodevelopment, physiologic parameters, feeding growth, sleep/wake states, age at discharge, neonatal outcomes, cost of hospital stay, and death. PRINCIPAL RESULTS: Developmental care interventions showed some benefit to preterm infants with respect to improved short-term growth outcomes, decreased respiratory support, decreased incidence of moderate to severe chronic lung disease, decreased length and cost of hospital stay, and improved neurodevelopmental outcomes to 24 months corrected age. These findings were based on 2 or 3 small trials for each outcome. Although a number of other benefits were shown, those results were from single studies with small sample sizes. The lack of blinding of the assessors of the outcome variables was a significant methodological flaw in half of the studies. The costs of the interventions and personnel were not considered in any of the studies. CONCLUSIONS: In most studies, the inclusion of multiple interventions made the determination of the effect of any single intervention difficult. Although there is evidence of some benefit of developmental care interventions overall and no major harmful effects reported, there were a large number of outcomes for which no or conflicting effects were shown. The single trials that did show a significant effect of an intervention on a major clinical outcome were based on small sample sizes, and the findings often were not supported in other small trials. Before a clear direction for practice can be supported, evidence showing more consistent effects of developmental care interventions on important short- and long-term clinical outcomes is needed. The economic impact of the implementation and maintenance of developmental care practices should be considered by individual institutions.},
affiliation = {Children's Hospital, Hamilton Health Sciences Corporation, 4A Neo, 1200 Main St West, Hamilton, ON, Canada L8N 3Z5. symington@hhsc.ca},
number = {4},
pages = {198--221},
volume = {2},
year = {2002},
month = {Aug},
language = {eng},
keywords = {Neonatal Nursing, Nursing Assessment, Male, Infant: Very Low Birth Weight, Infant: Newborn, Follow-Up Studies, Nurse-Patient Relations, Developmental Disabilities, Nurse's Role, Sensitivity and Specificity, Total Quality Management, Needs Assessment, Length of Stay, Infant: Premature, Female, Intensive Care Units: Neonatal, Humans, Infant Care, Birth Weight, Child Development},
date-added = {2010-03-10 20:21:54 +0100},
date-modified = {2010-03-10 20:21:54 +0100},
pmid = {12881934},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7326},
rating = {0}
}
@article{Giannakopoulos:2009p8348,
author = {George Giannakopoulos and Christine Dimitrakaki and Xanthi Pedeli and Gerasimos Kolaitis and Vasiliki Rotsika and Ulricke Ravens-Sieberer and Yannis Tountas},
journal = {Health Qual Life Outcomes},
title = {Adolescents' wellbeing and functioning: relationships with parents' subjective general physical and mental health},
abstract = {BACKGROUND: This study aimed at examining the relationship between parental subjective health status and adolescents' health-related quality of life (HRQoL) as well as the role of gender, socioeconomic status, presence of chronic health care needs and social support on the above interaction. METHODS: Questionnaires were administered to a Greek nation-wide random sample of adolescents (N = 1,194) aged 11-18 years and their parents (N = 973) in 2003. Adolescents' and parents' status was assessed, together with reports of socio-economic status and level of social support. Various statistical tests were used to determine the extent to which these variables were related to each other. RESULTS AND DISCUSSION: Parental subjective mental health status was significantly correlated with adolescents' better physical and psychological wellbeing, moods and emotions, parent-child relationships, school environment and financial resources. Parental subjective physical health status was strongly associated with more positive adolescents' self-perception. Adolescents' male gender, younger age, absence of chronic health care needs, high social support, and higher family income were positively associated with better HRQoL. CONCLUSIONS: This study reinforces the importance of parental subjective health status, along with other variables, as a significant factor for the adolescents' HRQoL.},
affiliation = {Centre for Health Services Research, Department of Hygiene and Epidemiology, University of Athens Medical School, 25 Alexandroupoleos Street, 11527 Athens, Greece.},
pages = {100},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Adolescent Psychology, Male, Quality of Life, Qualitative Research, Social Environment, Chronic Disease, Female, Social Support, Health Status, Parents, Humans, Child, Adolescent, Greece, Questionnaires, Mental Health, Social Class, Multivariate Analysis},
date-added = {2010-03-21 12:50:39 +0100},
date-modified = {2010-03-21 12:50:52 +0100},
doi = {10.1186/1477-7525-7-100},
pii = {1477-7525-7-100},
pmid = {20003508},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Giannakopoulos-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Adolescents'%20wellbei.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8348},
rating = {4}
}
@article{Dragomir:2009p11807,
author = {Alice Dragomir and Robert C{\^o}t{\'e} and Michel White and Lyne Lalonde and Lucie Blais and Anick B{\'e}rard and Sylvie Perreault},
journal = {Value Health},
title = {Relationship between Adherence Level to Statins, Clinical Issues and Health-Care Costs in Real-Life Clinical Setting},
abstract = {ABSTRACT Objective: Statins have been shown to reduce the risk of major cardiovascular disease. We recognize that there is a major gap between the use of statins in actual practice and treatment guidelines for dyslipidemia. Low adherence to statins may have a significant impact on clinical issues and health-care costs. The objective is to evaluate the impact of low adherence to statins on clinical issues and direct health-care costs. Methods: A cohort of 55,134 patients newly treated with statins was reconstructed from the R{\'e}gie de l'Assurance Maladie du Qu{\'e}bec and Med-Echo databases. Subjects included were aged between 45 and 85, initially free of cardiovascular disease, newly treated with statins between 1999 and 2002, and followed-up for a minimum of 3 years. Adherence to statins was measured in terms of the proportion of days' supply of medication dispensed over a defined period, and categorized as >/=80% or <80%. The adjusted odds ratio (OR) of cardiovascular events between the two adherence groups was estimated using a polytomous logistic analysis. The mean costs of direct health-care services were evaluated. A two-part model was applied for hospitalization costs. Results: The mean high adherence level to statins was around to 96% during follow-up; and this value was at 42% for the low adherence level. The patients with low adherence to statins were more likely to have coronary artery disease (OR 1.07; 95% confidence interval [CI], 1.01-1.13), cerebrovascular disease (OR 1.13; 95% CI 1.03-1.25), and chronic heart failure within 3-year period of follow-up (OR 1.13; 95% CI 1.01-1.26). Low adherence to statins was also associated with an increased risk of hospitalization by 4% (OR 1.04; 95% CI 1.01-1.09). Among patients who were hospitalized, low adherence to statins was significantly associated with increase of hospitalization costs by approximately {\$}1060/patient for a 3-year period. Conclusion: Low adherence to statins was correlated with a higher risk of cardiovascular disease, hospitalization rate, and hospitalization costs. An increased level of adherence to statins agents should provide a better health status for individuals and a net economic gain.},
affiliation = {Faculty of Pharmacy, University of Montreal, Montreal, Quebec, Canada.},
pages = {},
year = {2009},
month = {Aug},
language = {ENG},
date-added = {2010-05-23 10:43:08 +0200},
date-modified = {2010-05-23 10:43:08 +0200},
doi = {10.1111/j.1524-4733.2009.00583.x},
pii = {VHE583},
pmid = {19695008},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dragomir-2009-Value%20Health_Relationship%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11807},
rating = {0}
}
@article{DAngiulli:2009p7011,
author = {Amedeo D'Angiulli and William Warburton and Susan Dahinten and Clyde Hertzman},
journal = {PLoS ONE},
title = {Population-level associations between preschool vulnerability and grade-four basic skills},
abstract = {BACKGROUND: This is a predictive validity study examining the extent to which developmental vulnerability at kindergarten entry (as measured by the Early Development Instrument, EDI) is associated with children's basic skills in 4th grade (as measured by the Foundation Skills Assessment, FSA). METHODOLOGY/PRINCIPAL FINDINGS: Relative risk analysis was performed on a large database linking individual-level EDI ratings to the scores the same children obtained on a provincial assessment of academic skills (FSA--Foundation Skills Assessment) four years later. We found that early vulnerability in kindergarten is associated with the basic skills that underlie populations of children's academic achievement in reading, writing and math, indicating that the Early Development Instrument permits to predict achievement-related skills four years in advance. CONCLUSIONS/SIGNIFICANCE: The EDI can be used to predict children's educational trends at the population level and can help select early prevention and intervention programs targeting pre-school populations at minimum cost.},
affiliation = {Institute of Interdisciplinary Studies, Carleton University, Ottawa, Canada. amedeo@connect.carleton.ca},
number = {11},
pages = {e7692},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-06 19:46:51 +0100},
date-modified = {2010-03-06 19:46:51 +0100},
doi = {10.1371/journal.pone.0007692},
pmid = {19946366},
local-url = {file://localhost/Users/chl/Dropbox/Papers/D'Angiulli-2009-PLoS%20ONE_Population-level%20ass.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7011},
rating = {0}
}
@article{Brock:2008p12026,
author = {G Brock and V Pihur and S Datta and S Datta},
journal = {Journal of Statistical Software},
title = {clValid: An R Package for Cluster Validation},
abstract = {The R package clValid contains functions for validating the results of a clustering analysis. There are three main types of cluster validation measures available, ``inter- nal'', ``stability'', and ``biological''. The user can choose from nine clustering algorithms in existing R packages, including hierarchical, K-means, self-organizing maps (SOM), and model-based clustering. In addition, we provide a function to perform the self-organizing tree algorithm (SOTA) method of clustering. Any combination of validation measures and clustering methods can be requested in a single function call. This allows the user to si- multaneously evaluate several clustering algorithms while varying the number of clusters, to help determine the most appropriate method and number of clusters for the dataset of interest. Additionally, the package can automatically make use of the biological informa- tion contained in the Gene Ontology (GO) database to calculate the biological validation measures, via the annotation packages available in Bioconductor. The function returns an object of S4 class ``clValid'', which has summary, plot, print, and additional methods which allow the user to display the optimal validation scores and extract clustering results.},
number = {4},
volume = {25},
year = {2008},
date-added = {2010-05-24 10:17:32 +0200},
date-modified = {2010-05-24 10:18:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brock-2008-Journal%20of%20Statistical%20Software_clValid%20An%20R%20Packag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12026},
rating = {5}
}
@article{Saunders:1993,
author = {PA Saunders and JRM Copeland and ME Dewey and C Gilmore and BA Larkin and H Phaterpekar and A Scott},
journal = {Int J Epidemiol},
title = {The prevalence of dementia, depression and neurosis in later life: The Liverpool MRC-ALPHA study},
abstract = {Prevalence rates for psychiatric disorders in the elderly are presented from the initial cross-sectional stage of a longitudinal community study of the incidence of dementia in the city of Liverpool. Together with five other centres in the UK the MRC-ALPHA project forms part of the MRC multicentre incidence study of dementia and cognitive decline. An age- and sex-stratified random sample of 5222 subjects aged 65 was interviewed at home using the Geriatric Mental State-AGECAT package to provide computer diagnoses. The overall age-standardized prevalence rates for organic disorder (4.7%) depressive illness (10.0%) and the neuroses (2.5%) are consistent with levels found in previous smaller studies that have used MS-AGECAT. Each of these diagnoses is more common in females than males. A rise in organic disorder with age is confirmed as continuing into the oldest age groups for both sexes. An apparent decline with age observed for depression and neurosis diagnoses disappears when organic cases are excluded from the analysis.},
number = {5},
pages = {838--847},
volume = {22},
year = {1993},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1099},
rating = {0}
}
@article{Bauer:2004p13728,
author = {Daniel J Bauer and Patrick J Curran},
journal = {Psychological Methods},
title = {The integration of continuous and discrete latent variable models: potential problems and promising opportunities},
abstract = {Structural equation mixture modeling (SEMM) integrates continuous and discrete latent variable models. Drawing on prior research on the relationships between continuous and discrete latent variable models, the authors identify 3 conditions that may lead to the estimation of spurious latent classes in SEMM: misspecification of the structural model, nonnormal continuous measures, and nonlinear relationships among observed and/or latent variables. When the objective of a SEMM analysis is the identification of latent classes, these conditions should be considered as alternative hypotheses and results should be interpreted cautiously. However, armed with greater knowledge about the estimation of SEMMs in practice, researchers can exploit the flexibility of the model to gain a fuller understanding of the phenomenon under study.},
affiliation = {Department of Psychology, North Carolina State University, Raleigh, NC 27695-7801, USA. dan_bauer@ncsu.edu},
number = {1},
pages = {3--29},
volume = {9},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Psychology, Models: Psychological, Factor Analysis: Statistical, Humans},
date-added = {2010-07-24 11:23:01 +0200},
date-modified = {2010-07-24 11:23:09 +0200},
doi = {10.1037/1082-989X.9.1.3},
pii = {2004-12158-001},
pmid = {15053717},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bauer-2004-Psychological%20Methods_The%20integration%20of%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13728},
rating = {4}
}
@article{Buckby:2008p4875,
author = {Joe A Buckby and Sue M Cotton and Elizabeth M Cosgrave and Eoin J Killackey and Alison R Yung},
journal = {BMC Psychiatry},
title = {A factor analytic investigation of the Tripartite model of affect in a clinical sample of young Australians},
abstract = {BACKGROUND: The Mood and Anxiety Symptom Questionnaire (MASQ) was designed to specifically measure the Tripartite model of affect and is proposed to offer a delineation between the core components of anxiety and depression. Factor analytic data from adult clinical samples has shown mixed results; however no studies employing confirmatory factor analysis (CFA) have supported the predicted structure of distinct Depression, Anxiety and General Distress factors. The Tripartite model has not been validated in a clinical sample of older adolescents and young adults. The aim of the present study was to examine the validity of the Tripartite model using scale-level data from the MASQ and correlational and confirmatory factor analysis techniques. METHODS: 137 young people (M = 17.78, SD = 2.63) referred to a specialist mental health service for adolescents and young adults completed the MASQ and diagnostic interview. RESULTS: All MASQ scales were highly inter-correlated, with the lowest correlation between the depression- and anxiety-specific scales (r = .59). This pattern of correlations was observed for all participants rating for an Axis-I disorder but not for participants without a current disorder (r = .18). Confirmatory factor analyses were conducted to evaluate the model fit of a number of solutions. The predicted Tripartite structure was not supported. A 2-factor model demonstrated superior model fit and parsimony compared to 1- or 3-factor models. These broad factors represented Depression and Anxiety and were highly correlated (r = .88). CONCLUSION: The present data lend support to the notion that the Tripartite model does not adequately explain the relationship between anxiety and depression in all clinical populations. Indeed, in the present study this model was found to be inappropriate for a help-seeking community sample of older adolescents and young adults.},
affiliation = {ORYGEN Youth Health Research Centre, Melbourne, Australia. jbuckby@unimelb.edu.au},
pages = {79},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Female, Reproducibility of Results, Adolescent, Anxiety Disorders, Humans, Factor Analysis: Statistical, Young Adult, Affect, Depressive Disorder: Major, Male},
date-added = {2010-02-01 20:30:54 +0100},
date-modified = {2010-02-01 20:30:54 +0100},
doi = {10.1186/1471-244X-8-79},
pii = {1471-244X-8-79},
pmid = {18799017},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4875},
rating = {0}
}
@article{Borsboom:2008p5508,
author = {D Borsboom and A Z Scholten},
journal = {Theory Psychology},
title = {The Rasch Model and Conjoint Measurement Theory from the Perspective of Psychometrics},
abstract = {Kyngdon argues that psychometricians have erroneously claimed the Rasch model to be an instance of representational measurement, because the Rasch model does not map a bona fide empirical relational system (ERS) into a numerical relational system (NRS). While we agree that one does not automatically achieve a conjoint measurement representation upon fitting a Rasch model, we do not agree that the Rasch model could not in principle yield such a representation. In our view, whether this is possible depends on what one is prepared to accept as an empirical relational system. This is a philosophical question that extends beyond the scope of the formal struc- tures advanced in representationalism and psychometrics; a question, more- over, that is not currently settled. We examine some of the ways in which one may react to this question, and conclude that Kyngdon's argument depends on a specific, and perhaps too strong, interpretation of representa- tionalism and psychometric models.},
number = {1},
pages = {111--117},
volume = {18},
year = {2008},
date-added = {2010-02-12 14:56:09 +0100},
date-modified = {2010-02-12 14:57:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2008-Theory%20Psychology_The%20Rasch%20Model%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5508},
rating = {0}
}
@article{Page:2010p3633,
author = {E B Page},
title = {Statistical and linguistic strategies in the computer grading of essays},
date-added = {2010-01-16 19:20:21 +0100},
date-modified = {2010-01-16 19:20:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Page--_Statistical%20and%20ling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3633},
rating = {0}
}
@inbook{McKay:1996,
author = {RB McKay and MJ Breslow and RL Sangster and SM Gabbard and RW Reynolds and JM Nakamoto},
journal = {Book},
title = {Advances in survey research},
chapter = {Translating survey questionnaires: Lessons learned},
pages = {93--104},
year = {1996},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1000},
rating = {0}
}
@article{Lesch:2005p9138,
author = {Klaus-Peter Lesch},
journal = {Eur J Pharmacol},
title = {Alcohol dependence and gene x environment interaction in emotion regulation: Is serotonin the link?},
abstract = {Alcohol dependence is characterized by frequent, compulsive and uncontrolled consumption of alcohol associated with behavior of maladaption and destruction. It is an etiologically and clinically heterogeneous syndrome, moderately to highly heritable, and caused by interaction of genes and environment. Alcohol dependence is related to other psychiatric diseases by common neurobiological pathways, including those that modulate reward, behavioral control as well as anxiety and stress response. Alcohol induces adaptive changes in brain function providing the basis for tolerance, craving, withdrawal, and emotional disturbance. The differentiation of psychobiological traits of addictive behavior reflecting neurobiological processes is therefore of particular importance for the dissection of the complex genetic susceptibility to alcohol dependence. A central serotonin (5-HT) deficit is thought to be involved in the pathogenesis of alcohol dependence by modulating motivational behavior, neuroadaptive processes, and resulting emotional disturbance. 5-HT-related impulsive, aggressive, and suicidal behavior has been linked to a primordial personality that is susceptible to alcohol dependence. Although variations in many of the genes that encode receptors, enzymes, and transporters of the 5-HT system have been tested as risk factors for alcohol dependence, genetic analyses of 5-HT signaling in alcohol dependence have mainly been focused on the 5-HT transporter (5-HTT) gene. Due to its central role in the fine-tuning serotonergic neurotransmission, a regulatory variant of the 5-HTT, which is associated with anxiety related traits, is not only a key player in the neurobiological mechanism of gene x environment interaction in the etiology of depression, but also contributes to the risk to develop alcohol dependence with antisocial behavior and suicidality. Evidence for a modulatory effect of allelic variation of 5-HTT function on limbic circuit responses to emotional stimuli suggests that genotype-endophenotype correlations may be accessible to molecular functional imaging of the brain. These new developments have broad implications for our understanding how genetic vulnerability to alcohol dependence is manifested in the brain's response to emotional stimuli.},
affiliation = {Department of Psychiatry and Psychotherapy, University of W{\"u}rzburg, F{\"u}chsleinstr. 15, Germany. kplesch@mail.uni-wuerzburg.de},
number = {1-3},
pages = {113--24},
volume = {526},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Humans, Emotions, Models: Psychological, Models: Neurological, Stress: Psychological, Genetic Variation, Serotonin Plasma Membrane Transport Proteins, Serotonin, Risk, Animals, Alcoholism},
date-added = {2010-03-22 13:30:18 +0100},
date-modified = {2010-03-22 13:30:18 +0100},
doi = {10.1016/j.ejphar.2005.09.027},
pii = {S0014-2999(05)00972-6},
pmid = {16288736},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lesch-2005-Eur%20J%20Pharmacol_Alcohol%20dependence%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9138},
rating = {0}
}
@article{Hamre:2010p13427,
author = {Harald J Hamre and Claudia M Witt and Anja Glockmann and Renatus Ziegler and Gunver S Kienle and Stefan N Willich and Helmut Kiene},
journal = {Eur J Health Econ},
title = {Health costs in patients treated for depression, in patients with depressive symptoms treated for another chronic disorder, and in non-depressed patients: a two-year prospective cohort study in anthroposophic outpatient settings},
abstract = {We studied costs of healthcare and productivity loss in 487 German outpatients starting anthroposophic treatment: Group 1 was treated for depression, Group 2 had depressive symptoms but were treated for another chronic disorder, while Group 3 did not have depressive symptoms. Costs were adjusted for socio-demographics, comorbidity, and baseline health status. Total costs in groups 1-3 averaged euro7,129, euro4,371, and euro3,532 in the pre-study year (P = 0.008); euro6,029, euro3,522, and euro3,353 in the first year (P = 0.083); and euro4,929, euro3,792, and euro4,031 in the second year (P = 0.460). In the 2nd year, costs were significantly reduced in Group 1. This study underlines the importance of depression for health costs, and suggests that treatment of depression could be associated with long-term cost reductions.},
affiliation = {Institute for Applied Epistemology and Medical Methodology, Zechenweg 6, 79111 Freiburg, Germany. harald.hamre@ifaemm.de},
number = {1},
pages = {77--94},
volume = {11},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-07-01 19:37:33 +0200},
date-modified = {2010-07-01 19:37:33 +0200},
doi = {10.1007/s10198-009-0203-0},
pmid = {19911209},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamre-2010-Eur%20J%20Health%20Econ_Health%20costs%20in%20pati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13427},
rating = {0}
}
@article{Muthen:2006p13759,
author = {Bengt Muthen and Tihomir Asparouhov},
journal = {Addict Behav},
title = {Item response mixture modeling: application to tobacco dependence criteria},
abstract = {This paper illustrates new hybrid latent variable models that are promising for phenotypical analyses. The hybrid models combine features of dimensional and categorical analyses seen in the conventional techniques of factor analysis and latent class analysis. The paper focuses on the analysis of categorical items, which presents especially challenging analyses with hybrid models and has recently been made practical in the Mplus program. The hybrid models are typically seen to fit data better than conventional models of factor analysis (IRT) and latent class analysis. An illustration is given in the form of analysis of tobacco dependence in a general population survey.},
affiliation = {UCLA, United States. bmuthen@ucla.edu},
number = {6},
pages = {1050--66},
volume = {31},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Psychometrics, Humans, Alcoholism, Aged, Phenotype, Tobacco Use Disorder, Adolescent, Diagnostic and Statistical Manual of Mental Disorders, Adult, Factor Analysis: Statistical, Models: Statistical},
date-added = {2010-07-24 12:54:35 +0200},
date-modified = {2010-07-24 12:54:43 +0200},
doi = {10.1016/j.addbeh.2006.03.026},
pii = {S0306-4603(06)00096-7},
pmid = {16675147},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muthen-2006-Addictive%20Behaviors_Item%20response%20mixtur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13759},
read = {Yes},
rating = {5}
}
@article{Novembre:2008p915,
author = {John Novembre and Toby Johnson and Katarzyna Bryc and Zolt{\'a}n Kutalik and Adam R Boyko and Adam Auton and Amit Indap and Karen S King and Sven Bergmann and Matthew R Nelson and Matthew Stephens and Carlos D Bustamante},
journal = {Nature},
title = {Genes mirror geography within Europe},
abstract = {Understanding the genetic structure of human populations is of fundamental interest to medical, forensic and anthropological sciences. Advances in high-throughput genotyping technology have markedly improved our understanding of global patterns of human genetic variation and suggest the potential to use large samples to uncover variation among closely spaced populations. Here we characterize genetic variation in a sample of 3,000 European individuals genotyped at over half a million variable DNA sites in the human genome. Despite low average levels of genetic differentiation among Europeans, we find a close correspondence between genetic and geographic distances; indeed, a geographical map of Europe arises naturally as an efficient two-dimensional summary of genetic variation in Europeans. The results emphasize that when mapping the genetic basis of a disease phenotype, spurious associations can arise if genetic structure is not properly accounted for. In addition, the results are relevant to the prospects of genetic ancestry testing; an individual's DNA can be used to infer their geographic origin with surprising accuracy-often to within a few hundred kilometres.},
affiliation = {Department of Ecology and Evolutionary Biology, Interdepartmental Program in Bioinformatics, University of California-Los Angeles, Los Angeles, California 90095, USA. jnovembre@ucla.edu},
number = {7218},
pages = {98--101},
volume = {456},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Phylogeny, Humans, Emigration and Immigration, Genetic Variation, Genotype, Europe, Sample Size, Genome: Human, Principal Component Analysis, Genome-Wide Association Study, Genetics: Population, Geography, Quantitative Trait: Heritable},
date-added = {2010-01-03 19:01:04 +0100},
date-modified = {2010-01-03 19:01:04 +0100},
doi = {10.1038/nature07331},
pii = {nature07331},
pmid = {18758442},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Novembre-2008-Nature_Genes%20mirror%20geograp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p915},
rating = {0}
}
@article{Hays:2009p11766,
author = {Ron D Hays and Seongeun Kim and Karen L Spritzer and Robert M Kaplan and Steve Tally and David Feeny and Honghu Liu and Dennis G Fryback},
journal = {Value Health},
title = {Effects of mode and order of administration on generic health-related quality of life scores},
abstract = {OBJECTIVE: We evaluate the effects of mode and order of administration on health-related quality of life (HRQOL) scores. METHOD: We analyzed HRQOL data from the Clinical Outcomes and Measurement of Health Study (COMHS). In COMHS, we enrolled patients with heart failure or cataracts at three sites (University of California, San Diego, University of California, Los Angeles, and University of Wisconsin). Patients completed self-administered HRQOL instruments at baseline and months 1 and 6 post-baseline, including the EuroQol (EQ-5D), Health Utilities Index (HUI), Quality of Well-Being Scale--self-administered (QWB-SA), and the Short Form (SF)-36v2. At the 6 months follow-up, individuals were randomized to mail or telephone administration first, followed by the other mode of administration. We used repeated measures mixed effects models, adjusting for site, patient age, education, gender, and race. RESULTS: Included were 121 individuals entering a heart failure program and 326 individuals scheduled for cataract surgery who completed the survey by mail or phone at the 6-month follow-up. The majority of the sample was female (53%) and white (86%). About a quarter of the sample had high school education or less (26%). The average age was 66 (36-91 range). HRQOL scores were higher (more positive) for phone administration following mail administration. The largest differences in scores between phone and mail responses occurred for comparisons of telephone responses for those who were randomized to a mail survey first compared with mail responses for those randomized to a telephone survey first (i.e., mode effects for responses that were given on the second administration of the HRQOL measures). The QWB-SA was the only measure that did not display the pattern of mode effects. The biggest differences between modes were 4 points on the SF-36v2 physical health and mental health component summary scores, 0.06 on the SF-6D, 0.03 on the QWB-SA, 0.08 on the EQ-5D, 0.04 on the HUI2, and 0.10 on the HUI3. CONCLUSIONS: Telephone administration yields significantly more positive HRQOL scores for all of the generic HRQOL measures except for the QWB-SA. The magnitude of effects was clearly important, with some differences as large as a half-standard deviation. These findings confirm the importance of considering mode of administration when interpreting HRQOL scores.},
affiliation = {UCLA Department of Medicine, UCLA, Los Angeles, CA 90095-1736, USA. drhays@ucla.edu},
number = {6},
pages = {1035--9},
volume = {12},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Wisconsin, Cataract, Telephone, Middle Aged, California, Quality of Life, Adult, Heart Failure, Postal Service, Aged: 80 and over, Interviews as Topic, Humans, Cross-Over Studies, Male, Research Design, Sickness Impact Profile, Aged, Female},
date-added = {2010-05-23 10:35:43 +0200},
date-modified = {2010-05-23 10:35:44 +0200},
doi = {10.1111/j.1524-4733.2009.00566.x},
pii = {VHE566},
pmid = {19473334},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hays-2009-Value%20Health_Effects%20of%20mode%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11766},
rating = {0}
}
@inproceedings{Allegre:2003,
author = {E All{\`e}gre and P Dessus},
journal = {Proceedings},
title = {Un syst{\`e}me d'observation et d'analyse en direct de s{\'e}ances d'enseignement},
year = {2003},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/All%C3%A8gre-2003-Proceedings_Un%20syst%C3%A8me%20d'observa.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1964},
rating = {0}
}
@article{Gorwood:1998p1328,
author = {P Gorwood and M Bouvard and M C Mouren-Sim{\'e}oni and A Kipman and J Ad{\`e}s},
journal = {Psychiatr Genet},
title = {Genetics and anorexia nervosa: a review of candidate genes},
abstract = {Anorexia nervosa is a severe disorder which seems likely to have a multifactorial aetiology. However, several studies have stressed that genetic factors play a significant role. Epidemiological studies have shown that the lifetime risk for first-degree relatives of a patient with an eating disorder is 6% compared to 1% among relatives of controls, and a twin study performed on 34 pairs of twins has shown a higher concordance rate in monozygotic twins (55%) compared to dizygotic twins (7%). The vulnerability component of anorexia nervosa that can be attributed to genetic influences has been estimated from twin studies to be around 70%. Despite this, few genetic studies have been performed testing the role of candidate genes which code for proteins potentially implicated in the aetiopathogenesis of the disorder. In this review, genes encoding components of the dopamine, serotonin, opiate, and noradrenaline systems are assessed for their role in anorexia nervosa. Attention is paid to psychological dimensions, clinical symptoms, co-morbidity frequency, pharmacological data, and biological measures that characterize anorexia nervosa.},
affiliation = {Psychiatric Department, Hospital Louis Mourier, Colombes, France. pgorwood@imaginet.fr},
number = {1},
pages = {1--12},
volume = {8},
year = {1998},
month = {Jun},
language = {eng},
keywords = {Anorexia Nervosa, Nuclear Family, Twin Studies as Topic, Endorphins, Twins: Dizygotic, Animals, Dopamine, Serotonin, Norepinephrine, Risk Factors, Diseases in Twins, Humans, Twins: Monozygotic},
date-added = {2010-01-07 11:37:19 +0100},
date-modified = {2010-01-07 11:37:19 +0100},
pmid = {9564681},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1328},
rating = {0}
}
@article{Holman:2003p1822,
author = {Rebecca Holman and Cees A W Glas and Rob J de Haan},
journal = {Controlled Clinical Trials},
title = {Power analysis in randomized clinical trials based on item response theory},
abstract = {Patient relevant outcomes, measured using questionnaires, are becoming increasingly popular endpoints in randomized clinical trials (RCTs). Recently, interest in the use of item response theory (IRT) to analyze the responses to such questionnaires has increased. In this paper, we used a simulation study to examine the small sample behavior of a test statistic designed to examine the difference in average latent trait level between two groups when the two-parameter logistic IRT model for binary data is used. The simulation study was extended to examine the relationship between the number of patients required in each arm of an RCT, the number of items used to assess them, and the power to detect minimal, moderate, and substantial treatment effects. The results show that the number of patients required in each arm of an RCT varies with the number of items used to assess the patients. However, as long as at least 20 items are used, the number of items barely affects the number of patients required in each arm of an RCT to detect effect sizes of 0.5 and 0.8 with a power of 80%. In addition, the number of items used has more effect on the number of patients required to detect an effect size of 0.2 with a power of 80%. For instance, if only five randomly selected items are used, it is necessary to include 950 patients in each arm, but if 50 items are used, only 450 are required in each arm. These results indicate that if an RCT is to be designed to detect small effects, it is inadvisable to use very short instruments analyzed using IRT. Finally, the SF-36, SF-12, and SF-8 instruments were considered in the same framework. Since these instruments consist of items scored in more than two categories, slightly different results were obtained.},
affiliation = {Department of Clinical Epidemiology and Biostatistics, Academic Medical Center, Amsterdam, The Netherlands. R.Holman@amc.uva.nl},
number = {4},
pages = {390--410},
volume = {24},
year = {2003},
month = {Aug},
language = {eng},
keywords = {Kidney Failure: Chronic, Renal Dialysis, Randomized Controlled Trials as Topic, Health Status, Peritoneal Dialysis, Humans, Sample Size, Probability, Models: Statistical, Questionnaires, Treatment Outcome},
date-added = {2010-01-09 23:00:24 +0100},
date-modified = {2010-06-15 22:46:09 +0200},
pii = {S0197245603000618},
pmid = {12865034},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holman-2003-Controlled%20Clinical%20Trials_Power%20analysis%20in%20ra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1822},
rating = {3}
}
@article{Rommelse:2010p5730,
author = {Nanda N J Rommelse and Barbara Franke and Hilde M Geurts and Catharina A Hartman and Jan K Buitelaar},
journal = {Eur Child Adolesc Psychiatry},
title = {Shared heritability of attention-deficit/hyperactivity disorder and autism spectrum disorder},
abstract = {Attention-deficit/hyperactivity disorder (ADHD) and autism spectrum disorder (ASD) are both highly heritable neurodevelopmental disorders. Evidence indicates both disorders co-occur with a high frequency, in 20-50% of children with ADHD meeting criteria for ASD and in 30-80% of ASD children meeting criteria for ADHD. This review will provide an overview on all available studies [family based, twin, candidate gene, linkage, and genome wide association (GWA) studies] shedding light on the role of shared genetic underpinnings of ADHD and ASD. It is concluded that family and twin studies do provide support for the hypothesis that ADHD and ASD originate from partly similar familial/genetic factors. Only a few candidate gene studies, linkage studies and GWA studies have specifically addressed this co-occurrence, pinpointing to some promising pleiotropic genes, loci and single nucleotide polymorphisms (SNPs), but the research field is in urgent need for better designed and powered studies to tackle this complex issue. We propose that future studies examining shared familial etiological factors for ADHD and ASD use a family-based design in which the same phenotypic (ADHD and ASD), candidate endophenotypic, and environmental measurements are obtained from all family members. Multivariate multi-level models are probably best suited for the statistical analysis.},
affiliation = {Department of Psychiatry, Donders Institute for Brain, Cognition and Behavior, Radboud University Nijmegen Medical Center, Reinier Postlaan 10, 6525 GC, Nijmegen, The Netherlands, n.lambregts-rommelse@psy.umcn.nl.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-15 20:28:44 +0100},
date-modified = {2010-07-29 19:26:12 +0200},
doi = {10.1007/s00787-010-0092-x},
pmid = {20148275},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5730},
rating = {0}
}
@article{Erosheva:2007p1772,
author = {Elena Erosheva and Emily C Walton and David T Takeuchi},
journal = {Med Care},
title = {Self-rated health among foreign- and U.S.-born Asian Americans: a test of comparability},
abstract = {OBJECTIVES: We investigated differences between foreign- and U.S.-born Asian Americans in self-rating their physical and mental health. In particular, we tested whether the foreign-born respondents underreport the extreme categories of the scale as compared with U.S.-born respondents. METHODS: We analyzed data from the National Latino and Asian American Study to examine whether immigrants are less likely to use the extreme ends of the 5-category self-rated health scales than their U.S.-born counterparts. We used propensity score matching to derive groups of U.S.- and foreign-born Asian Americans who share similar demographic and health characteristics. We defined propensity scores as predicted probabilities of being U.S. born, given individual background characteristics. The propensity score framework allowed us to make descriptive comparisons of self-rated health responses controlling for background characteristics. We used log-linear symmetry models to examine cross-tabulations of self-rated physical and mental health reports in matched pairs by the 2 (extreme and nonextreme) and 5 ("excellent," "very good," "good," "fair," and "poor") categories. RESULTS: Controlling for background characteristics, we found no evidence that foreign-born Asian Americans are less likely to endorse extreme categories in self-rated physical or mental health than U.S.-born Asian Americans, as well as no evidence of imbalances in endorsement of any particular self-rated health category between the 2 groups. CONCLUSIONS: Controlling for demographic and health characteristics, we find no systematic differences between foreign- and U.S.-born Asian Americans in reporting self-rated physical and mental health on the 5-category scales from "excellent" to "poor."},
affiliation = {Department of Statistics, School of Social Work, University of Washington, Seattle 98195, USA. erosheva@u.washington.edu},
number = {1},
pages = {80--7},
volume = {45},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Health Status, Emigration and Immigration, Humans, Asian Americans, Mental Health, Questionnaires},
date-added = {2010-01-09 21:31:41 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000241114.90614.9c},
pii = {00005650-200701000-00011},
pmid = {17279024},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Erosheva-2007-Med%20Care_Self-rated%20health%20am.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1772},
rating = {0}
}
@phdthesis{Hardouin:2005,
author = {Jean-Benoit Hardouin},
journal = {PhD Thesis},
title = {Construction d'{\'e}chelles d'items unidimensionnelles en qualit{\'e} de vie},
affiliation = {Universit{\'e} Ren{\'e} Descartes},
year = {2005},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardouin-2005-PhD%20Thesis_Construction%20d'%C3%A9chel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2108},
rating = {0}
}
@misc{Al-Kandari:1993,
author = {N Al-Kandari},
journal = {Miscellaneous},
title = {Variable Selection and Principal Component Analysis},
year = {1993},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Al-Kandari-1993-Miscellaneous_Variable%20Selection%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2173},
rating = {0}
}
@article{North:2007p11371,
author = {Kari E North and Nora Franceschini and Ingrid B Borecki and C Charles Gu and Gerardo Heiss and Michael A Province and Donna K Arnett and Cora E Lewis and Michael B Miller and Richard H Myers and Steven C Hunt and Barry I Freedman},
journal = {Diabetes},
title = {Genotype-by-sex interaction on fasting insulin concentration: the HyperGEN study},
abstract = {Recent studies have demonstrated the importance of sex effects on the underlying genetic architecture of insulin-related traits. To explore sex-specific genetic effects on fasting insulin, we tested for genotype-by-sex interaction and conducted linkage analysis of fasting insulin in Hypertension Genetic Epidemiology Network families. Hypertensive siblings and their first-degree relatives were recruited from five field centers. We performed a genome scan for quantitative trait loci influencing fasting insulin among 1,505 European Americans and 1,616 African Americans without diabetes. Sex-stratified linear regression models, adjusted for race, center, and age, were explored. The Mammalian Genotyping Service typed 391 microsatellite markers, spaced roughly 9 cM. Variance component linkage analysis was performed in SOLAR using ethnic-specific marker allele frequencies and multipoint IBDs calculated in MERLIN. We detected a quantitative trait locus influencing fasting insulin in female subjects (logarithm of odds [LOD] = 3.4) on chromosome 2 at 95 cM (between GATA69E12 and GATA71G04) but not in male subjects (LOD = 0.0, P for interaction = 0.007). This sex-specific signal at 2p13.2 was detected in both European-American (LOD = 2.1) and African-American (LOD = 1.2) female subjects. Our findings overlap with several other linkage reports of insulin-related traits and demonstrate the importance of considering complex context-dependent interactions in the search for insulin-related genes.},
affiliation = {Department of Epidemiology, University of North Carolina Chapel Hill, Bank of America Center, 137 E. Franklin St., Suite 306, Chapel Hill, NC 27514, USA. kari_north@unc.edu},
number = {1},
pages = {137--42},
volume = {56},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Phenotype, Male, Fasting, Genotype, Sex Characteristics, Smoking, Alcohol Drinking, Female, Middle Aged, Insulin, Humans},
date-added = {2010-04-26 23:09:18 +0200},
date-modified = {2010-04-26 23:09:18 +0200},
doi = {10.2337/db06-0624},
pii = {56/1/137},
pmid = {17192475},
local-url = {file://localhost/Users/chl/Dropbox/Papers/North-2007-Diabetes_Genotype-by-sex%20inte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11371},
rating = {0}
}
@article{Attia:2009p1302,
author = {Evelyn Attia},
journal = {Annu Rev Med},
title = {Anorexia Nervosa: Current Status and Future Directions},
abstract = {Anorexia nervosa (AN) is a serious mental illness categorized by a failure to maintain a minimally normal weight, a fear of gaining weight or becoming fat, and preoccupations about body shape or weight. AN is associated with significant morbidity and a mortality rate as high as that seen in any psychiatric illness. Biological factors, including genetic predisposition, appear to play a role in the development of AN. Treatment is challenging both because interventions with clear empirical support have not been identified and because individuals affected by AN are typically reluctant to undergo weight restoration. Preliminary studies suggest that family-based treatment may be useful for younger patients with AN. Treatment development for adults with AN and pursuit of neurobiological correlates of AN remain high-priority research areas. Expected final online publication date for the Annual Review of Medicine Volume 61 is January 07, 2010. Please see http://www.annualreviews.org/catalog/pubdates.aspx for revised estimates.},
affiliation = {Columbia Center for Eating Disorders, Columbia University Medical Center, New York, NY; email: ea12@Columbia.edu.},
pages = {},
year = {2009},
month = {Aug},
language = {ENG},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
doi = {10.1146/annurev.med.050208.200745},
pmid = {19719398},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1302},
rating = {0}
}
@article{Luce:2002p6592,
author = {R D Luce},
journal = {Psychological Review},
title = {A psychophysical theory of intensity proportions, joint presentations, and matches},
abstract = {Empirically testable assumptions relate 3 psychophysical primitives: presentations of pairs of physical intensities (e.g., pure tones of the same frequency and phase to the 2 ears or 2 successive tones to both ears); a respondent's ordering of such signal pairs by perceived intensity (e.g., loudness); and judgments about 2 pairs of stimuli being related as some proportion (numerical factor, as in magnitude production). Explicit behavioral assumptions lead to 2 families of psychophysical functions, one corresponding to unbiased joint presentations and the other to biased ones. Under an invariance assumption, the psychophysical functions in the unbiased case are approximate power functions, and those in the biased case are exact power functions. A number of testable predictions are made. The mathematics involved draws from publications in utility theory and mathematics but with a reinterpretation of the primitives.},
affiliation = {Department of Cognitive Science, University of California, Irvine 92697-5100, USA. rdluce@uci.edu},
number = {3},
pages = {520--32},
volume = {109},
year = {2002},
month = {Jul},
language = {eng},
keywords = {Psychological Theory, Models: Psychological, Loudness Perception, Psychoacoustics, Humans},
date-added = {2010-02-24 20:39:25 +0100},
date-modified = {2010-03-06 19:49:08 +0100},
pmid = {12088243},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luce-2002-Psychological%20Review_A%20psychophysical%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6592},
rating = {0}
}
@article{Veenstra:2010p9370,
author = {Marja Y Veenstra and Patricia N Walsh and Henny M J van Schrojenstein Lantman-de Valk and Meindert J Haveman and Mike P Kerr and Germain Weber and Luis Salvador-Carulla and Alexandra Carmen-Cara and Bernard Azema and Serafino Buono and Arunas Germanavicius and Jan Tossebro and Tuomo Maatta and Geert van Hove and Dasa Moravec},
journal = {Journal of Clinical Epidemiology},
title = {Sampling and ethical issues in a multicenter study on health of people with intellectual disabilities},
abstract = {OBJECTIVES: To study health inequalities in persons with intellectual disabilities, representative and unbiased samples are needed. Little is known about sample recruitment in this vulnerable group. This study aimed to determine differences in ethical procedures and sample recruitment in a multicenter research on health of persons with intellectual disabilities. Study questions regarded the practical sampling procedure, how ethical consent was obtained in each country, and which person gave informed consent for each study participant. STUDY DESIGN AND SETTING: Exploratory, as part of a multicenter study, in 14 European countries. After developing identical guidelines for all countries, partners collected data on health indicators by orally interviewing 1,269 persons with intellectual disabilities. Subsequently, semistructured interviews were carried out with partners and researchers. RESULTS: Identification of sufficient study participants proved feasible. Sampling frames differed from nationally estimated proportions of persons with intellectual disabilities living with families or in residential settings. Sometimes, people with intellectual disabilities were hard to trace. Consent procedures and legal representation varied broadly. Nonresponse data proved unavailable. CONCLUSION: To build representative unbiased samples of vulnerable groups with limited academic capacities, international consensus on respectful consent procedures and tailored patient information is necessary.},
affiliation = {Department of General Practice, CAPHRI Care and Public Health Research Institute, University of Maastricht.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-23 18:42:39 +0100},
date-modified = {2010-03-23 18:42:39 +0100},
doi = {10.1016/j.jclinepi.2009.12.001},
pii = {S0895-4356(09)00386-2},
pmid = {20304607},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Veenstra-2010-Journal%20of%20Clinical%20Epidemiology_Sampling%20and%20ethical-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9370},
rating = {0}
}
@article{Candido:2010p12840,
author = {E Candido and P Kurdyak and D A Alter},
journal = {Journal of Clinical Epidemiology},
title = {Item nonresponse to psychosocial questionnaires was associated with higher mortality after acute myocardial infarction},
abstract = {Objective: To examine the relationship between selective nonresponse to a psychosocial questionnaire and mortality after acute myocardial infarction (AMI).
Study Design and Setting: Two thousand six hundred and ninety AMI survivors after AMI hospitalization were recruited to complete a 30-day follow-up interview. Patients were classified into four groups (survey nonparticipation and complete, partial, and no item nonre- sponse) according to their degree of response to the Medical Outcomes Study (MOS) Social Support Survey (MOS-SSS). Cox proportional hazard models, adjusted for baseline sociodemographic, clinical, and psychosocial (i.e., social isolation) characteristics, were used to examine all-cause mortality, 3 years post-AMI, across the response levels.
Results: 13.9%oftheeligiblepatientsrefusedfollow-upparticipation;MOS-SSSitemnonresponsewaspresentinupto14.7%ofparticipants and was more frequent among the elderly, socially disadvantaged, and those with higher clinical risk. A nonresponse mortality gradient existed, ranging from 8.9% (no item nonresponse) to 18.7% (complete item nonresponse) (P ! 0.001). After adjusting for baseline characteristics, complete item nonresponse remained significantly associated with mortality (hazard ratio: 1.33; 95% confidence interval: 1.02e1.73).
Conclusions: Itemnonresponsetoasocialsupportquestionnaireisassociatedwithhighermortalitypost-AMI.Althoughexplanatoryfactors may include age and baseline clinical risk, additional psychosocial and/or unmeasured factors may account for the poorer prognosis.},
year = {2010},
date-added = {2010-06-21 20:05:34 +0200},
date-modified = {2010-06-21 20:06:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Candido-2010-Journal%20of%20Clinical%20Epidemiology_Item%20nonresponse%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12840},
rating = {0}
}
@article{Huynh:2010p4185,
author = {H Huynh and P Meyer},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Use of Robust z in Detecting Unstable Items in Item Response Theory Models},
abstract = {The first part of this paper describes the use of the robust zR statistic to link test forms using the Rasch (or one-parameter logistic) model. The procedure is then extended to the two-parameter and three-parameter logistic and two-parameter partial credit (2PPC) models. A real set of data was used to illustrate the extension. The linking results illustrate the efficacy of the robust zR vis-{\`a}-vis some of the most commonly used processes such as the Stocking and Lord (1983) linking process.},
number = {2},
volume = {15},
year = {2010},
date-added = {2010-01-21 07:54:18 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huynh-2010-Practical%20Assessment%20Research%20%20&%20Evaluation_Use%20of%20Robust%20z%20in%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4185},
rating = {0}
}
@article{Lewis:2005p2331,
author = {J B Lewis and D A Linzer},
journal = {Political Analysis},
title = {Estimating Regression Models in Which the Dependent Variable Is Based on Estimates},
abstract = {Researchers often use as dependent variables quantities estimated from auxiliary data sets. Estimated dependent variable (EDV) models arise, for example, in studies where counties or states are the units of analysis and the dependent variable is an estimated mean, proportion, or regression coefficient. Scholars fitting EDV models have generally recognized that variation in the sampling variance of the observations on the dependent variable will induce heteroscedasticity. We show that the most common approach to this problem, weighted least squares, will usually lead to inefficient estimates and underestimated standard errors. In many cases, OLS with White's or Efron heteroscedastic consistent standard errors yields better results. We also suggest two simple alternative FGLS approaches that are more efficient and yield consistent standard error estimates. Finally, we apply the various alternative estimators to a replication of Cohen's (2004) cross-national study of presidential approval.},
pages = {345--364},
volume = {13},
year = {2005},
date-added = {2010-01-10 13:14:03 +0100},
date-modified = {2010-01-10 13:14:53 +0100},
doi = {10.1093/pan/mpi026},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lewis-2005-Political%20Analysis_Estimating%20Regressio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2331},
rating = {0}
}
@article{Murrell:2001p2769,
author = {P Murrell},
journal = {DSC 2001 Proceedings of the 2nd International Workshop on Distributed Statistical Computing},
title = {R Lattice Graphics},
abstract = {Lattice is an add-on package or library for the R statistical computing en- vironment. It provides an alternative set of user-level functions for producing graphical output. Compared to the base R graphical functions, the Lattice functions provide greater control over the specification of where graphical output appears on the page. In addition, Lattice graphics functions return graphical objects, which may be used to interactively edit the graphical out- put.},
year = {2001},
date-added = {2010-01-13 14:26:02 +0100},
date-modified = {2010-01-13 14:26:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Murrell-2001-DSC%202001%20Proceedings%20of%20the%202nd%20International%20Workshop%20on%20Distributed%20Statistical%20Computing_R%20Lattice%20Graphics.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2769},
rating = {0}
}
@article{Landauer:2004,
author = {T K Landauer and D Laham and M Derr},
journal = {Proceedings of the National Academy of Sciences USA},
title = {From paragraph to graph: latent semantic analysis for information visualization},
abstract = {Most techniques for relating textual information rely on intellectually created links such as author-chosen keywords and titles, authority indexing terms, or bibliographic citations. Similarity of the semantic content of whole documents, rather than just titles, abstracts, or overlap of keywords, offers an attractive alternative. Latent semantic analysis provides an effective dimension reduction method for the purpose that reflects synonymy and the sense of arbitrary word combinations. However, latent semantic analysis correlations with human text-to-text similarity judgments are often empirically highest at approximately 300 dimensions. Thus, two- or three-dimensional visualizations are severely limited in what they can show, and the first and/or second automatically discovered principal component, or any three such for that matter, rarely capture all of the relations that might be of interest. It is our conjecture that linguistic meaning is intrinsically and irreducibly very high dimensional. Thus, some method to explore a high dimensional similarity space is needed. But the 2.7 x 10(7) projections and infinite rotations of, for example, a 300-dimensional pattern are impossible to examine. We suggest, however, that the use of a high dimensional dynamic viewer with an effective projection pursuit routine and user control, coupled with the exquisite abilities of the human visual system to extract information about objects and from moving patterns, can often succeed in discovering multiple revealing views that are missed by current computational algorithms. We show some examples of the use of latent semantic analysis to support such visualizations and offer views on future needs.},
number = {Suppl 1},
pages = {5214--5219},
volume = {101},
year = {2004},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Landauer-2004-Proceedings%20of%20the%20National%20Academy%20of%20Sciences%20USA_From%20paragraph%20to%20gr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2214},
rating = {0}
}
@article{Ramasundarahettige:2009p6907,
author = {Chinthanie F Ramasundarahettige and Allan Donner and G Y Zou},
journal = {Stat Med},
title = {Confidence interval construction for a difference between two dependent intraclass correlation coefficients},
abstract = {Inferences for the difference between two dependent intraclass correlation coefficients (ICCs) may arise in studies in which a sample of subjects are each assessed several times with a new device and a standard. The ICC estimates for the two devices may then be compared using a test of significance. However, a confidence interval for a difference between two ICCs is more informative since it combines point estimation and hypothesis testing into a single inference statement. We propose a procedure that uses confidence limits for a single ICC to recover variance estimates needed to set confidence limits for the difference. An advantage of this approach is that it provides a confidence interval that reflects the underlying sampling distribution. Simulation results show that this method performs very well in terms of overall coverage percentage and tail errors. Two data sets are used to illustrate this procedure.},
affiliation = {Department of Epidemiology and Biostatistics, Schulich School of Medicine and Dentistry, University of Western Ontario, London, Ont., Canada N6A 5C1.},
number = {7},
pages = {1041--53},
volume = {28},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Clinical Trials as Topic, Confidence Intervals, Data Interpretation: Statistical, Models: Statistical, Reproducibility of Results},
date-added = {2010-03-06 12:22:31 +0100},
date-modified = {2010-03-06 12:22:31 +0100},
doi = {10.1002/sim.3523},
pmid = {19142855},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ramasundarahettige-2009-Stat%20Med_Confidence%20interval.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6907},
rating = {0}
}
@article{Hwang:2009p13734,
author = {H Hwang and Y Takane},
title = {Nonlinear Generalized Structured Component Analysis},
abstract = {Generalized Structured Component Analysis (GSCA) represents component- based structural equation modeling. Currently, GSCA is geared only for the analysis of quantitative data. In this paper, GSCA is extended to deal with qualitative data through data transformation. In particular, the optimal scaling approach is adopted for data transformation as it can be readily coupled with the GSCA estimation procedure. An alternating least-squares algorithm is developed that involves two phases for estimation of model and data parameters. Two empirical applications are presented to demonstrate the usefulness of the proposed method.},
year = {2009},
date-added = {2010-07-24 11:38:46 +0200},
date-modified = {2010-07-24 11:39:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hwang-2009-_Nonlinear%20Generalize.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13734},
rating = {4}
}
@article{Barnett:2009p818,
author = {J H Barnett and J W Smoller},
journal = {Neuroscience},
title = {The genetics of bipolar disorder},
abstract = {Bipolar disorder is a mood disorder characterized by impairing episodes of mania and depression. Twin studies have established that bipolar disorder is among the most heritable of medical disorders and efforts to identify specific susceptibility genes have intensified over the past two decades. The search for genes influencing bipolar disorder has been complicated by a paucity of animal models, limited understanding of pathogenesis, and the genetic and phenotypic complexity of the syndrome. Linkage studies have implicated several chromosomal regions as harboring relevant genes, but results have been inconsistent. It is now widely accepted that the genetic liability to bipolar disorder reflects the action of many genes of individually small effect, a scenario for which linkage studies are poorly suited. Thus, association studies, which are more powerful for the detection of modest effect loci, have become the focus of gene-finding research. A large number of candidate genes, including biological candidates derived from hypotheses about the pathogenesis of the disorder and positional candidates derived from linkage and cytogenetic studies, have been evaluated. Several of these genes have been associated with the disorder in independent studies (including BDNF, DAOA, DISC1, GRIK4, SLC6A4, and TPH2), but none has been established. The clinical heterogeneity of bipolar disorder and its phenotypic and genetic overlap with other disorders (especially schizophrenia, schizoaffective disorder, and major depressive disorder) have raised questions about the optimal phenotype definition for genetic studies. Nevertheless, genomewide association analysis, which has successfully identified susceptibility genes for a variety of complex disorders, has begun to implicate specific genes for bipolar disorder (DGKH, CACNA1C, ANK3). The polygenicity of the disorder means that very large samples will be needed to detect the modest effect loci that likely contribute to bipolar disorder. Detailed genetic dissection of the disorder may provide novel targets (both pharmacologic and psychosocial) for intervention.},
affiliation = {Center for Human Genetic Research, Department of Psychiatry, Massachusetts General Hospital, Boston, MA 02114, USA.},
number = {1},
pages = {331--43},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
date-added = {2010-01-03 17:25:56 +0100},
date-modified = {2010-01-03 17:25:56 +0100},
doi = {10.1016/j.neuroscience.2009.03.080},
pii = {S0306-4522(09)00576-4},
pmid = {19358880},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p818},
rating = {0}
}
@article{Austin:2010p6559,
author = {Peter C Austin},
journal = {Journal of Clinical Epidemiology},
title = {Absolute risk reductions, relative risks, relative risk reductions, and numbers needed to treat can be obtained from a logistic regression model},
abstract = {OBJECTIVE: Logistic regression models are frequently used in cohort studies to determine the association between treatment and dichotomous outcomes in the presence of confounding variables. In a logistic regression model, the association between exposure and outcome is measured using the odds ratio (OR). The OR can be difficult to interpret and only approximates the relative risk (RR) in certain restrictive settings. Several authors have suggested that for dichotomous outcomes, RRs, RR reductions, absolute risk reductions, and the number needed to treat (NNT) are more clinically meaningful measures of treatment effect. STUDY DESIGN AND SETTING: We describe a method for deriving clinically meaningful measures of treatment effect from a logistic regression model. This method involves determining the probability of the outcome if each subject in the cohort was treated and if each subject was untreated. These probabilities are then averaged across the study cohort to determine the average probability of the outcome in the population if all subjects were treated and if they were untreated. RESULTS: Risk differences, RRs, and NNTs were derived using a logistic regression model. CONCLUSIONS: Clinically meaningful measures of effect can be derived from a logistic regression model in a cohort study. These methods can also be used in randomized controlled trials when logistic regression is used to adjust for possible imbalance in prognostically important baseline covariates.},
affiliation = {Institute for Clinical Evaluative Sciences, Toronto, Ontario M4N 3M5, Canada. peter.austin@ices.on.ca},
number = {1},
pages = {2--6},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:36:54 +0100},
date-modified = {2010-02-24 20:36:55 +0100},
doi = {10.1016/j.jclinepi.2008.11.004},
pii = {S0895-4356(08)00316-8},
pmid = {19230611},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Austin-2010-Journal%20of%20Clinical%20Epidemiology_Absolute%20risk%20reduct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6559},
rating = {0}
}
@article{AnkraBadu:2010p11343,
author = {Georgina A Ankra-Badu and Daniel Shriner and Elisabeth Le Bihan-Duval and Sandrine Mignon-Grasteau and Fr{\'e}d{\'e}rique Pitel and Catherine Beaumont and Michel J Duclos and Jean Simon and Tom E Porter and Alain Vignal and Larry A Cogburn and David B Allison and Nengjun Yi and Samuel E Aggrey},
journal = {BMC Genomics},
title = {Mapping main, epistatic and sex-specific QTL for body composition in a chicken population divergently selected for low or high growth rate},
abstract = {BACKGROUND: Delineating the genetic basis of body composition is important to agriculture and medicine. In addition, the incorporation of gene-gene interactions in the statistical model provides further insight into the genetic factors that underlie body composition traits. We used Bayesian model selection to comprehensively map main, epistatic and sex-specific QTL in an F2 reciprocal intercross between two chicken lines divergently selected for high or low growth rate. RESULTS: We identified 17 QTL with main effects across 13 chromosomes and several sex-specific and sex-antagonistic QTL for breast meat yield, thigh + drumstick yield and abdominal fatness. Different sets of QTL were found for both breast muscles [Pectoralis (P) major and P. minor], which suggests that they could be controlled by different regulatory mechanisms. Significant interactions of QTL by sex allowed detection of sex-specific and sex-antagonistic QTL for body composition and abdominal fat. We found several female-specific P. major QTL and sex-antagonistic P. minor and abdominal fatness QTL. Also, several QTL on different chromosomes interact with each other to affect body composition and abdominal fatness. CONCLUSIONS: The detection of main effects, epistasis and sex-dimorphic QTL suggest complex genetic regulation of somatic growth. An understanding of such regulatory mechanisms is key to mapping specific genes that underlie QTL controlling somatic growth in an avian model.},
affiliation = {Department of Poultry Science/Institute of Bioinformatics, University of Georgia, Athens, GA 30602, USA.},
pages = {107},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-26 23:07:24 +0200},
date-modified = {2010-07-29 19:20:00 +0200},
doi = {10.1186/1471-2164-11-107},
pii = {1471-2164-11-107},
pmid = {20149241},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ankra-Badu-2010-BMC%20Genomics_Mapping%20main%20epista.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11343},
rating = {0}
}
@article{Borsboom:2006p5505,
author = {D Borsboom},
journal = {Psychometrika},
title = {The attack of the psychometricians},
abstract = {This paper analyzes the theoretical, pragmatic, and substantive factors that have hampered the integration between psychology and psychometrics. Theoretical factors include the operationalist mode of thinking which is common throughout psychology, the dominance of classical test theory, and the use of ``construct validity'' as a catch-all category for a range of challenging psychometric problems. Pragmatic factors include the lack of interest in mathematically precise thinking in psychology, inadequate representation of psychometric modeling in major statistics programs, and insufficient mathematical training in the psychological curriculum. Substantive factors relate to the absence of psychological theories that are sufficiently strong to motivate the structure of psychometric models. Following the identification of these problems, a number of promising recent developments are discussed, and suggestions are made to further the integration of psychology and psychometrics.},
number = {3},
pages = {425--440},
volume = {71},
year = {2006},
date-added = {2010-02-12 14:49:15 +0100},
date-modified = {2010-02-12 14:51:07 +0100},
doi = {10.1007/s11336-006-1447-6},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2006-Psychometrika_The%20attack%20of%20the%20ps-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5505},
rating = {0}
}
@article{Cohen:1994p7065,
author = {J Cohen},
journal = {American Psychologist},
title = {The earth is round (p<.05)},
number = {12},
pages = {997--1003},
volume = {49},
year = {1994},
date-added = {2010-03-06 20:09:17 +0100},
date-modified = {2010-03-06 20:10:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-1994-American%20Psychologist_The%20earth%20is%20round.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7065},
rating = {4}
}
@techreport{Monseur:2007,
author = {C Monseur and H Sibbens and D Hastedt},
journal = {Techreport},
title = {Equating errors in international surveys in education},
affiliation = {IEA Data Processing Center},
year = {2007},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Monseur-2007-Techreport_Equating%20errors%20in%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2035},
rating = {0}
}
@article{Batki:2009p7873,
author = {Steven L Batki and Kelly M Canfield and Emily Smyth and Robert Ploutz-Snyder},
journal = {Drug Alcohol Depend},
title = {Health-related quality of life in methadone maintenance patients with untreated hepatitis C virus infection},
abstract = {OBJECTIVE: To assess health-related quality of life (HRQOL) in methadone maintenance treatment (MMT) patients with untreated chronic HCV infection and to determine the clinical factors that predict HRQOL. METHOD: HRQOL was measured in 100 MMT patients entering an HCV treatment trial. Subjects were mostly male (61%) and white (81%) with a mean age of 43 (+/-10). 57% had a current non-substance use psychiatric disorder. 55% had a current (past 12 months) substance use disorder, including 44% with current opioid or cocaine abuse/dependence. HRQOL in our sample was compared to published reports for the general population as well as for non-MMT HCV patients. To assess predictors of SF-36 HRQOL, hierarchical multiple regression techniques were used to assess model improvement with four blocks of baseline predictors: Demographics, Medical Severity, Addiction Severity, and Depression Severity. RESULTS: HRQOL scores were significantly lower than scores for the general population and were also lower than scores reported for untreated HCV patients not in MMT. Regression analysis demonstrated a consistent pattern whereby Depression Severity increased predictive accuracy for HRQOL measures over simpler models. Beck Depression Inventory scores significantly predicted quality of life across both the mental and physical composite scores and all eight sub-scales of the SF-36. CONCLUSIONS: Untreated HCV patients in MMT had lower HRQOL than HCV patients not in MMT. Depression Severity was associated with significantly lower quality of life measures, suggesting that psychiatric evaluation and intervention prior to the start of HCV treatment may improve overall quality of life and could influence HCV treatment outcomes in MMT patients.},
affiliation = {University of California, San Francisco, Department of Psychiatry, and San Francisco VA Medical Center, 4150 Clement St. (116P), San Francisco, CA 94110, USA. steven.batki@ucsf.edu},
number = {3},
pages = {176--82},
volume = {101},
year = {2009},
month = {May},
language = {eng},
keywords = {Methadone, Viral Load, Substance-Related Disorders, Severity of Illness Index, Quality of Life, Continental Population Groups, Hepatitis C, Middle Aged, Psychiatric Status Rating Scales, Ethnic Groups, Depression, Questionnaires, Adult, Random Allocation, Humans, Health Status, Mental Health},
date-added = {2010-03-20 19:14:15 +0100},
date-modified = {2010-03-20 19:14:16 +0100},
doi = {10.1016/j.drugalcdep.2008.12.012},
pii = {S0376-8716(09)00017-9},
pmid = {19233573},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T63-4VP12HP-2&_user=10&_coverDate=05%252F01%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000050221&_version=1&_urlVersion=0&_userid=10&md5=75eee685c0deebd8490897c70609242a},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7873},
rating = {0}
}
@article{Feeney:2006p7285,
author = {G F X Feeney and J P Connor and R McD Young and J Tucker and A McPherson},
journal = {Addict Behav},
title = {Improvement in measures of psychological distress amongst amphetamine misusers treated with brief cognitive-behavioural therapy (CBT)},
abstract = {This trial of cognitive-behavioural therapy (CBT) based amphetamine abstinence program (n=507) focused on refusal self-efficacy, improved coping, improved problem solving and planning for relapse prevention. Measures included the Severity of Dependence Scale (SDS), the General Health Questionnaire-28 (GHQ-28) and Amphetamine Refusal Self-Efficacy. Psychiatric case identification (caseness) across the four GHQ-28 sub-scales was compared with Australian normative data. Almost 90% were amphetamine-dependent (SDS 8.15+/-3.17). Pre-treatment, all GHQ-28 sub-scale measures were below reported Australian population values. Caseness was substantially higher than Australian normative values {Somatic Symptoms (52.3%), Anxiety (68%), Social Dysfunction (46.5%) and Depression (33.7%)}. One hundred and sixty-eight subjects (33%) completed and reported program abstinence. Program completers reported improvement across all GHQ-28 sub-scales {Somatic Symptoms (p<0.001), Anxiety (p<0.001), Social Dysfunction (p<0.001) and Depression (p<0.001)}. They also reported improvement in amphetamine refusal self-efficacy (p<0.001). Improvement remained significant following intention-to-treat analyses, imputing baseline data for subjects that withdrew from the program. The GHQ-28 sub-scales, Amphetamine Refusal Self-Efficacy Questionnaire and the SDS successfully predicted treatment compliance through a discriminant analysis function (p<.001).},
affiliation = {Alcohol and Drug Assessment Unit, Princess Alexandra Hospital, Brisbane, Queensland 4102, Australia. Gerald_Feeney@health.qld.gov.au},
number = {10},
pages = {1833--43},
volume = {31},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Stress: Psychological, Patient Compliance, Female, Adult, Humans, Cognitive Therapy, Adaptation: Psychological, Male, Self Disclosure, Treatment Outcome, Amphetamine-Related Disorders, Aged, Middle Aged},
date-added = {2010-03-10 20:16:51 +0100},
date-modified = {2010-07-29 19:12:35 +0200},
doi = {10.1016/j.addbeh.2005.12.026},
pii = {S0306-4603(05)00319-9},
pmid = {16431030},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Feeney-2006-Addict%20Behav_Improvement%20in%20measu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7285},
rating = {0}
}
@article{Wolf:1988,
author = {PA Wolf and RB D'Agostino and WB Kannel and R Bonita and AJ Belanger},
journal = {JAMA},
title = {Cigarette smoking as a risk factor for stroke. The Framingham Study},
abstract = {The impact of cigarette smoking on stroke incidence was assessed in the Framingham Heart Study cohort of 4255 men and women who were aged 36 to 68 years and free of stroke and transient ischemic attacks. During 26 years of follow-up, 459 strokes occurred. Regardless of smoking status and in each sex, hypertensive subjects had twice the incidence of stroke. Using the Cox proportional hazard regression method, smoking was significantly related to stroke after age and hypertension were taken into account. Even after pertinent cardiovascular disease risk factors were added to the Cox model, cigarette smoking continued to make a significant independent contribution to the risk of stroke generally and brain infarction specifically. The risk of stroke increased as the number of cigarettes smoked increased. The relative risk of stroke in heavy smokers (greater than 40 cigarettes per day) was twice that of light smokers (fewer than ten cigarettes per day). Lapsed smokers developed stroke at the same level as nonsmokers soon after stopping. Stroke risk decreased significantly by two years and was at the level of nonsmokers by five years after cessation of cigarette smoking.},
number = {7},
pages = {1025--1029},
volume = {259},
year = {1988},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:00:58 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1073},
rating = {0}
}
@article{Borsboom:2002p5506,
author = {D Borsboom and G J Mellenbergh},
journal = {Intelligence},
title = {True scores, latent variables, and constructs: A comment on Schmidt and Hunter},
abstract = {This paper comments on an article by Schmidt and Hunter [Intelligence 27 (1999) 183.], who argue that the correction for attenuation should be routinely used in theory testing. It is maintained that Schmidt and Hunter's arguments are based on mistaken assumptions. We discuss our critique of Schmidt and Hunter in terms of two arguments against a routine use of the correction for attenuation within the classical test theory framework: (1) corrected correlations do not, as Schmidt and Hunter claim, provide correlations between constructs, and (2) corrections for measurement error should be made using modern test theory models instead of the classical model. The arguments that Schmidt and Hunter advance in favor of the correction for attenuation can be traced to an implicit identification of true scores with construct scores. First, we show that this identification confounds issues of validity and issues of reliability. Second, it is pointed out that equating true scores with construct scores is logically inconsistent with the classical test theory model itself. Third, it is argued that the classical model is not suited for detecting the dimensionality of test scores, which severely limits the interpretation of the corrected correlation coefficients. It is concluded that most measurement problems in psychology concern issues of validity, and that the correction for attenuation within classical test theory does not help in solving them.},
pages = {505--514},
volume = {30},
year = {2002},
date-added = {2010-02-12 14:52:07 +0100},
date-modified = {2010-07-29 19:29:16 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2002-Intelligence_True%20scores%20latent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5506},
rating = {4}
}
@article{Lindstrom:2009p10192,
author = {Kara M Lindstrom and Amanda E Guyer and Karin Mogg and Brendan P Bradley and Nathan A Fox and Monique Ernst and Eric E Nelson and Ellen Leibenluft and Jennifer C Britton and Christopher S Monk and Daniel S Pine and Yair Bar-Haim},
journal = {Brain Res},
title = {Normative data on development of neural and behavioral mechanisms underlying attention orienting toward social-emotional stimuli: an exploratory study},
abstract = {The ability of positive and negative facial signals to influence attention orienting is crucial to social functioning. Given the dramatic developmental change in neural architecture supporting social function, positive and negative facial cues may influence attention orienting differently in relatively young or old individuals. However, virtually no research examines such age-related differences in the neural circuitry supporting attention orienting to emotional faces. We examined age-related correlations in attention-orienting biases to positive and negative face emotions in a healthy sample (N=37; 9-40 years old) using functional magnetic resonance imaging and a dot-probe task. The dot-probe task in an fMRI setting yields both behavioral and neural indices of attention biases towards or away from an emotional cue (happy or angry face). In the full sample, angry-face attention bias scores did not correlate with age, and age did not correlate with brain activation to angry faces. However, age did positively correlate with attention bias towards happy faces; age also negatively correlated with left cuneus and left caudate activation to a happy bias fMRI contrast. Secondary analyses suggested age-related changes in attention bias to happy faces. The tendency in younger children to direct attention away from happy faces (relative to neutral faces) was diminished in the older age groups, in tandem with increasing neural deactivation. Implications for future work on developmental changes in attention-emotion processing are discussed.},
affiliation = {Mood and Anxiety Program, National Institutes of Mental Health, National Institute of Health, Bethesda, MD 20892-2670, USA. lindstrk@mail.nih.gov},
pages = {61--70},
volume = {1292},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Attention, Cues, Female, Neuropsychological Tests, Magnetic Resonance Imaging, Child, Emotions, Male, Adolescent, Photic Stimulation, Facial Expression, Young Adult, Humans, Brain, Social Perception, Adolescent Development, Child Development, Aging, Adult, Brain Mapping},
date-added = {2010-04-01 18:16:01 +0200},
date-modified = {2010-07-29 19:21:52 +0200},
doi = {10.1016/j.brainres.2009.07.045},
pii = {S0006-8993(09)01479-6},
pmid = {19631626},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lindstrom-2009-Brain%20Res_Normative%20data%20on%20de.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10192},
rating = {0}
}
@article{Dell:2008p2334,
author = {Gary S Dell and Alfonso Caramazza},
journal = {Cogn Neuropsychol},
title = {Introduction to special issue on computational modelling in cognitive neuropsychology},
affiliation = {University of Illinois, Urbana-Champaign, IL, USA.},
number = {2},
pages = {131--5},
volume = {25},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Humans, Cognition Disorders, Neural Networks (Computer), Brain, Neuropsychological Tests},
date-added = {2010-01-10 13:18:43 +0100},
date-modified = {2010-01-10 13:18:43 +0100},
doi = {10.1080/02643290802000683},
pii = {793768502},
pmid = {18568815},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dell-2008-Cogn%20Neuropsychol_Introduction%20to%20spec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2334},
rating = {0}
}
@article{Sourial:2009p11511,
author = {Nadia Sourial and Christina Wolfson and Bin Zhu and Jacqueline Quail and John Fletcher and Sathya Karunananthan and Karen Bandeen-Roche and Fran{\c c}ois B{\'e}land and Howard Bergman},
journal = {Journal of Clinical Epidemiology},
title = {Correspondence analysis is a useful tool to uncover the relationships among categorical variables},
abstract = {OBJECTIVE: Correspondence analysis (CA) is a multivariate graphical technique designed to explore the relationships among categorical variables. Epidemiologists frequently collect data on multiple categorical variables with the goal of examining associations among these variables. Nevertheless, CA appears to be an underused technique in epidemiology. The objective of this article is to present the utility of CA in an epidemiological context. STUDY DESIGN AND SETTING: The theory and interpretation of CA in the case of two and more than two variables are illustrated through two examples. RESULTS: The outcome from CA is a graphical display of the rows and columns of a contingency table that is designed to permit visualization of the salient relationships among the variable responses in a low-dimensional space. Such a representation reveals a more global picture of the relationships among row-column pairs, which would otherwise not be detected through a pairwise analysis. CONCLUSION: When the study variables of interest are categorical, CA is an appropriate technique to explore the relationships among variable response categories and can play a complementary role in analyzing epidemiological data.},
affiliation = {Solidage Research Group, Centre for Clinical Epidemiology and Community Studies, Lady Davis Institute for Medical Research, Jewish General Hospital, McGill University, Montreal, Quebec, Canada.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-05-01 17:33:28 +0200},
date-modified = {2010-05-01 17:33:32 +0200},
doi = {10.1016/j.jclinepi.2009.08.008},
pii = {S0895-4356(09)00237-6},
pmid = {19896800},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sourial-2009-Journal%20of%20Clinical%20Epidemiology_Correspondence%20analy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11511},
rating = {4}
}
@article{Cook:2007p10853,
author = {Karon F Cook and Cayla R Teal and Jakob B Bjorner and David Cella and Chih-Hung Chang and Paul K Crane and Laura E Gibbons and Ron D Hays and Colleen A McHorney and Katja Ocepek-Welikson and Anastasia E Raczek and Jeanne A Teresi and Bryce B Reeve},
journal = {Qual Life Res},
title = {IRT health outcomes data analysis project: an overview and summary},
abstract = {BACKGROUND: In June 2004, the National Cancer Institute and the Drug Information Association co-sponsored the conference, "Improving the Measurement of Health Outcomes through the Applications of Item Response Theory (IRT) Modeling: Exploration of Item Banks and Computer-Adaptive Assessment." A component of the conference was presentation of a psychometric and content analysis of a secondary dataset. OBJECTIVES: A thorough psychometric and content analysis was conducted of two primary domains within a cancer health-related quality of life (HRQOL) dataset. RESEARCH DESIGN: HRQOL scales were evaluated using factor analysis for categorical data, IRT modeling, and differential item functioning analyses. In addition, computerized adaptive administration of HRQOL item banks was simulated, and various IRT models were applied and compared. SUBJECTS: The original data were collected as part of the NCI-funded Quality of Life Evaluation in Oncology (Q-Score) Project. A total of 1,714 patients with cancer or HIV/AIDS were recruited from 5 clinical sites. MEASURES: Items from 4 HRQOL instruments were evaluated: Cancer Rehabilitation Evaluation System-Short Form, European Organization for Research and Treatment of Cancer Quality of Life Questionnaire, Functional Assessment of Cancer Therapy and Medical Outcomes Study Short-Form Health Survey. RESULTS AND CONCLUSIONS: Four lessons learned from the project are discussed: the importance of good developmental item banks, the ambiguity of model fit results, the limits of our knowledge regarding the practical implications of model misfit, and the importance in the measurement of HRQOL of construct definition. With respect to these lessons, areas for future research are suggested. The feasibility of developing item banks for broad definitions of health is discussed.},
affiliation = {Department of Rehabilitation Medicine, University of Washington School of Medicine, Seattle, Washington, USA. karonc2@u.washington.edu},
pages = {121--32},
volume = {16 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Health Status, Psychometrics, Outcome Assessment (Health Care), Software, Stress: Psychological, Female, Data Interpretation: Statistical, HIV Infections, Humans, Quality of Life, Neoplasms, Male, Questionnaires},
date-added = {2010-04-10 03:34:05 +0200},
date-modified = {2010-07-29 19:48:28 +0200},
doi = {10.1007/s11136-007-9177-5},
pmid = {17351824},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cook-2007-Qual%20Life%20Res_IRT%20health%20outcomes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10853},
rating = {4}
}
@article{Perry:2008p11963,
author = {Jennifer L Perry and Marilyn E Carroll},
journal = {Psychopharmacology (Berl)},
title = {The role of impulsive behavior in drug abuse},
abstract = {BACKGROUND: Impulsivity is a multifaceted construct that has recently been recognized as a factor contributing to enhanced vulnerability to drug abuse. OBJECTIVES: In the present review, we focus on two facets of impulsivity (and tasks that measure them): (1) impulsive choice (delay discounting task) and (2) inhibitory failure (go/no-go, stop signal reaction time, and five-choice serial reaction time tasks). We also describe how performance on each of these tasks is associated with drug-related behavior during phases of drug abuse that capture the essential features of addiction (acquisition, escalation, and reinstatement of drug-seeking after drug access has terminated). Three hypotheses (H) regarding the relationship between impulsivity and drug abuse are discussed: (1) increased levels of impulsivity lead to drug abuse (H1), (2) drugs of abuse increase impulsivity (H2), and (3) impulsivity and drug abuse are associated through a common third factor (H3). CONCLUSION: Impulsivity expressed as impulsive choice or inhibitory failure plays a role in several key transition phases of drug abuse. There is evidence to support all three nonexclusive hypotheses. Increased levels of impulsivity lead to acquisition of drug abuse (H1) and subsequent escalation or dysregulation of drug intake. Drugs of abuse may increase impulsivity (H2), which is an additional contributor to escalation/dysregulation. Abstinence, relapse, and treatment may be influenced by both H1 and H2. In addition, there is a relationship between impulsivity and other drug abuse vulnerability factors, such as sex, hormonal status, reactivity to nondrug rewards, and early environmental experiences that may impact drug intake during all phases of addiction (H3). Relating drug abuse and impulsivity in phases of addiction via these three hypotheses provides a heuristic model from which future experimental questions can be addressed.},
affiliation = {Minneapolis Medical Research Foundation, S-3, 860, 914 South 8th Street, Minneapolis, MN 55404, USA. perry050@umm.edu},
number = {1},
pages = {1--26},
volume = {200},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Humans, Risk Factors, Task Performance and Analysis, Impulsive Behavior, Behavior: Addictive, Animals, Reward, Inhibition (Psychology), Sex Factors, Reaction Time, Substance-Related Disorders},
date-added = {2010-05-23 17:17:34 +0200},
date-modified = {2010-05-23 17:17:39 +0200},
doi = {10.1007/s00213-008-1173-0},
pmid = {18600315},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Perry-2008-Psychopharmacology%20(Berl)_The%20role%20of%20impulsiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11963},
rating = {5}
}
@article{Saucier:1996p13846,
author = {G Saucier and L R Goldberg},
title = {The Language af Personality: Lexical Perspectives on the Five-Factor Model},
year = {1996},
date-added = {2010-07-29 17:22:06 +0200},
date-modified = {2010-07-29 17:22:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saucier-1996-_The%20Language%20af%20Pers.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13846},
rating = {0}
}
@article{Liu:2008p1567,
author = {J Liu and O Demirci and V D Calhoun},
journal = {IEEE Signal Processing Letters},
title = {A Parallel Independent Component Analysis
Approach to Investigate Genomic Influence
on Brain Function},
abstract = {Relationships between genomic data and functional brain images are of great interest but require new analysis ap- proaches to integrate the high-dimensional data types. This letter presents an extension of a technique called parallel independent component analysis (paraICA), which enables the joint analysis of multiple modalities including interconnections between them. We extend our earlier work by allowing for multiple interconnections and by providing important overfitting controls. Performance was assessed by simulations under different conditions, and indicated reliable results can be extracted by properly balancing overfitting and underfitting. An application to functional magnetic resonance images and single nucleotide polymorphism array produced inter- esting findings.},
pages = {413--416},
volume = {15},
year = {2008},
date-added = {2010-01-07 16:53:13 +0100},
date-modified = {2010-01-07 16:54:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2008-IEEE%20Signal%20Processing%20Letters_A%20Parallel%20Independe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1567},
rating = {0}
}
@article{vanGinkel:2010p6244,
author = {J R van Ginkel and K Sijtsma and L Andries van der Ark and J K Vermunt},
journal = {Methodology},
title = {Incidence of Missing Item Scores in Personality Measurement, and Simple Item-Score Imputation},
abstract = {The focus of this study was the incidence of different kinds of missing-data problems in personality research and the handling of these problems. Missing-data problems were reported in approximately half of more than 800 articles published in three leading personality journals. In these articles, unit nonresponse, attrition, and planned missingness were distinguished but missing item scores in trait measurement were reported most frequently. Listwise deletion was the most frequently used method for handling all missing-data problems. Listwise deletion is known to reduce the accuracy of parameter estimates and the power of statistical tests and often to produce biased statistical analysis results. This study proposes a simple alternative method for handling missing item scores, known as two-way imputation, which leaves the sample size intact and has been shown to produce almost unbiased results based on multi-item questionnaire data.},
number = {1},
pages = {17--30},
volume = {6},
year = {2010},
date-added = {2010-02-19 21:20:16 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
doi = {10.1027/1614-2241/a000003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Ginkel-2010-Methodology_Incidence%20of%20Missing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6244},
read = {Yes},
rating = {0}
}
@article{Yu:2005,
author = {C H Yu and S E O Popp},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Test Equating by Common Items and Common Subjects: Concepts and Applications},
number = {4},
volume = {10},
year = {2005},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2005-Practical%20Assessment%20Research%20%20&%20Evaluation_Test%20Equating%20by%20Com.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2047},
rating = {0}
}
@article{Kimmel:2007p3359,
author = {Gad Kimmel and Michael I Jordan and Eran Halperin and Ron Shamir and Richard M Karp},
journal = {Am J Hum Genet},
title = {A randomization test for controlling population stratification in whole-genome association studies},
abstract = {Population stratification can be a serious obstacle in the analysis of genomewide association studies. We propose a method for evaluating the significance of association scores in whole-genome cohorts with stratification. Our approach is a randomization test akin to a standard permutation test. It conditions on the genotype matrix and thus takes into account not only the population structure but also the complex linkage disequilibrium structure of the genome. As we show in simulation experiments, our method achieves higher power and significantly better control over false-positive rates than do existing methods. In addition, it can be easily applied to whole-genome association studies.},
affiliation = {Computer Science Division, University of California Berkeley, Berkeley, CA 94720, USA. kimmel@cs.berkeley.edu},
number = {5},
pages = {895--905},
volume = {81},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Models: Genetic, Genetic Predisposition to Disease, Genome: Human, Polymorphism: Single Nucleotide, Algorithms, Humans, Databases: Genetic},
date-added = {2010-01-15 14:37:37 +0100},
date-modified = {2010-01-15 14:37:38 +0100},
doi = {10.1086/521372},
pii = {S0002-9297(07)63867-1},
pmid = {17924333},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3359},
rating = {0}
}
@article{Endres:2006p3992,
author = {Heinz G Endres and Christian Hucke and Tim Holland-Letz and Hans-Joachim Trampisch},
journal = {BMC Cardiovasc Disord},
title = {A new efficient trial design for assessing reliability of ankle-brachial index measures by three different observer groups},
abstract = {BACKGROUND: The usual method of assessing the variability of a measure such as the ankle brachial index (ABI) as a function of different observer groups is to obtain repeated measurements. Because the number of possible observer-subject combinations is impractically large, only a few small studies on inter- and intraobserver variability of ABI measures have been carried out to date. The present study proposes a new and efficient study design. This paper describes the study methodology. METHODS: Using a partially balanced incomplete block design, six angiologists, six primary-care physicians and six trained medical office assistants performed two ABI measurements each on six individuals from a group of 36 unselected subjects aged 65-70 years. Each test subject is measured by one observer from each of the three observer groups, and each observer measures exactly six of the 36 subjects in the group. Each possible combination of two observers occurs exactly once per patient and is not repeated on a second subject. The study involved four groups of 36 subjects (144), plus standbys. RESULTS: The 192 volunteers present at the study day were similar in terms of demographic characteristics and vascular risk factors: mean age 68.6 +/- 1.7; mean BMI 29.1 +/- 4.6; mean waist-hip ratio 0.92 +/- 0.09; active smokers 12%; hypertension 60.9%; hypercholesterolemia 53.4%; diabetic 17.2%. A complete set of ABI measurements (three observers performing two Doppler measurements each) was obtained from 108 subjects. From all other subjects at least one ABI measurement was obtained. The mean ABI was 1.08 (+/- 0.13), 15 (7.9%) volunteers had an ABI < 0.9, and none had an ABI > 1.4, i.e. a ratio that may be associated with increased stiffening of the arterial walls. CONCLUSION: This is the first large-scale study investigating the components of variability and thus reliability in ABI measurements. The advantage of the new study design introduced here is that only one sixth of the number of theoretically possible measurements is required to obtain information about measurement errors. Bland-Altman plots show that there are only small differences and no systematic bias between the observers from three occupational groups with different training backgrounds.},
affiliation = {Department of Medical Informatics, Biometry and Epidemiology, Ruhr-University, Bochum, D-44801 Bochum, Germany. heinz.endres@ruhr-uni-bochum.de},
pages = {33},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Blood Pressure, Ankle, Brachial Artery, Regional Blood Flow, Humans, Peripheral Vascular Diseases, Observer Variation, Female, Male, Research Design, Aged, Reproducibility of Results},
date-added = {2010-01-17 23:23:50 +0100},
date-modified = {2010-01-17 23:23:50 +0100},
doi = {10.1186/1471-2261-6-33},
pii = {1471-2261-6-33},
pmid = {16872534},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Endres-2006-BMC%20Cardiovasc%20Disord_A%20new%20efficient%20tria.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3992},
rating = {0}
}
@article{Smits:2006p12894,
author = {D J M Smits and Paul De Boeck},
journal = {European Journal of Personality},
title = {From BIS/BAS to the Big Five},
abstract = {Gray (1987) proposed two systems that underlie much of our behaviour and personality. One system relates to avoidance or withdrawal behaviour, called the Behavioural Inhibition System (BIS), whereas the other system relates to approach behaviour, called the Behavioural Approach System (BAS). In two samples, it was investigated whether individual differences in surface of personality as described by the Big Five can be explained by BIS/BAS. Neuroticism and Extraversion could be explained well by BIS/BAS, but also for Agreeableness and Conscientiousness consistent findings were obtained.},
pages = {255--270},
volume = {20},
year = {2006},
date-added = {2010-06-24 13:44:46 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smits-2006-European%20Journal%20of%20Personality_From%20BISBAS%20to%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12894},
rating = {5}
}
@article{Parmigiani:2007p3298,
author = {G Parmigiani and J Lin and S Boca and T Sjoblom and K W Kinzler and V E Velculescu and B Vogelstein},
journal = {Johns Hopkins University, Dept. of Biostatistics Working Papers},
title = {STATISTICAL METHODS FOR THE ANALYSIS OF CANCER GENOME SEQUENCING DATA},
abstract = {The purpose of cancer genome sequencing studies is to determine the nature and types of alterations present in a typical cancer and to discover genes mutated at high frequencies. In this article we discuss statistical methods for the analysis of data generated in these studies. We place special emphasis on a two-stage study design introduced by Sjoblom et al.[1]. In this context, we describe statistical methods for constructing scores that can be used to prioritize candidate genes for further investigation and to assess the statistical signicance of the candidates thus identfied.},
number = {126},
year = {2007},
date-added = {2010-01-14 21:26:56 +0100},
date-modified = {2010-01-14 21:27:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parmigiani-2007-Johns%20Hopkins%20University%20Dept.%20of%20Biostatistics%20Working%20Papers_STATISTICAL%20METHODS.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3298},
rating = {0}
}
@article{Parker:2009p3157,
author = {Michael Parker and Susan J Bull and Jantina de Vries and Tsiri Agbenyega and Ogobara K Doumbo and Dominic P Kwiatkowski},
journal = {PLoS Med},
title = {Ethical data release in genome-wide association studies in developing countries},
affiliation = {Ethox Centre, University of Oxford, Oxford, United Kingdom. michael.parker@ethox.ox.ac.uk},
number = {11},
pages = {e1000143},
volume = {6},
year = {2009},
month = {Nov},
language = {eng},
date-added = {2010-01-14 20:23:25 +0100},
date-modified = {2010-07-29 19:43:47 +0200},
doi = {10.1371/journal.pmed.1000143},
pmid = {19956792},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parker-2009-PLoS%20Med_Ethical%20data%20release.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3157},
rating = {0}
}
@article{Brauer:2005p3653,
author = {M Brauer and G McClelland},
journal = {L'Ann{\'e}e psychologique},
title = {L'utilisation des contrastes dans l'analyse des donn{\'e}es : Comment tester les hypoth{\`e}ses sp{\'e}cifiques dans la recherche en psychologie ?},
abstract = {Les tests omnibus plusieurs degr{\'e}s de libert{\'e}s ne fournissent que des r{\'e}ponses vagues alors que la plupart des hypoth{\`e}ses que nous d{\'e}rivons de nos mod{\`e}les th{\'e}oriques/ont des pr{\'e}dictions relativement pr{\'e}cises Pour r{\'e}pondre ce niveau de pr{\'e}cision nous sugg{\'e}rons de tester des contrastes sp{\'e}cifiques plut{\^o}t que effectuer des tests omnibus Deux conditions se doivent {\^e}tre satisfaites avant que on puisse affirmer un contraste donn{\'e} est une description parci monieuse des moyennes observ{\'e}es le contraste lui-m{\^e}me doit expliquer une partie significative de la variance et si on contr{\^o}le statistiquement les effets de ce contraste la variance intergroupe r{\'e}siduelle doit {\^e}tre non significa tive aide exemples concrets article pr{\'e}sente les analyses permettant de tester ces deux conditions avec diff{\'e}rents plans exp{\'e}rimentaux Mots cl{\'e}s contraste test omnibus variance r{\'e}siduelle degr{\'e} de liberte},
number = {2},
pages = {273--305},
volume = {105},
year = {2005},
date-added = {2010-01-16 20:04:26 +0100},
date-modified = {2010-07-29 19:38:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brauer-2005-L'Ann%C3%A9e%20psychologique_L'utilisation%20des%20co-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3653},
rating = {0}
}
@techreport{Klein:2005,
author = {John P Klein and Niels Keiding and Svend Kreiner},
journal = {Techreport},
title = {Graphical models for panel studies, illustrated on data from the framingham heart study},
affiliation = {Department of Biostatistics, University of Copenhagen},
year = {2005},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Klein-2005-Techreport_Graphical%20models%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2212},
rating = {0}
}
@article{King:2004p7022,
author = {G King and C J L Murray and J A Salomon and A Tandon},
journal = {American Political Science Review},
title = {Enhancing the Validity and Cross-Cultural Comparability of Measurement in Survey Research},
abstract = {We address two long-standing survey research problems: measuring complicated concepts, such as political freedom and efficacy, that researchers define best with reference to examples; and what to do when respondents interpret identical questions in different ways. Scholars have long addressed these problems with approaches to reduce incomparability, such as writing more concrete questions---with uneven success. Our alternative is to measure directly response category incomparability and to correct for it. We measure incomparability via respondents' assessments, on the same scale as the self-assessments to be corrected, of hypothetical individuals described in short vignettes. Because the actual (but not necessarily reported) levels of the vignettes are invariant over respondents, variability in vignette answers reveals incomparability. Our corrections require either simple recodes or a statistical model designed to save survey administration costs. With analysis, simulations, and cross-national surveys, we show how response incomparability can drastically mislead survey researchers and how our approach can alleviate this problem.},
number = {1},
pages = {191--207},
volume = {98},
year = {2004},
date-added = {2010-03-06 19:57:31 +0100},
date-modified = {2010-03-06 19:58:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/King-2004-American%20Political%20Science%20Review_Enhancing%20the%20Validi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7022},
rating = {0}
}
@article{Boulesteix:2007p460,
author = {Anne-Laure Boulesteix},
journal = {Bioinformatics},
title = {WilcoxCV: an R package for fast variable selection in cross-validation},
abstract = {In the last few years, numerous methods have been proposed for microarray-based class prediction. Although many of them have been designed especially for the case n << p (much more variables than observations), preliminary variable selection is almost always necessary when the number of genes reaches several tens of thousands, as usual in recent data sets. In the two-class setting, the Wilcoxon rank sum test statistic is, with the t-statistic, one of the standard approaches for variable selection. It is well known that the variable selection step must be seen as a part of classifier construction and, as such, be performed based on training data only. When classifier accuracy is evaluated via cross-validation or Monte-Carlo cross-validation, it means that we have to perform p Wilcoxon or t-tests for each iteration, which becomes a daunting task for increasing p. As a consequence, many authors often perform variable selection only once using all the available data, which can induce a dramatic underestimation of error rate and thus lead to misleadingly reporting predictive power. We propose a very fast implementation of variable selection based on the Wilcoxon test for use in cross-validation and Monte Carlo cross-validation (also known as random splitting into learning and test sets). This implementation is based on a simple mathematical formula using only the ranks calculated from the original data set. Availability: Our method is implemented in the freely available R package WilcoxCV which can be downloaded from the Comprehensive R Archive Network at http://cran.r-project.org/src/contrib/Descriptions/WilcoxCV.html.},
affiliation = {Sylvia Lawry Centre for Multiple Sclerosis Research, Hohenlindenerstr. 1, D-81677 Munich, Germany. boulesteix@slcmsr.org},
number = {13},
pages = {1702--4},
volume = {23},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Data Interpretation: Statistical, Reproducibility of Results, Gene Expression Profiling, Sensitivity and Specificity, Oligonucleotide Array Sequence Analysis, Statistics: Nonparametric, Software, Algorithms},
date-added = {2010-01-03 12:29:15 +0100},
date-modified = {2010-01-03 12:29:15 +0100},
doi = {10.1093/bioinformatics/btm162},
pii = {btm162},
pmid = {17495999},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2007-Bioinformatics_WilcoxCV%20an%20R%20packa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p460},
rating = {0}
}
@techreport{Diaz:2006a,
author = {T E Diaz and H A Le and L L Wise},
journal = {Techreport},
title = {NAEP-QA FY06 Special Study: 12th Grade Math Trend Estimates},
affiliation = {US Department of Education},
year = {2006},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diaz-2006-Techreport_NAEP-QA%20FY06%20Special.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2132},
read = {Yes},
rating = {0}
}
@article{Krabbe:1999p7243,
author = {P F Krabbe and M E Stouthard and M L Essink-Bot and G J Bonsel},
journal = {Journal of Clinical Epidemiology},
title = {The effect of adding a cognitive dimension to the EuroQol multiattribute health-status classification system},
abstract = {A methodological study was conducted to examine the effect of extending a frequently used simple multiattribute health-status classification system by adding a cognitive dimension. The EQ-5D questionnaire is a generic instrument to value health, developed by the EuroQol Group. The EQ-5D defines health according to five dimensions: mobility, self-care, usual activities, pain/discomfort, and anxiety/depression. We defined 18 different health states according to the standard EQ-5D classification. A second set of health states was constructed similar to the first, except for the addition of a cognitive dimension (EQ-5D+C). Valuations of both sets of health states were statistically analyzed to detect the effect of the additional dimension. The cognitive dimension generated systematically different values compared with the standard EQ-5D version, whereas the content validity improved. Both systems evoked equally reliable values. Analyses showed that a simple additive model to predict summary values for health states was not optimal for both systems. Although there is a current lack of consensus regarding the domains that are selected to represent health status, this study has shown the importance of considering the inclusion of a cognitive domain.},
affiliation = {Department of Public Health, Faculty of Medicine, Erasmus University, Rotterdam, The Netherlands.},
number = {4},
pages = {293--301},
volume = {52},
year = {1999},
month = {Apr},
language = {eng},
keywords = {Pain, Research Design, Questionnaires, Cognition, Reproducibility of Results, Activities of Daily Living, Female, Adult, Humans, Male, Health Status Indicators, Anxiety},
date-added = {2010-03-10 20:12:20 +0100},
date-modified = {2010-03-10 20:12:20 +0100},
pii = {S0895-4356(98)00163-2},
pmid = {10235169},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Krabbe-1999-Journal%20of%20Clinical%20Epidemiology_The%20effect%20of%20adding.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7243},
rating = {0}
}
@article{Muthen:1989p13808,
author = {B Muth{\'e}n},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Multiple-group structural modelling with non-normal continuous variables},
pages = {55--62},
volume = {42},
year = {1989},
date-added = {2010-07-29 12:26:00 +0200},
date-modified = {2010-07-29 19:22:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1989-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Multiple-group%20struc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13808},
rating = {0}
}
@article{Patrick:2000p8803,
author = {D L Patrick and Y P Chiang},
journal = {Med Care},
title = {Measurement of health outcomes in treatment effectiveness evaluations: conceptual and methodological challenges},
abstract = {Major challenges in the evaluation of the "end results" of health services include ensuring that concepts are correctly defined and measured, that the validity of measures used in different applications and populations is well documented, and that observed effects can be clearly interpreted. Health status is the most widely interpretable concept to apply in the context of health services. Quality of life connotes inclusion of the environment outside the context of the person and of health care and may or may not be health related, depending on the evaluation context and the impact of disease and treatment. All concepts and constructs must be defined in reference to their theoretical origin and to a model of relationships among different concepts. Modern test theory offers the potential for individualized, comparable assessments and for the careful examination and application of different measurement models. Selection and critique of measures should be based on the intended application and accumulated evidence for that application. Thus, there are no valid instruments per se. Validity in use, including responsiveness, interpretation of effects, and generalizability to diverse populations, is the most important measurement characteristic for treatment effectiveness. An evaluation of the validity of preference-based measures is particularly important for the interpretation and comparability of outcomes in cost-effectiveness evaluations. The successful translation of research into policy and practice is limited by the extent to which these critical issues are addressed in actual treatment evaluations.},
affiliation = {Department of Health Services, University of Washington, Seattle 98195-7600, USA. donald@u.washington.edu},
number = {9 Suppl},
pages = {II14--25},
volume = {38},
year = {2000},
month = {Sep},
language = {eng},
keywords = {Treatment Outcome, Humans, Randomized Controlled Trials as Topic, Research Design, Psychometrics, Health Status, Quality of Life, Evaluation Studies as Topic, Reproducibility of Results, Outcome Assessment (Health Care), Health Services Research},
date-added = {2010-03-22 12:08:22 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
pmid = {10982087},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8803},
rating = {0}
}
@misc{Jackel:2003,
author = {P J{\"a}ckel},
journal = {Miscellaneous},
title = {A note on multivariate Gauss-Hermite quadrature},
year = {2003},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/J%C3%A4ckel-2003-Miscellaneous_A%20note%20on%20multivaria.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1992},
rating = {0}
}
@article{Hinrichs:2009p824,
author = {Anthony L Hinrichs and Emma K Larkin and Brian K Suarez},
journal = {Genet Epidemiol},
title = {Population stratification and patterns of linkage disequilibrium},
abstract = {Although the importance of selecting cases and controls from the same population has been recognized for decades, the recent advent of genome-wide association studies has heightened awareness of this issue. Because these studies typically deal with large samples, small differences in allele frequencies between cases and controls can easily reach statistical significance. When, unbeknownst to a researcher, cases and controls have different substructures, the number of false-positive findings is inflated. There have been three recent developments of purely statistical approaches to assessing the ancestral comparability of case and control samples: genomic control, structured association, and multivariate reduction analyses. The widespread use of high-throughput technology has allowed the quick and accurate genotyping of the large number of markers required by these methods. Group 13 dealt with four population stratification issues: single-nucleotide polymorphism marker selection, association testing, nonstandard methods, and linkage disequilibrium calculations in stratified or mixed ethnicity samples. We demonstrated that there are continuous axes of ethnic variation in both data sets of Genetic Analysis Workshop 16. Furthermore, ignoring this structure created P-value inflation for a variety of phenotypes. Principal-components analysis (or multidimensional scaling) can control inflation as covariates in a logistic regression. One can weigh for local ancestry estimation and allow the use of related individuals. Problems arise in the presence of extremely high association or unusually strong linkage disequilibrium (e.g., in chromosomal inversions). Our group also reported a method for performing an association test controlling for substructure, when genome-wide markers are not available, to explicitly compute stratification.},
affiliation = {Department of Psychiatry, Washington University School of Medicine, St. Louis, Missouri 63110, USA. tony@fire.wustl.edu},
pages = {S88--92},
volume = {33 Suppl 1},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-03 17:48:03 +0100},
date-modified = {2010-01-03 17:48:03 +0100},
doi = {10.1002/gepi.20478},
pmid = {19924707},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p824},
rating = {0}
}
@article{Charland:1996,
author = {H Charland and G C{\^o}t{\'e}},
journal = {Revue qu{\'e}b{\'e}coise de psychologie},
title = {Fid{\'e}lit{\'e} et validit{\'e} de la version fran{\c c}aise du "Children of Alcoholics Screening Test" (CAST)},
number = {1},
pages = {45--62},
volume = {17},
year = {1996},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Charland-1996-Revue%20qu%C3%A9b%C3%A9coise%20de%20psychologie_Fid%C3%A9lit%C3%A9%20et%20validit%C3%A9.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1982},
rating = {0}
}
@article{Bech:2008p6718,
author = {P Bech},
journal = {European Psychiatric Review},
title = {The Use of Rating Scales in Affective Disorders},
pages = {14--18},
year = {2008},
date-added = {2010-03-05 22:11:14 +0100},
date-modified = {2010-03-05 22:14:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bech-2008-European%20Psychiatric%20Review_The%20Use%20of%20Rating%20Sc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6718},
rating = {3}
}
@article{Vermunt:2001a,
author = {J K Vermunt and M F Rodrigo and M Ato-Garcia},
journal = {Sociological Methods {\&} Research},
title = {Modeling joint and marginal distributions in the analysis of categorical panel data},
pages = {170--196},
volume = {30},
year = {2001},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 19:50:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2001-Sociological%20Methods%20&%20Research_Modeling%20joint%20and%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2127},
rating = {0}
}
@article{Wrobel:2005p11909,
author = {Gunnar Wrobel and Fr{\'e}d{\'e}ric Chalmel and Michael Primig},
journal = {Bioinformatics},
title = {goCluster integrates statistical analysis and functional interpretation of microarray expression data},
abstract = {MOTIVATION: Several tools that facilitate the interpretation of transcriptional profiles using gene annotation data are available but most of them combine a particular statistical analysis strategy with functional information. goCluster extends this concept by providing a modular framework that facilitates integration of statistical and functional microarray data analysis with data interpretation. RESULTS: goCluster enables scientists to employ annotation information, clustering algorithms and visualization tools in their array data analysis and interpretation strategy. The package provides four clustering algorithms and GeneOntology terms as prototype annotation data. The functional analysis is based on the hypergeometric distribution whereby the Bonferroni correction or the false discovery rate can be used to correct for multiple testing. The approach implemented in goCluster was successfully applied to interpret the results of complex mammalian and yeast expression data obtained with high density oligonucleotide microarrays (GeneChips). AVAILABILITY: goCluster is available via the BioConductor portal at www.bioconductor.org. The software package, detailed documentation, user- and developer guides as well as other background information are also accessible via a web portal at http://www.bioz.unibas.ch/gocluster CONTACT: michael.primig@unibas.ch},
affiliation = {Biozentrum and Swiss Institute of Bioinformatics, Klingelbergstrasse 50-70, CH-4056 Basel, Switzerland.},
number = {17},
pages = {3575--7},
volume = {21},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Software, Oligonucleotide Array Sequence Analysis, Systems Integration, Algorithms, Computer Simulation, Gene Expression Profiling, Cluster Analysis, Artificial Intelligence, Models: Statistical, Models: Genetic, Pattern Recognition: Automated},
date-added = {2010-05-23 11:56:01 +0200},
date-modified = {2010-05-23 11:56:09 +0200},
doi = {10.1093/bioinformatics/bti574},
pii = {bti574},
pmid = {16020468},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wrobel-2005-Bioinformatics_goCluster%20integrates.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11909},
rating = {3}
}
@article{Cacioppo:2009p12792,
author = {J T Cacioppo and J Decety},
journal = {Perspectives on Psychological Science},
title = {What Are the Brain Mechanisms on Which Psychological Processes Are Based?},
abstract = {That the human brain is the organ of the mind is not in dispute, but we know remarkably little about the brain mechanisms underlying the mind. What are the functional structures and computational processes of the human brain that subserve cognition, emotion, and be- havior? Given the complexity of the human brain, progress in understanding the functional organization and struc- ture of the human brain depends on sophisticated theo- retical specifications of the psychological representations and processes that differentiate two or more comparison conditions. Psychological scientists, therefore, are well positioned to lead the search for brain mechanisms un- derlying psychological processes. Doing so constitutes an expansion of the purview of psychological science beyond a science of behavior, and beyond a science of the mind, to include a science of the brain. Such an expansion of the mission of psychological science has implications for the infrastructure and training needs of the discipline.},
number = {1},
pages = {10--18},
volume = {4},
year = {2009},
date-added = {2010-06-18 21:10:42 +0200},
date-modified = {2010-06-18 21:13:15 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cacioppo-2009-Perspectives%20on%20Psychological%20Science_What%20Are%20the%20Brain%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12792},
rating = {0}
}
@article{Degenholtz:2006p3502,
author = {H B Degenholtz and M J Miller and R A Kane and L J Cutler and R L Kane},
journal = {Journal of Housing for the Elderly},
title = {Developing a Typology of Nursing Home Environmentsv},
number = {1/2},
pages = {5--29},
volume = {20},
year = {2006},
date-added = {2010-01-15 15:33:01 +0100},
date-modified = {2010-01-15 15:34:37 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Degenholtz-2006-Journal%20of%20Housing%20for%20the%20Elderly_Developing%20a%20Typolog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3502},
rating = {0}
}
@article{Lantieri:2009p3375,
author = {Francesca Lantieri and Min A Jhun and Jungsun Park and Taesung Park and Marcella Devoto},
journal = {BMC Proc},
title = {Comparative analysis of different approaches for dealing with candidate regions in the context of a genome-wide association study},
abstract = {ABSTRACT : Genome-wide association studies (GWAS) test hundreds of thousands of single-nucleotide polymorphisms (SNPs) for association to a trait, treating each marker equally and ignoring prior evidence of association to specific regions. Typically, promising regions are selected for further investigation based on p-values obtained from simple tests of association. However, loci that exert only a weak, low-penetrant role on the trait, producing modest evidence of association, are not detectable in the context of a GWAS. Implementing prior knowledge of association in GWAS could increase power, help distinguish between false and true positives, and identify better sets of SNPs for follow-up studies.Here we performed a GWAS on rheumatoid arthritis (RA) patients and controls (Problem 1, Genetic Analysis Workshop 16). In order to include prior information in the analysis, we applied four methods that distinctively deal with markers in candidate genes in the context of GWAS. SNPs were divided into a random and a candidate subset, then we applied empirical correction by permutation, false-discovery rate, false-positive report probability, and posterior odds of association using different prior probabilities. We repeated the same analyses on two different sets of candidate markers defined on the basis of previously reported association to RA following two different approaches. The four methods showed similar relative behavior when applied to the two sets, with the proportion of candidate SNPs ranked among the top 2,000 varying from 0 to 100%. The use of different prior probabilities changed the stringency of the methods, but not their relative performance.},
affiliation = {The Children's Hospital of Philadelphia, 3615 Civic Center Boulevard, Philadelphia, Pennsylvania 19104, USA. f.lantieri@unige.it.},
pages = {S93},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-15 14:41:02 +0100},
date-modified = {2010-01-15 14:41:05 +0100},
pmid = {20018090},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3375},
rating = {3}
}
@article{Nicodemus:2010p5843,
author = {Kristin K Nicodemus and Joseph H Callicott and Rachel G Higier and Augustin Luna and Devon C Nixon and Barbara K Lipska and Radhakrishna Vakkalanka and Ina Giegling and Dan Rujescu and David St Clair and Pierandrea Muglia and Yin Yao Shugart and Daniel R Weinberger},
journal = {Hum Genet},
title = {Erratum to: Evidence of statistical epistasis between DISC1, CIT and NDEL1 impacting risk for schizophrenia: biological validation with functional neuroimaging},
affiliation = {Genes, Cognition and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Room 4S-235, 10 Center Drive, Bethesda, MD, 20892, USA, kristin.nicodemus@well.ox.ac.uk.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-17 10:18:16 +0100},
date-modified = {2010-07-29 19:28:44 +0200},
doi = {10.1007/s00439-010-0793-8},
pmid = {20127117},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5843},
rating = {0}
}
@article{vanderSluis:2008p9132,
author = {Sophie van der Sluis and Gonneke Willemsen and Eco J C de Geus and Dorret I Boomsma and Danielle Posthuma},
journal = {Behav Genet},
title = {Gene-environment interaction in adults' IQ scores: measures of past and present environment},
abstract = {Gene-environment interaction was studied in a sample of young (mean age 26 years, N = 385) and older (mean age 49 years, N = 370) adult males and females. Full scale IQ scores (FSIQ) were analyzed using biometric models in which additive genetic (A), common environmental (C), and unique environmental (E) effects were allowed to depend on environmental measures. Moderators under study were parental and partner educational level, as well as urbanization level and mean real estate price of the participants' residential area. Mean effects were observed for parental education, partner education and urbanization level. On average, FSIQ scores were roughly 5 points higher in participants with highly educated parents, compared to participants whose parents were less well educated. In older participants, IQ scores were about 2 points higher when their partners were highly educated. In younger males, higher urbanization levels were associated with slightly higher FSIQ scores. Our analyses also showed increased common environmental variation in older males whose parents were more highly educated, and increased unique environmental effects in older males living in more affluent areas. Contrary to studies in children, however, the variance attributable to additive genetic effects was stable across all levels of the moderators under study. Most results were replicated for VIQ and PIQ.},
affiliation = {Department of Biological Psychology, VU University Amsterdam, Van der Boechorststraat 1, Amsterdam 1081 BT, The Netherlands. s.van.der.sluis@psy.vu.nl},
number = {4},
pages = {348--60},
volume = {38},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Intelligence, Models: Biological, Speech, Twins: Dizygotic, Twins: Monozygotic, Adult, Models: Genetic, Male, Intelligence Tests, Psychometrics, Netherlands, Female, Environment, Humans},
date-added = {2010-03-22 13:27:48 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-008-9212-5},
pmid = {18535898},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20der%20Sluis-2008-Behav%20Genet_Gene-environment%20int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9132},
rating = {0}
}
@article{Dray:2008p809,
author = {St{\'e}phane Dray},
journal = {Computational Statistics},
title = {On the number of principal components: A test of dimensionality based on measurements of similarity between matrices},
abstract = {An important problem in principal component analysis (PCA) is the estimation of the correct number of components to retain. PCA is most often used to reduce a set of observed variables to a new set of variables of lower dimensionality. The choice of this dimensionality is a crucial step for the interpretation of results or subsequent analyses, because it could lead to a loss of information (underestimation) or the introduction of random noise (overestimation). New techniques are proposed to evaluate the dimensionality in PCA. They are based on similarity measurements, singular value decomposition and permutation procedures. A simulation study is conducted to evaluate the relative merits of the proposed approaches. Results showed that one method based on the RV coefficient is very accurate and seems to be more efficient than other existing approaches.},
affiliation = {Laboratoire de Biom{\'e}trie et Biologie Evolutive, Universit{\'e} de Lyon; Universit{\'e} Lyon 1; CNRS; UMR 5558,
43 boulevard du 11 novembre 1918, Villeurbanne F-69622, France},
pages = {2228--2237},
volume = {52},
year = {2008},
month = {Oct},
keywords = {Simulation study, Permutation procedure, Co-inertia criterion, Singular value decomposition, RV coefficient, Stopping rules},
date-added = {2010-01-03 17:15:42 +0100},
date-modified = {2010-07-29 19:24:31 +0200},
doi = {10.1016/j.csda.2007.07.015},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dray-2008-Computational%20Statistics_On%20the%20number%20of%20pri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p809},
rating = {0}
}
@article{Lubke:2001p11600,
author = {G H Lubke and CV Dolan and H Kelderman},
journal = {Multivariate Behavioral Research},
title = {Investigating Group Differences on Cognitive Tests Using Spearman's Hypothesis: An Evaluation of Jensen's Method},
abstract = {Jensen has posited a research method to investigate group differences in cognitive tests. This method consists of first extracting a general intelligence factor by means of exploratory factor analysis. Secondly, similarity of factor loadings across groups is evaluated in an attempt to ensure that the same constructs are measured. Finally, the correlation is computed between the loadings of the tests on the general intelligence factor and the mean differences between groups on the tests. This part is referred to as a test of ``Spearman's Hypothesis'', which essentially states that differences in g account for the main part of differences in observed scores. Based on the correlation, inferences are made with respect to group differences in general intelligence.
The validity of these inferences is investigated and compared to the validity of inferences based on multi-group confirmatory factor analysis. For this comparison, population covariance matrices are constructed which incorporate violations of the central assumption underlying Jensen's method concerning the existence of g and/or violations of Spearman's Hypothesis. It is demonstrated that Jensen's method is quite insensitive to the violations. This lack of specificity is observed consistently for all types of violations introduced in the present study. Multi-group confirmatory factor analysis emerges as clearly superior to Jensen's method.},
number = {3},
pages = {299--324},
volume = {36},
year = {2001},
date-added = {2010-05-09 21:28:43 +0200},
date-modified = {2010-05-09 21:29:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubke-2001-Multivariate%20Behavioral%20Research_Investigating%20Group.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11600},
rating = {0}
}
@article{Harvey:2004p2591,
author = {R J Harvey and E Hollander},
title = {Benchmarking rWG Interrater Agreement Indices: Let's Drop the .70 Rule-Of-Thumb},
abstract = {Variance-based interrater agreement indices in the rWG family are often interpreted using rules-of- thumb derived for reliabilities (e.g., ≥ .70 = acceptable). Monte Carlo results suggest that far more stringent standards are needed, especially for maximum-variance rWG, as values > .70 can routinely be obtained from totally random ratings.},
year = {2004},
date-added = {2010-01-12 22:35:51 +0100},
date-modified = {2010-01-12 22:36:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harvey-2004-_Benchmarking%20rWG%20Int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2591},
rating = {0}
}
@article{Sprangers:2002p8512,
author = {Mirjam A G Sprangers and Carol M Moinpour and Timothy J Moynihan and Donald L Patrick and Dennis A Revicki and Clinical Significance Consensus Meeting Group},
journal = {Mayo Clin Proc},
title = {Assessing meaningful change in quality of life over time: a users' guide for clinicians},
abstract = {The objective of this article is to help clinicians interpret trial-based quality of life (QOL) changes over time. We address a series of questions and provide guidelines that are fundamental to assessing and interpreting change. The issues addressed are as follows: (1) What are the characteristics of the population for whom changes in QOL are reported? (2) Is the QOL questionnaire reliable, valid, and responsive to change? (3) Are the timing and frequency of assessments adequate? (4) Is the study adequately powered? (5) How are multiple QOL outcomes addressed in analyses? (6) How are multiple time points handled? (7) Can alternative explanations account for the observed change or lack of observed change (eg, handling of missing data, survival differences, and changes in patient's QOL perspective over time)? and (8) How is statistical significance translated into meaningful change? These guidelines will support clinicians in reviewing the clinical trial literature, which in turn can help them use the data in the treatment decision process.},
affiliation = {Department of Medical Psychology, Academic Medical Center, University of Amsterdam, The Netherlands.},
number = {6},
pages = {561--71},
volume = {77},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Reproducibility of Results, Clinical Trials as Topic, Antineoplastic Agents: Hormonal, Physician's Practice Patterns, Female, Practice Guidelines as Topic, Flutamide, United States, Adenocarcinoma, Prostatic Neoplasms, Humans, Sickness Impact Profile, Outcome Assessment (Health Care), Clinical Competence, Questionnaires, Quality of Life, Male, Patient Satisfaction, Orchiectomy, Androgen Antagonists},
date-added = {2010-03-21 20:37:36 +0100},
date-modified = {2010-03-21 20:37:36 +0100},
pmid = {12059127},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sprangers-2002-Mayo%20Clin%20Proc_Assessing%20meaningful.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8512},
rating = {0}
}
@article{Eldridge:2008p6416,
author = {Sandra Eldridge and Deborah Ashby and Catherine Bennett and Melanie Wakelin and Gene Feder},
journal = {BMJ},
title = {Internal and external validity of cluster randomised trials: systematic review of recent trials},
abstract = {OBJECTIVES: To assess aspects of the internal validity of recently published cluster randomised trials and explore the reporting of information useful in assessing the external validity of these trials. DESIGN: Review of 34 cluster randomised trials in primary care published in 2004 and 2005 in seven journals (British Medical Journal, British Journal of General Practice, Family Practice, Preventive Medicine, Annals of Internal Medicine, Journal of General Internal Medicine, Pediatrics). DATA SOURCES: National Library of Medicine (Medline) via PubMed. DATA EXTRACTION: To assess aspects of internal validity we extracted data on appropriateness of sample size calculations and analyses, methods of identifying and recruiting individual participants, and blinding. To explore reporting of information useful in assessing external validity we extracted data on cluster eligibility, cluster inclusion and retention, cluster generalisability, and the feasibility and acceptability of the intervention to health providers in clusters. RESULTS: 21 (62%) trials accounted for clustering in sample size calculations and 30 (88%) in the analysis; about a quarter were potentially biased because of procedures surrounding recruitment and identification of patients; individual participants were blind to allocation status in 19 (56%) and outcome assessors were blind in 15 (44%). In almost half the reports, information relating to generalisability of clusters was poorly reported, and in two fifths there was no information about the feasibility and acceptability of the intervention. CONCLUSIONS: Cluster randomised trials are essential for evaluating certain types of interventions. Issues affecting their internal validity, such as appropriate sample size calculations and analysis, have been widely disseminated and are now better addressed by researchers. Blinding of those identifying and recruiting patients to allocation status is recommended but is not always carried out. There may be fewer barriers to internal validity in trials in which individual participants are not recruited. External validity seems poorly addressed in many trials, yet is arguably as important as internal validity in judging quality as a basis for healthcare intervention.},
affiliation = {Centre for Health Sciences, Barts and The London School of Medicine and Dentistry, London E1 2AT. s.eldridge@qmul.ac.uk},
number = {7649},
pages = {876--80},
volume = {336},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Cluster Analysis, Sample Size, Reproducibility of Results, Randomized Controlled Trials as Topic},
date-added = {2010-02-23 08:26:42 +0100},
date-modified = {2010-02-23 08:26:43 +0100},
doi = {10.1136/bmj.39517.495764.25},
pii = {bmj.39517.495764.25},
pmid = {18364360},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6416},
rating = {0}
}
@article{Zihl:2010p4022,
author = {Josef Zihl and Simone Reppermund and Sonja Thum and Kathrin Unger},
journal = {J Psychiatr Res},
title = {Neuropsychological profiles in MCI and in depression: Differential cognitive dysfunction patterns or similar final common pathway disorder?},
abstract = {The concept of "mild cognitive impairment" (MCI) refers to alterations in cognition in the transition between normal aging and dementia. However, from a neuropsychological point of view the conventional diagnostic criteria appear not sufficiently valid. In particular, it is still difficult to differentiate between subjects with MCI and subjects with depression plus cognitive deficits on the basis of their neuropsychological profiles. The aim of this study is to compare cognitive deficit patterns of subjects with MCI and with depression. 24 subjects with MCI, 50 subjects with depression (DEP) and 20 healthy control subjects were included (age: 55-74years). The neuropsychological assessment consisted of standardized tests to assess attention, memory, and executive functions. Compared to healthy controls both subject groups showed significantly lower performance in all cognitive domains. However, we did not find significant differences in cognitive performance between MCI and DEP subjects, neither at baseline nor at follow-up. In addition, preliminary results of follow-up assessments after 2 (DEP) and 6months (MCI), respectively, revealed no significant changes in cognition in subjects with depression, regardless of whether depressive symptoms had improved. Subjects with MCI also showed no changes in cognition at follow-up. The comparable neuropsychological patterns identified in the two subject groups may be understood as a consequence of similar alterations in cognitive systems, supporting the idea of a final common pathway disorder. Thus, the cognitive deficits present in a subgroup of subjects with depression may possibly better be understood in the context of MCI.},
affiliation = {Max Planck Institute of Psychiatry, Munich, Germany; University of Munich, Department Psychology, Neuropsychology, Munich, Germany.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-19 08:21:55 +0100},
date-modified = {2010-01-19 08:21:55 +0100},
doi = {10.1016/j.jpsychires.2009.12.002},
pii = {S0022-3956(09)00274-X},
pmid = {20060127},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zihl-2010-J%20Psychiatr%20Res_Neuropsychological%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4022},
rating = {0}
}
@article{Gelernter:2005p3533,
author = {Joel Gelernter and Carolien Panhuysen and Roger Weiss and Kathleen Brady and Victor Hesselbrock and Bruce Rounsaville and James Poling and Marsha Wilcox and Lindsay Farrer and Henry R Kranzler},
journal = {Am J Med Genet B Neuropsychiatr Genet},
title = {Genomewide linkage scan for cocaine dependence and related traits: significant linkages for a cocaine-related trait and cocaine-induced paranoia},
abstract = {Risk for cocaine dependence (CD) is genetically influenced. We recruited a sample of small nuclear families (528 full and 155 half sibpairs) with at least one subject affected with CD. The sample was classified via Bayesian clustering as 45.5% European American (EA) and 54.5% African American (AA). Assessment, via the Semi-Structured Assessment for Drug Dependence and Alcoholism, allowed for detailed evaluation of substance dependence-related traits. To define subgroups with increased genetic homogeneity, consistent with our a priori analytic plan, we used cluster analytic methods to identify six cocaine-related symptom clusters; membership was shown to be significantly heritable. We then completed a genomewide linkage scan (409 markers) for the CD diagnosis, cocaine-induced paranoia (CIP; an outcome that occurs in some cocaine users) and the clusters (three of which contained >80% of the CD subjects). We observed a "suggestive" linkage signal on chromosome 10 for the trait of CD in the full sample; and two "suggestive" linkage signals at different locations on chromosome 3, in the EA part of the sample. We observed a genomewide-significant lod score of 3.65 for the trait of CIP on chromosome 9, in the AA part of the sample only. Our strongest results were observed for the cluster membership traits, including a lod score of 4.66 for membership in the "Heavy Use, Cocaine Predominant" cluster on chromosome 12 (in EAs only) and a lod score of 3.35 for membership in the "Moderate Cocaine and Opioid Abuse" cluster on chromosome 18. These results provide a basis for the identification of specific genes contributing to risk for these traits.},
affiliation = {Yale University School of Medicine, Department of Psychiatry, Division of Human Genetics; and VA CT Healthcare Center, West Haven, CT 06516, USA. joel.gelernter@yale.edu},
number = {1},
pages = {45--52},
volume = {136B},
year = {2005},
month = {Jul},
language = {eng},
keywords = {Paranoid Disorders, Gene Frequency, Alcoholism, Linkage (Genetics), Phenotype, Adult, Bayes Theorem, Male, Cocaine-Related Disorders, Female, Models: Genetic, Microsatellite Repeats, Family Health, Genotype, Genome: Human, Humans},
date-added = {2010-01-15 20:50:31 +0100},
date-modified = {2010-01-15 20:50:31 +0100},
doi = {10.1002/ajmg.b.30189},
pmid = {15909294},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3533},
rating = {0}
}
@article{deLeeuw:1986p11676,
author = {Jan de Leeuw},
journal = {NATO Advanced Research Workshop on Numerical Ecology},
title = {Nonlinear multivariate analysis with optimal scaling},
year = {1986},
date-added = {2010-05-14 21:16:11 +0200},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-1986-NATO%20Advanced%20Research%20Workshop%20on%20Numerical%20Ecology_Nonlinear%20multivaria.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11676},
rating = {0}
}
@article{Kates:2009p8907,
author = {Wendy R Kates and Ichiro Ikuta and Courtney P Burnette},
journal = {Autism Res},
title = {Gyrification patterns in monozygotic twin pairs varying in discordance for autism},
abstract = {In order to disentangle genetic and environmental contributions to cortical anomalies in children with autism, we investigated cortical folding patterns in a cohort of 14 monozygotic (MZ) twin pairs who displayed a range of phenotypic discordance for autism, and 14 typically developing community controls. Cortical folding was assessed with the gyrification index, which was calculated on high resolution anatomic MR images. We found that the cortical folding patterns across most lobar regions of the cerebral cortex was highly discordant within MZ twin pairs. In addition, children with autism and their co-twins exhibited increased cortical folding in the right parietal lobe, relative to age- and gender-matched typical developing children. Increased folding in the right parietal lobe was associated with more symptoms of autism for co-twins. Finally, the robust association between cortical folding and IQ observed in typical children was not observed in either children with autism or their co-twins. These findings, which contribute to our understanding of the limits of genetic liability in autism, suggest that anomalies in the structural integrity of the cortex in this PDD may disrupt the association between cortical folding and intelligence that has been reported in typical individuals, and may account, in part, for the deficits in visual spatial attention and in social cognition that have been reported in children with autism.},
affiliation = {Department of Psychiatry and Behavioral Sciences, State University of New York at Upstate Medical University, Syracuse, New York 13210, USA. katesw@upstate.edu},
number = {5},
pages = {267--78},
volume = {2},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Twins: Monozygotic, Intelligence, Image Processing: Computer-Assisted, Male, Adolescent, Magnetic Resonance Imaging, Cerebral Cortex, Autistic Disorder, Cohort Studies, Child, Child: Preschool, Brain Mapping, Imaging: Three-Dimensional, Female, Humans},
date-added = {2010-03-22 12:56:24 +0100},
date-modified = {2010-03-22 12:56:24 +0100},
doi = {10.1002/aur.98},
pmid = {19890876},
url = {http://www3.interscience.wiley.com/journal/122672650/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kates-2009-Autism%20Res_Gyrification%20pattern.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8907},
rating = {0}
}
@article{Grimison:2009p11768,
author = {Peter S Grimison and R John Simes and H Malcolm Hudson and Martin R Stockler},
journal = {Value Health},
title = {Preliminary validation of an optimally weighted patient-based utility index by application to randomized trials in breast cancer},
abstract = {OBJECTIVES: To optimize, apply, and validate a scoring algorithm that provides a utility index from a cancer-specific quality of life questionnaire called the Utility-Based Questionnaire-Cancer (UBQ-C) using data sets from randomized trials in breast cancer. The index is designed to reflect the perspective of cancer patients in a specific clinical context so as to best inform clinical decisions. METHODS: We applied the UBQ-C scoring algorithm to trials of chemotherapy for advanced (n = 325) and early (n = 126) breast cancer. The algorithm converts UBQ-C subscales into a subset index, and combines it with a global health status item into an overall HRQL index, which is then converted to a utility index using a power transformation. The optimal subscale weights were determined by their correlations with the global scale in the relevant data set. The validity of the utility index was tested against other patient characteristics. RESULTS: Optimal weights (range 0-1) for the subset index in advanced (early) breast cancer were: physical function 0.20 (0.09); social/usual activities 0.23 (0.25); self-care 0.04 (0.01); and distresses 0.53 (0.64). Weights for the overall HRQL index were health status 0.66 (0.63) and subset index 0.34 (0.37). The utility index discriminated between breast cancer that was advanced rather than early (means 0.88 vs. 0.94, P < 0.0001) and was responsive to the toxic effects of chemotherapy in early breast cancer (mean change 0.07, P < 0.0001). CONCLUSIONS: The scoring algorithm for the UBQ-C utility index can be optimized in different clinical contexts to reflect the relative importance of different aspects of quality of life to the patients in a trial. It can be used to generate sensitive and responsive utility scores, and quality-adjusted life-years that can be used within a trial to compare the net benefit of treatments and inform clinical decision-making.},
affiliation = {NHMRC Clinical Trials Centre, University of Sydney, Sydney, Australia. Peter.Grimison@ctc.usyd.edu.au},
number = {6},
pages = {967--76},
volume = {12},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Algorithms, Australia, Quality-Adjusted Life Years, Health Status, Humans, Randomized Controlled Trials as Topic, Questionnaires, Adult, Quality of Life, Fluorouracil, Multicenter Studies as Topic, Sickness Impact Profile, Breast Neoplasms, Aged, New Zealand, Female, Antimetabolites: Antineoplastic, Young Adult, Outcome Assessment (Health Care), Survival Analysis, Deoxycytidine, Adolescent, Middle Aged},
date-added = {2010-05-23 10:38:44 +0200},
date-modified = {2010-05-23 10:38:44 +0200},
doi = {10.1111/j.1524-4733.2009.00536.x},
pii = {VHE536},
pmid = {19490566},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grimison-2009-Value%20Health_Preliminary%20validati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11768},
rating = {0}
}
@article{Ali:2009p13760,
author = {Niloufer S Ali and Badar S Ali and Iqbal S Azam},
journal = {BMC Public Health},
title = {Post partum anxiety and depression in peri-urban communities of Karachi, Pakistan: a quasi-experimental study},
abstract = {BACKGROUND: Postpartum anxiety and depression is a major public health concern because of its adverse effects on the cognitive and social development of the infant. Globally postpartum depression has been widely investigated but as anxiety is a more prominent feature of postpartum depression we assessed the prevalence of anxiety and depression and their associated factors in post partum women. METHODS: A quasi-experimental study investigating the impact of postpartum anxiety and depression on child growth and development was conducted in two peri-urban, multiethnic, communities of Karachi, a mega city of Pakistan. A house to house questionnaire based survey was done by trained field workers; 420 consenting pregnant women were identified and data for socio-demographic, home environment and family relationship variables was collected between 36 weeks of pregnancy and within 10 days of childbirth. Mother's levels of anxiety and depression were assessed after one month, two months, six months and twelve months of childbirth; this was two step process: initially an indigenous, validated screening instrument Aga Khan University Anxiety and Depression Scale was used and diagnostic confirmation was done through a psychologist's interview based on DSM IV criteria. Women found to be anxious and depressed at least once out of four assessments were considered for the computation of overall prevalence of postpartum anxiety and depression as well as its risk factors. However, point prevalence's of postpartum anxiety and depression were also reported at each assessment time. Two sixty seven women could be followed for one year. Data was analyzed using SPSS. Chi-square test, simple and multiple logistic regression were used to see the association of different factors. RESULTS: The overall prevalence of postpartum anxiety and depression was found to be 28.8 percent. Domestic violence, difficulty in breast feeding at birth and unplanned current pregnancy were found to be significantly associated with postpartum anxiety and depression. CONCLUSION: Domestic violence and not having the right to plan pregnancy are related to the patriarchal culture and lack of empowerment of women. The association with difficulties in breast feeding needs to be further explored in future studies.},
affiliation = {Department of Community Health Sciences, Aga Khan University, Karachi, Pakistan, Stadium Road, PO Box 3500, Karachi 74800, Pakistan. niloufer.ali@aku.edu},
pages = {384},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-07-28 23:02:53 +0200},
date-modified = {2010-07-28 23:02:53 +0200},
doi = {10.1186/1471-2458-9-384},
pii = {1471-2458-9-384},
pmid = {19821971},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ali-2009-BMC%20Public%20Health_Post%20partum%20anxiety.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13760},
rating = {0}
}
@misc{Fox:2007a,
author = {J-P Fox},
journal = {Miscellaneous},
title = {Multilevel IRT Model Assessment},
year = {2007},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2007-Miscellaneous_Multilevel%20IRT%20Model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2054},
read = {Yes},
rating = {0}
}
@phdthesis{Fox:2001a,
author = {Jean-Paul Fox},
journal = {PhD Thesis},
title = {Multilevel IRT: A bayesian perspective on estimating parameters and testing statistical hypotheses},
affiliation = {Twente University},
year = {2001},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2001-PhD%20Thesis_Multilevel%20IRT%20A%20ba.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2150},
rating = {0}
}
@article{Arking:2008p6061,
author = {Dan E Arking and David J Cutler and Camille W Brune and Tanya M Teslovich and Kristen West and Morna Ikeda and Alexis Rea and Moltu Guy and Shin Lin and Edwin H Cook and Aravinda Chakravarti},
journal = {Am J Hum Genet},
title = {A common genetic variant in the neurexin superfamily member CNTNAP2 increases familial risk of autism},
abstract = {Autism is a childhood neuropsychiatric disorder that, despite exhibiting high heritability, has largely eluded efforts to identify specific genetic variants underlying its etiology. We performed a two-stage genetic study in which genome-wide linkage and family-based association mapping was followed up by association and replication studies in an independent sample. We identified a common polymorphism in contactin-associated protein-like 2 (CNTNAP2), a member of the neurexin superfamily, that is significantly associated with autism susceptibility. Importantly, the genetic variant displays a parent-of-origin and gender effect recapitulating the inheritance of autism.},
affiliation = {McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.},
number = {1},
pages = {160--4},
volume = {82},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Male, Female, Genome: Human, Autistic Disorder, Oligonucleotide Array Sequence Analysis, Membrane Proteins, Nerve Tissue Proteins, Child, Genetic Predisposition to Disease, Humans},
date-added = {2010-02-19 17:02:19 +0100},
date-modified = {2010-02-19 17:02:19 +0100},
doi = {10.1016/j.ajhg.2007.09.015},
pii = {S0002-9297(07)00021-3},
pmid = {18179894},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6061},
rating = {0}
}
@article{Agid:2000p10247,
author = {O Agid and Y Kohn and B Lerer},
journal = {Biomed Pharmacother},
title = {Environmental stress and psychiatric illness},
abstract = {It has long been recognized that environmental stress plays a pivotal role in the pathogenesis of psychiatric disorders. The relationship is complex and the neurobiological mechanisms that mediate the contribution of stressful experiences to the manifestation of illness are not well understood. In considering this relationship, it is important to differentiate between the role of environmental stressors as vulnerability factors that predispose the individual to psychiatric illness and may be temporally distant from its clinical onset, and their role as direct precipitants of the illness. Furthermore, environmental stressors must be considered in the context of constitutional vulnerability factors, such as genetic predisposition, with which such stressors may interact. Genetic predisposition may influence not only vulnerability to illness but also the nature of the individual's response to stress and the likelihood of exposure to stressful events. In this paper, we focus on two areas that illustrate the complexity of the field and the important findings that have emerged--the role of early parental loss (EPL) in adult psychopathology, particularly major depression, and the relationship between recent significant life events and depressive episodes. We conclude with a preliminary conceptual framework for considering the relationship between genetic susceptibility and environmental stress in the pathogenesis of psychiatric illness.},
affiliation = {Department of Psychiatry, Hadassah-Hebrew University Medical Center, Jerusalem, Israel.},
number = {3},
pages = {135--41},
volume = {54},
year = {2000},
month = {Apr},
language = {eng},
keywords = {Depressive Disorder, Mental Disorders, Humans, Environment, Animals, Stress: Psychological},
date-added = {2010-04-02 10:50:49 +0200},
date-modified = {2010-07-29 19:19:27 +0200},
doi = {10.1016/S0753-3322(00)89046-0},
pii = {S0753-3322(00)89046-0},
pmid = {10840590},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Agid-2000-Biomed%20Pharmacother_Environmental%20stress.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10247},
rating = {0}
}
@article{Reich:2001p3546,
author = {D E Reich and D B Goldstein},
journal = {Genet Epidemiol},
title = {Detecting association in a case-control study while correcting for population stratification},
abstract = {Case-control studies are subject to the problem of population stratification, which can occur in ethnically mixed populations and can lead to significant associations being detected at loci that have nothing to do with disease. Here, we describe a way to measure and correct for stratification by genotyping a moderate number of unlinked genetic markers in the same set of cases and controls in which a candidate association was found. The average of association statistics across the markers directly measures stratification. By dividing the candidate association statistic by this average, a P-value can be obtained that corrects for stratification.},
affiliation = {Whitehead Institute/MIT Center for Genome Research, Cambridge, Massachusetts 02142, USA. reich@genome.wi.mit.edu},
number = {1},
pages = {4--16},
volume = {20},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Ethnic Groups, Selection Bias, Polymorphism: Single Nucleotide, Models: Genetic, Case-Control Studies, Chromosome Mapping, Gene Frequency, Humans, Linkage Disequilibrium},
date-added = {2010-01-15 20:59:34 +0100},
date-modified = {2010-01-15 20:59:34 +0100},
doi = {10.1002/1098-2272(200101)20:1<4::AID-GEPI2>3.0.CO;2-T},
pii = {10.1002/1098-2272(200101)20:1<4::AID-GEPI2>3.0.CO;2-T},
pmid = {11119293},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reich-2001-Genet%20Epidemiol_Detecting%20associatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3546},
rating = {0}
}
@article{Aleman:2008p8883,
author = {Andr{\'e} Aleman and Marte Swart and Sophie van Rijn},
journal = {Biol Psychol},
title = {Brain imaging, genetics and emotion},
abstract = {This paper reviews the published evidence on genetically driven variation in neurotransmitter function and brain circuits involved in emotion. Several studies point to a role of the serotonin transporter promoter polymorphism in amygdala activation during emotion perception. We also discuss other polymorphisms (e.g. the COMT val158met polymorphism, tryptophan hydroxylase-2 -703 G/T) and putative effects on affective processing in cortical and limbic regions. A different line of research concerns studies with genetic disorders. Although at a less fine-grained level, studies with individuals with aneuploidies of the X chromosome (Turner syndrome and Klinefelter syndrome), who display impairments in emotion processing, have resulted in new insights and hypotheses with regard to X chromosomal influences on brain systems supporting cognition and emotion. These have also implicated a key role for the amygdala. Integration of the emerging evidence, suggests that the study of polymorphisms using brain imaging can potentially elucidate biological pathways and mechanisms contributing to individual differences in brain circuits that may bias behavior and affect risk for psychiatric illness.},
affiliation = {BCN Neuroimaging Center, University Medical Center Groningen, University of Groningen, The Netherlands. a.aleman@med.umcg.nl},
number = {1},
pages = {58--69},
volume = {79},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Emotions, Brain, Molecular Biology, Genetic Variation, Brain Chemistry, Animals, Neurotransmitter Agents, Humans, Polymorphism: Genetic},
date-added = {2010-03-22 12:49:50 +0100},
date-modified = {2010-03-22 12:49:50 +0100},
doi = {10.1016/j.biopsycho.2008.01.009},
pii = {S0301-0511(08)00028-8},
pmid = {18329779},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T4T-4RRFNGC-4&_user=2432700&_coverDate=09%252F30%252F2008&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=5342bce22b63df34a2ae66c8e4595667},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aleman-2008-Biol%20Psychol_Brain%20imaging%20genet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8883},
rating = {0}
}
@article{Basker:2007p14003,
author = {Mona Basker and Prabhakar D Moses and Sushila Russell and Paul Swamidhas Sudhakar Russell},
journal = {Child Adolesc Psychiatry Ment Health},
title = {The psychometric properties of Beck Depression Inventory for adolescent depression in a primary-care paediatric setting in India},
abstract = {BACKGROUND: There is increasing interest in identifying adolescents with depression in primary care settings by paediatricians in India. This article studied the diagnostic accuracy, reliability and validity of Beck Depression Inventory (BDI) while used by paediatricians in a primary care setting in India. METHODS: 181 adolescents attending 3 schools were administered a back translated Tamil version of BDI by a paediatrician to evaluate its psychometric properties along with Children's Depression Rating Scale (CDRS-R) for convergent validity. Clinical diagnosis of depressive disorders, for reference standard, was based on ICD-10 interview by an independent psychiatrist who also administered the Impact of Event Scale (IES) for divergent validity. Appropriate analyses for validity and diagnostic accuracy both at the item and scale levels were conducted. RESULTS: A cut-off score of >or= 5 (Sn = 90.9%, Sp = 17.6 %) for screening and cut-off score of >or= 22 (Sn = 27.3%, Sp = 90%) for diagnostic utility is suggested. The 4 week test - retest reliability was good (r = 0.82). In addition to the adequate face and content validity, BDI has very good internal consistency (alpha = 0.96), high convergent validity with CDRS-R (r = 0.72; P = 0.001), and high discriminant validity with IES (r = 0.26; P = 0.23). There was a moderate concordance rate with the reference standard (54.5%) in identifying depression among the adolescents. Factor analysis replicated the 2-factor structure explaining 30.5 % of variance. CONCLUSION: The BDI proved to be a psychometrically sound measure for use by paediatricians in a primary care setting in India. The possibility of screening for depressive disorders through the use of BDI may be helpful in identifying probable cases of the disorder among adolescents.},
affiliation = {Department of Child Health, Christian Medical College, Vellore, India. mona_thilak@cmcvellore.ac.in},
number = {1},
pages = {8},
volume = {1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-08-04 09:28:21 +0200},
date-modified = {2010-08-04 09:28:21 +0200},
doi = {10.1186/1753-2000-1-8},
pii = {1753-2000-1-8},
pmid = {17688697},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Basker-2007-Child%20Adolesc%20Psychiatry%20Ment%20Health_The%20psychometric%20pro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14003},
rating = {0}
}
@article{Stevanovic:2009p7980,
author = {Dejan Stevanovic},
journal = {Health Qual Life Outcomes},
title = {Serbian KINDL questionnaire for quality of life assessments in healthy children and adolescents: reproducibility and construct validity},
abstract = {BACKGROUND: The KINDL questionnaire is frequently used to evaluate quality of life (QOL) and the impacts of health conditions on children's everyday living. The objectives of this study were to assess the reproducibility and construct validity of the Serbian KINDL for QOL assessments in healthy children and adolescents. METHODS: Five hundred and sixty-four healthy children and adolescents completed the KINDL. Reproducibility was analyzed using the intraclass correlation coefficient (ICC). Confirmatory factor analysis (CFA) was performed to assess the structure of the KINDL construct validity. RESULTS: The intraclass correlation coefficients ranged from 0.03 to 0.84 for the subscales and total score. A second order CFA model as originally hypothesized was tested: items (24), primary factors (six subscales), and one secondary factor (QOL). The fit indexes derived from a CFA failed to yield appropriate fit between the data and the hypothesized model. CONCLUSION: Majority of the subscales and total KINDL possess appropriate reproducibility for group comparisons. However, a CFA failed to confirm the structure of the original measurement model, indicating that the Serbian version should be revised before wider use for QOL assessments in healthy children and adolescent.},
affiliation = {Department of Psychiatry, General Hospital Sombor, Sombor, Serbia. dejanstevanovic@eunet.rs},
pages = {79},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Male, Quality of Life, Female, Humans, Child, Adolescent, Factor Analysis: Statistical, Questionnaires, Serbia},
date-added = {2010-03-20 19:33:08 +0100},
date-modified = {2010-03-20 19:33:09 +0100},
doi = {10.1186/1477-7525-7-79},
pii = {1477-7525-7-79},
pmid = {19715576},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stevanovic-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Serbian%20KINDL%20questi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7980},
rating = {0}
}
@article{Petrov:2005p14179,
author = {Alexander A Petrov and John R Anderson},
journal = {Psychological Review},
title = {The dynamics of scaling: a memory-based anchor model of category rating and absolute identification},
abstract = {A memory-based scaling model--ANCHOR--is proposed and tested. The perceived magnitude of the target stimulus is compared with a set of anchors in memory. Anchor selection is probabilistic and sensitive to similarity, base-level strength, and recency. The winning anchor provides a reference point near the target and thereby converts the global scaling problem into a local comparison. An explicit correction strategy determines the final response. Two incremental learning mechanisms update the locations and base-level activations of the anchors. This gives rise to sequential, context, transfer, practice, and other dynamic effects. The scale unfolds as an adaptive map. A hierarchy of models is tested on a battery of quantitative measures from 2 experiments in absolute identification and category rating.},
affiliation = {Department of Cognitive Sciences, University of California, Irvine, Irvine, CA 92697, USA. apetrov@uci.edu},
number = {2},
pages = {383--416},
volume = {112},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Retrospective Studies, Psychological Tests, Humans, Models: Psychological, Psychological Theory, Memory},
date-added = {2010-08-22 20:16:03 +0200},
date-modified = {2010-08-22 20:16:03 +0200},
doi = {10.1037/0033-295X.112.2.383},
pii = {2005-02750-004},
pmid = {15783291},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14179},
rating = {0}
}
@article{Beretvas:2002,
author = {S N Beretvas and D A Pastor},
journal = {Educational and Psychological Measurement},
title = {Using mixed-effects models in Reliability Generalization studies},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2008},
rating = {0}
}
@article{Steyerberg:2000p4065,
author = {E W Steyerberg and M J Eijkemans and F E Harrell and J D Habbema},
journal = {Stat Med},
title = {Prognostic modelling with logistic regression analysis: a comparison of selection and estimation methods in small data sets},
abstract = {Logistic regression analysis may well be used to develop a prognostic model for a dichotomous outcome. Especially when limited data are available, it is difficult to determine an appropriate selection of covariables for inclusion in such models. Also, predictions may be improved by applying some sort of shrinkage in the estimation of regression coefficients. In this study we compare the performance of several selection and shrinkage methods in small data sets of patients with acute myocardial infarction, where we aim to predict 30-day mortality. Selection methods included backward stepwise selection with significance levels alpha of 0.01, 0.05, 0. 157 (the AIC criterion) or 0.50, and the use of qualitative external information on the sign of regression coefficients in the model. Estimation methods included standard maximum likelihood, the use of a linear shrinkage factor, penalized maximum likelihood, the Lasso, or quantitative external information on univariable regression coefficients. We found that stepwise selection with a low alpha (for example, 0.05) led to a relatively poor model performance, when evaluated on independent data. Substantially better performance was obtained with full models with a limited number of important predictors, where regression coefficients were reduced with any of the shrinkage methods. Incorporation of external information for selection and estimation improved the stability and quality of the prognostic models. We therefore recommend shrinkage methods in full models including prespecified predictors and incorporation of external information, when prognostic models are constructed in small data sets.},
affiliation = {Center for Clinical Decision Sciences, Department of Public Health, Erasmus University, Rotterdam, The Netherlands. steyerberg@mgz.fgg.eur.nl},
number = {8},
pages = {1059--79},
volume = {19},
year = {2000},
month = {Apr},
language = {eng},
keywords = {Sample Size, Models: Statistical, Forecasting, Female, Myocardial Infarction, Regression Analysis, Age Factors, Prognosis, Aged, Risk Factors, Humans, Male, Sex Factors, Logistic Models},
date-added = {2010-01-19 15:48:37 +0100},
date-modified = {2010-01-19 15:48:37 +0100},
pii = {10.1002/(SICI)1097-0258(20000430)19:8<1059::AID-SIM412>3.0.CO;2-0},
pmid = {10790680},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steyerberg-2000-Stat%20Med_Prognostic%20modelling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4065},
rating = {0}
}
@article{Geisser:1982p6281,
author = {S Geisser},
journal = {Biometrics},
title = {Aspects of the Predictive and Estimative Approaches in the Determination of Probabilities},
pages = {75--85},
volume = {38},
year = {1982},
date-added = {2010-02-20 18:05:13 +0100},
date-modified = {2010-02-20 18:05:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Geisser-1982-Biometrics_Aspects%20of%20the%20Predi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6281},
rating = {0}
}
@article{Pocock:1992,
author = {SJ Pocock},
journal = {British Medical Journal},
title = {When to stop a clinical trial},
abstract = {Most randomised clinical trials require periodic monitoring of the accumulating data. While the efficiency of trial management is enhanced by data monitoring, ethical reasons should primarily dictate the need to terminate or change a trial in response to interim findings. This article focuses on the ethical dilemma of when to stop a clinical trial and places statistical stopping rules in the context of such ethical decision making. Other issues include the organisation of data monitoring committees and the problems of premature publication and exaggerated estimation in trials that stop early. Several topical examples are used to convey the relevance of these issues to current practice.},
pages = {235--240},
volume = {305},
year = {1992},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1047},
rating = {0}
}
@article{Mols:2010p4759,
author = {Floortje Mols and Johan Denollet},
journal = {Health Qual Life Outcomes},
title = {Type D personality in the general population: a systematic review of health status, mechanisms of disease, and work-related problems},
abstract = {ABSTRACT: BACKGROUND: The objective was to review all available literature concerning Type D (distressed) personality among the general population and to discuss its implications for research on health status, disease-promoting mechanisms and work-related problems in non-clinical populations. METHODS: A computerized search of the literature was performed independently and in duplicate by both investigators on December 21st, 2009. Published research reports were included if they studied Type D personality among the general population. Nineteen articles were selected and they were subjected to an 11-item standardised quality checklist by both investigators. RESULTS: The methodological quality of the selected studies was adequate to high. The studies included in this review showed that the presence of Type D characteristics had a negative impact on mental health status (more symptoms of depression, anxiety, post-traumatic stress disorder, mental distress, passive coping, and less social support) and physical health status (more somatic complaints, lower health status, more influenza-like illness reporting). Other studies reported on behavioral and biological mechanisms of disease in apparently healthy individuals with a Type D personality. Finally, some studies also showed a negative effect of Type D personality on work-related problems (higher absence-leave, higher levels of vital exhaustion and burnout, and more work-related stress). CONCLUSIONS: Type D personality is a vulnerability factor for general psychological distress that affects mental and physical health status and is associated with disease-promoting mechanisms and work-related problems in apparently healthy individuals.},
number = {1},
pages = {9},
volume = {8},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-01 12:42:36 +0100},
date-modified = {2010-02-01 12:42:36 +0100},
doi = {10.1186/1477-7525-8-9},
pii = {1477-7525-8-9},
pmid = {20096129},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mols-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Type%20D%20personality%20i-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4759},
rating = {0}
}
@article{Browne:2010p8342,
author = {Dillon T Browne and Adefowope Odueyungbo and Lehana Thabane and Carolyn Byrne and Lindsay A Smart},
journal = {Child Adolesc Psychiatr Clin N Am},
title = {Parenting-by-gender interactions in child psychopathology: attempting to address inconsistencies with a Canadian national database},
abstract = {ABSTRACT: BACKGROUND: Research has shown strong links between parenting and child psychopathology. The moderating role of child gender is of particular interest, due to gender differences in socialization history and in the prevalence of psychiatric disorders. Currently there is little agreement on how gender moderates the relationship between parenting and child psychopathology. This study attempts to address this lack of consensus by drawing upon two theories (self-salience vs. gender stereotyped misbehaviour) to determine how child gender moderates the role of parenting, if at all. METHODS: Using generalized estimating equations (GEE) associations between three parenting dimensions (hostile-ineffective parenting, parental consistency, and positive interaction) were examined in relationship to child externalizing (physical aggression, indirect aggression, and hyperactivity-inattention) and internalizing (emotional disorder-anxiety) dimensions of psychopathology. A sample 4 and 5 year olds from the National Longitudinal Survey of Children and Youth (NLSCY) were selected for analysis and followed over 6 years (N = 1214). Two models with main effects (Model 1) and main effects plus interactions (Model 2) were tested. RESULTS: No child gender-by-parenting interactions were observed for child physical aggression and indirect aggression. The association between hostile-ineffective parenting and child hyperactivity was stronger for girls, though this effect did not reach conventional levels of statistical significance (p = .059). The associations between parenting and child emotional disorder did vary as a function of gender, where influences of parental consistency and positive interaction were stronger for boys. DISCUSSION: Despite the presence of a few significant interaction effects, hypotheses were not supported for either theory (i.e. self-salience or gender stereotyped misbehaviour). We believe that the inconsistencies in the literature regarding child gender-by-parenting interactions is due to the reliance on gender as an indicator of a different variable which is intended to explain the interactions. This may be problematic because there is likely within-gender and between-sample variability in such constructs. Future research should consider measuring and modelling variables that are assumed to explain such interactions when conducting gender-by-parenting research.},
affiliation = {Department of Psychology, University of Guelph, Guelph, Canada. dbrowne@uoguelph.ca.},
pages = {5},
volume = {4},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:43:23 +0100},
date-modified = {2010-07-29 19:23:03 +0200},
doi = {10.1186/1753-2000-4-5},
pii = {1753-2000-4-5},
pmid = {20181023},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Browne-2010-Child%20Adolesc%20Psychiatr%20Clin%20N%20Am_Parenting-by-gender.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8342},
rating = {0}
}
@article{Wray:2005p6090,
author = {John Wray and Natalie Silove and Helen Knott},
journal = {Med J Aust},
title = {7. Language disorders and autism},
abstract = {Early diagnosis of language disorders and autism is important, and early intervention for autism and some language disorders makes a difference. Developmental surveillance of children to detect these disorders should be a routine part of medical practice. The persistence and pervasiveness of communication and socialising deficits differentiate children with autism from those with specific developmental language disorders. Hearing and vision assessment is essential in any communication disorder. Interventions, targeted to identified areas of need, should encompass communication enhancement, behavioural therapy, educational modification, parent education and family support. Pharmacological interventions have an important but discrete role in autism, but there are no magic bullets. It is important to remember that the normal childhood illnesses occur in children with developmental disorders. Parents should be directed to reliable websites on the Internet, and given information and books to read as well as phone numbers of relevant services (eg, autism associations). There is a need for increased government financial support for early intervention programs.},
affiliation = {c/o State Child Development Centre, Women's and Children's Health Service, West Perth, WA, Australia. john.wray@health.wa.gov.au},
number = {7},
pages = {354--60},
volume = {182},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Family, Diagnosis: Differential, Autistic Disorder, Early Diagnosis, Child, Language Disorders, Humans, Social Support, Caregivers},
date-added = {2010-02-19 17:05:18 +0100},
date-modified = {2010-07-29 19:52:48 +0200},
pii = {wra10330_fm},
pmid = {15804229},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6090},
rating = {0}
}
@inbook{Tourangeau:1992,
author = {R Tourangeau},
journal = {Book},
title = {Context effects in social and psychological research},
chapter = {Attitudes as memory structures: Belief sampling and context effects},
pages = {35--47},
year = {1992},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p938},
rating = {0}
}
@article{Cannon:1999,
author = {M Cannon and P Jones and MO Huttunen and A Tanskanen and T Huttunen and S Rabe-Hesketh and RM Murray},
journal = {Arch Gen Psychiatry},
title = {School performance in Finnish children and later development of schizophrenia. A population-based longitudinal study},
abstract = {BACKGROUND: We examined whether children who are diagnosed as having schizophrenia in adulthood could be distinguished from their peers on performance in elementary school. METHODS: We used a case-control study design nested within a population-based birth cohort of all individuals born in Helsinki, Finland, between January 1, 1951, and December 31, 1960. Case ascertainment was from 3 national health care registers. Elementary school records were obtained for 400 children who were diagnosed as having schizophrenia in adulthood and for 408 controls. Results were analyzed for the 4 years of schooling (ages 7-11 years) that were common to all pupils. School subjects were entered into a principal components analysis and produced 3 factors: academic, nonacademic, and behavioral. These factors were compared between cases and controls after adjusting for sex and social group. Eligibility for high school and progression to high school were investigated among cases and controls. RESULTS: Cases performed significantly worse than controls only on the nonacademic factor (which loaded sports and handicrafts). There were no differences between the groups on the academic or behavioral factors, and there were no significant clinical correlates of factor scores. Cases were significantly less likely than controls to progress to high school, despite similar eligibility. CONCLUSIONS: Poor performance in sports and handicrafts during elementary school, which may indicate a motor coordination deficit, appears to be a risk factor for later schizophrenia. Poor academic performance in elementary school was not a risk factor for schizophrenia in this study. Lack of expected progression to high school among cases, despite good academic grades, provides evidence for deteriorating premorbid functional adjustment in schizophrenia.},
pages = {457--463},
volume = {56},
year = {1999},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1059},
rating = {0}
}
@article{Efron2004,
author = {B Efron and T Hastie and I Johnstone and R Tibshirani},
journal = {The Annals of Statistics},
title = {Least angle regression},
number = {2},
pages = {407--499},
volume = {32},
year = {2004},
date-added = {2010-01-12 14:26:48 +0100},
date-modified = {2010-07-29 19:51:51 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2528},
rating = {0}
}
@article{Burmeister:2008p2499,
author = {Margit Burmeister and Melvin G McInnis and Sebastian Z{\"o}llner},
journal = {Nat Rev Genet},
title = {Psychiatric genetics: progress amid controversy},
abstract = {Several psychiatric disorders--such as bipolar disorder, schizophrenia and autism--are highly heritable, yet identifying their genetic basis has been challenging, with most discoveries failing to be replicated. However, inroads have been made by the incorporation of intermediate traits (endophenotypes) and of environmental factors into genetic analyses, and through the identification of rare inherited variants and novel structural mutations. Current efforts aim to increase sample sizes by gathering larger samples for case-control studies or through meta-analyses of such studies. More attention on unique families, rare variants, and on incorporating environment and the emerging knowledge of biological function and pathways into genetic analysis is warranted.},
affiliation = {Molecular and Behavioral Neuroscience Institute, University of Michigan, 5061 BSRB, 109 Zina Pitcher Place, Ann Arbor, Michigan 48109-2200, USA. margit@umich.edu},
number = {7},
pages = {527--40},
volume = {9},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Genetic Predisposition to Disease, Humans, Genetic Variation, Genome: Human, Mental Disorders, Animals, Risk Factors},
date-added = {2010-01-12 13:35:21 +0100},
date-modified = {2010-07-29 19:40:47 +0200},
doi = {10.1038/nrg2381},
pii = {nrg2381},
pmid = {18560438},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burmeister-2008-Nat%20Rev%20Genet_Psychiatric%20genetics.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2499},
rating = {0}
}
@article{Sherry:2005p10351,
author = {Alissa Sherry and Robin K Henson},
journal = {J Pers Assess},
title = {Conducting and interpreting canonical correlation analysis in personality research: a user-friendly primer},
abstract = {The purpose of this article is to reduce potential statistical barriers and open doors to canonical correlation analysis (CCA) for applied behavioral scientists and personality researchers. CCA was selected for discussion, as it represents the highest level of the general linear model (GLM) and can be rather easily conceptualized as a method closely linked with the more widely understood Pearson r correlation coefficient. An understanding of CCA can lead to a more global appreciation of other univariate and multivariate methods in the GLM. We attempt to demonstrate CCA with basic language, using technical terminology only when necessary for understanding and use of the method. We present an entire example of a CCA analysis using SPSS (Version 11.0) with personality data.},
affiliation = {Counseling Psychology Program, University of Texas at Austin, USA.},
number = {1},
pages = {37--48},
volume = {84},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Behavioral Research, Analysis of Variance, United States, Humans, Personality Assessment},
date-added = {2010-04-02 18:21:02 +0200},
date-modified = {2010-04-02 18:21:02 +0200},
doi = {10.1207/s15327752jpa8401_09},
pmid = {15639766},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sherry-2005-Journal%20of%20Personality%20Assessment_Conducting%20and%20inter.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10351},
rating = {0}
}
@article{Eap:2008p13869,
author = {Sopagna Eap and David S Degarmo and Ayaka Kawakami and Shelley N Hara and Gordon C N Hall and Andra L Teten},
journal = {Journal of Cross-Cultural Psychology},
title = {Culture and Personality Among European American and Asian American Men},
abstract = {Personality differences between Asian American (N = 320) and European American men (N = 242) and also among Asian American ethnic groups (Korean, Chinese, Japanese, Filipino, and mixed Asian) are examined on the Big Five personality dimension. Personality structures for Asian Americans and European Americans closely replicate established norms. However, congruence is greater for European American and highly acculturated Asian American men than for low acculturated Asian American men. Similar patterns are found for the construct loss of face (LOF). Asian American men with a high concern for LOF are less similar in their personality structure to European American men than Asian American men with low LOF concern. Mean differences are also found among Asian American and European American men, who differ significantly on Extraversion, Conscientiousness, Openness, and Neuroticism. Results indicate that acculturation and LOF are significantly associated with these four personality dimensions for both Asian American and European American men.},
affiliation = {University of Oregon.},
number = {5},
pages = {630--643},
volume = {39},
year = {2008},
month = {Sep},
language = {ENG},
date-added = {2010-07-29 17:44:29 +0200},
date-modified = {2010-07-29 17:44:29 +0200},
doi = {10.1177/0022022108321310},
pmid = {19169434},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13869},
rating = {0}
}
@article{Sham:2000p11299,
author = {P C Sham and J H Zhao and S S Cherny and J K Hewitt},
journal = {Genet Epidemiol},
title = {Variance-Components QTL linkage analysis of selected and non-normal samples: conditioning on trait values},
abstract = {Standard variance-components quantitative trait loci (QTL) linkage analysis can produce an elevated rate of type 1 errors when applied to selected samples and non-normal data. Here we describe an adjustment of the log-likelihood function based on conditioning on trait values. This leads to a likelihood ratio test that is valid in selected samples and non-normal data, and equal in power to alternative methods for analyzing selected samples that require knowledge of the ascertainment procedure or the trait values of non-selected individuals.},
affiliation = {Social, Genetic and Developmental Psychiatry Research Center and Department of Psychiatry, Institute of Psychiatry, Denmark Hill, London, United Kingdom. p.sham@iop.kcl.ac.uk},
pages = {S22--8},
volume = {19 Suppl 1},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Quantitative Trait: Heritable, Linkage (Genetics), Computer Simulation, Analysis of Variance},
date-added = {2010-04-26 22:34:09 +0200},
date-modified = {2010-04-26 22:34:09 +0200},
doi = {10.1002/1098-2272(2000)19:1+<::AID-GEPI4>3.0.CO;2-S},
pmid = {11055366},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sham-2000-Genet%20Epidemiol_Variance-Components.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11299},
rating = {0}
}
@article{LasHayas:2010p8322,
author = {Carlota Las Hayas and Jose M Quintana and Jesus A Padierna and Amaia Bilbao and Pedro Munoz},
journal = {Health Qual Life Outcomes},
title = {Use of rasch methodology to develop a short version of the Health Related Quality of life for Eating Disorders questionnaire: a prospective study},
abstract = {ABSTRACT: BACKGROUND: To confirm the internal structure of the Health Related Quality of Life for Eating Disorders version 2 questionnaire (HeRQoLEDv2) and create and validate a shortened version (HeRQoLED-S). METHODS: 324 patients with eating disorders were assessed at baseline and one year later (75.6% of whom responded). We performed a confirmatory factor analysis of the HeRQoLEDv2 using baseline data, and then a Rasch analysis to shorten the questionnaire. Data obtained at year one was used to confirm the structure of the HeRQoLED short form and evaluate its validity and reliability. RESULTS: Two latent second-order factors -- social maladjustment and mental health and functionality -- fit the data for the HeRQoLEDv2. Rasch analysis was computed separately for the two latent second-order factors and shortened the HeRQoLEDv2 to 20 items. Infit and outfit indices were acceptable, with the confirmatory factor analysis of the HeRQoLED short form giving a root mean square error of approximation of 0.07, a non-normed fit index and a comparative fit index exceeding 0.90. The validity was also supported by the correlation with the convergent measures: the social maladjustment factor correlated 0.82 with the dieting concern factor of the Eating Attitudes Test-26 and the mental health and functionality factor correlated -0.69 with the mental summary component of the Short Form-12. Cronbach alphas exceeded 0.89. CONCLUSIONS: Two main factors, social maladjustment and mental health and functionality, explain the majority of HeRQoLEDv2 scores. The shortened version maintains good psychometric properties, though it must be validated in independent samples.},
number = {1},
pages = {29},
volume = {8},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-21 09:28:01 +0100},
date-modified = {2010-03-21 09:28:07 +0100},
doi = {10.1186/1477-7525-8-29},
pii = {1477-7525-8-29},
pmid = {20298556},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Las%20Hayas-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Use%20of%20rasch%20methodo-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8322},
rating = {3}
}
@article{BarnettPage:2009p440,
author = {Elaine Barnett-Page and James Thomas},
journal = {BMC Med Res Methodol},
title = {Methods for the synthesis of qualitative research: a critical review},
abstract = {BACKGROUND: In recent years, a growing number of methods for synthesising qualitative research have emerged, particularly in relation to health-related research. There is a need for both researchers and commissioners to be able to distinguish between these methods and to select which method is the most appropriate to their situation. DISCUSSION: A number of methodological and conceptual links between these methods were identified and explored, while contrasting epistemological positions explained differences in approaches to issues such as quality assessment and extent of iteration. Methods broadly fall into 'realist' or 'idealist' epistemologies, which partly accounts for these differences. SUMMARY: Methods for qualitative synthesis vary across a range of dimensions. Commissioners of qualitative syntheses might wish to consider the kind of product they want and select their method - or type of method - accordingly.},
affiliation = {Evidence for Policy and Practice Information and Co-ordinating Centre, Social Science Research Unit, 18 Woburn Square, London WC1H 0NS, UK. e.barnett-page@ioe.ac.uk},
pages = {59},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-03 12:26:51 +0100},
date-modified = {2010-01-03 12:26:51 +0100},
doi = {10.1186/1471-2288-9-59},
pii = {1471-2288-9-59},
pmid = {19671152},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barnett-Page-2009-BMC%20Med%20Res%20Methodol_Methods%20for%20the%20synt.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p440},
rating = {0}
}
@article{Fassino:2004p13046,
author = {S Fassino and G Abbate Daga and N Delsedime and L Rogna and S Boggio},
journal = {Drug Alcohol Depend},
title = {Quality of life and personality disorders in heroin abusers},
abstract = {OBJECTIVE: The aim of this study is to describe the personality disorders (PD) and personality profile of heroin-abusers and their quality of life (QoL), and to investigate the correlation between the two. METHOD: One hundred and eighty heroin-abusers during their residential treatment participated in the study. The Structured Clinical Interview-II (SCID-II) allowed the identification of two subgroups of heroin-abusers on the basis of presence/absence of a PD. All patients filled in the Temperament and Character Inventory (TCI), the McGill QoL Questionnaire (MQOL) and an anamnestic sheet. A control group of 63 non-clinical subjects was recruited. RESULTS: Abusers with a PD differ in their personality profile from abusers without PD and score lower on the total MQOL. As regards TCI scales, novelty seeking (NS), reward dependence (RD) and self-directedness (SD) predict the age of onset of the abuse, while cooperativeness (C) is a predictor of the number of community admissions. DISCUSSION: Low scores on self-directedness and cooperativeness in abusers support the hypothesis of an immature character and relational difficulties. Novelty seeking is the only dimension which is altered both in abusers with and without a PD and is not strictly dependent on Axis II comorbidity. QoL is lower in abusers than in controls, according to their physical, psychological and existential suffering. Last, an interesting link emerged between personality and perceived QoL.},
affiliation = {Department of Neuroscience, Psychiatric Institute, University of Turin, Via Cherasco 11, 10126 Torino, Italy. secondo.fassino@unito.it},
number = {1},
pages = {73--80},
volume = {76},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Female, Quality of Life, Male, Personality Disorders, Humans, Analysis of Variance, Cross-Sectional Studies, Adult, Heroin Dependence},
date-added = {2010-06-26 09:37:26 +0200},
date-modified = {2010-06-26 09:37:26 +0200},
doi = {10.1016/j.drugalcdep.2004.04.005},
pii = {S0376871604001024},
pmid = {15380291},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fassino-2004-Drug%20Alcohol%20Depend_Quality%20of%20life%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13046},
rating = {0}
}
@article{Nakagami:2008p5489,
author = {Eri Nakagami and Bin Xie and Maanse Hoe and John S Brekke},
journal = {Schizophr Res},
title = {Intrinsic motivation, neurocognition and psychosocial functioning in schizophrenia: testing mediator and moderator effects},
abstract = {BACKGROUND: This study examined the nature of the relationships among neurocognition, intrinsic motivation, and psychosocial functioning for persons with schizophrenia. Hypotheses concerning both mediator and moderator mechanisms were tested. METHOD: 120 individuals diagnosed with schizophrenia were recruited as they entered outpatient psychosocial rehabilitation programs. Measures of psychosocial functioning and intrinsic motivation were administered at baseline. Measures of neurocognition were administered at baseline by testers blind to scores on other study variables. Data were analyzed using latent construct modeling to test for mediator and moderator effects. RESULTS: There were strong bivariate relationships between neurocognition, intrinsic motivation, and psychosocial functioning. The results demonstrated that intrinsic motivation strongly mediated the relationship between neurocognition and psychosocial functioning. This mediation was evidenced by: (i) the direct path from neurocognition to functional outcome no longer being statistically significant after the introduction of motivation into the model, (ii) the statistical significance of the indirect path from neurocognition through motivation to functional outcome. There was no support for the two moderation hypotheses: the level of neurocognition did not influence the relationship between intrinsic motivation and psychosocial functioning, nor did the level of intrinsic motivation influence the relationship between neurocognition and psychosocial functioning. CONCLUSIONS: Neurocognition influences psychosocial functioning through its relationship with intrinsic motivation. Intrinsic motivation is a critical mechanism for explaining the relationship between neurocognition and psychosocial functioning. Implications for the theoretical understanding and psychosocial treatment of intrinsic motivation in schizophrenia are discussed.},
affiliation = {University of Southern California, School of Social Work, CA, USA. nakagami@usc.edu},
number = {1-3},
pages = {95--104},
volume = {105},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Personal Autonomy, Cognition Disorders, Female, Schizophrenic Psychology, Neuropsychological Tests, Self Efficacy, Adult, Community Mental Health Services, Motivation, Adaptation: Psychological, Models: Psychological, Humans, Schizophrenia, Outcome Assessment (Health Care), Psychiatric Status Rating Scales, Social Adjustment, Brief Psychiatric Rating Scale, Male, Social Perception},
date-added = {2010-02-12 14:44:15 +0100},
date-modified = {2010-07-29 19:50:06 +0200},
doi = {10.1016/j.schres.2008.06.015},
pii = {S0920-9964(08)00285-5},
pmid = {18715756},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5489},
rating = {0}
}
@article{Wuthrich:2001p11677,
author = {V Wuthrich and T C Bates},
journal = {Personality and Individual Differences},
title = {Schizotypy and latent inhibition: non-linear linkage between psychometric and cognitive markers},
abstract = {Auditory latent inhibition (LI) and schizotypy were measured in (n=54), showing that LI was an inver- ted-U function of schizotypy score. Only average levels of schizotypy were associated with undiminished LI while both low- and high-SPQ subjects showed reduced LI. No relationship was found between LI and either psychoticism or any of the {\textregistered}ve NEO PI-R domains. These results complement the similar complex relationship of neuroleptic drug dose effects on LI in normals and schizophrenics. A priming task and the unusual uses and pattern meanings measures of creativity were related to personality measures of schizo- typy, N, E, and O (but not the EPQ-R psychoticism, LI, or priming performance). Priming effects tracked the inverted-U function of schizotypal personality questionnaire (SPQ) scale scores shown in the LI task. It is suggested that LI is dependent on a non-linear interaction with masking task load and attentional allo- cation, modulated by schizotypy.},
pages = {783--798},
volume = {30},
year = {2001},
date-added = {2010-05-14 21:17:54 +0200},
date-modified = {2010-05-14 21:19:26 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wuthrich-2001-Personality%20and%20Individual%20Differences_Schizotypy%20and%20laten.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11677},
rating = {4}
}
@article{Verkuilen:2006p6252,
author = {J Verkuilen},
title = {The Fisher Information Function in Ideal Point Item Response Models For Pick Any/n Data},
abstract = {In the last two decades, researchers have developed a number of item response models for the analysis of preference data in which the regression between latent trait θ and item responses, P(θ), is single-peaked. As opposed to the monotonic functions such as the logistic function common to IRT for dominance data, these models are probabilistic analogues of Coombs' deterministic unfolding models. One potential barrier to the wider acceptance of such models is the curious fact that most ideal point item response models have bimodal item information functions. Unfortunately, mathematically rigorous explanations for this unusual behavior have not been provided by authors. More broadly, properties of the information function of ideal point IRT models are unknown. This article proves several theorems about the IIFs of ideal point models, in particular, showing that the IIF can be bimodal, unimodal, or singular depending on qualitative characteristics of P (θ), in particular the maximum value of P(θ) and P′′(θ). The importance of these results for test construction is also discussed and illustrated through a simple empirical example.},
year = {2006},
date-added = {2010-02-19 21:28:19 +0100},
date-modified = {2010-02-19 21:28:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verkuilen-2006-_The%20Fisher%20Informati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6252},
rating = {0}
}
@article{Dorard:2008p13994,
author = {G{\'e}raldine Dorard and Sylvie Berthoz and Mark G Haviland and Olivier Phan and Maurice Corcos and Catherine Bungener},
journal = {Compr Psychiatry},
title = {Multimethod alexithymia assessment in adolescents and young adults with a cannabis use disorder},
abstract = {The value of alexithymia assessments in medical and psychiatric research is well documented, but such assessments in cannabis abusers are scarce. Moreover, despite repeated calls for multimethod alexithymia evaluations, researchers typically use 1 self-report only: the 20-item Toronto Alexithymia Scale. Herein, we evaluated (1) the psychometric properties of the Observer Alexithymia Scale (OAS), (2) the correspondence between 3 alexithymia measures, (3) OAS raters' affect and its relationship to OAS scores, and (4) cannabis abusers' alexithymic features. Eighty-seven cannabis abusers completed self-reports measuring alexithymia (Toronto Alexithymia Scale, Bermond-Vorst Alexithymia Questionnaire-B), depression (13-item Beck Depression Inventory), and anxiety (State and Trait Anxiety Inventory-Form Y) and asked relatives to rate them using the OAS. The raters also completed the self-report scales. The OAS met acceptable reliability and validity standards, with the exception of relatively low interrater reliability for one of its subscales. Rater affect appeared to influence OAS scores, albeit slightly. Patients' OAS scores were higher than scores reported for people-in-general samples and lower than those for outpatient clinical samples. Alexithymia rates were similar to those previously reported in cannabis abusers. Our results demonstrated the adequacy and appropriateness of the OAS in these (and related) clinical samples, which may encourage multimethod alexithymia assessments in both research and clinical practice.},
affiliation = {Laboratory of Clinical Psychopathology and Neuropsychology, Paris Descartes University, Paris, France. geraldinedorard@yahoo.fr},
number = {6},
pages = {585--92},
volume = {49},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Male, Humans, Adolescent, Reproducibility of Results, Marijuana Abuse, Female, Adult, Affective Symptoms, Psychometrics, Psychological Tests, Diagnosis: Dual (Psychiatry), France, Observer Variation},
date-added = {2010-08-04 09:22:25 +0200},
date-modified = {2010-08-04 09:22:25 +0200},
doi = {10.1016/j.comppsych.2008.05.001},
pii = {S0010-440X(08)00072-2},
pmid = {18970907},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dorard-2008-Compr%20Psychiatry_Multimethod%20alexithy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13994},
rating = {0}
}
@article{Johnson:2004p11157,
author = {M S Johnson},
title = {Item response models and their use in measuring food insecurity and hunger},
abstract = {This paper aims to give a general discussion of parametric item response theory models, paying close atten- tion to the Rasch model and its extensions for the analysis of multiple dichotomous and polytomous items. As part of this discussion the paper reviews both the models commonly used in IRT and the procedures utilized to estimate the parameters of these models, and their implications.
After giving a general introduction to IRT models the paper examines the appropriateness of these models for the measurement of food security and hunger. Specifically, the paper examines how appropriate IRT is for the analysis of the food security items by examining a subset of data from the 2002 CPS, and then asks the question of whether or not the propensity measured by the food security items is in fact related to true food insecurity.
Finally, the paper examines how one might classify survey respondents into one of the three food security classes and/or estimate the proportions of individuals in the population that fall into each of these classes.},
year = {2004},
date-added = {2010-04-25 19:26:33 +0200},
date-modified = {2010-04-25 19:27:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnson-2004-_Item%20response%20models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11157},
rating = {0}
}
@article{Smits:2003p12895,
author = {D J Smits and Paul De Boeck and M Hoskens},
journal = {Applied Psychological Measurement},
title = {Examining the Structure of Concepts: Using Interactions Between Items},
abstract = {A framework is presented for modeling the relational structure of concepts using item response theory (IRT) models with interactions between the items, so-called models with local item dependency (LID). The proposed approach works for unidimensional and multidimensional concepts. For the relational structure of a concept to be analyzed, two types of items are used: items that directly refer to the concept and items that refer to the underlying components. The dependencies (the LIDs) are included in the model to analyze the mutual relations between the components and between the components and the concept. In a study on guilt, it was found that a unidimensional model complemented with situation-specific dependencies could explain the data that were gathered. Because of its flexibility, the approach is a promising tool for a structural analysis of concepts.},
number = {6},
pages = {415--439},
volume = {27},
year = {2003},
date-added = {2010-06-24 13:49:26 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
doi = {10.1177/0146621603259277},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smits-2003-Applied%20Psychological%20Measurement_Examining%20the%20Struct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12895},
rating = {4}
}
@article{Farmer:2008p13926,
author = {Richard F Farmer and Lewis R Goldberg},
journal = {Psychol Assess},
title = {A psychometric evaluation of the revised Temperament and Character Inventory (TCI-R) and the TCI-140},
abstract = {The psychometric properties of the newest version of the Temperament and Character Inventory (the TCI-R) were evaluated in a large (n = 727) community sample, as was the TCI-140, a short inventory derivative. Facets-to-scale confirmatory and exploratory factor analyses of the TCI-R did not support the organization of temperament and character facet scales within their superordinate domains. Five of the 29 facet scales also displayed relatively low internal consistency (a < .70). Factor analyses of the TCI-140 item set yielded only limited support for hypothesized item-to-scale memberships. Harm Avoidance, Novelty Seeking, and Self-Directedness items, in particular, were not well differentiated. Although psychometrically comparable, the TCI-R and the TCI-140 demonstrate many of the limitations of earlier inventory versions. Implications associated with the use of the TCI-R and TCI-140 and C. R. Cloninger's theory of personality are discussed.},
affiliation = {Oregon Research Institute, Eugene, OR 97403, USA. rfarmer@ori.org},
number = {3},
pages = {281--91},
volume = {20},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Humans, Male, Female, Personality Inventory, Character, Psychometrics, Temperament, Middle Aged},
date-added = {2010-07-29 18:55:37 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
doi = {10.1037/a0012934},
pii = {2008-12234-009},
pmid = {18778164},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Farmer-2008-Psychol%20Assess_A%20psychometric%20evalu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13926},
rating = {4}
}
@article{Summerfeldt:1999p6852,
author = {L J Summerfeldt and M A Richter and M M Antony and R P Swinson},
journal = {Behaviour Research and Therapy},
title = {Symptom structure in obsessive-compulsive disorder: a confirmatory factor-analytic study},
abstract = {Although obsessive-compulsive disorder (OCD) has long been a unitary diagnosis, there is much recent interest in its potential heterogeneity, as manifested by symptom subgroups. This study evaluated existing models of symptom structure in a sample of 203 individuals with OCD. Using confirmatory factor analysis, we examined the ability of each model to account for two levels of data: a priori symptom groupings (second-order) and individual symptoms, identified by the Yale-Brown Obsessive Compulsive Scale symptom checklist. Four models were examined: a single-factor, a two-factor (i.e., obsessions and compulsions), and two multidimensional models, comprising three and four factors. Adequate fit was found solely for the four-factor model--specifying obsessions/checking, symmetry/ordering, contamination/cleaning, and hoarding--but only at the second-order level; it did not account for relationships among discrete symptoms. Parameter estimates showed within-factor heterogeneity, as well as overlap between factors, most notably the two representing checking and contamination-related symptoms. The implications of these findings are discussed. Results provide evidence for the multidimensionality of OCD symptoms, but suggest that a comprehensive model has yet to be identified. They also point to the inadequacy of groupings based solely upon overt behavioural similarities (e.g., 'checking'). Recommendations are made for future research.},
affiliation = {Psychology Department, St. Joseph's Hospital, Hamilton, Ontario, Canada. Isummerf@stjosham.on.ca},
number = {4},
pages = {297--311},
volume = {37},
year = {1999},
month = {Apr},
language = {eng},
keywords = {Chi-Square Distribution, Obsessive Behavior, Male, Female, Models: Psychological, Adult, Reproducibility of Results, Compulsive Behavior, Humans, Obsessive-Compulsive Disorder, Factor Analysis: Statistical},
date-added = {2010-03-06 10:31:25 +0100},
date-modified = {2010-07-29 19:18:49 +0200},
pii = {S000579679800134X},
pmid = {10204276},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6852},
rating = {0}
}
@article{Li:1997p2692,
author = {M N F Li and S Olejnik},
journal = {Applied Psychological Measurement},
title = {The Power of Rasch Person-Fit Statistics in Detecting Unusual Response Patterns},
number = {3},
pages = {215--231},
volume = {21},
year = {1997},
date-added = {2010-01-13 10:12:24 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-1997-Applied%20Psychological%20Measurement_The%20Power%20of%20Rasch%20P.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2692},
rating = {0}
}
@article{Wittes:2002p6420,
author = {Janet Wittes},
journal = {Epidemiol Rev},
title = {Sample size calculations for randomized controlled trials},
affiliation = {Statistics Collaborative, Inc., 1710 Rhode Island Avenue NW, Suite 200, Washington, DC 20036, USA. janet@statcollab.com},
number = {1},
pages = {39--53},
volume = {24},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Humans, Research Design, Bias (Epidemiology), Sample Size, Randomized Controlled Trials as Topic, Data Interpretation: Statistical},
date-added = {2010-02-23 08:27:10 +0100},
date-modified = {2010-02-23 08:27:13 +0100},
pmid = {12119854},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wittes-2002-Epidemiol%20Rev_Sample%20size%20calculat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6420},
rating = {3}
}
@article{Yin:1996p3695,
author = {Y Yin and C W Carter},
journal = {Nucleic Acids Res},
title = {Incomplete factorial and response surface methods in experimental design: yield optimization of tRNA(Trp) from in vitro T7 RNA polymerase transcription},
abstract = {We have studied the yield of Escherichia coli tRNA(Trp) obtained from in vitro T7 RNA polymerase transcription using incomplete factorial and response surface methods. Incomplete factorial experiments were first used to estimate the relative impact of six variables on the yield of tRNA(Trp). Fifteen trials were performed according to a balanced and randomized design. The correlation between observed yield and all experimental variables was identified by stepwise multiple linear regression analysis. The concentrations of T7 RNA polymerase, DNA template, NTP and MgCl2 proved to be significantly correlated with the yield of tRNA(Trp). We then optimized the yield with respect to each of these four variables simultaneously with a designed, response surface experiment based on the Hardin-Sloane minimum prediction variance algorithm. Twenty experiments were performed, in duplicate, to sample the quadratic surface relating the yield to the four significant variables. Coefficients of the quadratic function with all two-factor interactions were evaluated by stepwise regression using least squares, and significant coefficients were retained. Partial differentiation of the resulting quadratic model showed it to possess an optimum. Transcription performed at the corresponding conditions yielded 6-fold more tRNA(Trp) than the initial conditions, confirming the predictive value of the experimentally determined response surface.},
affiliation = {Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill 27599-7260, USA.},
number = {7},
pages = {1279--86},
volume = {24},
year = {1996},
month = {Apr},
language = {eng},
keywords = {DNA-Directed RNA Polymerases, Magnesium Chloride, Viral Proteins, RNA: Transfer: Trp, Base Composition, Regression Analysis, Templates: Genetic, Ribonucleotides, Transcription: Genetic, Research Design},
date-added = {2010-01-16 20:34:28 +0100},
date-modified = {2010-01-16 20:34:28 +0100},
pii = {5b0287},
pmid = {8614631},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yin-1996-Nucleic%20Acids%20Res_Incomplete%20factorial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3695},
rating = {0}
}
@article{ReichbornKjennerud:2010p13516,
author = {Ted Reichborn-Kjennerud},
journal = {Dialogues Clin Neurosci},
title = {The genetic epidemiology of personality disorders},
abstract = {Genetic epidemiologic studies indicate that all ten personality disorders (PDs) classified on the DSM-IV axis II are modestly to moderately heritable. Shared environmental and nonadditive genetic factors are of minor or no importance. No sex differences have been identified, Multivariate studies suggest that the extensive comorbidity between the PDs can be explained by three common genetic and environmental risk factors. The genetic factors do not reflect the DSM-IV cluster structure, but rather: i) broad vulnerability to PD pathology or negative emotionality; ii) high impulsivity/low agreeableness; and iii) introversion. Common genetic and environmental liability factors contribute to comorbidity between pairs or clusters of axis I and axis II disorders. Molecular genetic studies of PDs, mostly candidate gene association studies, indicate that genes linked to neurotransmitter pathways, especially in the serotonergic and dopaminergic systems, are involved. Future studies, using newer methods like genome-wide association, might take advantage of the use of endophenotypes.},
affiliation = {Division of Mental Health, Norwegian Institute of Public Health Institute of Psychiatry, University of Oslo, Norway. ted.reichborn-kjennerud@fhi.no},
number = {1},
pages = {103--14},
volume = {12},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Diagnostic and Statistical Manual of Mental Disorders, Risk Factors, Humans, Personality Disorders, Molecular Epidemiology, Personality Inventory, Environment, Genetic Predisposition to Disease, Genetic Association Studies},
date-added = {2010-07-07 21:05:13 +0200},
date-modified = {2010-07-07 21:05:18 +0200},
pmid = {20373672},
url = {http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Retrieve&list_uids=20373672&dopt=abstractplus},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13516},
rating = {0}
}
@article{Ioannidis:2009p10852,
author = {John P A Ioannidis},
journal = {CMAJ},
title = {Integration of evidence from multiple meta-analyses: a primer on umbrella reviews, treatment networks and multiple treatments meta-analyses},
affiliation = {Department of Hygiene and Epidemiology, University of Ioannina School of Medicine, Ioannina 45110, Greece. jioannid@cc.uoi.gr},
number = {8},
pages = {488--93},
volume = {181},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Humans, Practice Guidelines as Topic, Evidence-Based Medicine, Clinical Trials as Topic},
date-added = {2010-04-10 03:32:17 +0200},
date-modified = {2010-07-29 19:23:30 +0200},
doi = {10.1503/cmaj.081086},
pii = {cmaj.081086},
pmid = {19654195},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ioannidis-2009-CMAJ_Integration%20of%20evide.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10852},
rating = {4}
}
@article{Purcell2007,
author = {S Purcell and B Neale and K Todd-Brown and L Thomas and M A R Ferreira and D Bender and J Maller and P Sklar and P I W de Bakker and M J Daly and P C Sham},
journal = {American Journal of Human Genetics},
title = {PLINK: a toolset for whole-genome association and population-based linkage analysis},
number = {3},
pages = {559--575},
volume = {81},
year = {2007},
date-added = {2010-01-12 14:26:40 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2526},
rating = {0}
}
@article{KoniakGriffin:1988p8587,
author = {D Koniak-Griffin and M Rummell},
journal = {Matern Child Nurs J},
title = {Temperament in infancy: stability, change, and correlates},
abstract = {The present study investigated whether temperament categories and diagnoses of the Revised Infant Temperament Questionnaire (RITQ) remain stable during infancy. Additionally, the relationships between RITQ ratings and scores on the Brazelton Neonatal Behavioral Assessment Scale and the Bayley Scales of Infant Development were evaluated. The sample included 79 nonrisk infants. The results indicate that most categories of temperament, as well as diagnostic clusters, remain stable from 4 to 8 months of life. The majority of NBAS dimensions and Bayley mental scores were not significantly associated with temperament ratings. The antecedents of ratings of infants' difficultness were similarly unidentified by mothers' perceptions of their infant's behavior.},
number = {1},
pages = {25--40},
volume = {17},
year = {1988},
month = {Jan},
language = {eng},
keywords = {Child Psychology, Autonomic Nervous System, Male, Female, Adult, Temperament, Psychological Tests, Infant, Personality, Humans, Adaptation: Psychological, Age Factors},
date-added = {2010-03-22 00:10:31 +0100},
date-modified = {2010-03-22 00:10:31 +0100},
pmid = {3393027},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8587},
rating = {0}
}
@techreport{Cull:2002,
author = {A Cull and M Sprangers and K Bjordal and Neil K Aaronson and K West and A Bottomley},
journal = {Techreport},
title = {Translation Procedure},
affiliation = {EORTC Quality of Life Group},
year = {2002},
month = {Feb},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cull-2002-Techreport_Translation%20Procedur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2080},
rating = {0}
}
@article{Mather:2003p10206,
author = {Mara Mather and Laura L Carstensen},
journal = {Psychol Sci},
title = {Aging and attentional biases for emotional faces},
abstract = {We examined age differences in attention to and memory for faces expressing sadness, anger, and happiness. Participants saw a pair of faces, one emotional and one neutral, and then a dot probe that appeared in the location of one of the faces. In two experiments, older adults responded faster to the dot if it was presented on the same side as a neutral face than if it was presented on the same side as a negative face. Younger adults did not exhibit this attentional bias. Interactions of age and valence were also found for memory for the faces, with older adults remembering positive better than negative faces. These findings reveal that in their initial attention, older adults avoid negative information. This attentional bias is consistent with older adults' generally better emotional well-being and their tendency to remember negative less well than positive information.},
affiliation = {University of California, Santa Cruz, CA 95064, USA. mather@ucsc.edu},
number = {5},
pages = {409--15},
volume = {14},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Male, Adult, Facial Expression, Pattern Recognition: Visual, Female, Humans, Aging, Emotions, Middle Aged, Aged: 80 and over, Perceptual Defense, Adolescent, Reaction Time, Aged, Mental Recall, Adaptation: Psychological, Attention},
date-added = {2010-04-01 18:19:51 +0200},
date-modified = {2010-07-29 19:46:15 +0200},
pii = {psci_1455},
pmid = {12930469},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mather-2003-Psychol%20Sci_Aging%20and%20attentiona.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10206},
rating = {0}
}
@article{Wu:2008p11432,
author = {X Wu and V Kumar and J R Quinlan and J GhoshQ Yang and H Motoda and G J McLachlan and A Ng and B Liu and P S Yu and Z H Zhou and M Steinbach and D J Hand and D Steinberg},
journal = {Knowl Inf Syst},
title = {Top 10 algorithms in data mining},
abstract = {This paper presents the top 10 data mining algorithms identified by the IEEE International Conference on Data Mining (ICDM) in December 2006: C4.5, k-Means, SVM, Apriori, EM, PageRank, AdaBoost, kNN, Naive Bayes, and CART. These top 10 algorithms are among the most influential data mining algorithms in the research community. With each algorithm, we provide a description of the algorithm, discuss the impact of the algorithm, and review current and further research on the algorithm. These 10 algorithms cover classification, clustering, statistical learning, association analysis, and link mining, which are all among the most important topics in data mining research and development.},
pages = {1--37},
volume = {14},
year = {2008},
date-added = {2010-05-01 17:13:05 +0200},
date-modified = {2010-05-01 17:15:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2008-Knowl%20Inf%20Syst_Top%2010%20algorithms%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11432},
rating = {0}
}
@article{Pan:2007p11232,
author = {Lin Pan and Carole Ober and Mark Abney},
journal = {Genet Epidemiol},
title = {Heritability estimation of sex-specific effects on human quantitative traits},
abstract = {Recent studies have suggested that sex-specific genetic architecture could be because of the effects of autosomal genes that are differentially expressed in males and females. Yet, few studies have explored the effects of X-linked genes on sex-specific genetic architecture. In this study, we extended the variance component, maximum likelihood method to evaluate the relative contributions of sex-specific effects on both autosomes and the X chromosome to estimates of heritability of 20 quantitative human phenotypes in the Hutterites. Seventeen of these traits were previously analyzed in this population under a model that did not include X chromosomal effects; three traits are analyzed for the first time (age at menarche, percent fat and fat-free mass [FFM]). Seven traits (systolic blood pressure (SBP), adult height, fasting insulin, triglycerides, lipoprotein (a) [Lp(a)], serotonin, and age at menarche) showed significant X-linked effects; three of these (SBP, adult height, and triglycerides) showed X-linked effects only in males. Four traits (Lp(a), low-density lipoprotein cholesterol, ratio of percent predicted forced expiratory volume at 1 s/forced vital capacity, and FFM) showed significant sex-environment interactions, and two traits (high-density lipoprotein cholesterol and FFM) showed significant sex-specific autosomal effects. Our analyses demonstrate that sex-specific genetic effects may not only be common in human quantitative traits, but also that the X chromosome both plays a large role in these effects and has a variable influence between the sexes.},
affiliation = {Department of Human Genetics, The University of Chicago, 920 East 58th Street, Chicago, IL 60637, USA.},
number = {4},
pages = {338--47},
volume = {31},
year = {2007},
month = {May},
language = {eng},
keywords = {Quantitative Trait: Heritable, Humans, Founder Effect, South Dakota, Models: Genetic, Sex Characteristics, Genes: X-Linked, Male, Female, Adult, Chromosomes: Human: X, Phenotype},
date-added = {2010-04-25 21:31:01 +0200},
date-modified = {2010-04-25 21:31:01 +0200},
doi = {10.1002/gepi.20214},
pmid = {17323368},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pan-2007-Genet%20Epidemiol_Heritability%20estimat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11232},
rating = {0}
}
@article{Schmiedek:2007p1542,
author = {Florian Schmiedek and Klaus Oberauer and Oliver Wilhelm and Heinz-Martin S{\"u}ss and Werner W Wittmann},
journal = {J Exp Psychol Gen},
title = {Individual differences in components of reaction time distributions and their relations to working memory and intelligence},
abstract = {The authors bring together approaches from cognitive and individual differences psychology to model characteristics of reaction time distributions beyond measures of central tendency. Ex-Gaussian distributions and a diffusion model approach are used to describe individuals' reaction time data. The authors identified common latent factors for each of the 3 ex-Gaussian parameters and for 3 parameters central to the diffusion model using structural equation modeling for a battery of choice reaction tasks. These factors had differential relations to criterion constructs. Parameters reflecting the tail of the distribution (i.e., tau in the ex-Gaussian and drift rate in the diffusion model) were the strongest unique predictors of working memory, reasoning, and psychometric speed. Theories of controlled attention and binding are discussed as potential theoretical explanations.},
affiliation = {Center for Lifespan Psychology, Max Planck Institute for Human Development, Berlin, Germany. schmiedek@mpib-berlin.mpg.de},
number = {3},
pages = {414--29},
volume = {136},
year = {2007},
month = {Aug},
language = {eng},
keywords = {Multivariate Analysis, Adult, Normal Distribution, Problem Solving, Male, Orientation, Semantics, Individuality, Humans, Intelligence, Reaction Time, Choice Behavior, Female, Pattern Recognition: Visual, Concept Formation, Statistics as Topic, Memory: Short-Term},
date-added = {2010-01-07 16:29:04 +0100},
date-modified = {2010-01-07 16:29:04 +0100},
doi = {10.1037/0096-3445.136.3.414},
pii = {2007-11669-004},
pmid = {17696691},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmiedek-2007-J%20Exp%20Psychol%20Gen_Individual%20differenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1542},
rating = {0}
}
@article{Burton:2007p5769,
author = {Paul R Burton and David G Clayton and Lon R Cardon and Nick Craddock and Panos Deloukas and Audrey Duncanson and Dominic P Kwiatkowski and Mark I McCarthy and Willem H Ouwehand and Nilesh J Samani and John A Todd and Peter Donnelly and Jeffrey C Barrett and Dan Davison and Doug Easton and David Evans and Hin-Tak Leung and Jonathan L Marchini and Andrew P Morris and Chris C A Spencer and Martin D Tobin and Antony P Attwood and James P Boorman and Barbara Cant and Ursula Everson and Judith M Hussey and Jennifer D Jolley and Alexandra S Knight and Kerstin Koch and Elizabeth Meech and Sarah Nutland and Christopher V Prowse and Helen E Stevens and Niall C Taylor and Graham R Walters and Neil M Walker and Nicholas A Watkins and Thilo Winzer and Richard W Jones and Wendy L Mcardle and Susan M Ring and David P Strachan and Marcus Pembrey and Gerome Breen and David St Clair and Sian Caesar and Katherine Gordon-Smith and Lisa Jones and Christine Fraser and Elaine K Green and Detelina Grozeva and Marian L Hamshere and Peter A Holmans and Ian R Jones and George Kirov and Valentina Moskvina and Ivan Nikolov and Michael C O'donovan and Michael J Owen and David A Collier and Amanda Elkin and Anne Farmer and Richard Williamson and Peter Mcguffin and Allan H Young and I Nicol Ferrier and Stephen G Ball and Anthony J Balmforth and Jennifer H Barrett and D Timothy Bishop and Mark M Iles and Azhar Maqbool and Nadira Yuldasheva and Alistair S Hall and Peter S Braund and Richard J Dixon and Massimo Mangino and Suzanne Stevens and John R Thompson and Francesca Bredin and Mark Tremelling and Miles Parkes and Hazel Drummond and Charles W Lees and Elaine R Nimmo and Jack Satsangi and Sheila A Fisher and Alastair Forbes and Cathryn M Lewis and Clive M Onnie and Natalie J Prescott and Jeremy Sanderson and Christopher G Mathew and Jamie Barbour and M Khalid Mohiuddin and Catherine E Todhunter and John C Mansfield and Tariq Ahmad and Fraser R Cummings and Derek P Jewell and John Webster and Morris J Brown and G Mark Lathrop and John Connell and Anna Dominiczak and Carolina A Braga Marcano and Beverley Burke and Richard Dobson and Johannie Gungadoo and Kate L Lee and Patricia B Munroe and Stephen J Newhouse and Abiodun Onipinla and Chris Wallace and Mingzhan Xue and Mark Caulfield and Martin Farrall and Anne Barton and The Biologics in RA Genetics and Genomics Braggs and Ian N Bruce and Hannah Donovan and Steve Eyre and Paul D Gilbert and Samantha L Hider and Anne M Hinks and Sally L John and Catherine Potter and Alan J Silman and Deborah P M Symmons and Wendy Thomson and Jane Worthington and David B Dunger and Barry Widmer and Timothy M Frayling and Rachel M Freathy and Hana Lango and John R B Perry and Beverley M Shields and Michael N Weedon and Andrew T Hattersley and Graham A Hitman and Mark Walker and Kate S Elliott and Christopher J Groves and Cecilia M Lindgren and Nigel W Rayner and Nicholas J Timpson and Eleftheria Zeggini and Melanie Newport and Giorgio Sirugo and Emily Lyons and Fredrik Vannberg and Adrian V S Hill and Linda A Bradbury and Claire Farrar and Jennifer J Pointon and Paul Wordsworth and Matthew A Brown and Jayne A Franklyn and Joanne M Heward and Matthew J Simmonds and Stephen C L Gough and Sheila Seal and Breast Cancer Susceptibility Collaboration Uk and Michael R Stratton and Nazneen Rahman and Maria Ban and An Goris and Stephen J Sawcer and Alastair Compston and David Conway and Muminatou Jallow and Kirk A Rockett and Suzannah J Bumpstead and Amy Chaney and Kate Downes and Mohammed J R Ghori and Rhian Gwilliam and Sarah E Hunt and Michael Inouye and Andrew Keniry and Emma King and Ralph McGinnis and Simon Potter and Rathi Ravindrarajah and Pamela Whittaker and Claire Widden and David Withers and Niall J Cardin and Teresa Ferreira and Joanne Pereira-Gale and Ingileif B Hallgrimsd|[Oacute]|Ttir and Bryan N Howie and Zhan Su and Yik Ying Teo and Damjan Vukcevic and David Bentley and Alistair Compston},
journal = {Nature},
title = {Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls},
number = {7145},
pages = {661},
volume = {447},
year = {2007},
month = {Jun},
language = {en},
date-added = {2010-02-16 15:45:36 +0100},
date-modified = {2010-02-16 15:45:39 +0100},
doi = {doi:10.1038/nature05911},
url = {http://www.nature.com/nature},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burton-2007-Nature_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5769},
read = {Yes},
rating = {0}
}
@article{Thissen:2005p11591,
author = {D Thissen and M C Edwards},
journal = {NCME},
title = {Diagnostic Scores Augmented Using Multidimensional Item Response Theory: Preliminary Investigation of MCMC Strategies},
abstract = {The procedures for computing augmented subscores described by Wainer et al. (2001) may be thought of as a multi-stage estimation procedure for proficiency estimates within a special case of a multidimensional item response theory (MIRT) model, with as many dimensions as there are subscales. In this paper we describe steps toward a simultaneous (one-stage) estimation system for constrained MIRT models, using Markov chain Monte Carlo (MCMC) approaches to obtain the item parameters and conventional IRT computation to produce scale scores that are augmented subscores. Such a system would provide, in a single integrated analysis, more efficient estimates of subscores for mutually exclusive sets of items (``independent clustering'') that are computed by the Wainer et al. (2001) procedure, as well as subscores for tests in which the assignment of items to subscales is not mutually exclusive (the latter has been referred to as ``multi-component mapping''). Combined with modification of a test's item specifications to include items that more specifically measure individual skills, and multi-component mapping, useful subscores (or ``skill scores'') may be computable from data obtained with tests very much like current large-scale assessments.},
year = {2005},
date-added = {2010-05-09 21:13:34 +0200},
date-modified = {2010-05-09 21:14:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thissen-2005-NCME_Diagnostic%20Scores%20Au.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11591},
rating = {0}
}
@article{Marlin:2009p12321,
author = {B M Marlin and M Schmidt and K P Murphy},
title = {Group Sparse Priors for Covariance Estimation},
abstract = {Recently it has become popular to learn sparse Gaussian graphical models (GGMs) by imposing l1 or group l1,2 penalties on the elements of the precision matrix. This penalized likelihood approach results in a tractable convex optimization problem. In this paper, we reinterpret these results as per- forming MAP estimation under a novel prior which we call the group l1 and l1,2 positive- definite matrix distributions. This enables us to build a hierarchical model in which the l1 regularization terms vary depending on which group the entries are assigned to, which in turn allows us to learn block struc- tured sparse GGMs with unknown group as- signments. Exact inference in this hierarchi- cal model is intractable, due to the need to compute the normalization constant of these matrix distributions. However, we derive up- per bounds on the partition functions, which lets us use fast variational inference (optimiz- ing a lower bound on the joint posterior). We show that on two real world data sets (mo- tion capture and financial data), our method which infers the block structure outperforms a method that uses a fixed block structure, which in turn outperforms baseline methods that ignore block structure.},
year = {2009},
date-added = {2010-06-12 09:39:18 +0200},
date-modified = {2010-06-12 09:40:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marlin-2009-_Group%20Sparse%20Priors.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12321},
rating = {0}
}
@article{Huppert:2009p12791,
author = {F A Huppert},
journal = {Perspectives on Psychological Science},
title = {A New Approach to Reducing Disorder and Improving Well-Being},
abstract = {Psychological science has usually approached the treatment of disorder through research on individual combinations of risk and protective factors (including life experiences, thinking styles, behaviors, social relationships and genes) and the application of interventions that focus on improvements in the individual. However, we can do better than this. Not only should we be aiming to enhance well- being rather than merely reducing disorder, but we should also be doing so for the majority of people rather than the few who have a disorder. In this article, I focus on the mental health spectrum and make the case for a broad population- based approach. I argue that a very small shift in the pop- ulation mean of the underlying symptoms or risk factors can do more to enhance well-being and reduce disorder than would any amount of intervention with individuals who need help. Examples from research on alcohol abuse and psy- chological distress are presented to illustrate the value of a population-based approach.},
number = {1},
pages = {108--111},
volume = {4},
year = {2009},
date-added = {2010-06-18 21:08:40 +0200},
date-modified = {2010-06-18 21:10:00 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huppert-2009-Perspectives%20on%20Psychological%20Science_A%20New%20Approach%20to%20Re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12791},
rating = {0}
}
@article{Orme:1998p13239,
author = {B Orme},
title = {Sample Size Issues for Conjoint Analysis Studies},
year = {1998},
date-added = {2010-07-01 18:01:21 +0200},
date-modified = {2010-07-01 18:01:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orme-1998-_Sample%20Size%20Issues%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13239},
rating = {0}
}
@article{Xie:2010p13228,
author = {Benhuai Xie and Wei Pan and Xiaotong Shen},
journal = {Bioinformatics},
title = {Penalized mixtures of factor analyzers with application to clustering high-dimensional microarray data},
abstract = {MOTIVATION: Model-based clustering has been widely used, e.g. in microarray data analysis. Since for high-dimensional data variable selection is necessary, several penalized model-based clustering methods have been proposed t{\o}realize simultaneous variable selection and clustering. However, the existing methods all assume that the variables are independent with the use of diagonal covariance matrices. RESULTS: To model non-independence of variables (e.g. correlated gene expressions) while alleviating the problem with the large number of unknown parameters associated with a general non-diagonal covariance matrix, we generalize the mixture of factor analyzers to that with penalization, which, among others, can effectively realize variable selection. We use simulated data and real microarray data to illustrate the utility and advantages of the proposed method over several existing ones.},
affiliation = {Division of Biostatistics, School of Public Health and School of Statistics, University of Minnesota, Minneapolis, MN, USA.},
number = {4},
pages = {501--8},
volume = {26},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Cluster Analysis, Oligonucleotide Array Sequence Analysis, Computational Biology, Gene Expression Profiling},
date-added = {2010-07-01 17:23:20 +0200},
date-modified = {2010-07-01 17:23:26 +0200},
doi = {10.1093/bioinformatics/btp707},
pii = {btp707},
pmid = {20031967},
url = {http://bioinformatics.oxfordjournals.org/cgi/content/full/26/4/501?view=long&pmid=20031967},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Xie-2010-Bioinformatics_Penalized%20mixtures%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13228},
rating = {5}
}
@article{Fodor:2002p2914,
author = {I K Fodor},
title = {A Survey of Dimension Reduction Techniques},
year = {2002},
date-added = {2010-01-13 21:43:45 +0100},
date-modified = {2010-01-13 21:44:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fodor-2002-_A%20Survey%20of%20Dimensio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2914},
rating = {0}
}
@article{Bart:2010p5089,
author = {Orit Bart and Limor Rosenberg and Navah Z Ratzon and Tal Jarus},
journal = {Res Dev Disabil},
title = {Development and initial validation of the Performance Skills Questionnaire (PSQ)},
abstract = {The objectives of this study was to develop and test the psychometric properties of the Performance Skills Questionnaire (PSQ), addressed to measure performance skills of preschoolers, as reported by their parents. Participants included 231 children ranging in age from 4 to 6 years old, with mild to moderate developmental disabilities and 240 children without disabilities at same age range. Internal consistency, test-retest, construct validity, and divergent and convergent validity were assessed. The PSQ has shown good internal reliability, and temporal stability. Construct validity was supported by factor analysis which yielded 3 factors that explained almost 52% of the total variance. Significant differences were found between known groups. Convergent and divergent validity were supported by significant correlations with Visual-Motor Integration (VMI) test, and the Children Participation Questionnaire (CPQ). The PSQ is a unique tool that measures performance skills based on preschool children's everyday function. Results provide evidence in support of the PSQ as a reliable and psychometrically sound instrument.},
affiliation = {Department of Occupational Therapy, School of Health Professions, Sackler Faculty of medicine, Tel Aviv University, Ramat Aviv, Tel Aviv, Israel.},
number = {1},
pages = {46--56},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Male, Female, Mental Retardation, Developmental Disabilities, Cross-Sectional Studies, Humans, Child, Mass Screening, Psychometrics, Italy, Child: Preschool, Reproducibility of Results, Reference Values, Questionnaires, Comorbidity, Motor Skills Disorders, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-02-05 20:15:17 +0100},
date-modified = {2010-02-05 20:15:17 +0100},
doi = {10.1016/j.ridd.2009.07.021},
pii = {S0891-4222(09)00117-6},
pmid = {19709854},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5089},
rating = {0}
}
@article{Senaratna:2008p4181,
author = {B C V Senaratna and H Perera and P Fonseka},
journal = {Ceylon Med J},
title = {Sinhala translation of child behaviour checklist: validity and reliability},
abstract = {OBJECTIVE: To translate the child behaviour checklist (CBCL) into Sinhala and validate it for assessment of mental health status of children aged 5-10 years. DESIGN AND SETTING: Translation/back-translation method was used to translate the English CBCL into Sinhala. Each item in the Sinhala CBCL (CBCL-S) was rated by mental health professionals to determine semantics, content, and conceptual validity types. To ascertain criterion validity, total scores obtained for CBCL-S by administering it to parents or parent surrogates of 49 girls and 80 boys aged 5-10 years attending the specialist psychiatry clinics and 69 boys and 69 girls in the same age group from the community were compared with clinical diagnoses by a child psychiatrist. Receiver operator characteristic curves were drawn to obtain the cut-off points in CBCL-S for boys and girls separately. RESULTS: Semantics, content, and conceptual and criterion validity of CBCL-S were satisfactory. At the cut-off level of 39, CBCL-S had a sensitivity of 90% and a specificity of 88% for boys and a sensitivity of 89% and a specificity of 92% for girls. Internal consistency, test-retest reliability, and inter-interviewer reliability of CBCL-S were satisfactory. INTERPRETATION: CBCL-S is a valid and reliable instrument to measure mental health status of Sinhalese children aged 5-10 years in Sri Lanka.},
affiliation = {Community Medicine, Faculty of Medical Sciences, University of Sri Jayewardenepura. chamaravs@yahoo.com},
number = {2},
pages = {40--4},
volume = {53},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Sensitivity and Specificity, Child Behavior, Health Status Indicators, Child, Humans, Mental Health, Language},
date-added = {2010-01-21 07:49:24 +0100},
date-modified = {2010-01-21 07:49:24 +0100},
pmid = {18678120},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Senaratna-2008-Ceylon%20Med%20J_Sinhala%20translation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4181},
rating = {0}
}
@article{Carter:2007p2306,
author = {Nigel P Carter},
journal = {Nat Genet},
title = {Methods and strategies for analyzing copy number variation using DNA microarrays},
abstract = {The association of DNA copy-number variation (CNV) with specific gene function and human disease has been long known, but the wide scope and prevalence of this form of variation has only recently been fully appreciated. The latest studies using microarray technology have demonstrated that as much as 12% of the human genome and thousands of genes are variable in copy number, and this diversity is likely to be responsible for a significant proportion of normal phenotypic variation. Current challenges involve developing methods not only for detecting and cataloging CNVs in human populations at increasingly higher resolution but also for determining the association of CNVs with biological function, recent human evolution, and common and complex human disease.},
affiliation = {Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK. npc@sanger.ac.uk},
number = {7 Suppl},
pages = {S16--21},
volume = {39},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Genotype, Nucleic Acid Hybridization, Genome: Human, Genetic Variation, Humans, Polymorphism: Single Nucleotide, Phenotype, Polymerase Chain Reaction, Cloning: Molecular, Chromosomes: Artificial: Bacterial, DNA: Complementary, Gene Dosage, Oligonucleotide Array Sequence Analysis, Chromosomes: Human: Pair 18},
date-added = {2010-01-10 12:19:52 +0100},
date-modified = {2010-01-10 12:19:52 +0100},
doi = {10.1038/ng2028},
pii = {ng2028},
pmid = {17597776},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carter-2007-Nat%20Genet_Methods%20and%20strategi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2306},
rating = {0}
}
@techreport{Stage:2003,
author = {C Stage},
journal = {Techreport},
title = {Classical Test Theory or Item Response Theory: The Swedish Experience},
affiliation = {Spanish by Centro de Estudios P{\'u}blicos},
year = {2003},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stage-2003-Techreport_Classical%20Test%20Theor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2105},
rating = {0}
}
@article{KorenKarie:2009p11021,
author = {Nina Koren-Karie and David Oppenheim and Smadar Dolev and Nurit Yirmiya},
journal = {J Child Psychol Psychiatry},
title = {Mothers of securely attached children with autism spectrum disorder are more sensitive than mothers of insecurely attached children},
abstract = {In the current study we examined the links between maternal sensitivity and children's secure attachment in a sample of 45 preschool-age boys with Autism Spectrum Disorders (ASD). We hypothesized that mothers of securely attached children would be more sensitive to their children than mothers of insecurely attached children. Children's attachment was assessed using Ainsworth's Strange Situation Procedure (SSP; Ainsworth, Blehar, Waters, {\&} Wall, 1978). Mothers' sensitivity and children's responsiveness to their mothers were assessed using the Emotional Availability Scales (Biringen, Robinson, {\&} Emde, 1993). The findings supported our hypothesis: mothers of securely attached children were more sensitive to their children even when controlling for the severity of children's diagnosis (Autism Disorder vs. Pervasive Developmental Disorder - Not Otherwise Specified (PDD-NOS)), children's level of functioning (high vs. low), and children's levels of responsiveness. The significance of sensitivity for security of attachment in ASD and the implications of these findings for the validity of the SSP in children with ASD are discussed.},
affiliation = {Center for the Study of Child Development, University of Haifa, Haifa, Israel. nkoren@psy.haifa.ac.il},
number = {5},
pages = {643--50},
volume = {50},
year = {2009},
month = {May},
language = {eng},
keywords = {Maternal Behavior, Male, Psychiatric Status Rating Scales, Questionnaires, Child: Preschool, Autistic Disorder, Object Attachment, Humans, Mother-Child Relations, Mothers, Reproducibility of Results},
date-added = {2010-04-14 13:36:36 +0200},
date-modified = {2010-07-29 19:32:47 +0200},
doi = {10.1111/j.1469-7610.2008.02043.x},
pii = {JCPP2043},
pmid = {19207630},
url = {http://www3.interscience.wiley.com/journal/121635363/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11021},
rating = {0}
}
@article{Ledoit:2001p5622,
author = {O Ledoit and M Wolf},
title = {A Well-Conditioned Estimator For Large-Dimensional Covariance Matrices},
abstract = {Many applied problems require a covariance matrix estimator that is not only invertible, but also well-conditioned (that is, inverting it does not amplify estimation error). For large- dimensional covariance matrices, the usual estimator---the sample covariance matrix---is typically not well-conditioned and may not even be invertible. This paper introduces an estimator that is both well-conditioned and more accurate than the sample covariance matrix asymptotically. This estimator is distribution-free and has a simple explicit formula that is easy to compute and interpret. It is the asymptotically optimal convex linear combination of the sample covariance matrix with the identity matrix. Optimality is meant with respect to a quadratic loss function, asymptotically as the number of observations and the number of variables go to infinity together. Extensive Monte-Carlo confirm that the asymptotic results tend to hold well in finite sample.},
year = {2001},
date-added = {2010-02-12 20:17:11 +0100},
date-modified = {2010-02-12 20:17:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ledoit-2001-_A%20Well-Conditioned%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5622},
rating = {0}
}
@article{Wagenmakers:2006p7180,
author = {Eric-Jan Wagenmakers and Peter Gr{\"u}nwald},
journal = {Psychol Sci},
title = {A Bayesian perspective on hypothesis testing: a comment on Killeen (2005)},
affiliation = {Department of Psychology, University of Amsterdam, Amsterdam, The Netherlands. ewagenmakers@fmg.uva.nl},
number = {7},
pages = {641-2; author reply 643--4},
volume = {17},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Bayes Theorem, Humans, Data Interpretation: Statistical},
date-added = {2010-03-06 20:32:40 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2006.01757.x},
pii = {PSCI1757},
pmid = {16866752},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wagenmakers-2006-Psychol%20Sci_A%20Bayesian%20perspecti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7180},
rating = {0}
}
@article{Kipman:1999p1333,
author = {A Kipman and P Gorwood and M C Mouren-Sim{\'e}oni and J Ad{\`e}s},
journal = {Eur Psychiatry},
title = {Genetic factors in anorexia nervosa},
abstract = {Anorexia nervosa is a severe and complex disorder with incompletely known vulnerability factors. It is generally recognized that anorexia nervosa is a familial disorder, but the majority of twin studies have shown that the concordance rate for monozygotic twins is higher (on average 44%) than for dizygotic twins (on average 12.5%). This difference in concordance rates shows that genetic factors, more than common familial environment, may explain why the 'anorexia nervosa' phenotype runs in families. In order to estimate the heritability in the broad sense of anorexia nervosa according to published familial and twin studies, we first assessed the intrapair correlation between monozygotic and dizygotic twins, and secondly calculated the deviation threshold of relatives of affected probands from the relative mean. In this review, we obtained an estimation of the heritability at 0.72 according to all published controlled familial studies (six references quoted in MEDLINE(R)), and 0.71 for all published twin studies (59 references quoted in MEDLINE(R)). This estimation is close to the ones previously proposed, between 0. 5 and 0.8. Familial and twin studies may also help to define the boundaries of the phenotype, shedding light on the complex relationship between anorexia nervosa on the one hand, and bulimia nervosa, mood disorders, and alcoholism on the other. Demonstrating the importance of genetic factors in anorexia nervosa, and more specifically for anorexia of the restrictive type, requires not only prospective and adoption studies (which are still lacking), but also genetic polymorphisms analyses, which began very recently.},
affiliation = {Hospital Robert Debr{\'e}, Service de psychopathologie de l'enfant, Paris, France.},
number = {4},
pages = {189--98},
volume = {14},
year = {1999},
month = {Jul},
language = {eng},
keywords = {Models: Genetic, Humans, Anorexia Nervosa, Twins},
date-added = {2010-01-07 11:37:19 +0100},
date-modified = {2010-01-07 11:37:19 +0100},
pii = {S092493389980741X},
pmid = {10572347},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kipman-1999-Eur%20Psychiatry_Genetic%20factors%20in%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1333},
rating = {0}
}
@article{Ferguson:2009p4197,
author = {Christopher J Ferguson and Claudia San Miguel and Richard D Hartley},
journal = {J Pediatr},
title = {A multivariate analysis of youth violence and aggression: the influence of family, peers, depression, and media violence},
abstract = {OBJECTIVE: To examine the multivariate nature of risk factors for youth violence including delinquent peer associations, exposure to domestic violence in the home, family conflict, neighborhood stress, antisocial personality traits, depression level, and exposure to television and video game violence. STUDY DESIGN: A population of 603 predominantly Hispanic children (ages 10-14 years) and their parents or guardians responded to multiple behavioral measures. Outcomes included aggression and rule-breaking behavior on the Child Behavior Checklist (CBCL), as well as violent and nonviolent criminal activity and bullying behavior. RESULTS: Delinquent peer influences, antisocial personality traits, depression, and parents/guardians who use psychological abuse in intimate relationships were consistent risk factors for youth violence and aggression. Neighborhood quality, parental use of domestic violence in intimate relationships, and exposure to violent television or video games were not predictive of youth violence and aggression. CONCLUSION: Childhood depression, delinquent peer association, and parental use of psychological abuse may be particularly fruitful avenues for future prevention or intervention efforts.},
affiliation = {Texas A{\&}M International University, Laredo, TX 78045, USA. CJFerguson1111@aol.com},
number = {6},
pages = {904--908.e3},
volume = {155},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Social Environment, Multivariate Analysis, Antisocial Personality Disorder, Aggression, Cohort Studies, Depressive Disorder, Male, Mass Media, Risk Factors, Female, Violence, Humans, Adolescent, Family Relations, Child, Peer Group, Hispanic Americans},
date-added = {2010-01-21 08:00:00 +0100},
date-modified = {2010-01-21 08:00:00 +0100},
doi = {10.1016/j.jpeds.2009.06.021},
pii = {S0022-3476(09)00576-9},
pmid = {19683724},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4197},
rating = {0}
}
@article{Vandenbroucke:2009p9315,
author = {Jan P Vandenbroucke},
journal = {Journal of Clinical Epidemiology},
title = {STREGA, STROBE, STARD, SQUIRE, MOOSE, PRISMA, GNOSIS, TREND, ORION, COREQ, QUOROM, REMARK... and CONSORT: for whom does the guideline toll?},
affiliation = {Department of Clinical Epidemiology, Leiden University Medical Centre, Leiden, The Netherlands. j.p.vandenbroucke@lumc.nl},
number = {6},
pages = {594--6},
volume = {62},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Periodicals as Topic, Data Interpretation: Statistical, Epidemiologic Studies, Editorial Policies, Guidelines as Topic, Abbreviations as Topic, Publishing, Humans},
date-added = {2010-03-22 13:42:44 +0100},
date-modified = {2010-03-22 13:42:44 +0100},
doi = {10.1016/j.jclinepi.2008.12.003},
pii = {S0895-4356(08)00354-5},
pmid = {19181482},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vandenbroucke-2009-Journal%20of%20Clinical%20Epidemiology_STREGA%20STROBE%20STAR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9315},
rating = {0}
}
@article{Foster:2008p1700,
author = {E Michael Foster and Ariel Kalil},
journal = {Dev Psychol},
title = {New methods for new questions: obstacles and opportunities},
abstract = {Two forces motivate this special section, "New Methods for New Questions in Developmental Psychology." First are recent developments in social science methodology and the increasing availability of those methods in common software packages. Second, at the same time psychologists' understanding of developmental phenomena has continued to grow. At their best, these developments in theory and methods work in tandem, fueling each other. Newer methods make it possible for scientists to better test their ideas; better ideas lead methodologists to techniques that better reflect, capture, and quantify the underlying processes. The articles in this special section represent a sampling of these new methods and new questions. The authors describe common themes in these articles and identify barriers to future progress, such as the lack of data sharing by and analytical training for developmentalists.},
affiliation = {Department of Maternal and Child Health, School of Public Health, University of North Carolina, Chapel Hill, NC 27599-7445, USA. emfoster@unc.edu},
number = {2},
pages = {301--4},
volume = {44},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Child, Psychometrics, Forecasting, Research, Software, Child Psychology, Humans, Mathematical Computing, Social Sciences, Data Interpretation: Statistical, Computer Simulation},
date-added = {2010-01-09 19:08:22 +0100},
date-modified = {2010-01-09 19:08:22 +0100},
doi = {10.1037/0012-1649.44.2.301},
pii = {2008-02379-001},
pmid = {18331123},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Foster-2008-Dev%20Psychol_New%20methods%20for%20new.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1700},
rating = {0}
}
@article{Woods:2009p490,
author = {Carol M Woods},
journal = {Multivariate Behavioral Research},
title = {Evaluation of MIMIC-Model Methods for DIF Testing With Comparison to Two-
Group Analysis},
abstract = {Differential item functioning (DIF) occurs when an item on a test or question- naire has different measurement properties for 1 group of people versus another, irrespective of mean differences on the construct. This study focuses on the use of multiple-indicator multiple-cause (MIMIC) structural equation models for DIF testing, parameterized as item response models. The accuracy of these methods, and the sample size requirements, are not well established. This study examines the accuracy of MIMIC methods for DIF testing when the focal group is small and compares results with those obtained using 2-group item response theory (IRT). Results support the utility of the MIMIC approach. With small focal- group samples, tests of uniform DIF with binary or 5-category ordinal responses were more accurate with MIMIC models than 2-group IRT. Recommendations are offered for the application of MIMIC methods for DIF testing.},
pages = {1--27},
volume = {44},
year = {2009},
date-added = {2010-01-03 12:50:50 +0100},
date-modified = {2010-01-03 12:52:32 +0100},
doi = {10.1080/00273170802620121},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Woods-2009-Multivariate%20Behavioral%20Research_Evaluation%20of%20MIMIC.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p490},
rating = {0}
}
@article{Zhang:2010p10035,
author = {Zhiwu Zhang and Elhan Ersoz and Chao-Qiang Lai and Rory J Todhunter and Hemant K Tiwari and Michael A Gore and Peter J Bradbury and Jianming Yu and Donna K Arnett and Jose M Ordovas and Edward S Buckler},
journal = {Nat Genet},
title = {Mixed linear model approach adapted for genome-wide association studies},
abstract = {Mixed linear model (MLM) methods have proven useful in controlling for population structure and relatedness within genome-wide association studies. However, MLM-based methods can be computationally challenging for large datasets. We report a compression approach, called 'compressed MLM', that decreases the effective sample size of such datasets by clustering individuals into groups. We also present a complementary approach, 'population parameters previously determined' (P3D), that eliminates the need to re-compute variance components. We applied these two methods both independently and combined in selected genetic association datasets from human, dog and maize. The joint implementation of these two methods markedly reduced computing time and either maintained or improved statistical power. We used simulations to demonstrate the usefulness in controlling for substructure in genetic association datasets for a range of species and genetic architectures. We have made these methods available within an implementation of the software program TASSEL.},
affiliation = {Institute for Genomic Diversity, Cornell University, Ithaca, New York, USA.},
number = {4},
pages = {355--60},
volume = {42},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-03-31 20:04:19 +0200},
date-modified = {2010-03-31 20:04:19 +0200},
doi = {10.1038/ng.546},
pii = {ng.546},
pmid = {20208535},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2010-Nat%20Genet_Mixed%20linear%20model%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10035},
read = {Yes},
rating = {0}
}
@article{Smit:2006p5354,
author = {J Smit and C E van den Berg and L-G Bekker and S Seedat and D J Stein},
journal = {Afr Health Sci},
title = {Translation and cross-cultural adaptation of a mental health battery in an African setting},
abstract = {BACKGROUND: Standardised measuring instruments are increasingly used in psychiatric research cross-culturally. These instruments are considered to be culturally equivalent when all forms of biases, or social norms specific to the culture of origin, have been removed. OBJECTIVES: To describe the qualitative process of selection, translation and cultural adaptation of a mental health battery for use in a Xhosa-speaking community that is, as far as possible, 'culture-free' or equivalent. METHOD: Informal discussions were held with key members in the community to determine what would be considered as appropriate for the community in respect of psychiatric screening instruments. Existing rating-scales for depression, alcohol abuse and posttraumatic stress disorder that would meet these criteria were identified and then translated from English into Xhosa. Cultural equivalence was achieved by combining methods of back-translation, committee consensus approach and decentering. Discussions during the committee consensus meetings were recorded and categorized into themes. Two themes emerged: (1) issues related to the attainment of semantic equivalence and (2) broader problems inherent in cross-cultural research. RESULTS: Issues related to individual questionnaires included the use of terms to describe emotional distress cross-culturally. Broader issues related to the translation process itself included the form of language to be used, time-frames, and the use of Likert-scales. It also demonstrated the problems inherent in the categorization of emotions. CONCLUSION: A method of combining a group approach, back-translation, and decentering was effective and efficient in this context for establishing content and semantic equivalence. Cross-cultural adaptation can never completely remove all forms of bias from a research instrument, but such limitations should be acknowledged and openly discussed, rather than hidden or ignored.},
affiliation = {MRC Unit on Anxiety and Stress Disorders, University of Stellenbosch, Cape Town, South Africa.},
number = {4},
pages = {215--22},
volume = {6},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Mental Health, Psychiatric Status Rating Scales, Humans, Translating, Research, South Africa, Cross-Cultural Comparison, Acculturation},
date-added = {2010-02-11 09:11:05 +0100},
date-modified = {2010-02-11 09:11:05 +0100},
doi = {10.5555/afhs.2006.6.4.215},
pmid = {17604510},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5354},
rating = {0}
}
@article{Smalley:1997p6899,
author = {S L Smalley},
journal = {Am J Hum Genet},
title = {Genetic influences in childhood-onset psychiatric disorders: autism and attention-deficit/hyperactivity disorder},
affiliation = {Department of Adolescent and Child Psychiatry, UCLA School of Medicine 90024, USA. ssmalley@npih.mednet.ucla.edu},
number = {6},
pages = {1276--82},
volume = {60},
year = {1997},
month = {Jun},
language = {eng},
keywords = {Family, Child, Autistic Disorder, Humans, Personality Disorders, Infant, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-03-06 11:25:31 +0100},
date-modified = {2010-03-06 11:25:31 +0100},
doi = {10.1086/515485},
pii = {S0002-9297(07)64217-7},
pmid = {9199546},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smalley-1997-Am%20J%20Hum%20Genet_Genetic%20influences%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6899},
rating = {0}
}
@article{Andrich:2010p12919,
author = {David Andrich},
journal = {Psychometrika},
title = {Sufficiency and conditional estimation of person parameters in the polytomous Rasch model},
abstract = {Rasch models are characterised by sufficient statistics for all parameters. In the Rasch unidimen- sional model for two ordered categories, the parameterisation of the person and item is symmetrical and it is readily established that the total scores of a person and item are sufficient statistics for their respective parameters. In contrast, in the unidimensional polytomous Rasch model for more than two ordered cate- gories, the parameterisation is not symmetrical. Specifically, each item has a vector of item parameters, one for each category, and each person only one person parameter. In addition, different items can have different numbers of categories and, therefore, different numbers of parameters. The sufficient statistic for the parameters of an item is itself a vector. In estimating the person parameters in presently available software, these sufficient statistics are not used to condition out the item parameters. This paper derives a conditional, pairwise, pseudo-likelihood and constructs estimates of the parameters of any number of persons which are independent of all item parameters and of the maximum scores of all items. It also shows that these estimates are consistent. Although Rasch's original work began with equating tests us- ing test scores, and not with items of a test, the polytomous Rasch model has not been applied in this way. Operationally, this is because the current approaches, in which item parameters are estimated first, cannot handle test data where there may be many scores with zero frequencies. A small simulation study shows that, when using the estimation equations derived in this paper, such a property of the data is no impediment to the application of the model at the level of tests. This opens up the possibility of using the polytomous Rasch model directly in equating test scores.},
number = {2},
pages = {292--308},
volume = {75},
year = {2010},
date-added = {2010-06-24 18:02:16 +0200},
date-modified = {2010-07-11 09:18:13 +0200},
doi = {10.1007/S11336-010-9154-8},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andrich-2010-Psychometrika_Sufficiency%20and%20cond-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12919},
rating = {0}
}
@article{Tognazzo:2009p2381,
author = {Sandro Tognazzo and Bovo Emanuela and Fiore Anna Rita and Guzzinati Stefano and Monetti Daniele and Stocco Cramen Fiorella and Zambon Paola},
journal = {J Biomed Inform},
title = {Probabilistic classifiers and automated cancer registration: an exploratory application},
abstract = {A test of the performance of two probabilistic classifiers (random forests and multinomial logit models) in automatically defining cancer cases has been carried out on 5608 subjects, registered by the Venetian Tumour Registry (RTV) during the years 1987-1996 and manually checked for possible second cancers that occurred during the 1997-1999 period. An eightfold cross-validation was performed to estimate the classification error; 63 predictive variables were entered into the model fitting. The random forest allows to automatically classify 45% of subjects with a classification error lower than 5%, while the corresponding error is 31% for the multilogit model. The performance of the former classifier is appealing, indicating a potential drop of manually checked cases from 1750 to 960 per incidence year with a moderate error rate. This result suggests to refine the approach and extend it to other categories of manually treated cases.},
affiliation = {Venetian Tumour Registry, Registro Tumori del Veneto, Istituto Oncologico Veneto-IRCCS, 35128 Padua, Italy. sandro.tognazzo@ioveneto.it},
number = {1},
pages = {1--10},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Reproducibility of Results, Italy, Logistic Models, Predictive Value of Tests, Pattern Recognition: Automated, Registries, Humans, Neoplasms, Artificial Intelligence, Neoplasms: Second Primary},
date-added = {2010-01-10 19:31:41 +0100},
date-modified = {2010-01-10 19:31:41 +0100},
doi = {10.1016/j.jbi.2008.06.002},
pii = {S1532-0464(08)00085-3},
pmid = {18620077},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tognazzo-2009-J%20Biomed%20Inform_Probabilistic%20classi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2381},
rating = {0}
}
@article{Snyder:2008p4650,
author = {S Snyder},
title = {Imputation using the linkage disequilibrium method},
abstract = {Imputation is a method of dealing with missing data points by filling in values. In genetics, imputation generally refers to the substitution of missing SNP values. Missing SNP values commonly cause data to be thrown out, as re- genotyping is limited by financial constraints. Recovery of SNP values can keep costs down and restore power lost due to missing data. The linkage disequilibrium (LD) method imputes the value of missing SNPs based on LD correlation data between missing SNPs and SNPs which have been measured successfully. This approach is easy to implement, is generalizable, has decent accuracy, and is fairly fast. On the other hand, it does not have optimal accuracy, and makes decisions without an explicit statistical confidence value.},
year = {2008},
date-added = {2010-01-30 16:06:21 +0100},
date-modified = {2010-01-30 16:06:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Snyder-2008-_Imputation%20using%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4650},
rating = {0}
}
@article{Medhin:2010p11602,
author = {Girmay Medhin and Charlotte Hanlon and Michael Dewey and Atalay Alem and Fikru Tesfaye and Zufan Lakew and Bogale Worku and Mesfin Araya and Abdulreshid Abdulahi and Mark Tomlinson and Marcus Hughes and Vikram Patel and Martin Prince},
journal = {BMC Psychiatry},
title = {The effect of maternal common mental disorders on infant undernutrition in Butajira, Ethiopia: The P-MaMiE study},
abstract = {ABSTRACT: BACKGROUND: Although maternal common mental disorder (CMD) appears to be a risk factor for infant undernutrition in South Asian countries, the position in sub-Saharan Africa (SSA) is unclear METHODS: A population-based cohort of 1065 women, in the third trimester of pregnancy, was identified from the demographic surveillance site (DSS) in Butajira, to investigate the effect of maternal CMD on infant undernutrition in a predominantly rural Ethiopian population. Participants were interviewed at recruitment and at two months post-partum. Maternal CMD was measured using the locally validated Self-Reported Questionnaire (score of [greater than or equal to] six indicating high levels of CMD). Infant anthropometry was recorded at six and twelve months of age. Result: The prevalence of CMD was 12% during pregnancy and 5% at the two month postnatal time-point. In bivariate analysis antenatal CMD which had resolved after delivery predicted underweight at twelve months (OR = 1.71; 95% CI: 1.05, 2.50). There were no other statistically significant differences in the prevalence of underweight or stunted infants in mothers with high levels of CMD compared to those with low levels. The associations between CMD and infant nutritional status were not significant after adjusting for pre-specified potential confounders. CONCLUSION: Our negative finding adds to the inconsistent picture emerging from SSA. The association between CMD and infant undernutrition might be modified by study methodology as well as degree of shared parenting among family members, making it difficult to extrapolate across low- and middle-income countries.},
number = {1},
pages = {32},
volume = {10},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-09 21:37:16 +0200},
date-modified = {2010-05-09 21:37:16 +0200},
doi = {10.1186/1471-244X-10-32},
pii = {1471-244X-10-32},
pmid = {20433695},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Medhin-2010-BMC%20Psychiatry_The%20effect%20of%20matern-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11602},
rating = {0}
}
@article{Brune:2006p6083,
author = {Camille W Brune and Soo-Jeong Kim and Jeff Salt and Bennett L Leventhal and Catherine Lord and Edwin H Cook},
journal = {Am J Psychiatry},
title = {5-HTTLPR Genotype-Specific Phenotype in Children and Adolescents With Autism},
abstract = {OBJECTIVE: The serotonin transporter gene (SLC6A4) is a strong autism candidate gene because of its association with anxiety, aggression and attention, and the effectiveness of selective serotonin reuptake inhibitors (SSRIs) in treating certain behavioral symptoms. In families with individuals with autism, several reports of biased transmission of both alleles (short, long) at the serotonin transporter gene promotor polymorphism (5-HTTLPR) locus of SLC6A4 now exist. The heterogeneity in these reports may be due to clinical heterogeneity. The authors hypothesized that 5-HTTLPR genotypes would be related to variation in specific symptoms in children with autism. METHOD: The authors explored whether variants of two functional polymorphisms of SLC6A4 (5-HTTLPR, intron 2 variable number tandem repeat [2 VNTR]) were related to behavioral characteristics measured by the Autism Diagnostic Interview-Revised and Autism Diagnostic Observation Schedule. Subjects (N=73, age 3-19 years old) met diagnostic criteria for autistic disorder based on both measures. RESULTS: Evidence of genotype-phenotype interactions on the Autism Diagnostic Interview-Revised was found with the 5-HTTLPR short group of HTTLPR (S/L or S/S genotypes) being rated as more severe on the subdomain "failure to use nonverbal communication to regulate social interaction," and the long group (L/L genotype) being more severe on the subdomain "stereotyped and repetitive motor mannerisms" and on an aggression measure. In contrast, on the Autism Diagnostic Observation Schedule, the long group was associated with greater severity on directed facial expressions and unusual sensory interests. There were no significant relationships between the intron 2 VNTR genotypes and subdomains or domains of symptoms on the Autism Diagnostic Interview-Revised or the Autism Diagnostic Observation Schedule. CONCLUSIONS: These findings provide initial support for genotype-specific phenotypes for 5-HTTLPR in autism based on ratings from the Autism Diagnostic Interview-Revised and Autism Diagnostic Observation Schedule.},
affiliation = {Institute for Juvenile Research, Department of Psychiatry (M/C 747), University of Illinois at Chicago, 1747 West Roosevelt Rd., Rm. 155, Chicago, IL 60608, USA.},
number = {12},
pages = {2148--56},
volume = {163},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Phenotype, Tandem Repeat Sequences, Serotonin Plasma Membrane Transport Proteins, Age Factors, Autistic Disorder, Adolescent, Polymorphism: Genetic, Child, Promoter Regions: Genetic, Psychiatric Status Rating Scales, Genotype, Interpersonal Relations, Severity of Illness Index, Humans, Introns, Genetic Heterogeneity, Stereotyped Behavior, Nonverbal Communication, Child: Preschool, Adult},
date-added = {2010-02-19 17:04:09 +0100},
date-modified = {2010-02-19 17:04:09 +0100},
doi = {10.1176/appi.ajp.163.12.2148},
pii = {163/12/2148},
pmid = {17151167},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brune-2006-Am%20J%20Psychiatry_5-HTTLPR%20Genotype-Sp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6083},
rating = {0}
}
@article{Ferguson:2002,
author = {RJ Ferguson and AB Robinson and M Splaine},
journal = {Qual Life Res},
title = {Use of the Reliable Change Index to evaluate clinical significance in SF-36 outcomes},
abstract = {The SF-36 Health Survey is the most widely used self-report measure of functional health. It is commonly used in both randomized controlled trials (RCT) and non-controlled evaluation of medical or other health services. However, determining a clinically significant change in SF-36 outcomes from pre-to-post-intervention, in contrast to statistically significant differences, is often not a focus of medical outcomes research. We propose use of the Reliable Change Index (RCI) in combination with SF-36 norms as one method for researchers, provider groups, and health care policy makers to determine clinically significant healthcare outcomes when the SF-36 is used as a primary measure. The RCI is a statistic that determines the magnitude of change score necessary of a given self-report measure to be considered statistically reliable. The RCI has been used to determine clinically significant change in mental health and behavioral medicine outcomes research, but is not widely applied to medical outcomes research. A usable table of RCIs for the SF-36 has been calculated and is presented. Instruction and a case illustration of how to use the RCI table is also provided. Finally, limitations and cautionary guidelines on using SF-36 norms and the RCI to determine clinically significant outcome are discussed.},
number = {6},
pages = {509--516},
volume = {11},
year = {2002},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1023},
rating = {0}
}
@article{Kennedy:2007p5525,
author = {Henry Kennedy and Rodney Douglas and Kenneth Knoblauch and Colette Dehay},
journal = {Novartis Found Symp},
title = {Self-organization and pattern formation in primate cortical networks},
abstract = {The primate neocortex is characterized by a highly expanded supragranular layer (SGL). The interareal connectivity of the neurons in the SLG largely determines the cortical hierarchy that constrains information flow through the cortex. Interareal connectivity is made by precise numbers of connections, raising the possibility that the physiology of a target area is dictated by the numbers of connections and hierarchical distance in each of the pathways that it receives. The developmental mechanisms ensuring the precision of these interareal networks is in part determined by (i) the numbers of SGL neurons generated by the OSVZ, a primate-specific germinal zone. Neuron generation rate in the OSVZ is determined by regulation of the G1 phase of the cell-cycle. This regulation is area-specific and is linked to thalamic projections to the OSVZ; (ii) Prolonged pre- and postnatal pruning of connections originating from the SGL when the infant monkey visually explores its environment. Remodelling serves to sharpen initial patterns of connections and establishes the adult hierarchy. These results suggest that primate cortical networks underlying high-level function undergo prolonged self-organization via regressive phenomena in the cortical plate (axon elimination) and progressive phenomena (directed growth of cortical axons).},
affiliation = {Inserm, U846, 18 Avenue Doyen Lepine, 69500 Bron, France.},
pages = {178-94 discussion 195-8, 276--81},
volume = {288},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Embryo: Mammalian, Neurons, Models: Neurological, Body Patterning, Animals, Cerebral Cortex, Nerve Net, Primates, Neural Pathways, Models: Biological},
date-added = {2010-02-12 15:23:33 +0100},
date-modified = {2010-02-12 15:23:33 +0100},
pmid = {18494259},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kennedy-2007-Novartis%20Found%20Symp_Self-organization%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5525},
rating = {0}
}
@article{Guilford:1957p2661,
author = {J P Guilford},
title = {louis leon thurstone},
year = {1957},
date-added = {2010-01-12 22:54:22 +0100},
date-modified = {2010-01-12 22:54:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guilford-1957-_louis%20leon%20thurstone.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2661},
rating = {0}
}
@article{Zhang:2010p7658,
author = {Dandan Zhang and Lijun Cheng and David W Craig and Margot Redman and Chunyu Liu},
journal = {Behav Genet},
title = {Cerebellar telomere length and psychiatric disorders},
abstract = {We tested whether telomere length is altered in the brains of patients diagnosed with major depression (MD), bipolar disorder (BD) and schizophrenia (SZ) by measuring mean telomere length (mTL) with real-time PCR. The samples are cerebellar gray matter from 46 SZ, 46 BP, and 15 MD patients, and 48 healthy controls. We found no difference in mTL between SZ and controls, BD and controls, MD and controls, or all cases and controls; no correlation between mTL and age was observed, either. This suggests that brain gray matter is unlikely to be related to the telomere length shortening reported in blood of psychiatric patients. White matter deserves further investigation as it has been reported to have a different mTL dynamic from gray matter. Since mTL has been reported to be a heritable quantitative trait, we also carried out genome-wide mapping of genetic factors for mTL, treating mTL as a quantitative trait. No association survived correction of multiple testing for the number of SNPs studied. The previously reported rs2630578 (BICD1) association was not replicated. This suggests that telomere length of cerebellar gray matter is determined by multiple loci with "weak effects."},
affiliation = {Department of Psychiatry and Behavioral Neuroscience, The University of Chicago, Chicago, IL, 60637, USA.},
number = {2},
pages = {250--4},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:33:06 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9338-0},
pmid = {20127402},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2010-Behav%20Genet_Cerebellar%20telomere.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7658},
rating = {0}
}
@article{Retzer:2009p1536,
author = {J J Retzer and E S Soofi and R Soyer},
journal = {Computational Statistics},
title = {Information importance of predictors: Concept, measures, Bayesian inference, and applications},
abstract = {The importance of predictors is characterized by the extent to which their use reduces uncertainty about predicting the response variable, namely their information importance. The uncertainty associated with a probability distribution is a concave function of the density such that its global maximum is a uniform distribution reflecting the most difficult prediction situation. Shannon entropy is used to operationalize the concept. For nonstochastic predictors, maximum entropy characterization of probability distributions provides measures of information importance. For stochastic predictors, the expected entropy difference gives measures of information importance, which are invariant under one-to-one transformations of the variables. Applications to various data types lead to familiar statistical quantities for various models, yet with the unified interpretation of uncertainty reduction. Bayesian inference procedures for the importance and relative importance of predictors are developed. Three examples show applications to normal regression, contingency table, and logit analyses.},
affiliation = {Maritz Research, 1815 S. Meyers Road, Suite 600, Oak brook Terrace, IL 60181, USA},
pages = {2363--2377},
volume = {53},
year = {2009},
date-added = {2010-01-07 16:19:54 +0100},
date-modified = {2010-07-29 19:24:31 +0200},
doi = {doi:10.1016/j.csda.2008.03.010},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Retzer-2009-Computational%20Statistics_Information%20importan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1536},
rating = {0}
}
@article{SapountziKrepia:2005p14019,
author = {Despina Sapountzi-Krepia and Vasilios Raftopoulos and Marcos Sgantzos and Evangelia Kotrotsiou and Zoe Roupa-Darivaki and Kalliope Sotiropoulou and Ioanna Ntourou and Alexandra Dimitriadou},
journal = {Annals of general psychiatry},
title = {Validation and test-retest reliability of the Royal Free Interview for Spiritual and Religious Beliefs when adapted to a Greek population},
abstract = {BACKGROUND: The self-report version of the Royal Free Interview for Religious and Spiritual Beliefs has been confirmed as a valid and reliable scale, assessing the manner and nature in which spiritual beliefs are expressed. The aim of the present study was to evaluate the test-retest reliability and psychometric properties of the Greek version of the Royal Free Interview for Religious and Spiritual Beliefs. METHODS: A total of 209 persons (77 men and 132 women) with a mean age of 28.33 +/- 9.44 years participated in the study (test group). We subsequently approached 139 participants of the test group with a mean age of 28.93 +/- 9.60 years, who were asked to complete the Royal Free Questionnaire a second time two weeks later (retest group). RESULTS: The vast majority of participants (58.9%) reported both a religious and a spiritual belief, compared to 52 (25.1%) who told of a religious belief only. The internal consistency of the spiritual scale for the test group proved to be good, as standardized inter-item reliability / Cronbach's alpha was 0.83. Item-total correlations ranged from 0.51 to 0.73. They indicated very good levels of differentiation, thus showing that the questions were appropriate. Internal consistency of the spiritual scale for the retest group proved as good as for the test group. Standardized inter-item reliability / Cronbach's alpha was 0.84. Item-total correlations ranged from 0.52 to 0.75. The Pearson correlation coefficient for the total test-retest score of the spiritual scale was 0.754 (p < 0.001). CONCLUSION: The Greek version of the Royal Free Interview for Religious and Spiritual Beliefs is reliable and thus suitable for use in Greece.},
affiliation = {Hellenic Centre for Infectious Diseases Control, Athens, Greece. v_raftop@yahoo.gr.},
number = {1},
pages = {6},
volume = {4},
year = {2005},
month = {Mar},
language = {ENG},
date-added = {2010-08-07 10:09:04 +0200},
date-modified = {2010-08-07 10:09:04 +0200},
doi = {10.1186/1744-859X-4-6},
pii = {1744-859X-4-6},
pmid = {15845142},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sapountzi-Krepia-2005-Annals%20of%20general%20psychiatry_Validation%20and%20test.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14019},
rating = {0}
}
@article{Levy:2007p1564,
author = {R Levy and G R Hancock},
journal = {Multivariate Behavioral Research},
title = {A Framework of Statistical Tests For Comparing Mean and Covariance Structure Models},
abstract = {While statistical procedures are well-known for comparing hierarchically related (nested) mean
and covariance structure models, statistical tests for comparing non-hierarchically related (nonnested) models have proven more elusive. Though isolated attempts at statistical tests of non-hierarchically related models have been made, none exists within the commonly-used maximum likelihood estimation framework, thereby compromising these methods' accessibility and general applicability. Building upon general theory developed by Vuong (1989) and techniques for establishing the relation between covariance structure models (Raykov {\&} Penev, 1999), the current work provides a general paradigm for conducting statistical tests on competing mean and covariance structure models. The proposed framework is appropriate for hierarchically related models as well as non-hierarchically related models. In developing the structure of the framework, key aspects of model equivalence, relation, and comparison are unified. An illustration demonstrates its use.},
year = {2007},
date-added = {2010-01-07 16:50:33 +0100},
date-modified = {2010-01-07 16:51:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2007-Multivariate%20Behavioral%20Research_A%20Framework%20of%20Stati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1564},
rating = {0}
}
@article{ENCODEProjectConsortium:2007p518,
author = {ENCODE Project Consortium and Ewan Birney and John A Stamatoyannopoulos and Anindya Dutta and Roderic Guig{\'o} and Thomas R Gingeras and Elliott H Margulies and Zhiping Weng and Michael Snyder and Emmanouil T Dermitzakis and Robert E Thurman and Michael S Kuehn and Christopher M Taylor and Shane Neph and Christoph M Koch and Saurabh Asthana and Ankit Malhotra and Ivan Adzhubei and Jason A Greenbaum and Robert M Andrews and Paul Flicek and Patrick J Boyle and Hua Cao and Nigel P Carter and Gayle K Clelland and Sean Davis and Nathan Day and Pawandeep Dhami and Shane C Dillon and Michael O Dorschner and Heike Fiegler and Paul G Giresi and Jeff Goldy and Michael Hawrylycz and Andrew Haydock and Richard Humbert and Keith D James and Brett E Johnson and Ericka M Johnson and Tristan T Frum and Elizabeth R Rosenzweig and Neerja Karnani and Kirsten Lee and Gregory C Lefebvre and Patrick A Navas and Fidencio Neri and Stephen C J Parker and Peter J Sabo and Richard Sandstrom and Anthony Shafer and David Vetrie and Molly Weaver and Sarah Wilcox and Man Yu and Francis S Collins and Job Dekker and Jason D Lieb and Thomas D Tullius and Gregory E Crawford and Shamil Sunyaev and William S Noble and Ian Dunham and France Denoeud and Alexandre Reymond and Philipp Kapranov and Joel Rozowsky and Deyou Zheng and Robert Castelo and Adam Frankish and Jennifer Harrow and Srinka Ghosh and Albin Sandelin and Ivo L Hofacker and Robert Baertsch and Damian Keefe and Sujit Dike and Jill Cheng and Heather A Hirsch and Edward A Sekinger and Julien Lagarde and Josep F Abril and Atif Shahab and Christoph Flamm and Claudia Fried and J{\"o}rg Hackerm{\"u}ller and Jana Hertel and Manja Lindemeyer and Kristin Missal and Andrea Tanzer and Stefan Washietl and Jan Korbel and Olof Emanuelsson and Jakob S Pedersen and Nancy Holroyd and Ruth Taylor and David Swarbreck and Nicholas Matthews and Mark C Dickson and Daryl J Thomas and Matthew T Weirauch and James Gilbert and Jorg Drenkow and Ian Bell and XiaoDong Zhao and K G Srinivasan and Wing-Kin Sung and Hong Sain Ooi and Kuo Ping Chiu and Sylvain Foissac and Tyler Alioto and Michael Brent and Lior Pachter and Michael L Tress and Alfonso Valencia and Siew Woh Choo and Chiou Yu Choo and Catherine Ucla and Caroline Manzano and Carine Wyss and Evelyn Cheung and Taane G Clark and James B Brown and Madhavan Ganesh and Sandeep Patel and Hari Tammana and Jacqueline Chrast and Charlotte N Henrichsen and Chikatoshi Kai and Jun Kawai and Ugrappa Nagalakshmi and Jiaqian Wu and Zheng Lian and Jin Lian and Peter Newburger and Xueqing Zhang and Peter Bickel and John S Mattick and Piero Carninci and Yoshihide Hayashizaki and Sherman Weissman and Tim Hubbard and Richard M Myers and Jane Rogers and Peter F Stadler and Todd M Lowe and Chia-Lin Wei and Yijun Ruan and Kevin Struhl and Mark Gerstein and Stylianos E Antonarakis and Yutao Fu and Eric D Green and Ula{\c s} Kara{\"o}z and Adam Siepel and James Taylor and Laura A Liefer and Kris A Wetterstrand and Peter J Good and Elise A Feingold and Mark S Guyer and Gregory M Cooper and George Asimenos and Colin N Dewey and Minmei Hou and Sergey Nikolaev and Juan I Montoya-Burgos and Ari L{\"o}ytynoja and Simon Whelan and Fabio Pardi and Tim Massingham and Haiyan Huang and Nancy R Zhang and Ian Holmes and James C Mullikin and Abel Ureta-Vidal and Benedict Paten and Michael Seringhaus and Deanna Church and Kate Rosenbloom and W James Kent and Eric A Stone and NISC Comparative Sequencing Program and Baylor College of Medicine Human Genome Sequencing Center and Washington University Genome Sequencing Center and Broad Institute and Children's Hospital Oakland Research Institute and Serafim Batzoglou and Nick Goldman and Ross C Hardison and David Haussler and Webb Miller and Arend Sidow and Nathan D Trinklein and Zhengdong D Zhang and Leah Barrera and Rhona Stuart and David C King and Adam Ameur and Stefan Enroth and Mark C Bieda and Jonghwan Kim and Akshay A Bhinge and Nan Jiang and Jun Liu and Fei Yao and Vinsensius B Vega and Charlie W H Lee and Patrick Ng and Atif Shahab and Annie Yang and Zarmik Moqtaderi and Zhou Zhu and Xiaoqin Xu and Sharon Squazzo and Matthew J Oberley and David Inman and Michael A Singer and Todd A Richmond and Kyle J Munn and Alvaro Rada-Iglesias and Ola Wallerman and Jan Komorowski and Joanna C Fowler and Phillippe Couttet and Alexander W Bruce and Oliver M Dovey and Peter D Ellis and Cordelia F Langford and David A Nix and Ghia Euskirchen and Stephen Hartman and Alexander E Urban and Peter Kraus and Sara Van Calcar and Nate Heintzman and Tae Hoon Kim and Kun Wang and Chunxu Qu and Gary Hon and Rosa Luna and Christopher K Glass and M Geoff Rosenfeld and Shelley Force Aldred and Sara J Cooper and Anason Halees and Jane M Lin and Hennady P Shulha and Xiaoling Zhang and Mousheng Xu and Jaafar N S Haidar and Yong Yu and Yijun Ruan and Vishwanath R Iyer and Roland D Green and Claes Wadelius and Peggy J Farnham and Bing Ren and Rachel A Harte and Angie S Hinrichs and Heather Trumbower and Hiram Clawson and Jennifer Hillman-Jackson and Ann S Zweig and Kayla Smith and Archana Thakkapallayil and Galt Barber and Robert M Kuhn and Donna Karolchik and Lluis Armengol and Christine P Bird and Paul I W de Bakker and Andrew D Kern and Nuria Lopez-Bigas and Joel D Martin and Barbara E Stranger and Abigail Woodroffe and Eugene Davydov and Antigone Dimas and Eduardo Eyras and Ingileif B Hallgr{\'\i}msd{\'o}ttir and Julian Huppert and Michael C Zody and Gon{\c c}alo R Abecasis and Xavier Estivill and Gerard G Bouffard and Xiaobin Guan and Nancy F Hansen and Jacquelyn R Idol and Valerie V B Maduro and Baishali Maskeri and Jennifer C McDowell and Morgan Park and Pamela J Thomas and Alice C Young and Robert W Blakesley and Donna M Muzny and Erica Sodergren and David A Wheeler and Kim C Worley and Huaiyang Jiang and George M Weinstock and Richard A Gibbs and Tina Graves and Robert Fulton and Elaine R Mardis and Richard K Wilson and Michele Clamp and James Cuff and Sante Gnerre and David B Jaffe and Jean L Chang and Kerstin Lindblad-Toh and Eric S Lander and Maxim Koriabine and Mikhail Nefedov and Kazutoyo Osoegawa and Yuko Yoshinaga and Baoli Zhu and Pieter J de Jong},
journal = {Nature},
title = {Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project},
abstract = {We report the generation and analysis of functional data from multiple, diverse experiments performed on a targeted 1% of the human genome as part of the pilot phase of the ENCODE Project. These data have been further integrated and augmented by a number of evolutionary and computational analyses. Together, our results advance the collective knowledge about human genome function in several major areas. First, our studies provide convincing evidence that the genome is pervasively transcribed, such that the majority of its bases can be found in primary transcripts, including non-protein-coding transcripts, and those that extensively overlap one another. Second, systematic examination of transcriptional regulation has yielded new understanding about transcription start sites, including their relationship to specific regulatory sequences and features of chromatin accessibility and histone modification. Third, a more sophisticated view of chromatin structure has emerged, including its inter-relationship with DNA replication and transcriptional regulation. Finally, integration of these new sources of information, in particular with respect to mammalian evolution based on inter- and intra-species sequence comparisons, has yielded new mechanistic and evolutionary insights concerning the functional landscape of the human genome. Together, these studies are defining a path for pursuit of a more comprehensive characterization of human genome function.},
number = {7146},
pages = {799--816},
volume = {447},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Pilot Projects, Regulatory Sequences: Nucleic Acid, Chromatin Immunoprecipitation, Chromatin, Evolution: Molecular, Histones, Transcription: Genetic, Genomics, Transcription Initiation Site, Protein Binding, Exons, DNA Replication, RNA: Untranslated, Conserved Sequence, Humans, Genome: Human, Genetic Variation, RNA: Messenger, Transcription Factors, Heterozygote},
date-added = {2010-01-03 13:17:15 +0100},
date-modified = {2010-01-03 13:17:15 +0100},
doi = {10.1038/nature05874},
pmid = {17571346},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p518},
rating = {0}
}
@article{Martin:2006,
author = {Ernesto San Martin and Guido del Pino},
journal = {Applied Psychological Measurement},
title = {IRT models for ability-based guessing},
number = {3},
pages = {183--203},
volume = {30},
year = {2006},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-2006-Applied%20Psychological%20Measurement_IRT%20models%20for%20abili.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1938},
rating = {0}
}
@article{Madden:1996p8012,
author = {P A Madden and A C Heath and N E Rosenthal and N G Martin},
journal = {Arch Gen Psychiatry},
title = {Seasonal changes in mood and behavior. The role of genetic factors},
abstract = {BACKGROUND: Seasonal rhythms in mood and behavior (seasonality) have been reported to occur in the general population. Seasonal affective disorder, a clinically diagnosed syndrome, is believed to represent the morbid extreme of a spectrum of seasonality. Two types of seasonality have been clinically described: one characterized by a winter pattern and a second by a summer pattern of depressive mood disturbance. METHODS: By using methods of univariate and multivariate genetic analysis, we examined the relative contribution of genetic and environmental factors to the risk of seasonality symptoms that were assessed by a mailed questionnaire of 4639 adult twins from a volunteer-based registry in Australia. RESULTS: Seasonality was associated with a winter rather than a summer pattern of mood and behavioral change. In each behavioral domain (ie, mood, energy, social activity, sleep, appetite, and weight), a significant genetic influence on the reporting of seasonal changes was found. Consistent with the hypothesis of a seasonal syndrome, genetic effects were found to exert a global influence across all behavioral changes, accounting for at least 29% of the variance in seasonality in men and women. CONCLUSIONS: There is a tendency for seasonal changes in mood and behavior to run in families, especially seasonality of the winter type, and this is largely due to a biological predisposition. These findings support continuing efforts to understand the role of seasonality in the development of mood disorders.},
affiliation = {Department of Psychiatry, Washington University School of Medicine, St Louis, Mo, USA.},
number = {1},
pages = {47--55},
volume = {53},
year = {1996},
month = {Jan},
language = {eng},
keywords = {Appetite, Seasons, Affect, Body Weight, Middle Aged, Sleep, Adult, Family, Aged, Social Environment, Diseases in Twins, Male, Registries, Humans, Seasonal Affective Disorder, Female, Australia},
date-added = {2010-03-20 19:35:03 +0100},
date-modified = {2010-03-20 19:35:06 +0100},
pmid = {8540777},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Madden-1996-Arch%20Gen%20Psychiatry_Seasonal%20changes%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8012},
rating = {4}
}
@article{Mayo:2006p1776,
author = {Matthew S Mayo and Byron J Gajewski and Jeffrey S Morris},
journal = {Radiat Res},
title = {Some statistical issues in microarray gene expression data},
abstract = {In this paper we discuss some of the statistical issues that should be considered when conducting experiments involving microarray gene expression data. We discuss statistical issues related to preprocessing the data as well as the analysis of the data. Analysis of the data is discussed in three contexts: class comparison, class prediction and class discovery. We also review the methods used in two studies that are using microarray gene expression to assess the effect of exposure to radiofrequency (RF) fields on gene expression. Our intent is to provide a guide for radiation researchers when conducting studies involving microarray gene expression data.},
affiliation = {Department of Preventive Medicine and Public Health, Center for Biostatistics and Advanced Informatics, Kansas Masonic Cancer Research Institute. mmayo@kumc.edu},
number = {6},
pages = {745--8},
volume = {165},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Oligonucleotide Array Sequence Analysis, Artifacts, Models: Genetic, Gene Expression Profiling, Reproducibility of Results, Quality Control, Data Interpretation: Statistical, Computer Simulation, Models: Statistical, Sensitivity and Specificity},
date-added = {2010-01-09 21:44:31 +0100},
date-modified = {2010-01-09 21:44:31 +0100},
doi = {10.1667/RR3576.1},
pii = {RR3576},
pmid = {16802876},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mayo-2006-Radiat%20Res_Some%20statistical%20iss.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1776},
rating = {0}
}
@article{Castrogiovanni:1998p9963,
author = {P Castrogiovanni and S Iapichino and C Pacchierotti and F Pieraccini},
journal = {Neuropsychobiology},
title = {Season of birth in psychiatry. A review},
abstract = {Numerous studies suggest that seasonal birth may play a pathogenic role in the development of mental disorders. A birth excess of 10% during winter and spring has been shown in schizophrenia. The few studies carried out on affective disorders revealed a significant increase of births in the first quarter of the year in bipolar disorders and major depressive disorder. Subjects with seasonal affective disorder show a peak of births in May. Data on personality, eating and 'neurotic' disorders are less consistent. At the moment there are no data in the literature about anxiety disorders.},
affiliation = {Department of Psychiatry, University of Siena, Italy.},
number = {4},
pages = {175--81},
volume = {37},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Brain, Prenatal Exposure Delayed Effects, Female, Pregnancy, Mental Disorders, Disease Susceptibility, Environment, Humans, Seasons, Schizophrenia, Mood Disorders, Sexual Behavior, Periodicity, Autistic Disorder, Eating Disorders},
date-added = {2010-03-31 19:44:01 +0200},
date-modified = {2010-03-31 19:44:01 +0200},
pii = {nps37175},
pmid = {9648124},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9963},
rating = {0}
}
@article{Muthen:1983p13986,
author = {B Muth{\'e}n},
journal = {Journal of Econometrics},
title = {Latent variable structural equation modeling with categorical data},
pages = {43--65},
volume = {22},
year = {1983},
date-added = {2010-07-30 21:36:59 +0200},
date-modified = {2010-07-30 21:37:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1983-Journal%20of%20Econometrics_Latent%20variable%20stru.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13986},
rating = {0}
}
@article{Rhew:2010p8341,
author = {Isaac C Rhew and Kate Simpson and Melissa Tracy and James Lymp and Elizabeth McCauley and Debby Tsuang and Ann Vander Stoep},
journal = {Child Adolesc Psychiatr Clin N Am},
title = {Criterion validity of the Short Mood and Feelings Questionnaire and one- and two-item depression screens in young adolescents},
abstract = {ABSTRACT: BACKGROUND: The use of short screening questionnaires may be a promising option for identifying children at risk for depression in a community setting. The objective of this study was to assess the validity of the Short Mood and Feelings Questionnaire (SMFQ) and one- and two-item screening instruments for depressive disorders in a school-based sample of young adolescents. METHODS: Participants were 521 sixth-grade students attending public middle schools. Child and parent versions of the SMFQ were administered to evaluate the child's depressive symptoms. The presence of any depressive disorder during the previous month was assessed using the Diagnostic Interview Schedule for Children (DISC) as the criterion standard. First, we assessed the diagnostic accuracy of child, parent, and combined scores of the full 13-item SMFQ by calculating the area under the receiver operating characteristic curve (AUC), sensitivity and specificity. The same approach was then used to evaluate the accuracy of a two-item scale consisting of only depressed mood and anhedonia items, and a single depressed mood item. RESULTS: The combined child + parent SMFQ score showed the highest accuracy (AUC = 0.86). Diagnostic accuracy was lower for child (AUC = 0.73) and parent (AUC = 0.74) SMFQ versions. Corresponding versions of one- and two-item screens had lower AUC estimates, but the combined versions of the brief screens each still showed moderate accuracy. Furthermore, child and combined versions of the two-item screen demonstrated higher sensitivity (although lower specificity) than either the one-item screen or the full SMFQ. CONCLUSIONS: Under conditions where parents accompany children to screening settings (e.g. primary care), use of a child + parent version of the SMFQ is recommended. However, when parents are not available, and the cost of a false positive result is minimal, then a one- or two-item screen may be useful for initial identification of at-risk youth.},
affiliation = {Social Development Research Group, University of Washington, Seattle, WA, USA. rhew@u.washington.edu.},
number = {1},
pages = {8},
volume = {4},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:41:40 +0100},
date-modified = {2010-07-29 19:23:03 +0200},
doi = {10.1186/1753-2000-4-8},
pii = {1753-2000-4-8},
pmid = {20181135},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rhew-2010-Child%20Adolesc%20Psychiatr%20Clin%20N%20Am_Criterion%20validity%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8341},
rating = {0}
}
@article{RevahLevy:2005p3593,
author = {A Revah-Levy},
title = {Evaluation de la d{\'e}pression chez l'adolescent : De la clinique {\`a} la psychom{\'e}trie},
year = {2005},
date-added = {2010-01-15 21:22:15 +0100},
date-modified = {2010-01-15 21:22:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revah-Levy-2005-_Evaluation%20de%20la%20de%CC%81.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3593},
rating = {0}
}
@article{Jakobowicz:2007p4082,
author = {E Jakobowicz and C Derquenne},
journal = {Computational Statistics},
title = {A modified PLS path modeling algorithm handling reflective categorical variables and a new model building strategy},
abstract = {Partial least squares (PLS) path modeling has found increased applications in customer satisfaction analysis thanks to its ability to handle complex models. A modified PLS path modeling algorithm together with a model building strategy are introduced and applied to customer satisfaction analysis at the French energy supplier Electricit{\'e} de France. The modified PLS algorithm handles all kinds of scales (categorical or nominal variables) and is well suited when nominal or binary variables are involved. PLS path modeling and structural equation modeling are confirmatory approaches and thus need an initial conceptual model. A two-step model building strategy is presented; the first step is based on Bayesian networks structure learning to build the measurement model and the second step is based on partial correlation and hypothesis tests to build the structural model. Applications to customer satisfaction data are presented.},
pages = {3666--3678},
volume = {51},
year = {2007},
date-added = {2010-01-19 16:01:04 +0100},
date-modified = {2010-07-29 19:24:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jakobowicz-2007-Computational%20Statistics_A%20modified%20PLS%20path.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4082},
rating = {0}
}
@article{Kadota:2003p4937,
author = {K Kadota and D Tominaga and Y Akiyama and K Takahashi},
journal = {Chem-Bio Informatics},
title = {Detecting outlying samples in microarray data: A critical assessment of the effect of outliers on sample classification},
number = {1},
pages = {30--45},
volume = {3},
year = {2003},
date-added = {2010-02-03 15:50:31 +0100},
date-modified = {2010-02-03 15:51:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kadota-2003-Chem-Bio%20Informatics_Detecting%20outlying%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4937},
rating = {0}
}
@article{Gandek:1998p5878,
author = {B Gandek and J E Ware and Neil K Aaronson and G Apolone and J B Bjorner and J E Brazier and M Bullinger and S Kaasa and A Leplege and L Prieto and M Sullivan},
journal = {Journal of Clinical Epidemiology},
title = {Cross-validation of item selection and scoring for the SF-12 Health Survey in nine countries: results from the IQOLA Project. International Quality of Life Assessment},
abstract = {Data from general population surveys (n = 1483 to 9151) in nine European countries (Denmark, France, Germany, Italy, the Netherlands, Norway, Spain, Sweden, and the United Kingdom) were analyzed to cross-validate the selection of questionnaire items for the SF-12 Health Survey and scoring algorithms for 12-item physical and mental component summary measures. In each country, multiple regression methods were used to select 12 SF-36 items that best reproduced the physical and mental health summary scores for the SF-36 Health Survey. Summary scores then were estimated with 12 items in three ways: using standard (U.S.-derived) SF-12 items and scoring algorithms; standard items and country-specific scoring; and country-specific sets of 12 items and scoring. Replication of the 36-item summary measures by the 12-item summary measures was then evaluated through comparison of mean scores and the strength of product-moment correlations. Product-moment correlations between SF-36 summary measures and SF-12 summary measures (standard and country-specific) were very high, ranging from 0.94-0.96 and 0.94-0.97 for the physical and mental summary measures, respectively. Mean 36-item summary measures and comparable 12-item summary measures were within 0.0 to 1.5 points (median = 0.5 points) in each country and were comparable across age groups. Because of the high degree of correspondence between summary physical and mental health measures estimated using the SF-12 and SF-36, it appears that the SF-12 will prove to be a practical alternative to the SF-36 in these countries, for purposes of large group comparisons in which the focus is on overall physical and mental health outcomes.},
affiliation = {Health Assessment Lab at the Health Institute, New England Medical Center, Boston, Massachusetts 02111, USA.},
number = {11},
pages = {1171--8},
volume = {51},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Questionnaires, Europe, Health Status Indicators, Psychometrics, Quality of Life, Cross-Cultural Comparison, Humans, Reproducibility of Results},
date-added = {2010-02-17 15:04:17 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
pii = {S0895435698001097},
pmid = {9817135},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gandek-1998-Journal%20of%20Clinical%20Epidemiology_Cross-validation%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5878},
rating = {0}
}
@article{Selvin:1958,
author = {HC Selvin},
journal = {American Journal of Sociology},
title = {Durkheim's suicide and the problem of empirical research},
pages = {607--619},
volume = {63},
year = {1958},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1088},
rating = {0}
}
@article{Jambu:1978p2714,
author = {M Jambu},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Caract{\'e}risation des classifications arborescentes {\'e}tablies sur le crit{\`e}re du chi-deux ou de l'information mutuelle},
number = {2},
pages = {45--69},
volume = {26},
year = {1978},
date-added = {2010-01-13 13:59:32 +0100},
date-modified = {2010-01-13 14:00:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jambu-1978-Revue%20de%20Statistique%20Appliqu%C3%A9e_Caract%C3%A9risation%20des.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2714},
rating = {0}
}
@article{Minassian:2007p6069,
author = {Arpi Minassian and Martin Paulus and Alan Lincoln and William Perry},
journal = {J Autism Dev Disord},
title = {Adults with autism show increased sensitivity to outcomes at low error rates during decision-making},
abstract = {Decision-making is an important function that can be quantified using a two-choice prediction task. Individuals with Autistic Disorder (AD) often show highly restricted and repetitive behavior that may interfere with adaptive decision-making. We assessed whether AD adults showed repetitive behavior on the choice task that was unaffected by changing task demands, by examining the influence of experimenter-determined error rates on decision-making. Sixteen AD adults and 14 typically developed subjects were administered a two-choice task using three error rate conditions. Although AD subjects showed occurrences of stereotyped responding, their decision-making behavior was strongly affected by changes in task demands, especially when they experienced frequent success. Thus, behavioral paradigms that provide frequent reinforcement may be helpful in modifying decision-making abilities in AD.},
affiliation = {Department of Psychiatry, University of California, San Diego, 200 West Arbor Drive, Mailcode 8620, San Diego, CA 92103-8620, USA. aminassian@ucsd.edu},
number = {7},
pages = {1279--88},
volume = {37},
year = {2007},
month = {Aug},
language = {eng},
keywords = {Sex Factors, Male, Wechsler Scales, Female, Diagnostic and Statistical Manual of Mental Disorders, Motivation, Autistic Disorder, Decision Making, Cognition Disorders, Adult, Humans},
date-added = {2010-02-19 17:03:15 +0100},
date-modified = {2010-02-19 17:03:15 +0100},
doi = {10.1007/s10803-006-0278-8},
pmid = {17080271},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6069},
rating = {0}
}
@article{Belzeaux:2010p12089,
author = {Raoul Belzeaux and Christine Formisano-Tr{\'e}ziny and Anderson Loundou and Laurent Boyer and Jean Gabert and Jean-Claude Samuelian and Fran{\c c}ois F{\'e}ron and Jean Naudin and El Ch{\'e}rif Ibrahim},
journal = {J Psychiatr Res},
title = {Clinical variations modulate patterns of gene expression and define blood biomarkers in major depression},
abstract = {The aim of the study is to compare the expression level of candidate genes between patients suffering from a severe major depressive episode (MDE) and controls, and also among patients during MDE evolution. After a comprehensive review of the biological data related to mood disorders, we initiated a hypothesis-driven exploration of candidate mRNAs. Using RT-qPCR, we analyzed peripheral blood mononuclear cells (PBMCs) mRNA obtained from a homogeneous population of 11 patients who suffered from severe melancholic MDE. To assess the evolution of MDE, we analyzed PBMC mRNAs that were collected on Day 1 and 8 weeks later. Data from these patient samples were analyzed in comparison to age- and sex-matched healthy controls. Among 40 candidate genes consistently transcribed in PBMCs, 10 were differentially expressed in at least one comparison. We found that variations of mRNA levels for NRG1, SORT1 and TPH1 were interesting state-dependent biological markers of the disease. We also observed that variations in other mRNA expression were associated with treatment efficacy or clinical improvement (CREB1, HDAC5, HSPA2, HTR1B, HTR2A, and SLC6A4/5HTT). Significantly, 5HTT exhibited a strong correlation with clinical score evolution. We also found a state-independent marker, IL10. Moreover, the analysis of 2 separate MDEs concerning a same patient revealed comparable results for the expression of CREB1, HSPA2, HTR1B, NRG1 and TPH1. Overall, our results indicate that PBMCs obtained at different time points during MDE progression represent a promising avenue to discover biological markers for depression.},
affiliation = {NICN-CNRS UMR 6184, Facult{\'e} de M{\'e}decine Nord-IFR Jean Roche, 51 Bd Pierre Dramard, 13344 Marseille Cedex 15, France; SHU Psychiatrie adulte Solaris, H{\^o}pital Sainte Marguerite, Assistance Publique -H{\^o}pitaux de Marseille, Marseille, France.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-24 12:36:43 +0200},
date-modified = {2010-05-24 12:36:49 +0200},
doi = {10.1016/j.jpsychires.2010.04.011},
pii = {S0022-3956(10)00121-4},
pmid = {20471034},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Belzeaux-2010-J%20Psychiatr%20Res_Clinical%20variations.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12089},
rating = {4}
}
@article{Clayton:2008p380,
author = {David Clayton},
journal = {Biostatistics},
title = {Testing for association on the X chromosome},
abstract = {The problem of testing for genotype-phenotype association with loci on the X chromosome in mixed-sex samples has received surprisingly little attention. A simple test can be constructed by counting alleles, with males contributing a single allele and females 2. This approach does assume not only Hardy-Weinberg equilibrium in the population from which the study subjects are sampled but also, perhaps, an unrealistic alternative hypothesis. This paper proposes 1 and 2 degree-of-freedom tests for association which do not assume Hardy-Weinberg equilibrium and which treat males as homozygous females. The proposed method remains valid when phenotype varies between sexes, provided the allele frequency does not, and avoids the loss of power resulting from stratification by sex in such circumstances.},
affiliation = {Cambridge Institute for Medical Research, University of Cambridge, Wellcome Trust/MRC Building, Addenbrookes's Hospital, Cambridge, UK. david.clayton@cimr.cam.ac.uk},
number = {4},
pages = {593--600},
volume = {9},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Male, Humans, Phenotype, Genetic Diseases: X-Linked, Female, Genotype, X Chromosome Inactivation, Chromosomes: Human: X, Models: Genetic, Polymorphism: Genetic, Genome-Wide Association Study, Gene Frequency, Algorithms, Models: Statistical, Genes: X-Linked, Sex Factors},
date-added = {2010-01-03 11:50:16 +0100},
date-modified = {2010-01-03 11:50:16 +0100},
doi = {10.1093/biostatistics/kxn007},
pii = {kxn007},
pmid = {18441336},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clayton-2008-Biostatistics_Testing%20for%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p380},
read = {Yes},
rating = {0}
}
@article{Verhelst:1993,
author = {N D Verhelst and C A W Glas},
journal = {Psychometrika},
title = {A dynamic generalization of the Rasch model},
pages = {395--415},
volume = {58},
year = {1993},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verhelst-1993-Psychometrika_A%20dynamic%20generaliza.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2040},
read = {Yes},
rating = {0}
}
@article{Monahan:2007p3347,
author = {P O Monahan and T E Stump and H Finch and R K Hambleton},
journal = {Applied Psychological Measurement},
title = {Bias of Exploratory and Cross-Validated DETECT Index Under Unidimensionality},
abstract = {DETECT is a nonparametric ``full'' dimensionality assessment procedure that clusters dichotomously scored items into dimensions and provides a DETECT index of magnitude of multidimensionality. Four factors (test length, sample size, item response theory [IRT] model, and DETECT index) were manipulated in a Monte Carlo study of bias, standard error, and root mean square error (RMSE) under the condition of unidimensionality. Bias, standard error, and RMSE of both DETECT indices increased as test length and sample size decreased. Results suggest that the cross-validated index should always be preferred over the exploratory index, even for 100 examinees and five items. Bias, standard error, and RMSE may be problematic for both indices under certain conditions of small samples or short tests. A Monte Carlo procedure could be built into DETECT to estimate and adjust for potential bias.},
number = {6},
pages = {483--503},
volume = {31},
year = {2007},
date-added = {2010-01-15 12:23:17 +0100},
date-modified = {2010-01-15 12:34:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Monahan-2007-Applied%20Psychological%20Measurement_Bias%20of%20Exploratory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3347},
rating = {0}
}
@article{Mislevy:1997p13754,
author = {R J Mislevy and R G Almond},
title = {Graphical models and computerized adaptive testing},
year = {1997},
date-added = {2010-07-24 12:46:09 +0200},
date-modified = {2010-07-24 12:46:58 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-1997-_Graphical%20models%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13754},
rating = {0}
}
@article{Bolshakova:2005p3589,
author = {N Bolshakova and P Cunningham},
title = {cluML: a markup language for clustering and cluster validity assessment of microarray data},
abstract = {cluML, a free, open, XML-based format, is a new markup language for microarray data clustering and cluster validity assessment. This format has been designed to address some of the limitations observed in traditional formats, such as inability to store multiple clustering (including biclustering) and validation results within a dataset. The approach described performs an effective tool to support biomedical knowledge representation in gene expression data analysis. Even though cluML was developed for DNA microarray analysis applications, it may be effectively used for the representation of clustering and validation of other biomedical and physical data with no limitations.},
affiliation = {Department of Computer Science, Trinity College Dublin, Ireland},
year = {2005},
date-added = {2010-01-15 21:15:48 +0100},
date-modified = {2010-01-15 21:16:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bolshakova-2005-_cluML%20a%20markup%20lang.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3589},
rating = {0}
}
@article{Schunemann:2010p8324,
author = {Holger J Schunemann and Francesca Sperati and Maddalena Barba and Nancy Santesso and Camilla Melegari and Elie A Akl and Gordon Guyatt and Paola Muti},
journal = {Health Qual Life Outcomes},
title = {An instrument to assess quality of life in relation to nutrition: item generation, item reduction and initial validation},
abstract = {ABSTRACT: BACKGROUND: It is arguable that modification of diet, given its potential for positive health outcomes, should be widely advocated and adopted. However, food intake, as a basic human need, and its modification may be accompanied by sensations of both pleasure and despondency and may consequently affect to quality of life (QoL). Thus, the feasibility and success of dietary changes will depend, at least partly, on whether potential negative influences on QoL can be avoided. This is of particular importance in the context of dietary intervention studies and in the development of new food products to improve health and well being. Instruments to measure the impact of nutrition on quality of life in the general population, however, are few and far between. Therefore, the aim of this project was to develop an instrument for measuring QoL related to nutrition in the general population. Methods and results: We recruited participants from the general population and followed standard methodology for quality of life instrument development (identification of population, item selection, n = 24; item reduction, n = 81; item presentation, n = 12; pretesting of questionnaire and initial validation, n = 2576; construct validation n = 128; and test-retest reliability n = 20). Of 187 initial items, 29 were selected for final presentation. Factor analysis revealed an instrument with 5 domains. The instrument demonstrated good cross-sectional divergent and convergent construct validity when correlated with scores of the 8 domains of the SF-36 (ranging from -0.078 to 0.562, 19 out of 40 tested correlations were statistically significant and 24 correlations were predicted correctly) and good test-retest reliability (intra-class correlation coefficients from 0.71 for symptoms to 0.90). CONCLUSIONS: We developed and validated an instrument with 29 items across 5 domains to assess quality of life related to nutrition and other aspects of food intake. The instrument demonstrated good face and construct validity as well as good reliability. Future work will focus on the evaluation of longitudinal construct validity and responsiveness.},
number = {1},
pages = {26},
volume = {8},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-21 12:26:25 +0100},
date-modified = {2010-03-21 12:26:30 +0100},
doi = {10.1186/1477-7525-8-26},
pii = {1477-7525-8-26},
pmid = {20222983},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schunemann-2010-Health%20and%20Quality%20of%20Life%20Outcomes_An%20instrument%20to%20ass-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8324},
rating = {4}
}
@article{Chen:2005p4737,
author = {N Chen and N C Marques},
title = {An Extension of Self-Organizing Maps to Categorical Data},
abstract = {Self-organizingmaps(SOM)havebeenrecognizedasapowerfultool in data exploratoration, especially for the tasks of clustering on high dimensional data. However, clustering on categorical data is still a challenge for SOM. This paper aims to extend standard SOM to handle feature values of categorical type. A batch SOM algorithm (NCSOM) is presented concerning the dissimilarity mea- sure and update method of map evolution for both numeric and categorical fea- tures simultaneously.},
year = {2005},
date-added = {2010-01-30 16:23:12 +0100},
date-modified = {2010-01-30 16:23:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2005-_An%20Extension%20of%20Self.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4737},
rating = {0}
}
@article{Pearl:2009p4089,
author = {J Pearl},
journal = {Statistics Surveys},
title = {Causal inference in statistics: An overview},
abstract = {Thisreviewpresentsempiricalresearcherswithrecentadvances in causal inference, and stresses the paradigmatic shifts that must be un- dertaken in moving from traditional statistical analysis to causal analysis of multivariate data. Special emphasis is placed on the assumptions that un- derly all causal inferences, the languages used in formulating those assump- tions, the conditional nature of all causal and counterfactual claims, and the methods that have been developed for the assessment of such claims. These advances are illustrated using a general theory of causation based on the Structural Causal Model (SCM) described in Pearl (2000a), which subsumes and unifies other approaches to causation, and provides a coher- ent mathematical foundation for the analysis of causes and counterfactuals. In particular, the paper surveys the development of mathematical tools for inferring (from a combination of data and assumptions) answers to three types of causal queries: (1) queries about the effects of potential interven- tions, (also called ``causal effects'' or ``policy evaluation'') (2) queries about probabilities of counterfactuals, (including assessment of ``regret,'' ``attri- bution'' or ``causes of effects'') and (3) queries about direct and indirect effects (also known as ``mediation''). Finally, the paper defines the formal and conceptual relationships between the structural and potential-outcome frameworks and presents tools for a symbiotic analysis that uses the strong features of both.},
pages = {96--146},
volume = {3},
year = {2009},
date-added = {2010-01-19 23:02:12 +0100},
date-modified = {2010-01-19 23:04:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pearl-2009-Statistics%20Surveys_Causal%20inference%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4089},
rating = {0}
}
@article{Bruce:2009p8346,
author = {Bonnie Bruce and James F Fries and Debbie Ambrosini and Bharathi Lingala and Barbara Gandek and Matthias Rose and John E Ware},
journal = {Arthritis Res Ther},
title = {Better assessment of physical function: item improvement is neglected but essential},
abstract = {ABSTRACT : INTRODUCTION : Physical function is a key component of patient-reported outcome (PRO) assessment in rheumatology. Modern psychometric methods, such as Item Response Theory (IRT) and Computerized Adaptive Testing, can materially improve measurement precision at the item level. We present the qualitative and quantitative item-evaluation process for developing the Patient Reported Outcomes Measurement Information System (PROMIS) Physical Function item bank. METHODS : The process was stepwise: we searched extensively to identify extant Physical Function items and then classified and selectively reduced the item pool. We evaluated retained items for content, clarity, relevance and comprehension, reading level, and translation ease by experts and patient surveys, focus groups, and cognitive interviews. We then assessed items by using classic test theory and IRT, used confirmatory factor analyses to estimate item parameters, and graded response modeling for parameter estimation. We retained the 20 Legacy (original) Health Assessment Questionnaire Disability Index (HAQ-DI) and the 10 SF-36's PF-10 items for comparison. Subjects were from rheumatoid arthritis, osteoarthritis, and healthy aging cohorts (n = 1,100) and a national Internet sample of 21,133 subjects. RESULTS : We identified 1,860 items. After qualitative and quantitative evaluation, 124 newly developed PROMIS items composed the PROMIS item bank, which included revised Legacy items with good fit that met IRT model assumptions. Results showed that the clearest and best-understood items were simple, in the present tense, and straightforward. Basic tasks (like dressing) were more relevant and important versus complex ones (like dancing). Revised HAQ-DI and PF-10 items with five response options had higher item-information content than did comparable original Legacy items with fewer response options. IRT analyses showed that the Physical Function domain satisfied general criteria for unidimensionality with one-, two-, three-, and four-factor models having comparable model fits. Correlations between factors in the test data sets were > 0.90. CONCLUSIONS : Item improvement must underlie attempts to improve outcome assessment. The clear, personally important and relevant, ability-framed items in the PROMIS Physical Function item bank perform well in PRO assessment. They will benefit from further study and application in a wider variety of rheumatic diseases in diverse clinical groups, including those at the extremes of physical functioning, and in different administration modes.},
affiliation = {Department of Medicine, Stanford University School of Medicine, 1000 Welch Road, Suite 203, Stanford, CA 94304, USA. bbruce@stanford.edu},
number = {6},
pages = {R191},
volume = {11},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:49:32 +0100},
date-modified = {2010-03-21 12:49:32 +0100},
doi = {10.1186/ar2890},
pii = {ar2890},
pmid = {20015354},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bruce-2009-Arthritis%20Res%20Ther_Better%20assessment%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8346},
rating = {0}
}
@article{Zald:2008p8937,
author = {David H Zald and Ronald L Cowan and Patrizia Riccardi and Ronald M Baldwin and M Sib Ansari and Rui Li and Evan S Shelby and Clarence E Smith and Maureen McHugo and Robert M Kessler},
journal = {J Neurosci},
title = {Midbrain dopamine receptor availability is inversely associated with novelty-seeking traits in humans},
abstract = {Novelty-seeking personality traits are a major risk factor for the development of drug abuse and other unsafe behaviors. Rodent models of temperament indicate that high novelty responding is associated with decreased inhibitory autoreceptor control of midbrain dopamine neurons. It has been speculated that individual differences in dopamine functioning also underlie the personality trait of novelty seeking in humans. However, differences in the dopamine system of rodents and humans, as well as the methods for assessing novelty responding/seeking across species leave unclear to what extent the animal models inform our understanding of human personality. In the present study we examined the correlation between novelty-seeking traits in humans and D(2)-like (D(2)/D(3)) receptor availability in the substantia nigra/ventral tegmental area. Based on the rodent literature we predicted that novelty seeking would be characterized by lowered levels of D(2)-like (auto)receptor availability in the midbrain. Thirty-four healthy adults (18 men, 16 women) completed the Tridimensional Personality Questionnaire-Novelty-Seeking Scale and PET scanning with the D(2)/D(3) ligand [(18)F]fallypride. Novelty-Seeking personality traits were inversely associated with D(2)-like receptor availability in the ventral midbrain, an effect that remained significant after controlling for age. We speculate that the lower midbrain (auto)receptor availability seen in high novelty seekers leads to accentuated dopaminergic responses to novelty and other conditions that induce dopamine release.},
affiliation = {Department of Psychology, Vanderbilt University Nashville, Tennessee 37240, USA. david.zald@vanderbilt.edu},
number = {53},
pages = {14372--8},
volume = {28},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Exploratory Behavior, Receptors: Dopamine D2, Young Adult, Pyrrolidines, Personality Tests, Personality, Male, Mesencephalon, Positron-Emission Tomography, Adult, Adolescent, Statistics as Topic, Magnetic Resonance Imaging, Brain Mapping, Female, Humans},
date-added = {2010-03-22 13:05:10 +0100},
date-modified = {2010-07-29 19:52:28 +0200},
doi = {10.1523/JNEUROSCI.2423-08.2008},
pii = {28/53/14372},
pmid = {19118170},
url = {http://www.jneurosci.org/cgi/content/full/28/53/14372},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zald-2008-J%20Neurosci_Midbrain%20dopamine%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8937},
rating = {0}
}
@article{Ayers:2007p12883,
author = {E Ayers},
title = {Predicting Performance and Creating Better Student Proficiency Models by Improving Skill Codings},
abstract = {Interest in end-of-year accountability exams has increased dramatically since the passing of the NCLB law in 2001. This push has impacted educational research in a wide variety of ways, including a strong desire to be able to model student work in order to make conclu- sive statements about what students know and how this relates to how they will perform on end-of-year standardized exams. This thesis will look at using item response theory (IRT) to estimate student proficiency. This estimated proficiency will then be used to build predic- tion models for end-of-year exam scores. Next, methods to improve a skills model will be explored. Models that account for learning over time will then be considered. Finally, I will compare various different approaches to modeling response data.},
year = {2007},
date-added = {2010-06-24 13:11:48 +0200},
date-modified = {2010-06-24 13:12:15 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ayers-2007-_Predicting%20Performan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12883},
read = {Yes},
rating = {0}
}
@article{Badia:2000p9547,
author = {X Badia and D Podzamczer and A Casado and C L{\'o}pez-Lavid and M Garc{\'\i}a},
journal = {AIDS},
title = {Evaluating changes in health status in HIV-infected patients: Medical Outcomes Study-HIV and Multidimensional Quality of Life-HIV quality of life questionnaires. Spanish MOS-HIV and MQOL-HIV Validation Group},
abstract = {OBJECTIVE: To compare the sensitivity to change of two HIV-health-related quality of life (HRQoL) questionnaires--the Medical Outcomes Study (MOS-HIV) and Multidimensional Quality of Life (MQOL-HIV) for use in clinical research. METHODS: A sample of 296 HIV-infected patients starting or switching antiretroviral treatment were randomly assigned either the MOS-HIV or MQOL-HIV questionnaires at baseline and after 3 months of treatment. Ceiling and floor effects were evaluated. Sensitivity to change was assessed by comparing the percentage of dimensions with statistically significant pre-post-treatment changes and the effect sizes in those groups of patients who reported improvement and no change in self-report questions (overall, physical, mental and social health status) and clinical characteristics (number of opportunistic infections, number of symptoms, viral load level and CD4+ count). RESULTS: Ceiling effects were found in HRQoL scores at baseline and after 3 months of treatment in Pain (42.3-41.6%), Role Function (73.1-77.6%) and Social Function (60.9-63%) on MOS-HIV subscales, and in Social Support (38.2-37.6%) and Partner Intimacy (38.2-33.7%) on MQOL-HIV. For patients who improved in self-reported and objective clinical indicators of health status, mean percentage of dimensions with statistically significant pre-post-treatment changes was 86.4% on MOS-HIV and 50% on MQOL-HIV, where mean standardized effect size was 0.45 on MOS-HIV and 0.33 on MQOL-HIV for the total of dimensions. CONCLUSIONS: Based on sensitivity to change the results suggest that for 3 months both questionnaires can be used, but the MOS-HIV is more sensitive than the MQOL-HIV for use in clinical research.},
affiliation = {Catalan Institute of Public Health, University of Barcelona, Spain. xbadia@bell.ub.es},
number = {10},
pages = {1439--47},
volume = {14},
year = {2000},
month = {Jul},
language = {eng},
keywords = {Female, Time Factors, HIV Infections, Quality of Life, Middle Aged, Adult, Aged, Humans, Sensitivity and Specificity, Questionnaires, Health Status, Male, Outcome Assessment (Health Care), Adolescent},
date-added = {2010-03-23 20:44:20 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {10930160},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Badia-2000-AIDS_Evaluating%20changes%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9547},
rating = {0}
}
@article{Beatty:2007,
author = {PC Beatty and GB Willis},
journal = {Public Opinion Quarterly},
title = {Research Synthesis: The Practice of Cognitive Interviewing},
abstract = {Cognitive interviewing has emerged as one of the more prominent methods for identifying and correcting problems with survey questions. We define cognitive interviewing as the administration of draft survey questions while collecting additional verbal information about the survey responses, which is used to evaluate the quality of the response or to help determine whether the question is generating the information that its author intends. But beyond this general categorization, cognitive interviewing potentially includes a variety of activities that may be based on different assumptions about the type of data that are being collected and the role of the interviewer in that process. This synthesis reviews the range of current cognitive interviewing practices, focusing on three considerations: (1) what are the dominant paradigms of cognitive interviewing---what is produced under each, and what are their apparent advantages; (2) what key decisions about cognitive interview study design need to be made once the general approach is selected (e.g., who should be interviewed, how many interviews should be conducted, and how should probes be selected), and what bases exist for making these decisions; and (3) how cognitive interviewing data should be evaluated, and what standards of evidence exist for making questionnaire design decisions based on study findings. In considering these issues, we highlight where standards for best practices are not clearly defined, and suggest broad areas worthy of additional methodological research.},
year = {2007},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-07-29 19:47:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1009},
rating = {0}
}
@article{Wang:2008p11367,
author = {Chenguang Wang and Yun Cheng and Tian Liu and Qin Li and Roger B Fillingim and Margaret R Wallace and Roland Staud and Lee Kaplan and Rongling Wu},
journal = {Molecular pain},
title = {A computational model for sex-specific genetic architecture of complex traits in humans: implications for mapping pain sensitivity},
abstract = {Understanding differences in the genetic architecture of complex traits between the two sexes has significant implications for evolutionary studies and clinical diagnosis. However, our knowledge about sex-specific genetic architecture is limited largely because of a lack of analytical models that can detect and quantify the effects of sex on the complexity of quantitative genetic variation. Here, we derived a statistical model for mapping DNA sequence variants that contribute to sex-specific differences in allele frequencies, linkage disequilibria, and additive and dominance genetic effects due to haplotype diversity. This model allows a genome-wide search for functional haplotypes and the estimation and test of haplotype by sex interactions and sex-specific heritability. The model, validated by simulation studies, was used to detect sex-specific functional haplotypes that encode a pain sensitivity trait in humans. The model could have important implications for mapping complex trait genes and studying the detailed genetic architecture of sex-specific differences.},
affiliation = {Department of Statistics, University of Florida, Gainesville, FL 32611 USA. cgwang@cog.ufl.edu},
pages = {13},
volume = {4},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Male, Models: Statistical, Genetic Variation, Sex Characteristics, Polymorphism: Single Nucleotide, Quantitative Trait: Heritable, Female, Models: Genetic, Humans, Pain Threshold},
date-added = {2010-04-26 23:07:43 +0200},
date-modified = {2010-04-26 23:07:43 +0200},
doi = {10.1186/1744-8069-4-13},
pii = {1744-8069-4-13},
pmid = {18416828},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2008-Molecular%20pain_A%20computational%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11367},
rating = {0}
}
@article{LeCao:2009p2564,
author = {Kim-Anh L{\^e} Cao and Pascal G P Martin and Christ{\`e}le Robert-Grani{\'e} and Philippe Besse},
journal = {BMC Bioinformatics},
title = {Sparse canonical methods for biological data integration: application to a cross-platform study},
abstract = {BACKGROUND: In the context of systems biology, few sparse approaches have been proposed so far to integrate several data sets. It is however an important and fundamental issue that will be widely encountered in post genomic studies, when simultaneously analyzing transcriptomics, proteomics and metabolomics data using different platforms, so as to understand the mutual interactions between the different data sets. In this high dimensional setting, variable selection is crucial to give interpretable results. We focus on a sparse Partial Least Squares approach (sPLS) to handle two-block data sets, where the relationship between the two types of variables is known to be symmetric. Sparse PLS has been developed either for a regression or a canonical correlation framework and includes a built-in procedure to select variables while integrating data. To illustrate the canonical mode approach, we analyzed the NCI60 data sets, where two different platforms (cDNA and Affymetrix chips) were used to study the transcriptome of sixty cancer cell lines. RESULTS: We compare the results obtained with two other sparse or related canonical correlation approaches: CCA with Elastic Net penalization (CCA-EN) and Co-Inertia Analysis (CIA). The latter does not include a built-in procedure for variable selection and requires a two-step analysis. We stress the lack of statistical criteria to evaluate canonical correlation methods, which makes biological interpretation absolutely necessary to compare the different gene selections. We also propose comprehensive graphical representations of both samples and variables to facilitate the interpretation of the results. CONCLUSION: sPLS and CCA-EN selected highly relevant genes and complementary findings from the two data sets, which enabled a detailed understanding of the molecular characteristics of several groups of cell lines. These two approaches were found to bring similar results, although they highlighted the same phenomenons with a different priority. They outperformed CIA that tended to select redundant information.},
affiliation = {Station d'Am{\'e}lioration G{\'e}n{\'e}tique des Animaux UR 631, Institut National de Recherche Agronomique, F-31326 Castanet, France. k.lecao@imb.uq.edu.au},
pages = {34},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Genomics, Computational Biology, Systems Biology, Proteomics, Metabolomics},
date-added = {2010-01-12 22:21:09 +0100},
date-modified = {2010-01-12 22:21:09 +0100},
doi = {10.1186/1471-2105-10-34},
pii = {1471-2105-10-34},
pmid = {19171069},
local-url = {file://localhost/Users/chl/Dropbox/Papers/L%C3%AA%20Cao-2009-BMC%20Bioinformatics_Sparse%20canonical%20met.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2564},
rating = {0}
}
@article{Preuschoff:2007p10788,
author = {Kerstin Preuschoff and Peter Bossaerts},
journal = {Ann N Y Acad Sci},
title = {Adding prediction risk to the theory of reward learning},
abstract = {This article analyzes the simple Rescorla-Wagner learning rule from the vantage point of least squares learning theory. In particular, it suggests how measures of risk, such as prediction risk, can be used to adjust the learning constant in reinforcement learning. It argues that prediction risk is most effectively incorporated by scaling the prediction errors. This way, the learning rate needs adjusting only when the covariance between optimal predictions and past (scaled) prediction errors changes. Evidence is discussed that suggests that the dopaminergic system in the (human and nonhuman) primate brain encodes prediction risk, and that prediction errors are indeed scaled with prediction risk (adaptive encoding).},
affiliation = {Computational and Neural Systems, California Institute of Technology, Pasadena, CA 91125, USA.},
pages = {135--46},
volume = {1104},
year = {2007},
month = {May},
language = {eng},
keywords = {Neurons, Learning, Conditioning: Classical, Least-Squares Analysis, Dopamine, Humans, Brain Mapping, Risk, Reinforcement (Psychology), Association Learning, Reward, Animals, Probability, Brain},
date-added = {2010-04-10 03:27:14 +0200},
date-modified = {2010-07-29 19:14:51 +0200},
doi = {10.1196/annals.1390.005},
pii = {annals.1390.005},
pmid = {17344526},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10788},
rating = {0}
}
@article{Reise:1993p13800,
author = {S P Reise and K F Widaman and R H Pugh},
journal = {Psychological Bulletin},
title = {Confirmatory factor analysis and item response theory: two approaches for exploring measurement invariance},
abstract = {This study investigated the utility of confirmatory factor analysis (CFA) and item response theory (IRT) models for testing the comparability of psychological measurements. Both procedures were used to investigate whether mood ratings collected in Minnesota and China were comparable. Several issues were addressed. The first issue was that of establishing a common measurement scale across groups, which involves full or partial measurement invariance of trait indicators. It is shown that using CFA or IRT models, test items that function differentially as trait indicators across groups need not interfere with comparing examinees on the same trait dimension. Second, the issue of model fit was addressed. It is proposed that person-fit statistics be used to judge the practical fit of IRT models. Finally, topics for future research are suggested.},
affiliation = {Department of Psychology, University of California, Riverside 92521.},
number = {3},
pages = {552--66},
volume = {114},
year = {1993},
month = {Nov},
language = {eng},
keywords = {Male, Adult, Culture, Humans, Language, Language Tests, China, Female, United States, Psychological Tests},
date-added = {2010-07-29 12:18:05 +0200},
date-modified = {2010-07-29 12:18:06 +0200},
pmid = {8272470},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reise-1993-Psychological%20Bulletin_Confirmatory%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13800},
rating = {0}
}
@article{Abdallah:1998p12913,
author = {H Abdallah and G Saporta},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Classification d'un ensemble de variables qualitatives},
number = {4},
pages = {5--26},
volume = {46},
year = {1998},
date-added = {2010-06-24 17:44:19 +0200},
date-modified = {2010-06-24 17:45:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abdallah-1998-Revue%20de%20Statistique%20Appliqu%C3%A9e_Classification%20d'un.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12913},
rating = {0}
}
@article{McKenna:1999p13622,
author = {S P McKenna and L C Doward and Jordi Alonso and T Kohlmann and M Niero and L Prieto and L W{\'\i}ren},
journal = {Qual Life Res},
title = {The QoL-AGHDA: an instrument for the assessment of quality of life in adults with growth hormone deficiency},
abstract = {Several studies have shown that growth hormone deficiency in adults leads to poor well-being and other clinical consequences, and that these improve when the hormone is replaced. However, the studies employed generic measures of health status that miss important aspects of the patients' experience and that have inadequate reliability and responsiveness. This paper describes the European development and testing of the Quality of Life-Assessment of Growth Hormone Deficiency in Adults (QoL-AGHDA), a condition-specific quality of life measure for use in clinical trials and for the routine monitoring of patients. The instrument was produced in five languages; English, Swedish, Italian, German and Spanish. Each language version is shown to have good reliability, internal consistency and construct validity. The QoL-AGHDA is currently included in an international database monitoring the long-term efficacy and safety of growth hormone replacement therapy and in clinical trials in a number of countries.},
affiliation = {Galen Research, Manchester, UK.},
number = {4},
pages = {373--83},
volume = {8},
year = {1999},
month = {Jun},
language = {eng},
keywords = {Translating, Statistics: Nonparametric, Europe, Human Growth Hormone, Questionnaires, Cross-Cultural Comparison, Adult, Male, Quality of Life, Humans, Female, Psychometrics, Reproducibility of Results, Middle Aged},
date-added = {2010-07-07 21:23:01 +0200},
date-modified = {2010-07-29 20:19:11 +0200},
pmid = {10472170},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McKenna-1999-Qual%20Life%20Res_The%20QoL-AGHDA%20an%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13622},
rating = {0}
}
@article{Blasberg:2003p8509,
author = {Ronald G Blasberg and Juri Gelovani Tjuvajev},
journal = {J Clin Invest},
title = {Molecular-genetic imaging: current and future perspectives},
affiliation = {Departments of Neurology and Radiology, Memorial Sloan-Kettering Cancer Center, New York, New York 10021, USA. blasberg@neurol.mskcc.org},
number = {11},
pages = {1620--9},
volume = {111},
year = {2003},
month = {Jun},
language = {eng},
keywords = {Tumor Suppressor Protein p53, Genes: Reporter, Gene Expression Regulation, Genetic Techniques, Diagnostic Imaging, Animals, Time Factors, Tomography: Emission-Computed, Humans, Neoplasms, Models: Biological, Pyrimidines, Piperazines},
date-added = {2010-03-21 19:38:23 +0100},
date-modified = {2010-03-21 19:38:23 +0100},
doi = {10.1172/JCI18855},
pmid = {12782662},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blasberg-2003-J%20Clin%20Invest_Molecular-genetic%20im.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8509},
rating = {0}
}
@article{Posner:2006p10470,
author = {Michael I Posner and Brad E Sheese and Yal{\c c}in Odluda{\c s} and YiYuan Tang},
journal = {Neural Netw},
title = {Analyzing and shaping human attentional networks},
abstract = {In this paper we outline a conception of attentional networks arising from imaging studies as connections between activated brain areas carrying out localized mental operations. We consider both the areas of functional activation (nodes) and the structural (DTI) and functional connections (DCM) between them in real time (EEG, frequency analysis) as important tools in analyzing the network. The efficiency of network function involves the time course of activation of nodes and their connectivity to other areas of the network. We outline landmarks in the development of brain networks underlying executive attention from infancy and childhood. We use individual differences in network efficiency to examine genetic alleles that are related to performance. We consider how animal studies might be used to determine the genes that influence network development. Finally we indicate how training may aid in enhancing attentional networks. Our goal is to show the wide range of methods that can be used to suggest and analyze models of network function in the study of attention.},
affiliation = {Department of Psychology, University of Oregon, Eugene, OR 97403-1227, USA. mposner@uoregon.edu},
number = {9},
pages = {1422--9},
volume = {19},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Attention, Brain, Diffusion Magnetic Resonance Imaging, Electroencephalography, Dopamine Plasma Membrane Transport Proteins, Brain Mapping, Nerve Net, Magnetic Resonance Imaging, Monoamine Oxidase, Humans, Models: Neurological},
date-added = {2010-04-07 11:05:57 +0200},
date-modified = {2010-07-29 19:41:07 +0200},
doi = {10.1016/j.neunet.2006.08.004},
pii = {S0893-6080(06)00183-3},
pmid = {17059879},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T08-4M5WS18-1&_user=2432700&_coverDate=11%252F30%252F2006&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=e1aa34b8c68cf188a0077be5d41fdb60},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Posner-2006-Neural%20Netw_Analyzing%20and%20shapin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10470},
rating = {0}
}
@article{Embrechts:2007p3345,
author = {Mark J Embrechts and Sean Ekins},
journal = {Drug Metab Dispos},
title = {Classification of metabolites with kernel-partial least squares (K-PLS)},
abstract = {Numerous experimental and computational approaches have been developed to predict human drug metabolism. Since databases of human drug metabolism information are widely available, these can be used to train computational algorithms and generate predictive approaches. In turn, they may be used to assist in the identification of possible metabolites from a large number of molecules in drug discovery based on molecular structure alone. In the current study we have used a commercially available database (MetaDrug) and extracted a fraction of the human drug metabolism data. These data were used along with augmented atom descriptors in a predictive machine learning model, kernel-partial least squares (K-PLS). A total of 317 molecules, including parent drugs and their primary and secondary (sequential) metabolites, were used to build these models corresponding to individual metabolism rules, representing the formation of discrete metabolites, e.g., N-dealkylation. Each model was internally validated to assess the capability to classify other molecules that were left out. Using receiver operator curve statistics models for N-dealkylation, O-dealkylation, aromatic hydroxylation, aliphatic hydroxylation, O-glucuronidation, and O-sulfation gave area under the curve values from 0.75 to 0.84 and were able to predict between 61 and 79% active molecules upon leave-one-out testing. This preliminary study indicates that K-PLS and possibly other similar machine learning methods (such as support vector machines) can be applied to predicting human drug metabolite formation in a classification manner. Improvements can be achieved using considerably larger datasets that contain more positive examples for the less frequently occurring metabolite rules, as well as the external evaluation of novel molecules.},
affiliation = {ACT LLC, 601 Runnymede Ave., Jenkintown, PA 19046, USA. ekinssean@yahoo.com},
number = {3},
pages = {325--7},
volume = {35},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Biotransformation, Pharmaceutical Preparations, Least-Squares Analysis},
date-added = {2010-01-15 12:21:18 +0100},
date-modified = {2010-01-15 12:21:18 +0100},
doi = {10.1124/dmd.106.013185},
pii = {dmd.106.013185},
pmid = {17142559},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Embrechts-2007-Drug%20Metab%20Dispos_Classification%20of%20me.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3345},
rating = {0}
}
@article{Iverach:2010p8981,
author = {Lisa Iverach and Susan O'Brian and Mark Jones and Susan Block and Michelle Lincoln and Elisabeth Harrison and Sally Hewat and Ross G Menzies and Ann Packman and Mark Onslow},
journal = {J Commun Disord},
title = {The five factor model of personality applied to adults who stutter},
abstract = {Previous research has not explored the Five Factor Model of personality among adults who stutter. Therefore, the present study investigated the five personality domains of Neuroticism, Extraversion, Openness, Agreeableness and Conscientiousness, as measured by the NEO Five Factor Inventory (NEO-FFI), in a sample of 93 adults seeking speech treatment for stuttering, and compared these scores with normative data from an Australian and a United States sample. Results revealed that NEO-FFI scores for the stuttering group were within the 'average' range for all five personality domains. However, adults who stutter were characterized by significantly higher Neuroticism, and significantly lower Agreeableness and Conscientiousness, than normative samples. No significant differences were found between groups on the dimensions of Extraversion and Openness. These results are discussed with reference to the relationship between personality factors among adults who stutter, their directionality, and implications for predicting treatment outcome. LEARNING OUTCOMES: The reader will be able to: (1) describe the Five Factor Model of personality, including the NEO-FFI personality domains of Extraversion, Neuroticism, Openness, Agreeableness, and Conscientiousness, and (2) discuss differences in NEO-FFI domain scores between adults who stutter and normative samples, and (3) understand the clinical implications of personality profiles in terms of treatment process and outcome for adults who stutter.},
affiliation = {Australian Stuttering Research Centre, The University of Sydney, PO Box 170, Lidcombe, NSW 1825, Australia.},
number = {2},
pages = {120--32},
volume = {43},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-22 13:11:40 +0100},
date-modified = {2010-03-22 13:11:40 +0100},
doi = {10.1016/j.jcomdis.2009.12.001},
pii = {S0021-9924(09)00085-9},
pmid = {20070974},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T85-4Y05DJR-1&_user=2432700&_coverDate=04%252F30%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=08374553788c59395ef1cb915506227d},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Iverach-2010-J%20Commun%20Disord_The%20five%20factor%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8981},
rating = {0}
}
@article{Furman:2005p1339,
author = {Lydia Furman},
journal = {J Child Neurol},
title = {What is attention-deficit hyperactivity disorder (ADHD)?},
abstract = {Attention-deficit hyperactivity disorder (ADHD) is described as the most common neurobehavioral condition of childhood. We raise the concern that ADHD is not a disease per se but rather a group of symptoms representing a final common behavioral pathway for a gamut of emotional, psychological, and/or learning problems. Increasing numbers of children, especially boys, are diagnosed with ADHD and treated with stimulant medications according to a simplified approach. Methodical review of the literature, however, raised concerning issues. "Core" ADHD symptoms of inattentiveness, hyperactivity and impulsivity are not unique to ADHD. Rates of "comorbid" psychiatric and learning problems, including depression and anxiety, range from 12 to 60%, with significant symptom overlap with ADHD, difficulties in diagnosis, and evidence-based treatment methods that do not include stimulant medications. No neuropsychologic test result is pathognomic for ADHD, and structural and functional neuroimaging studies have not identified a unique etiology for ADHD. No genetic marker has been consistently identified, and heritability studies are confounded by familial environmental factors. The validity of the Conners' Rating Scale-Revised has been seriously questioned, and parent and teacher "ratings" of school children are frequently discrepant, suggesting that use of subjective informant data via scale or interview does not form an objective basis for diagnosis of ADHD. Empiric diagnostic trials of stimulant medication that produce a behavioral response have been shown not to distinguish between children with and without "ADHD." In summary, the working dogma that ADHD is a disease or neurobehavioral condition does not at this time hold up to scrutiny of evidence. Thorough evaluation of symptomatic children should be individualized, and include assessment of educational, psychologic, psychiatric, and family needs.},
affiliation = {Department of Pediatrics, Case Western Reserve University School of Medicine, Rainbow Babies and Children's Hospital, Cleveland, OH 44106, USA. lmfurman@adelphia.net},
number = {12},
pages = {994--1002},
volume = {20},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Brain, Humans, Diagnosis: Differential, Magnetic Resonance Imaging, Affective Symptoms, Male, Comorbidity, Family Health, Terminology as Topic, Female, Attention Deficit Disorder with Hyperactivity, Depression, Learning Disorders, Anxiety, Impulse Control Disorders, Child, Central Nervous System Stimulants, Genetic Markers},
date-added = {2010-01-07 11:41:16 +0100},
date-modified = {2010-01-07 11:41:16 +0100},
pmid = {16417850},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1339},
rating = {0}
}
@article{Meyer:2009p5924,
author = {Klemens B Meyer and Kimberly A Clayton},
journal = {Methods Mol Biol},
title = {Measurement and analysis of patient-reported outcomes},
abstract = {The study of patient-reported outcomes, now common in clinical research, had its origins in social and scientific developments during the latter 20th century. Patient-reported outcomes comprise functional and health status, health-related quality of life, and quality of life. The terms overlap and are used inconsistently, and these reports of experience should be distinguished from expressions of preference regarding health states. Regulatory standards from the United States and the European Union provide some guidance regarding reporting of patient-reported outcomes. The determination that measurement of patient-reported outcomes is important depends in part on the balance between subjective and objective outcomes of the health problem under study. Instrument selection depends to a large extent on practical considerations. A number of instruments can be identified that are frequently used in particular clinical situations. The domain coverage of commonly used generic short forms varies substantially. Individualized measurement of quality of life is possible, but resource intensive. Focus groups are useful, not only for scale development but to confirm the appropriateness of existing instruments. Under classical test theory, validity and reliability are the critical characteristics of tests. Under item response theory, validity remains central, but the focus moves from the reliability of scales to the relative levels of traits in individuals and items' relative difficulty. Plans for clinical studies should include an explicit model of the relationship of patient-reported outcomes to other parameters, as well as definition of the magnitude of difference in patient-reported outcomes that will be considered important. Prevention of missing patient-reported outcome data is particularly important; to a limited extent, a variety of statistical techniques can mitigate the consequences of missing data.},
affiliation = {Tufts-New England Medical Centre, Boston, USA.},
pages = {155--69},
volume = {473},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Outcome Assessment (Health Care), Clinical Trials as Topic, Quality of Life, Health Status},
date-added = {2010-02-18 23:12:23 +0100},
date-modified = {2010-07-29 19:39:47 +0200},
pmid = {19160737},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5924},
rating = {4}
}
@article{Hartman:2007p6975,
author = {Christie A Hartman and Soo H Rhee and Erik G Willcutt and Bruce F Pennington},
journal = {J Abnorm Child Psychol},
title = {Modeling rater disagreement for ADHD: are parents or teachers biased?},
abstract = {The present study is the first to utilize twin modeling to examine whether parent-teacher disagreement for ADHD ratings is due to parent or teacher bias, or due to raters observing different but valid ADHD behaviors. A joint analysis was conducted with 106 twin pairs, including twins selected for ADHD and control twin pairs. Total ADHD scores were analyzed using multiple rater models that estimate genetic and environmental contributions common to both raters and unique to each rater. Results suggest that 1) disagreement in ADHD ratings is strongly due to parents and teachers observing different ADHD behaviors, some of which is valid and some of which is due to bias, and 2) parents may be more biased than teachers in their ADHD ratings.},
affiliation = {Department of Psychiatry, University of Colorado at Denver and Health Sciences Center, 4200 East 9th Ave., Box C-268-35, Denver, CO 80262, USA. christie.hartman@colorado.edu},
number = {4},
pages = {536--42},
volume = {35},
year = {2007},
month = {Aug},
language = {eng},
keywords = {Psychometrics, Faculty, Female, Male, Parents, Phenotype, Attention Deficit Disorder with Hyperactivity, Diseases in Twins, Humans, Child, Adolescent, Social Environment, Reproducibility of Results, Observer Variation, Bias (Epidemiology), Personality Assessment},
date-added = {2010-03-06 12:26:06 +0100},
date-modified = {2010-07-29 19:31:18 +0200},
doi = {10.1007/s10802-007-9110-y},
pmid = {17333362},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hartman-2007-J%20Abnorm%20Child%20Psychol_Modeling%20rater%20disag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6975},
rating = {0}
}
@article{Daseking:2009p5137,
author = {M Daseking and M Oldenhage and F Petermann and H-C Waldmann},
journal = {Gesundheitswesen},
title = {[Social pediatric screening of developmental status for school entry (SOPESS): validity in the domain of speech and language]},
abstract = {In addition to general cognitive and motor skills, the social-pediatric screening of developmental status for school entry (SOPESS) provides subtests for assessing speech and language in a differentiated way. In a special validation study, these domains are correlated to coextensive scales of SETK 3-5. The SOPESS features high specificity and results in reliable true negative findings. In addition, a preliminary evaluation of language skills considering migrant background is given. Children with an unsatisfactory status of language competence are treated separately in the SOPESS.},
affiliation = {Zentrum f{\"u}r Klinische Psychologie und Rehabilitation der Universit{\"a}t Bremen, Bremen. daseking@uni-bremen.de},
number = {10},
pages = {663--8},
volume = {71},
year = {2009},
month = {Oct},
language = {ger},
keywords = {Language Development Disorders, Pediatrics, School Admission Criteria, Germany, Child, Practice Guidelines as Topic, Mass Screening, Learning Disorders, Humans},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-02-05 20:19:44 +0100},
doi = {10.1055/s-0029-1239510},
pmid = {19885767},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5137},
rating = {0}
}
@book{Ogles:1996,
author = {BM Ogles and MJ Lambert and KS Masters},
journal = {Book},
title = {Assessing outcome in clinical practice},
year = {1996},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1020},
rating = {0}
}
@article{Buckner:2010p6655,
author = {Julia D Buckner and Jose Silgado and Peter M Lewinsohn},
journal = {J Psychiatr Res},
title = {Delineation of differential temporal relations between specific eating and anxiety disorders},
abstract = {This study examined the temporal sequencing of eating and anxiety disorders to delineate which anxiety disorders increase eating disorder risk and whether individuals with eating disorders are at greater risk for particular anxiety disorders. The sample was drawn from the Oregon Adolescent Depression Project. Temporal relations between specific eating and anxiety disorders were examined after controlling for relevant variables (e.g., mood disorders, other anxiety disorders) over 14years. After excluding those with anorexia nervosa (AN) in adolescence (T1), OCD was the only T1 anxiety disorder to predict AN by age 30 (T4). No T1 anxiety disorder was associated with T4 bulimia nervosa (BN). Although T1 AN did not increase risk of any T4 anxiety disorder, T1 BN appeared to increase risk for social anxiety and panic disorders. Evidence that eating disorders may have differential relations to particular anxiety disorders could inform prevention and treatment efforts.},
affiliation = {Department of Psychology, Louisiana State University, 236 Audubon Hall, Baton Rouge, LA 70803, USA.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-03 20:39:59 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2010.01.014},
pii = {S0022-3956(10)00023-3},
pmid = {20185151},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buckner-2010-J%20Psychiatr%20Res_Delineation%20of%20diffe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6655},
rating = {0}
}
@article{Schafer:2002p2368,
author = {J L Schafer and R M Yucel},
journal = {Journal of Computational and Graphical Statistics},
title = {Computational Strategies for Multivariate Linear Mixed-Effects Models With Missing Values},
abstract = {This article presents new computational techniques for multivariate longitudinal or clustered data with missing values. Current methodology for linear mixed-effects models can accommodate imbalance or missing data in a single response variable, but it cannot handle missing values in multiple responses or additional covariates. Applying a multivariate extension of a popular linear mixed-effects model, we create multiple imputations of missing values for subsequent analyses by a straightforward and effective Markov chain Monte Carlo procedure. We also derive and implement a new EM algorithm for parameter estimation which converges more rapidly than traditional EM algorithms because it does not treat the random effects as ``missing data,'' but integrates them out of the likelihood function analytically. These techniques are illustrated on models for adolescent alcohol use in a large school-based prevention trial.},
number = {2},
pages = {437--457},
volume = {11},
year = {2002},
date-added = {2010-01-10 13:44:29 +0100},
date-modified = {2010-01-10 13:45:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schafer-2002-Journal%20of%20Computational%20and%20Graphical%20Statistics_Computational%20Strate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2368},
rating = {0}
}
@article{Ritchie:2009p1681,
author = {Matthew E Ritchie and Benilton S Carvalho and Kurt N Hetrick and Simon Tavar{\'e} and Rafael A Irizarry},
journal = {Bioinformatics},
title = {R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips},
abstract = {Illumina produces a number of microarray-based technologies for human genotyping. An Infinium BeadChip is a two-color platform that types between 10(5) and 10(6) single nucleotide polymorphisms (SNPs) per sample. Despite being widely used, there is a shortage of open source software to process the raw intensities from this platform into genotype calls. To this end, we have developed the R/Bioconductor package crlmm for analyzing BeadChip data. After careful preprocessing, our software applies the CRLMM algorithm to produce genotype calls, confidence scores and other quality metrics at both the SNP and sample levels. We provide access to the raw summary-level intensity data, allowing users to develop their own methods for genotype calling or copy number analysis if they wish. AVAILABILITY AND IMPLEMENTATION: The crlmm Bioconductor package is available from http://www.bioconductor.org. Data packages and documentation are available from http://rafalab.jhsph.edu/software.html.},
affiliation = {Bioinformatics Division, The Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville Victoria 3052, Australia. mritchie@wehi.edu.au},
number = {19},
pages = {2621--3},
volume = {25},
year = {2009},
month = {Oct},
language = {eng},
date-added = {2010-01-08 22:28:12 +0100},
date-modified = {2010-01-08 22:28:12 +0100},
doi = {10.1093/bioinformatics/btp470},
pii = {btp470},
pmid = {19661241},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ritchie-2009-Bioinformatics_RBioconductor%20softw.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1681},
rating = {0}
}
@article{Sher:2000p8018,
author = {L Sher},
journal = {Med Hypotheses},
title = {The role of genetic factors in the etiology of seasonality and seasonal affective disorder: an evolutionary approach},
abstract = {The degree to which seasonal changes affect mood, energy, sleep, appetite, food preference, or the wish to socialize with other people has been called seasonality. Seasonal affective disorder (SAD), a condition where depressions in fall and winter alternate with non-depressed periods in spring and summer, is the most marked form of seasonality. Several lines of evidence suggest that genetic factors play an important role in the etiology of seasonality and SAD. Millions of years of evolution and adaptation have optimized human biochemical and physiological systems for function and survival under equatorial environmental conditions. Modern humans began their migration out of Africa only about 150 000 years ago. Little change in our 'equatorial' systems might have been expected over this relatively short evolutionary time-span. The author suggests that a genetic susceptibility to seasonal changes in mood and behavior is a genetic predisposition to an insufficient adaptation to temperate and high latitudes.},
affiliation = {Rockville, Maryland, USA.},
number = {5},
pages = {704--7},
volume = {54},
year = {2000},
month = {May},
language = {eng},
keywords = {Seasons, Genetic Predisposition to Disease, Evolution, Humans, Seasonal Affective Disorder},
date-added = {2010-03-20 19:36:39 +0100},
date-modified = {2010-03-20 19:36:43 +0100},
doi = {10.1054/mehy.1999.0932},
pii = {S0306-9877(99)90932-5},
pmid = {10859671},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sher-2000-Med%20Hypotheses_The%20role%20of%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8018},
rating = {4}
}
@article{Morey:2009p1827,
author = {Leslie C Morey and Christopher J Hopwood},
journal = {Drug Alcohol Depend},
title = {An IRT-based measure of alcohol trait severity and the role of traitedness in trait validity: a reanalysis of Project MATCH data},
abstract = {With the variability among alcohol users in mind, Project MATCH hypothesized several treatment matching relationships based on alcohol severity and alcohol dependence, but found limited effects. However, it is possible that the existing examinations of Project MATCH data did not fully characterize the nature of severity of alcohol dependence, as these analyses have examined dependence severity as an additive symptom count similar to the diagnostic strategy represented in the DSM-IV. We examined dependence severity as a latent trait hypothesized to have a characteristic developmental progression using Item Response Theory (IRT), and examined the implications of this approach to severity scaling in the Project MATCH data. The IRT-derived empirical continuum corresponded to an earlier theoretical model of the developmental course of alcoholism, demonstrated convergent and discriminant validity, and incremented other severity markers in predicting Alcoholics Anonymous involvement, social functioning, and readiness of change. However, it did not predict treatment outcomes or other validating variables more effectively than the measures used in the original design. Furthermore, an empirical index of person fit to this continuum did not moderate trait-validator relations including treatment outcome and treatment matching effects. Overall, findings did not support the incremental utility of a latent trait representation of alcohol severity.},
affiliation = {Department of Psychology, Texas A{\&}M University, College Station, TX 77843-4235, USA. lmorey@psych.tamu.edu},
number = {3},
pages = {177--84},
volume = {105},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Psychological Theory, Adult, Psychometrics, Models: Statistical, Personality, Female, Randomized Controlled Trials as Topic, Male, Humans, Alcoholism, Severity of Illness Index, Predictive Value of Tests, Treatment Outcome},
date-added = {2010-01-09 23:00:34 +0100},
date-modified = {2010-01-09 23:00:34 +0100},
doi = {10.1016/j.drugalcdep.2009.06.025},
pii = {S0376-8716(09)00262-2},
pmid = {19665326},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1827},
rating = {0}
}
@article{Keller:2006p2498,
author = {Matthew C Keller and Geoffrey Miller},
journal = {Behav Brain Sci},
title = {Resolving the paradox of common, harmful, heritable mental disorders: which evolutionary genetic models work best?},
abstract = {Given that natural selection is so powerful at optimizing complex adaptations, why does it seem unable to eliminate genes (susceptibility alleles) that predispose to common, harmful, heritable mental disorders, such as schizophrenia or bipolar disorder? We assess three leading explanations for this apparent paradox from evolutionary genetic theory: (1) ancestral neutrality (susceptibility alleles were not harmful among ancestors), (2) balancing selection (susceptibility alleles sometimes increased fitness), and (3) polygenic mutation-selection balance (mental disorders reflect the inevitable mutational load on the thousands of genes underlying human behavior). The first two explanations are commonly assumed in psychiatric genetics and Darwinian psychiatry, while mutation-selection has often been discounted. All three models can explain persistent genetic variance in some traits under some conditions, but the first two have serious problems in explaining human mental disorders. Ancestral neutrality fails to explain low mental disorder frequencies and requires implausibly small selection coefficients against mental disorders given the data on the reproductive costs and impairment of mental disorders. Balancing selection (including spatio-temporal variation in selection, heterozygote advantage, antagonistic pleiotropy, and frequency-dependent selection) tends to favor environmentally contingent adaptations (which would show no heritability) or high-frequency alleles (which psychiatric genetics would have already found). Only polygenic mutation-selection balance seems consistent with the data on mental disorder prevalence rates, fitness costs, the likely rarity of susceptibility alleles, and the increased risks of mental disorders with brain trauma, inbreeding, and paternal age. This evolutionary genetic framework for mental disorders has wide-ranging implications for psychology, psychiatry, behavior genetics, molecular genetics, and evolutionary approaches to studying human behavior.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, Richmond, VA 23219. matthew.c.keller@gmail.com},
number = {4},
pages = {385-404; discussion 405--52},
volume = {29},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Humans, Models: Genetic, Adaptation: Psychological, Evolution: Molecular, Selection: Genetic, Mental Disorders, Adaptation: Physiological, Quantitative Trait Loci, Genetic Predisposition to Disease},
date-added = {2010-01-12 13:35:01 +0100},
date-modified = {2010-01-12 13:35:01 +0100},
doi = {10.1017/S0140525X06009095},
pii = {S0140525X06009095},
pmid = {17094843},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keller-2006-Behav%20Brain%20Sci_Resolving%20the%20parado.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2498},
rating = {0}
}
@article{Rawlings:2008p14053,
author = {David Rawlings and Ann Locarnini},
journal = {Journal of Research in Personality},
title = {Dimensional schizotypy, autism, and unusual word associations in artists and scientists},
abstract = {Studies from a range of perspectives provide evidence for a relationship between creativity and the tendency to mental illness. The present study further examined this issue by administering ques- tionnaires measuring the minor features of psychosis and autism to 31 professional ``artists'' (visual artists and musicians) and 28 professional ``scientists'' (biological scientists and physical scientists/ mathematicians). The Oxford--Liverpool Inventory of Feelings and Experiences (O--LIFE), the Hypomanic Personality Scale, and the Autism-Spectrum Quotient (AQ), were administered, in addi- tion to a shortened form of the Kent--Rosanoff Word Association Scale. The results provided strong support for the connection of artistic creativity to positive schizotypy and hypomania and the ten- dency to make unusual word associations, and somewhat weaker support for the connection of sci- entific creativity to certain components of the autism spectrum.},
pages = {465--471},
volume = {42},
year = {2008},
date-added = {2010-08-18 10:00:57 +0200},
date-modified = {2010-08-18 10:02:21 +0200},
doi = {10.1016/j.jrp.2007.06.005},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rawlings-2008-Journal%20of%20Research%20in%20Personality_Dimensional%20schizoty.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14053},
rating = {0}
}
@article{Mokkink:2010p7875,
author = {Lidwine B Mokkink and Caroline B Terwee and Dirk L Knol and Paul W Stratford and Jordi Alonso and Donald L Patrick and Lex M Bouter and Henrica Cw De Vet},
journal = {BMC Med Res Methodol},
title = {The COSMIN checklist for evaluating the methodological quality of studies on measurement properties: A clarification of its content},
abstract = {ABSTRACT: BACKGROUND: The COSMIN checklist (COnsensus-based Standards for the selection of health status Measurement INstruments) was developed in an international Delphi study to evaluate the methodological quality of studies on measurement properties of health-related patient reported outcomes (HR-PROs). In this paper, we explain our choices for the design requirements and preferred statistical methods for which no evidence is available in the literature or on which the Delphi panel members had substantial discussion. METHODS: The issues described in this paper are a reflection of the Delphi process in which 43 panel members participated. RESULTS: The topics discussed are internal consistency (relevance for reflective and formative models, and distinction with unidimensionality), content validity (judging relevance and comprehensiveness), hypotheses testing as an aspect of construct validity (specificity of hypotheses), criterion validity (relevance for PROs), and responsiveness (concept and relation to validity, and (in) appropriate measures). CONCLUSIONS: We expect that this paper will contribute to a better understanding of the rationale behind the items, thereby enhancing the acceptance and use of the COSMIN checklist.},
number = {1},
pages = {22},
volume = {10},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-20 19:14:47 +0100},
date-modified = {2010-03-20 19:14:48 +0100},
doi = {10.1186/1471-2288-10-22},
pii = {1471-2288-10-22},
pmid = {20298572},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mokkink-2010-BMC%20Med%20Res%20Methodol_The%20COSMIN%20checklist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7875},
rating = {0}
}
@article{Fleiss:1981p2596,
author = {J L Fleiss},
journal = {Applied Psychological Measurement},
title = {Balanced Incomplete Block Designs for Inter-Rater Reliability Studies},
abstract = {Occasionally, an inter-rater reliability study must be designed so that each subject is rated by fewer than all the participating raters. If there is interest in comparing the raters' mean levels of rating, and if it is desired that each mean be estimated with the same precision, then a balanced incomplete block design for the reliability study is indicated.
Methods for executing the design and for analyzing the resulting data are presented, using data from an actual study for illustration.},
pages = {105--112},
volume = {5},
year = {1981},
date-added = {2010-01-12 22:41:35 +0100},
date-modified = {2010-01-12 22:42:50 +0100},
doi = {10.1177/014662168100500115},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fleiss-1981-Applied%20Psychological%20Measurement_Balanced%20Incomplete.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2596},
rating = {0}
}
@article{Jang:1998p8023,
author = {K L Jang and R W Lam and J A Harris and P A Vernon and W J Livesley},
journal = {Psychiatry Res},
title = {Seasonal mood change and personality: an investigation of genetic co-morbidity},
abstract = {Clinical observations and empirical studies suggest that Seasonal Affective Disorder (SAD) is related to personality. The present study estimates the genetic and environmental correlations between the Global Seasonality Score (GSS) from the Seasonal Pattern Assessment Questionnaire and personality measures, assessed using the NEO Five Factor Inventory (NEO-FFI) and the Dimensional Assessment of Personality Pathology (DAPP) in a volunteer sample of 163 monozygotic (MZ) pairs (102 female and 61 male pairs) and 134 dizygotic (DZ) pairs (70 female, 38 male and 26 opposite-sex pairs). Large genetic correlations were found between the GSS and NEO-FFI Neuroticism (0.52: 95% CI = 0.36-0.71) and DAPP-BQ Cognitive Dysregulation (0.50: 95% CI = 0.30-0.71), Affective Lability (0.49: 95% CI = 0.29-0.77), Anxiousness (0.37: 95% CI = 0.18-0.55) and Stimulus Seeking (0.45: 95% CI = 0.25-0.64) scales. The genetic correlations with the remaining scales, such as Extraversion (0.06: 95% CI = -0.16-0.26), Compulsivity (-0.09: 95% CI = -0.31-0.12) and Submissiveness (0.15: 95% CI = -0.05-0.34) were uniformly small. All environmental correlations between the GSS and personality scales were < or = 0.19. These results provide evidence that the observed correlations between these seasonality and personality dimensions are attributable to common genetic factors and that environmental influences are domain specific.},
affiliation = {Department of Psychiatry, University of British Columbia, Vancouver, Canada. kjang@unixg.ubc.ca},
number = {1-2},
pages = {1--7},
volume = {78},
year = {1998},
month = {Mar},
language = {eng},
keywords = {Humans, Confidence Intervals, Likelihood Functions, Middle Aged, Personality, Adult, Neurotic Disorders, Disease Susceptibility, Aged, Aged: 80 and over, Diseases in Twins, Male, Factor Analysis: Statistical, Canada, Female, Seasonal Affective Disorder, Adolescent, Chi-Square Distribution},
date-added = {2010-03-20 19:37:52 +0100},
date-modified = {2010-07-29 19:45:28 +0200},
pii = {S0165-1781(98)00006-7},
pmid = {9579697},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jang-1998-Psychiatry%20Res_Seasonal%20mood%20change.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8023},
rating = {5}
}
@article{Eggen:2001aa,
author = {T J H M Eggen},
title = {Overexposure and underexposure of items in computerized adaptive testing},
abstract = {Computerized adaptive tests (CATS) have shown to be considerably more efficient than paper-and-pencil tests. This gain is realized by offering each candidate the most informative item from an available item bank on the basis of the results of items that have already been administered. The item selection methods that are used to compose an optimum test for each individual do, however, have a number of drawbacks. Though a CAT generally presents each candidate with a different test, it often occurs that some items from the item bank are administered very frequently while others are never or hardly ever used. These two problems, i.e., overexposure and underexposure of items, can be eliminated by adding further restrictions to the item selection methods. However, this exposure control will affect the efficiency of the CAT. This paper presents a solution for both problems. The functioning of these methods will be illustrated with the results of simulation research that has been carried out to develop adaptive tests.},
year = {2001},
month = {Jan},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eggen-2001-_Overexposure%20and%20und.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1219},
rating = {0}
}
@article{Ferrando:2007p3349,
author = {P J Ferrando and U Lorenzo-Seva},
journal = {Applied Psychological Measurement},
title = {An Item Response Theory Model for Incorporating Response Time Data in Binary Personality Items},
abstract = {This article describes a general item response theory model for personality items that allows the information provided by the item response times to be used to estimate the individual trait levels. The submodel describing the item response times is a modification of Thissen's log-linear model and is based on the distance-difficulty hypothesis in personality measurement. First, the procedures for fitting the model and assessing the goodness of fit are described. Second, the gain in the precision of estimating the individual trait levels when the information provided by the response times is used is assessed. Finally, all the developments in this article are illustrated by means of an empirical example.},
number = {6},
pages = {525--543},
volume = {31},
year = {2007},
date-added = {2010-01-15 12:51:58 +0100},
date-modified = {2010-01-15 12:53:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ferrando-2007-Applied%20Psychological%20Measurement_An%20Item%20Response%20The.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3349},
rating = {0}
}
@article{Ruitenburg:2006aa,
author = {Joost van Ruitenburg},
title = {ALGORITHMS FOR PARAMETER ESTIMATION IN THE RASCH MODEL},
year = {2006},
month = {Feb},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ruitenburg-2006-_ALGORITHMS%20FOR%20PARAM.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1203},
rating = {0}
}
@article{Delord:2006p5522,
author = {Sandrine Delord and Maria Giovanna Ducato and Delphine Pins and Fr{\'e}d{\'e}ric Devinck and Pierre Thomas and Muriel Boucart and Kenneth Knoblauch},
journal = {Vis Neurosci},
title = {Psychophysical assessment of magno- and parvocellular function in schizophrenia},
abstract = {Recently developed psychophysical techniques permit the biasing of the processing of the stimulus by early visual channels so that responses reflect characteristics of either magno- or parvocellular pathways (Pokorny {\&} Smith, 1997). We used such techniques to test psychophysically whether the global magnocellular dysfunction reported in schizophrenia also affects early processes. Seven schizophrenic patients and 19 normal controls participated. The task was a four-alternative forced-choice luminance discrimination, using a 2 x 2 configuration of four 1-deg squares. Target luminance threshold was determined in three conditions: the stimulus, including the target, was pulsed for 17 ms (pulse paradigm); the target was presented on a steady background of four squares (steady paradigm), or the target was presented alone (no background paradigm). We replicated previous results demonstrating magnocellular and parvocellular signatures in control participants. No evidence for an early magnocellular deficit could be detected as the thresholds of all schizophrenic observers were higher both in the steady paradigm (presumed magnocellular mediation) and in the pulse paradigm (presumed parvocellular mediation). Magnocellular dysfunction, if present in schizophrenia, must concern more integrated processes, possibly at levels at which parvocellular and magnocellular paths interact.},
affiliation = {Equipe de Psychologie Cognitive, Laboratoire de Psychologie (EA 3662), Universit{\'e} Bordeaux 2, Bordeaux, France. sandrine.delord@psycho.u-bordeaux2.fr},
number = {3-4},
pages = {645--50},
volume = {23},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Light, Female, Pattern Recognition: Visual, Middle Aged, Motion Perception, Adult, Visual Pathways, Adolescent, Judgment, Schizophrenic Psychology, Discrimination (Psychology), Humans, Photic Stimulation, Schizophrenia, Contrast Sensitivity, Male, Space Perception, Psychophysics},
date-added = {2010-02-12 15:18:44 +0100},
date-modified = {2010-02-12 15:18:45 +0100},
doi = {10.1017/S0952523806233017},
pii = {S0952523806233017},
pmid = {16962008},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Delord-2006-Vis%20Neurosci_Psychophysical%20asses.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5522},
rating = {0}
}
@article{Koschack:2010p6518,
author = {Janka Koschack and Gabriella Marx and J{\"o}rg Schnakenberg and Michael M Kochen and Wolfgang Himmel},
journal = {Journal of Clinical Epidemiology},
title = {Comparison of two self-rating instruments for medication adherence assessment in hypertension revealed insufficient psychometric properties},
abstract = {OBJECTIVE: In cases of insufficiently controlled blood pressure, it is important for practitioners to distinguish between "nonadherence" and "nonresponse" to antihypertensive drug treatment. A reliable and valid adherence measurement based on the patient's self-report may be helpful in daily practice. STUDY DESIGN AND SETTING: In a primary care sample with 353 hypertensive patients, we applied two self-rating instruments to assess medication adherence (the "Hill-Bone Compliance to High Blood Pressure Therapy Scale" and Morisky's "Self-Reported Measure of Medication Adherence") and compared their psychometric properties. RESULTS: Both scales showed low acceptability and insufficiency to moderate internal consistency (Cronbach's alpha=0.25 and 0.73, respectively). Their convergent validity as indexed by kappa=0.39 could be judged as "fair" at best. Testing the power to predict blood pressure >140/90mmHg, both scales showed an accuracy of 57% and 62%, respectively. The positive likelihood, that is, the increase in likelihood of high blood pressure in cases of nonadherence was 1.00 and 1.32, respectively. CONCLUSION: The use of both scales cannot be recommended. They showed considerable floor effects, and their ability to identify medication adherence was inconsistent for nearly every third patient. The power of both scales to predict uncontrolled blood pressure was essentially a chance. The underlying conceptual framework of medication adherence therefore needs to be rethought.},
affiliation = {Department of General Practice, University of G{\"o}ttingen, Humboldtallee 38, 37073 G{\"o}ttingen, Germany.},
number = {3},
pages = {299--306},
volume = {63},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-02-23 08:42:12 +0100},
date-modified = {2010-02-23 08:42:16 +0100},
doi = {10.1016/j.jclinepi.2009.06.011},
pii = {S0895-4356(09)00206-6},
pmid = {19762213},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Koschack-2010-Journal%20of%20Clinical%20Epidemiology_Comparison%20of%20two%20se-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6518},
rating = {3}
}
@article{Auquier:2003p7244,
author = {P Auquier and M C Simeoni and C Sapin and G Reine and V Aghababian and J Cramer and C Lan{\c c}on},
journal = {Schizophr Res},
title = {Development and validation of a patient-based health-related quality of life questionnaire in schizophrenia: the S-QoL},
abstract = {We developed a self-administered instrument to assess health-related quality of life (HRQL) among people with schizophrenia. The S-QoL, based on Calman's approach to the subject's point of view, is a multidimensional instrument that is sensitive to change. The scale is a 41-item questionnaire with eight subscales (psychological well-being, self-esteem, family relationships, relationships with friends, resilience, physical well-being, autonomy and sentimental life) and a total score. In-depth interviews with patients determined the pertinent issues for item development. The validation study, performed with 207 patients, showed high internal consistency reliability, reproducibility and responsiveness. Construct validity was confirmed using established clinical and HRQL measures. S-QoL covers domains that differ from areas tapped in other measures, with greater responsiveness. The S-QoL is an efficient instrument for the measurement of the impact of schizophrenia on individuals' lives.},
affiliation = {Public Health Department, University Hospital Timone, Marseilles, France. lsp@medecine.univ-mrs.fr},
number = {1-2},
pages = {137--49},
volume = {63},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Quality of Life, Questionnaires, Reproducibility of Results, Health Status, Female, Self Assessment (Psychology), Adult, Humans, Self Concept, Adolescent, Family Relations, Male, Schizophrenia, Sensitivity and Specificity, Cohort Studies, Aged, Middle Aged},
date-added = {2010-03-10 20:12:40 +0100},
date-modified = {2010-07-29 19:50:06 +0200},
pii = {S0920996402003559},
pmid = {12892868},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Auquier-2003-Schizophr%20Res_Development%20and%20vali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7244},
rating = {0}
}
@article{Flint:2005p7029,
author = {Jonathan Flint and William Valdar and Sagiv Shifman and Richard Mott},
journal = {Nat Rev Genet},
title = {Strategies for mapping and cloning quantitative trait genes in rodents},
abstract = {Over the past 15 years, more than 2,000 quantitative trait loci (QTLs) have been identified in crosses between inbred strains of mice and rats, but less than 1% have been characterized at a molecular level. However, new resources, such as chromosome substitution strains and the proposed Collaborative Cross, together with new analytical tools, including probabilistic ancestral haplotype reconstruction in outbred mice, Yin-Yang crosses and in silico analysis of sequence variants in many inbred strains, could make QTL cloning tractable. We review the potential of these strategies to identify genes that underlie QTLs in rodents.},
affiliation = {Wellcome Trust Centre for Human Genetics, Oxford University, Roosevelt Drive, Oxford OX3 7BN, United Kingdom. jf@well.ox.ac.uk},
number = {4},
pages = {271--86},
volume = {6},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Animals, Cloning: Molecular, Animals: Outbred Strains, Phenotype, Breeding, Mice, Quantitative Trait Loci, Mice: Inbred Strains, Crosses: Genetic, Genetic Variation, Rats, Gene Expression Profiling, Quantitative Trait: Heritable, Mutagenesis, Haplotypes, Chromosome Mapping, Animals: Genetically Modified},
date-added = {2010-03-06 20:05:59 +0100},
date-modified = {2010-03-06 20:05:59 +0100},
doi = {10.1038/nrg1576},
pii = {nrg1576},
pmid = {15803197},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Flint-2005-Nat%20Rev%20Genet_Strategies%20for%20mappi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7029},
rating = {0}
}
@article{EspositoVinzi:2010p13498,
author = {V Esposito Vinzi and G Russolillo and L Trinchera},
journal = {42emes Journ{\'e}es de Statistique},
title = {An integrated pls regression-based approach for multidimensional blocks in PLS path modeling},
abstract = {PLS Path Modeling (PLS-PM) is classically regarded as a component-based ap- proach to Structural Equation Models and has been more recently revisited as a general frame- work for multiple table analysis. Here we propose two new modes for estimating outer weights in PLS-PM: the PLScore Mode and the PLScow Mode. Both modes involve integrating a PLS Regression as an estimation technique within the outer estimation phase of PLS-PM. However, in PLScore Mode a PLS Regression is run under the classical PLS-PM constraints of unitary variance for the latent variable scores, while in PLScow Mode the outer weights are constrained to have a unitary norm thus importing the classical normalization constraints of PLS Regres- sion. Moreover, we show how the newly proposed modes are linked to the standard Mode A and Mode B outer estimates in PLS-PM as well as to the New Mode A recently proposed in a criterion-based approach by Tenenhaus {\&} Tenenhaus (2009).},
year = {2010},
date-added = {2010-07-07 20:35:50 +0200},
date-modified = {2010-07-07 20:38:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Esposito%20Vinzi-2010-42emes%20Journe%CC%81es%20de%20Statistique_An%20integrated%20pls%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13498},
rating = {0}
}
@article{VaivreDouret:2007p12933,
author = {L Vaivre-Douret},
journal = {Arch Pediatr},
title = {[Non-verbal learning disabilities: developmental dyspraxia]},
abstract = {Dyspraxia is a non verbal neuropsychological dysfunction still unrecognized but which can generate scholar learning and behavioural disabilities. We propose, at first time, to do a state of art with the various terminologies and typologies which lead to put together clumsiness, motor coordination disorder and the different types of dyspraxia. Then, we will bring an integrative model and clinical data in children with developmental dyspraxia, allowing a better pointing, to make a diagnostic and then we suggest some advices for remediations.},
affiliation = {Child Psychiatry of Necker Hospital and Pediatric of Port Royal-Cochin hospital, APHP, University Paris 10, rue de S{\`e}vres, 75015 Paris, France. laurence.vavre@nck.ap-hop-paris.fr},
number = {11},
pages = {1341--9},
volume = {14},
year = {2007},
month = {Nov},
language = {fre},
keywords = {Child: Preschool, Neuropsychological Tests, Apraxias, Educational Status, Humans, Comorbidity},
date-added = {2010-06-25 21:45:56 +0200},
date-modified = {2010-06-25 21:45:56 +0200},
doi = {10.1016/j.arcped.2007.06.034},
pii = {S0929-693X(07)00427-7},
pmid = {17964127},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12933},
rating = {0}
}
@article{Nguyen:2008p7286,
author = {Huong Q Nguyen and DorAnne Donesky-Cuenco and Virginia Carrieri-Kohlman},
journal = {Int J Nurs Stud},
title = {Associations between symptoms, functioning, and perceptions of mastery with global self-rated health in patients with COPD: a cross-sectional study},
abstract = {BACKGROUND: Self-rated health has been shown to be a significant predictor of mortality. However, there is limited knowledge on what factors contribute to the global perception of self-rated health in patients with chronic obstructive pulmonary disease (COPD). OBJECTIVE: To describe the associations between physical and psychological symptoms, physical and mental health functioning, and perceptions of mastery with concurrent and longitudinal global self-rated health (GSRH) in patients with COPD and to determine if gender modifies these relationships. DESIGN: Cross-sectional analysis of data from a longitudinal clinical trial. SETTING: University medical center in the United States. PARTICIPANTS: 115 patients with moderate to severe COPD. METHODS: GSRH was measured using one question from the Medical Outcomes Study, SF-36 which states, "In general, would you say your health is: excellent, very good, good, fair, or poor". Physical and psychological symptoms were measured with the Shortness of Breath Questionnaire, Chronic Respiratory Questionnaire (CRQ), and Center for Epidemiologic Studies Depression Scale (CESD); the SF-36 was used to measure physical and mental health functioning; mastery was measured by a sub-scale of the CRQ. The BODE index, a multidimensional disease severity grading system, was also included. Stepwise logistic regression analyses were performed. RESULTS: In cross-sectional analyses, only disease severity as measured by the BODE index was associated with GSRH [odds ratio, 1.52; 95% confidence interval, CI (1.08, 2.15)]. Stratified analyses by gender showed that the association between the BODE index and the GSRH held up for men, but not for women. Higher perception of symptom control was associated with positive health ratings in women. Subjects with less fatigue at baseline had a lower risk of reporting poor health 12 months later [OR 0.84; 95% CI (0.72, 0.98)]. CONCLUSIONS: For patients with COPD, ratings of global health were mostly influenced by measures that reflect their physical state, e.g. disease severity and fatigue. While additional work is needed to better understand gender differences in factors that contribute to GSRH, therapeutic nursing interventions might place greater focus on symptom management if the goal is to improve patients' perceptions of their global health.},
affiliation = {University of Washington, Seattle, Washington, 1959 NE Pacific St., HSB T602A, Seattle, WA 98195, USA. HQN@u.washington.edu},
number = {9},
pages = {1355--65},
volume = {45},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Cross-Sectional Studies, Humans, Aged, Female, Middle Aged, Pulmonary Disease: Chronic Obstructive, Male, Self Assessment (Psychology)},
date-added = {2010-03-10 20:17:15 +0100},
date-modified = {2010-03-10 20:17:15 +0100},
doi = {10.1016/j.ijnurstu.2007.09.012},
pii = {S0020-7489(07)00243-X},
pmid = {17983617},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nguyen-2008-Int%20J%20Nurs%20Stud_Associations%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7286},
rating = {0}
}
@article{Goeman:2008p2291,
author = {J J Goeman and A Solari},
title = {The sequential rejection principle of familywise error control},
year = {2008},
date-added = {2010-01-10 12:04:45 +0100},
date-modified = {2010-01-10 12:05:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goeman-2008-_The%20sequential%20rejec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2291},
rating = {0}
}
@article{Byrne:1989p13785,
author = {B M Byrne and R J Shavelson and B Muth{\'e}n},
journal = {Psychological Bulletin},
title = {Testing for the Equivalence of Factor Covariance and Mean Structures: The Issue of Partial Measurement Invariance},
abstract = {Addresses issues related to partial measurement invariance using a tutorial approach based on the LISREL confirmatory factor analytic model. Specifically, we demonstrate procedures for (a) using "sensitivity analyses" to establish stable and substantively well-fitting baseline models, (b) determin- ing partially invariant measurement parameters, and (c) testing for the invariance of factor covari- ance and mean structures, given partial measurement invariance. Wealso show, explicitly, the trans- formation of parameters from an all-^fto an all-y model specification, for purposes of testing mean structures. These procedures are illustrated with multidimensional self-concept data from low (« = 248) and high (n = 582) academically tracked high school adolescents.},
number = {3},
pages = {456--466},
volume = {105},
year = {1989},
date-added = {2010-07-29 12:16:06 +0200},
date-modified = {2010-07-29 12:17:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Byrne-1989-Psychological%20Bulletin_Testing%20for%20the%20Equi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13785},
rating = {0}
}
@article{Hill:2006p13990,
author = {Elisabeth L Hill and Sylvie Berthoz},
journal = {J Autism Dev Disord},
title = {Response to "Letter to the Editor: The overlap between alexithymia and Asperger's syndrome", Fitzgerald and Bellgrove, Journal of Autism and Developmental Disorders, 36(4)},
number = {8},
pages = {1143--5},
volume = {36},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Positron-Emission Tomography, Asperger Syndrome, Prevalence, Gyrus Cinguli, Magnetic Resonance Imaging, Humans, Affective Symptoms},
date-added = {2010-08-04 09:21:05 +0200},
date-modified = {2010-08-22 20:58:33 +0200},
doi = {10.1007/s10803-006-0287-7},
pmid = {17080269},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hill-2006-J%20Autism%20Dev%20Disord_Response%20to%20%22Letter.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13990},
read = {Yes},
rating = {4}
}
@article{Schunemann:2006p5956,
author = {Holger J Sch{\"u}nemann and Elie A Akl and Gordon H Guyatt},
journal = {Health Qual Life Outcomes},
title = {Interpreting the results of patient reported outcome measures in clinical trials: the clinician's perspective},
abstract = {This article deals with the problem of interpreting health-related quality of life (HRQL) outcomes in clinical trials. First, we will briefly describe how dichotomization and item response theory can facilitate interpretation. Based on examples from the medical literature for the interpretation of HRQL scores we will show that dichotomies may help clinicians understand information provided by HRQL instruments in RCTs. They can choose thresholds to calculate proportions of patients benefiting based on absolute scores or change scores. For example, clinicians interpreting clinical trial results could consider the difference in the proportion of patients who achieve a mean score of 50 before and after an intervention on a scale from 1 to 100. For the change score approach, they could consider the proportion of patients who have changed by a score of 5 or more. Finally, they can calculate the proportion of patients benefiting and transform these numbers into a number needed to treat or natural frequencies. Second, we will describe in more detail an approach to the interpretation of HRQL scores based on the minimal important difference (MID) and proportions. The MID is the smallest difference in score in the outcome of interest that informed patients or informed proxies perceive as important, either beneficial or harmful, and that would lead the patient or clinician to consider a change in the management. Any change in management will depend on the downsides, including cost and inconvenience, associated with the intervention. Investigators can help with the interpretation of HRQL scores by determining the MID of an HRQL instrument and provide mean differences in relation to the MID. For instance, for an MID of 0.5 on a seven point scale investigators could provide the mean change on the instrument as well as the proportion of patients with scores greater than the MID. Thus, there are several steps investigators can take to facilitate this process to help bringing HRQL information closer to the bedside.},
affiliation = {Division of Clinical Research Development and INFORMAtion Translation, Department of Epidemiology, Istituto Regina Elena/Italian National Cancer Institute Rome, Rome, Italy. schuneh@mcmaster.ca},
pages = {62},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Outcome Assessment (Health Care), Humans, Decision Support Techniques, Data Interpretation: Statistical, Quality of Life, Regression Analysis, Sickness Impact Profile, Risk Assessment, Randomized Controlled Trials as Topic, Judgment},
date-added = {2010-02-18 23:24:37 +0100},
date-modified = {2010-02-18 23:24:38 +0100},
doi = {10.1186/1477-7525-4-62},
pii = {1477-7525-4-62},
pmid = {16973000},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sch%C3%BCnemann-2006-Health%20and%20Quality%20of%20Life%20Outcomes_Interpreting%20the%20res.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5956},
rating = {0}
}
@inproceedings{Laham:1997,
author = {Darrell Laham},
journal = {Proceedings},
title = {Latent semantic analysis approaches to categorization},
pages = {979},
year = {1997},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Laham-1997-Proceedings_Latent%20semantic%20anal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1910},
rating = {0}
}
@article{Revicki:2007p8807,
author = {Dennis A Revicki and Regulatory Issues and Patient-Reported Outcomes Task Force for the International Society for Quality of Life Research},
journal = {Lancet},
title = {FDA draft guidance and health-outcomes research},
affiliation = {Center for Health Outcomes Research, United Biosource Corporation, Bethesda, MD 20814, USA. Dennis.Revicki@Unitedbiosource.com},
number = {9561},
pages = {540--2},
volume = {369},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Quality of Life, Humans, Health Planning Guidelines, Drug Approval, Outcome and Process Assessment (Health Care), United States Food and Drug Administration, United States, Clinical Trials as Topic},
date-added = {2010-03-22 12:09:03 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
doi = {10.1016/S0140-6736(07)60250-5},
pii = {S0140-6736(07)60250-5},
pmid = {17307086},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revicki-2007-Lancet_FDA%20draft%20guidance%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8807},
read = {Yes},
rating = {0}
}
@article{Chow:2002p11428,
author = {S L Chow},
title = {Methods in psychological research},
abstract = {The impetus of psychological research is the inability of psychologists to accommodate new phenomena or problems with their existing knowledge. Conducting research is a formal and systematic exercise for the following reasons. First, conceptual skills are deployed to propose a theory for the to-be-explained phenomenon. Second, deductive logic is used to derive the research hypotheses from the theory. This is possible only if the theory is sufficiently specific. Third, researchers collect data systematically according to a plan or design. Fourth, the inductive rule that underlies the experimental design makes it possible to exclude some potential interpretations of the data. Fifth, appropriate statistical procedures are used to tabulate and analyze the data. Lastly, deductive logic is used to draw the theoretical conclusion. In short, the success of the research process depends on a confluence of conceptual, meta-theoretical, methodological, and statistical skills.
For various reasons, psychologists may emphasize some of the six aforementioned reasons at the expense of the other issues. Consequently, psychologists use a wide array of research methods. This sometimes gives the impression of fundamental methodological differences among psychologists. While this is not necessarily undesirable, it is hoped that the discussion of the meta-theoretical and philosophical issues serves to set the methodological disagreements among psychologists in the proper context. For example, before considering whether empirical research should be driven atheoretically by data or be guided conceptually by theory, it may be helpful to examine first whether or not there is ``pure'' observation. At the same time, realizing that all observations are theory-dependent, should we conclude that no objectivity is possible, particularly when psychologists appeal to the incorporeal entity, the mind? Before attempting to answer the question as to whether or not the mind can be reduced to the brain, we may find it necessary to see how cognitive psychologists study unobservable hypothetical structures or processes like perception, memory, intelligence, motives, and the like.
Explanations are qualitative in the sense that psychological phenomena are explained in terms of hypothetical mechanisms to which theoretical properties are attributed. Are psychologists being inconsistent when they insist on using statistics or psychometric tests? How is it possible to use
1
quantitative data as evidential support for qualitative theories? How do psychologists generalize from their data that are collected in an artificial setting to real-life phenomena? What is the rationale of experimentation in psychological research? How can psychologists assess their research?},
year = {2002},
date-added = {2010-05-01 17:09:48 +0200},
date-modified = {2010-05-01 17:10:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chow-2002-_Methods%20in%20psycholog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11428},
rating = {0}
}
@article{Norman:2009p11802,
author = {Richard Norman and Paula Cronin and Rosalie Viney and Madeleine King and Deborah Street and Julie Ratcliffe},
journal = {Value Health},
title = {International Comparisons in Valuing EQ-5D Health States: A Review and Analysis},
abstract = {ABSTRACT Objective: To identify the key methodological issues in the construction of population-level EuroQol 5-dimensions (EQ-5D)/time trade-off (TTO) preference elicitation studies. Method: This study involved three components. The first was to identify existing population-level EQ-5D TTO studies. The second was to illustrate and discuss the key areas of divergence between studies, including the international comparison of tariffs. The third was to portray the relative merits of each of the approaches and to compare the results of studies across countries. Results: While most articles report use of the protocol developed in the original UK study, we identified three key areas of divergence in the construction and analysis of surveys. These are the number of health states valued to determine the algorithm for estimating all health states, the approach to valuing states worse than immediate death, and the choice of algorithm. The evidence on international comparisons suggests differences between countries although it is difficult to disentangle differences in cultural attitudes with random error and differences as a result of methodological divergence. Conclusions: Differences in methods may obscure true differences in values between countries. Nevertheless, population-specific valuation sets for countries engaging in economic evaluation would better reflect cultural differences and are therefore more likely to accurately represent societal attitudes.},
affiliation = {Centre for Health Economics Research and Evaluation (CHERE), Faculty of Business, University of Technology, Sydney, NSW, Australia.},
pages = {},
year = {2009},
month = {Aug},
language = {ENG},
date-added = {2010-05-23 10:41:18 +0200},
date-modified = {2010-05-23 10:41:18 +0200},
doi = {10.1111/j.1524-4733.2009.00581.x},
pii = {VHE581},
pmid = {19695009},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Norman-2009-Value%20Health_International%20Compar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11802},
rating = {0}
}
@article{Scheetz:2009p1537,
author = {Linda J Scheetz and Juan Zhang and John Kolassa},
journal = {Artif Intell Med},
title = {Classification tree modeling to identify severe and moderate vehicular injuries in young and middle-aged adults},
abstract = {OBJECTIVES: Motor vehicle crashes are a leading cause of mortality and morbidity worldwide. Even though trauma centers provide the gold standard of care for motor vehicle crash patients with life- or limb-threatening injuries, many whose lives might be saved by trauma center care are treated instead at non-trauma center hospitals. Triage algorithms, designed to identify patients with life- or limb-threatening injuries who should be transported to a trauma center, lack appropriate sensitivity to many of these injuries. The challenge to the trauma community is differentiating patients with life- or limb-threatening injuries from those with less severe injuries at the crash scene so that the patients can be transported to the most appropriate level of care. The purpose of this study was to use crash scene data available to emergency responders to classify adults with moderate and severe injuries. These classifiers might be useful to guide triage decision making. METHODS AND MATERIAL: Records of 74,626 adults, age 18-64 years, from the National Automotive Sampling System Crashworthiness Data Systems database were analyzed using classification and regression trees (CART) analysis. Both CART models (moderate injury and severe injury) included 13 predictor variables. The response variables were the targeted injury severity score cut points for moderate and severe injury. Two final classification trees were developed: one that classified occupants based on moderate injury and the other on severe injury. Misclassification costs were manipulated to achieve the best model fit for each tree. RESULTS: The moderate injury classification tree had three splitters: police-estimated injury severity, restraint use, and number of persons injured. The severe injury classification tree had four splitters: police-estimated injury severity, manner of collision, number of persons injured in the crash, and age. Sensitivity and specificity of the classification trees were 93.70%, 77.53% (moderate) and 99.18%, 73.96% (severe), respectively. CONCLUSIONS: CART analysis can be used to classify injury severity using crash scene information that is available to emergency responders. This procedure offers an opportunity to examine alternative methods of identifying injury severity that might assist emergency responders to differentiate more accurately persons who should receive trauma center care from those who can be treated safely at a non-trauma center hospital.},
affiliation = {New York University College of Nursing, 246 Greene Street, New York, NY 10003, USA. Ljs13@nyu.edu},
number = {1},
pages = {1--10},
volume = {45},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Databases: Factual, Wounds and Injuries, Adolescent, Models: Theoretical, Humans, Algorithms, Middle Aged, Adult, Accidents: Traffic, Severity of Illness Index},
date-added = {2010-01-07 16:21:24 +0100},
date-modified = {2010-07-29 19:17:26 +0200},
doi = {10.1016/j.artmed.2008.11.002},
pii = {S0933-3657(08)00174-7},
pmid = {19091533},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scheetz-2009-Artif%20Intell%20Med_Classification%20tree.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1537},
rating = {0}
}
@article{Lagergren:2007p7473,
author = {Pernilla Lagergren and Peter Fayers and Thierry Conroy and Hubert J Stein and Orhan Sezer and Richard Hardwick and Eva Hammerlid and Andrew Bottomley and Eric Van Cutsem and Jane M Blazeby and European Organisation for Research Treatment of Cancer Gastrointestinal and Quality of Life Groups},
journal = {Eur J Cancer},
title = {Clinical and psychometric validation of a questionnaire module, the EORTC QLQ-OG25, to assess health-related quality of life in patients with cancer of the oesophagus, the oesophago-gastric junction and the stomach},
abstract = {AIM: To combine and test the EORTC questionnaires for assessing quality of life (HRQL) for oesophageal (QLQ-OES18) and stomach cancer (QLQ-STO22), into a single questionnaire for tumours of the oesophagus, oesophago-gastric junction or stomach. METHODS: The QLQ-OES18, QLQ-STO22 and seven modified items were administered to 300 patients with oesophageal (n=148), junctional (n=66), or gastric cancer (n=86). Semi-structured interviews assessed item and scale preference and multi-trait scaling analyses confirmed the scale structure of the new module (QLQ-OG25). This was further tested for validity. RESULTS: The QLQ-OG25 has six scales, dysphagia, eating restrictions, reflux, odynophagia, pain and anxiety. Scales have good reliability (alpha range 0.67-0.87) and they distinguish between tumour sites and disease stage. Scales do not correlate highly with scores from the core questionnaire, thus indicating that the module was addressing separate HRQL aspects. CONCLUSION: The QLQ-OG25 is recommended to supplement the EORTC QLQ-C30 when assessing HRQL in patients with oesophageal, junctional or gastric cancer.},
affiliation = {Department of Social Medicine at South Bristol, University of Bristol, Bristol, United Kingdom.},
number = {14},
pages = {2066--73},
volume = {43},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Adult, Quality of Life, Stomach Neoplasms, Esophagogastric Junction, Male, Aged: 80 and over, Eating Disorders, Prospective Studies, Anxiety, Health Status, Gastroesophageal Reflux, Sensitivity and Specificity, Pain, Female, Questionnaires, Esophageal Neoplasms, Humans, Middle Aged, Psychometrics, Aged},
date-added = {2010-03-10 20:45:02 +0100},
date-modified = {2010-03-10 20:45:02 +0100},
doi = {10.1016/j.ejca.2007.07.005},
pii = {S0959-8049(07)00528-X},
pmid = {17702567},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7473},
rating = {0}
}
@article{Narr:2009p8838,
author = {Katherine L Narr and Philip R Szeszko and Todd Lencz and Roger P Woods and Liberty S Hamilton and Owen Phillips and Delbert Robinson and Katherine E Burdick and Pamela DeRosse and Raju Kucherlapati and Paul M Thompson and Arthur W Toga and Anil K Malhotra and Robert M Bilder},
journal = {Hum Brain Mapp},
title = {DTNBP1 is associated with imaging phenotypes in schizophrenia},
abstract = {Dystrobrevin binding protein 1 (DTNBP1) has been identified as putative schizophrenia susceptibility gene, but it remains unknown whether polymorphisms relate to altered cerebral structure. We examined relationships between a previously implicated DTNBP1 risk variant [P1578] and global and segmented brain tissue volumes and regional cortical thickness in schizophrenia (n = 62; 24 risk carriers) and healthy subjects (n = 42; 11 risk carriers), across ethnic groups and within Caucasians. Schizophrenia patients showed similar brain volumes, but significantly reduced brain-size adjusted gray matter and CSF volumes and cortical thinning in a widespread neocortical distribution compared to controls. DTNBP1 risk was found associated with reduced brain volume, but not with tissue sub-compartments. Cortical thickness, which was weakly associated with brain size, showed regional variations in association with genetic risk, although effects were dominated by highly significant genotype by diagnosis interactions over broad areas of cortex. Risk status was found associated with regional cortical thinning in patients, particularly in temporal networks, but with thickness increases in controls. DTNBP1 effects for brain volume and cortical thickness appear driven by different neurobiological processes. Smaller brain volumes observed in risk carriers may relate to previously reported DTNBP1/cognitive function relationships irrespective of diagnosis. Regional cortical thinning in patient, but not in control risk carriers, may suggest that DTNBP1 interacts with other schizophrenia-related risk factors to affect laminar thickness. Alternatively, DTNBP1 may influence neural processes for which individuals with thicker cortex are less vulnerable. Although DTNBP1 relates to cortical thinning in schizophrenia, morphological changes in the disorder are influenced by additional genetic and/or environmental factors.},
affiliation = {Laboratory of Neuro Imaging and Ahmanson-Lovelace Brain Mapping Center, Department of Neurology, Geffen School of Medicine at UCLA, Los Angeles, California 90095, USA. narr@loni.ucla.edu},
number = {11},
pages = {3783--94},
volume = {30},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Female, Phenotype, Models: Neurological, Young Adult, Linear Models, Adult, Male, Schizophrenia, Carrier Proteins, Magnetic Resonance Imaging, Cerebral Cortex, Risk Factors, Brain Mapping, Imaging: Three-Dimensional, Psychiatric Status Rating Scales, Humans, Genetic Predisposition to Disease},
date-added = {2010-03-22 12:34:40 +0100},
date-modified = {2010-03-22 12:34:41 +0100},
doi = {10.1002/hbm.20806},
pmid = {19449336},
url = {http://www3.interscience.wiley.com/journal/122385648/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Narr-2009-Hum%20Brain%20Mapp_DTNBP1%20is%20associated.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8838},
rating = {0}
}
@article{Krishnamurthy:2009p12334,
author = {V Krishnamurthy and A d'Aspremont},
title = {A Pathwise Algorithm for Covariance Selection},
abstract = {Covariance selection seeks to estimate a covariance matrix by maximum likelihood while restricting the number of nonzero inverse covariance matrix coefficients. A single penalty pa- rameter usually controls the tradeoff between log likelihood and sparsity in the inverse matrix. We describe an efficient algorithm for computing a full regularization path of solutions to this problem.},
year = {2009},
date-added = {2010-06-12 10:13:20 +0200},
date-modified = {2010-06-12 10:13:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Krishnamurthy-2009-_A%20Pathwise%20Algorithm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12334},
rating = {0}
}
@article{Hoh2000,
author = {J Hoh and J Ott},
journal = {Proceedings of the National Academy of Sciences},
title = {Scan statistics to scan markers for susceptibility genes},
pages = {9615--9617},
volume = {97},
year = {2000},
date-added = {2010-01-12 14:26:52 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2556},
rating = {0}
}
@article{Hansenne:1999p12223,
author = {M Hansenne and J Reggers and E Pinto and K Kjiri and A Ajamier and Marc Ansseau},
journal = {J Psychiatr Res},
title = {Temperament and character inventory (TCI) and depression},
abstract = {Although several studies have assessed the relationships between the temperament dimensions of the Cloninger model of personality and depression, little is known about the role played by the character dimensions proposed by the seven-factor model of Cloninger in depression. In this study, the relationships between the Temperament and Character Inventory (TCI) and depression were examined in a sample of 40 major depressive patients and 40 healthy controls. Depressed patients exhibit higher harm avoidance and self-transcendence scores as well as lower self-directedness and cooperativeness scores as compared to healthy controls. However, the three other dimensions do not differ between depressive patients and controls. Among the depressive group, harm avoidance, self-directedness and cooperativeness dimensions are related to the severity of depression as assessed by the Hamilton scale. This study confirms the state dependence of the harm avoidance dimension and suggests a relationship between the character dimensions of the Cloninger model and depression.},
affiliation = {Psychiatric Unit, Centre Hospitalier Universitaire du Sart Tilnan, Li{\`e}ge, Belgium. michel.hansenne@ulg.ac.be},
number = {1},
pages = {31--6},
volume = {33},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Depressive Disorder, Humans, Male, Cooperative Behavior, Character, Exploratory Behavior, Psychiatric Status Rating Scales, Questionnaires, Adult, Middle Aged, Personality Inventory, Temperament, Female},
date-added = {2010-05-30 10:48:05 +0200},
date-modified = {2010-07-29 20:42:00 +0200},
pii = {S0022-3956(98)00036-3},
pmid = {10094237},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hansenne-1999-J%20Psychiatr%20Res_Temperament%20and%20char.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12223},
rating = {0}
}
@article{Mariano:2005p12800,
author = {L T Mariano and M Orlando and B Ghosh-Dastidar},
journal = {ASA Section on Bayesian Statistical Science},
title = {A Bayesian IRT Model for Comparative Item Performance Under Dual Administration Modes},
abstract = {Ordinal scale response items are often used in quantifying a latent trait. The mode in which these items are administered may effect an item's characteristics, such as the item's location on the latent scale and the efficiency of the item in discriminating between different values of the latent trait. We present the Bayesian Differential Mode Effects Model (BDMEM), a Bayesian Item Response Theory (IRT) model for the detection and quantification of mode of administration effects at both the item and form level. To illustrate the BDMEM, we present an example of a mental health survey administered both by telephone and self-administered questionnaire. The BDMEM is compared to the popular approach of IRT differ- ential item functioning (DIF) evaluation, and its advantages over DIF are highlighted.},
year = {2005},
date-added = {2010-06-18 21:23:47 +0200},
date-modified = {2010-06-18 21:24:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mariano-2005-ASA%20Section%20on%20Bayesian%20Statistical%20Science_A%20Bayesian%20IRT%20Model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12800},
rating = {0}
}
@article{Briggs:2007p4095,
author = {D C Briggs},
title = {Using Explanatory Item Response Models to Analyze Group Differences in Science Achievement},
abstract = {This paper illustrates the use of an explanatory item response modeling (EIRM) approach in the context of measuring group differences in science achievement. The distinction between item response models and EIRMs, recently elaborated by De Boeck {\&} Wilson (2004), is presented within the statistical framework of generalized linear mixed models. It is shown that the EIRM approach provides a powerful framework for both a psychometric and statistical analysis of group differences. This is contrasted with the more typical two-step approach, in which psychometric analysis (i.e., measurement) and statistical analysis (i.e., explanation) occur independently. The two approaches are each used to describe and explain racial/ethnic gaps on a standardized science test. It is shown that the EIRM approach results in estimated racial/ethnic achievement gaps that are larger than those found in the two-step approach. In addition, when science achievement is examined by subdomains, the magnitude of racial/ethnic gap estimates under the EIRM approach are more variable and sensitive to the inclusion of contextual variables. These differences stem from the fact that the EIRM approach allows for disattenuated estimates of group level parameters, while the two-step approach depends upon estimates of science achievement that are shrunken as a function of measurement error.},
year = {2007},
date-added = {2010-01-19 23:27:00 +0100},
date-modified = {2010-01-19 23:27:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Briggs-2007-_Using%20Explanatory%20It.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4095},
rating = {0}
}
@article{Smits:2003a,
author = {D J M Smits and Paul De Boeck},
journal = {Multivariate Behavioral Research},
title = {A Componential IRT Model for Guilt},
number = {2},
pages = {161--188},
volume = {38},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smits-2003-Multivariate%20Behavioral%20Research_A%20Componential%20IRT%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2032},
rating = {0}
}
@article{DiazUriarte:2006p2575,
author = {Ram{\'o}n D{\'\i}az-Uriarte and Sara Alvarez de Andr{\'e}s},
journal = {BMC Bioinformatics},
title = {Gene selection and classification of microarray data using random forest},
abstract = {BACKGROUND: Selection of relevant genes for sample classification is a common task in most gene expression studies, where researchers try to identify the smallest possible set of genes that can still achieve good predictive performance (for instance, for future use with diagnostic purposes in clinical practice). Many gene selection approaches use univariate (gene-by-gene) rankings of gene relevance and arbitrary thresholds to select the number of genes, can only be applied to two-class problems, and use gene selection ranking criteria unrelated to the classification algorithm. In contrast, random forest is a classification algorithm well suited for microarray data: it shows excellent performance even when most predictive variables are noise, can be used when the number of variables is much larger than the number of observations and in problems involving more than two classes, and returns measures of variable importance. Thus, it is important to understand the performance of random forest with microarray data and its possible use for gene selection. RESULTS: We investigate the use of random forest for classification of microarray data (including multi-class problems) and propose a new method of gene selection in classification problems based on random forest. Using simulated and nine microarray data sets we show that random forest has comparable performance to other classification methods, including DLDA, KNN, and SVM, and that the new gene selection procedure yields very small sets of genes (often smaller than alternative methods) while preserving predictive accuracy. CONCLUSION: Because of its performance and features, random forest and gene selection using random forest should probably become part of the "standard tool-box" of methods for class prediction and gene selection with microarray data.},
affiliation = {Bioinformatics Unit, Biotechnology Programme, Spanish National Cancer Centre (CNIO), Melchor Fernandez Almagro 3, Madrid, 28029, Spain. rdiaz@ligarto.org},
pages = {3},
volume = {7},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Computer Simulation, Gene Expression Profiling, Algorithms, Oligonucleotide Array Sequence Analysis, Models: Statistical, Models: Genetic, Cluster Analysis, Pattern Recognition: Automated},
date-added = {2010-01-12 22:23:40 +0100},
date-modified = {2010-07-29 20:21:27 +0200},
doi = {10.1186/1471-2105-7-3},
pii = {1471-2105-7-3},
pmid = {16398926},
local-url = {file://localhost/Users/chl/Dropbox/Papers/D%C3%ADaz-Uriarte-2006-BMC%20Bioinformatics_Gene%20selection%20and%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2575},
rating = {0}
}
@article{Holman:2005p2768,
author = {R Holman and C A W Glas},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Modelling non-ignorable missing-data mechanisms with item response theory models},
abstract = {A model-based procedure for assessing the extent to which missing data can be ignored and handling non-ignorable missing data is presented. The procedure is based on item response theory modelling. As an example, the approach is worked out in detail in conjunction with item response data modelled using the partial credit and generalized partial credit models. Simulation studies are carried out to assess the extent to which the bias caused by ignoring the missing-data mechanism can be reduced. Finally, the feasibility of the procedure is demonstrated using data from a study to calibrate a medical disability scale.},
affiliation = {Department of Clinical Epidemiology and Biostatistics, Amsterdam Medical Center, The Netherlands},
pages = {1--17},
volume = {58},
year = {2005},
date-added = {2010-01-13 14:24:48 +0100},
date-modified = {2010-07-29 19:22:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holman-2005-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Modelling%20non-ignora.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2768},
rating = {0}
}
@article{Dolan:1998p11421,
author = {C V Dolan and H J van der Maas},
journal = {Psychometrika},
title = {Fitting multivariate normal finite mixtures subject to structural equation modeling},
abstract = {This paper is about fitting multivariate normal mixture distributions subject to structural equation modeling. The general model comprises commonfactor and structural regression models. The introduction of covariance and meanstructure models reduces the numberof parameters to be estimated in fitting the mixture and enables one to investigate a variety of substantive hypotheses concerning the differences between the components in the mixture. Within the general model, individual parameters can be subjected to equality, nonlinear and simple bounds constraints. Confidenceintervals are based on the inverse of the Hessian and on the likelihood profile. Several illustrations are given and results of a simulation study concerning the confidence intervals are reported.},
number = {3},
pages = {227--253},
volume = {63},
year = {1998},
date-added = {2010-05-01 16:47:04 +0200},
date-modified = {2010-05-01 16:50:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dolan-1998-Psychometrika_Fitting%20multivariate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11421},
rating = {0}
}
@article{Johnson:2002p11465,
author = {Wendy Johnson and Robert F Krueger and Thomas J Bouchard and Matt McGue},
journal = {Twin Res},
title = {The personalities of twins: just ordinary folks},
abstract = {Twin studies have demonstrated that personality traits show moderate genetic influence. The conclusions drawn from twin studies rely on the assumptions that twins are representative of the population at large and that monozygotic and dizygotic twins are comparable in every way that might have bearing on the traits being studied. To evaluate these assumptions, we used Multidimensional Personality Questionnaire (MPQ) data from three samples drawn from the Minnesota Twin Registry (totaling 12,971 respondents) to examine the effect sizes associated with mean differences on the 11 MPQ scales and 3 higher-order MPQ factors for singletons versus twins and MZ twins versus DZ twins. The singletons in the samples were family members of the participating twins. We also used ratios of scale variances to examine the significance of variance differences. The only mean or variance difference replicated across all three samples was greater Social Closeness (about.1 standard deviation) for twins than for singletons. This difference was obtained for both males and females. It would appear that, with respect to personality, twins are not systematically different from other people. Our results also highlight the importance of replication in psychological research because each of our large samples showed differences not replicated in other samples.},
affiliation = {University of Minnesota, Twin Cities, Minnetonka, MN 55391, USA. john4350@tc.umn.edu},
number = {2},
pages = {125--31},
volume = {5},
year = {2002},
month = {Apr},
language = {eng},
keywords = {Male, Female, Analysis of Variance, Personality, Questionnaires, Twins, Personality Assessment, Twins: Monozygotic, Humans, Twins: Dizygotic},
date-added = {2010-05-01 17:23:50 +0200},
date-modified = {2010-05-01 17:23:50 +0200},
doi = {10.1375/1369052022992},
pmid = {11931690},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11465},
rating = {0}
}
@article{Legendre:2010p5008,
author = {P Legendre},
journal = {Encyclopedia of Research Design},
title = {Coefficient of concordance},
year = {2010},
date-added = {2010-02-05 00:09:33 +0100},
date-modified = {2010-02-05 00:10:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Legendre-2010-Encyclopedia%20of%20Research%20Design_Coefficient%20of%20conco.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5008},
rating = {0}
}
@article{Meuleners:2003p6626,
author = {Lynn B Meuleners and Andy H Lee and Colin W Binns and Anthony Lower},
journal = {Qual Life Res},
title = {Quality of life for adolescents: assessing measurement properties using structural equation modelling},
abstract = {Assessments for quality of life (QOL) of the adolescent have received relatively little attention in the literature. Although there is no consensus on the definition of adolescent QOL and what aspects should be measured, it is generally accepted that QOL is a multidimensional construct. The objective of this study is to determine the measurement properties of the latent factors underlying adolescent QOL based on a second-order confirmatory factor analysis (CFA). A recursive structural equation model (SEM) is then proposed to determine the direction and magnitude of the interdependent effects among the latent factors. The questionnaire used was the Quality of Life Profile-Adolescent Version (QOLPAV). A sample of 363 adolescents was recruited from 20 secondary schools in Perth, Australia. The second-order CFA suggested that adolescent QOL may be measured by five underlying constructs namely social, environment, psychological, health, and opportunities for growth. The interdependent relations among these constructs identified the environment factor as primary, exerting both direct and indirect effects on the other four factors.},
affiliation = {School of Public Health, Curtin University of Technology, Perth, WA, Australia.},
number = {3},
pages = {283--90},
volume = {12},
year = {2003},
month = {May},
language = {eng},
keywords = {Questionnaires, Factor Analysis: Statistical, Social Environment, Adolescent, Psychometrics, Self Assessment (Psychology), Humans, Western Australia, Quality of Life, Students, Attitude, Models: Psychological},
date-added = {2010-03-03 20:33:31 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
pmid = {12769141},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meuleners-2003-Qual%20Life%20Res_Quality%20of%20life%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6626},
rating = {0}
}
@article{Steiger:1990p2431,
author = {J H Steiger},
journal = {Multivariate Behavioral Research},
title = {Some additional thoughts on components, factors, and factor indeterminacy},
number = {1},
pages = {41--45},
volume = {25},
year = {1990},
date-added = {2010-01-11 23:33:55 +0100},
date-modified = {2010-01-11 23:37:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steiger-1990-Multivariate%20Behavioral%20Research_Some%20additional%20thou.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2431},
rating = {0}
}
@article{Dittrich:2005p14291,
author = {R Dittrich and B Francis and R Hatzinger and W Katzenbeisser},
title = {A Paired Comparison Approach for the Analysis of Sets of Likert Scale Responses},
abstract = {This paper provides an alternative methodology for the analysis of a set of Likert responses measured on a common attitudinal scale when the primary focus of interest is on the relative importance of items in the set. The method makes fewer assumptions about the distribution of the responses than the more usual approaches such as comparisons of means, MANOVA or ordinal data methods. The approach transforms the Likert responses into paired comparison responses between the items. The complete multivariate pattern of responses thus produced can be analysed by an appropriately reformulated paired comparison model. The dependency structure between item responses can also be modelled flexibly. The advan- tage of this approach is that sets of Likert responses can be analysed simultaneously within the Generalized Linear Model framework, providing standard likelihood based inference for model selection. This method is applied to a recent international survey on the importance of environmental problems.},
year = {2005},
date-added = {2010-08-22 21:18:09 +0200},
date-modified = {2010-08-22 21:19:40 +0200},
url = {http://statmath.wu-wien.ac.at/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dittrich-2005-_A%20Paired%20Comparison.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14291},
rating = {0}
}
@article{McGinnis:2010p12456,
author = {Ralph E McGinnis and Panos Deloukas and William M McLaren and Michael Inouye},
journal = {Hum Mol Genet},
title = {Visualizing chromosome mosaicism and detecting ethnic outliers by the method of "rare" heterozygotes and homozygotes (RHH)},
abstract = {We describe a novel approach for evaluating SNP genotypes of a genome-wide association scan to identify "ethnic outlier" subjects whose ethnicity is different or admixed compared to most other subjects in the genotyped sample set. Each ethnic outlier is detected by counting a genomic excess of "rare" heterozygotes and/or homozygotes whose frequencies are low (<1%) within genotypes of the sample set being evaluated. This method also enables simple and striking visualization of non-Caucasian chromosomal DNA segments interspersed within the chromosomes of ethnically admixed individuals. We show that this visualization of the mosaic structure of admixed human chromosomes gives results similar to another visualization method (SABER) but with much less computational time and burden. We also show that other methods for detecting ethnic outliers are enhanced by evaluating only genomic regions of visualized admixture rather than diluting outlier ancestry by evaluating the entire genome considered in aggregate. We have validated our method in the Wellcome Trust Case Control Consortium (WTCCC) study of 17,000 subjects as well as in HapMap subjects and simulated outliers of known ethnicity and admixture. The method's ability to precisely delineate chromosomal segments of non-Caucasian ethnicity has enabled us to demonstrate previously unreported non-Caucasian admixture in two HapMap Caucasian parents and in a number of WTCCC subjects. Its sensitive detection of ethnic outliers and simple visual discrimination of discrete chromosomal segments of different ethnicity implies that this method of rare heterozygotes and homozygotes (RHH) is likely to have diverse and important applications in humans and other species.},
affiliation = {Wellcome Trust Sanger Institute, Cambridge, UK. rm2@sanger.ac.uk},
number = {13},
pages = {2539--53},
volume = {19},
year = {2010},
month = {Jul},
language = {eng},
date-added = {2010-06-15 17:34:23 +0200},
date-modified = {2010-07-29 19:28:52 +0200},
doi = {10.1093/hmg/ddq102},
pii = {ddq102},
pmid = {20211853},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McGinnis-2010-Hum%20Mol%20Genet_Visualizing%20chromoso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12456},
rating = {0}
}
@article{Carvalho:2009p3287,
author = {B Carvalho and T A Louis and R A Irizarry},
journal = {Johns Hopkins University, Dept. of Biostatistics Working Papers},
title = {Quantifying uncertainty in genotype calls},
abstract = {Genome-wide association studies (GWAS) are used to discover genes underlying complex, heritable disorders for which less powerful study designs have failed in the past. The number of GWAS has skyrocketed recently with findings reported in top journals and the mainstream media. Mircorarrays are the genotype calling technology of choice in GWAS as they permit exploration of more than a million single nucleotide polymorphisms (SNPs)simultaneously. The starting point for the statistical analyses used by GWAS, to determine association between loci and disease, are genotype calls (AA, AB, or BB). However, the raw data, microarray probe intensities, are heavily processed before arriving at these calls. Various so- phisticated statistical procedures have been proposed for transforming raw data into genotype calls. We find that variability in microarray output quality across different SNPs, different arrays, and different sample batches has substantial in- uence on the accuracy of genotype calls made by existing algorithms. Failure to account for these sources of variability, GWAS run the risk of adversely affect- ing the quality of reported findings. In this paper we present solutions based on a multi-level mixed model. Software implementation of the method described in this paper is available as free and open source code in the crlmm R/BioConductor.},
number = {180},
year = {2009},
date-added = {2010-01-14 21:18:48 +0100},
date-modified = {2010-01-14 21:19:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carvalho-2009-Johns%20Hopkins%20University%20Dept.%20of%20Biostatistics%20Working%20Papers_Quantifying%20uncertai.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3287},
rating = {0}
}
@article{Revelle:1979,
author = {W Revelle},
journal = {Multivariate Behavioral Research},
title = {Hierarchical Cluster Analysis and the Internal Structure of Tests},
abstract = {Hierarchical cluster analysis is shown to be an effective method for forming scales from sets of items. Comparisons with factor analytic techniques suggest that hierarchical analysis is superior in some respects for scale construction},
number = {1},
pages = {57--74},
volume = {14},
year = {1979},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1177},
read = {Yes},
rating = {0}
}
@article{Flieller:1994,
author = {A Flieller},
journal = {Math{\'e}matiques {\&} Sciences Humaines},
title = {M{\'e}thodes d'{\'e}tude de l'ad{\'e}quation au mod{\`e}le logistique {\`a} un param{\`e}tre (mod{\`e}le de Rasch)},
pages = {19--47},
volume = {127},
year = {1994},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:39:20 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1134},
read = {Yes},
rating = {4}
}
@article{Varni:2007p8503,
author = {James W Varni and Christine Limbers and Tasha M Burwinkle},
journal = {J Pediatr Psychol},
title = {Literature review: health-related quality of life measurement in pediatric oncology: hearing the voices of the children},
abstract = {OBJECTIVES: The objective of this literature review is to provide an overview of the evidence for pediatric patient self-report in pediatric oncology. Methods A review of the general literature on pediatric health-related quality of life (HRQOL) measurement as background, with pediatric patient self-report data from the Journal of Pediatric Psychology during the past 5 years in pediatric oncology summarized. Utilizing the PedsQL available at (http://www.pedsql.org), data are presented to illustrate child and parent reports in pediatric oncology. Results Data demonstrate that children as young as 5 years of age can reliably and validly self-report their HRQOL when an age-appropriate instrument is utilized. Conclusions The evidence supports including pediatric patients' perspectives in clinical trials. Parent proxy-report is recommended when pediatric patients are too young, too cognitively impaired, too ill or fatigued to complete a HRQOL instrument, but not as a substitute for child self-report when the child is willing and able to provide their perspective.},
affiliation = {College of Architecture, Texas A{\&}M University, 3137 TAMU, College Station, TX 77843-3137 USA. jvarni@archmail.tamu.edu},
number = {9},
pages = {1151--63},
volume = {32},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Humans, Quality of Life, Neoplasms, Health Status, Attitude to Health, Child},
date-added = {2010-03-21 18:07:41 +0100},
date-modified = {2010-07-29 19:35:17 +0200},
doi = {10.1093/jpepsy/jsm008},
pii = {jsm008},
pmid = {17347186},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Varni-2007-J%20Pediatr%20Psychol_Literature%20review%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8503},
rating = {0}
}
@article{Simpson:2008p12566,
author = {Helen Blair Simpson and Eva Petkova and Jianfeng Cheng and Jonathan Huppert and Edna Foa and Michael R Liebowitz},
journal = {J Psychiatr Res},
title = {Statistical choices can affect inferences about treatment efficacy: a case study from obsessive-compulsive disorder research},
abstract = {Longitudinal clinical trials in psychiatry have used various statistical methods to examine treatment effects. The validity of the inferences depends upon the different method's assumptions and whether a given study violates those assumptions. The objective of this paper was to elucidate these complex issues by comparing various methods for handling missing data (e.g., last observation carried forward [LOCF], completer analysis, propensity-adjusted multiple imputation) and for analyzing outcome (e.g., end-point analysis, repeated-measures analysis of variance [RM-ANOVA], mixed-effects models [MEMs]) using data from a multi-site randomized controlled trial in obsessive-compulsive disorder (OCD). The trial compared the effects of 12 weeks of exposure and ritual prevention (EX/RP), clomipramine (CMI), their combination (EX/RP{\&}CMI) or pill placebo in 122 adults with OCD. The primary outcome measure was the Yale-Brown Obsessive Compulsive Scale. For most comparisons, inferences about the relative efficacy of the different treatments were impervious to different methods for handling missing data and analyzing outcome. However, when EX/RP was compared to CMI and when CMI was compared to placebo, traditional methods (e.g., LOCF, RM-ANOVA) led to different inferences than currently recommended alternatives (e.g., multiple imputation based on estimation-maximization algorithm, MEMs). Thus, inferences about treatment efficacy can be affected by statistical choices. This is most likely when there are small but potentially clinically meaningful treatment differences and when sample sizes are modest. The use of appropriate statistical methods in psychiatric trials can advance public health by ensuring that valid inferences are made about treatment efficacy.},
affiliation = {Department of Psychiatry, Columbia University, USA. simpson@nyspi.cpmc.columbia.edu},
number = {8},
pages = {631--8},
volume = {42},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Obsessive-Compulsive Disorder, Research Design, Clomipramine, Choice Behavior, Adult, Combined Modality Therapy, Middle Aged, Serotonin Uptake Inhibitors, Aged, Cognitive Therapy, Randomized Controlled Trials as Topic, Statistics as Topic, Humans, Treatment Outcome, Outcome Assessment (Health Care), Longitudinal Studies, Placebos, Adolescent},
date-added = {2010-06-15 22:19:50 +0200},
date-modified = {2010-06-15 22:19:50 +0200},
doi = {10.1016/j.jpsychires.2007.07.012},
pii = {S0022-3956(07)00125-2},
pmid = {17892885},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12566},
rating = {0}
}
@article{Koene:2009p8864,
author = {S Koene and T L Kozicz and R J T Rodenburg and C M Verhaak and M C de Vries and S Wortmann and L van de Heuvel and J A M Smeitink and E Morava},
journal = {J Affect Disord},
title = {Major depression in adolescent children consecutively diagnosed with mitochondrial disorder},
abstract = {A higher incidence of major depression has been described in adults with a primary oxidative phosphorylation disease. Intriguingly however, not all patients carrying the same mutation develop symptoms of major depression, pointing out the significance of the interplay of genetic and non-genetic factors in the etiology. In a series of paediatric patients evaluated for mitochondrial dysfunction, out of 35 children with a biochemically and genetically confirmed mitochondrial disorder, we identified five cases presenting with major depression prior to the diagnosis. The patients were diagnosed respectively with mutations in MTTK, MTND1, POLG1, PDHA1 and the common 4977 bp mtDNA deletion. Besides cerebral lactic acidemia protein and glucose concentrations, immunoglobins, anti-gangliosides and neurotransmitters were normal. No significant difference could be confirmed in the disease progression or the quality of life, compared to the other, genetically confirmed mitochondrial patients. In three out of our five patients a significant stress life event was confirmed. We propose the abnormal central nervous system energy metabolism as the underlying cause of the mood disorder in our paediatric patients. Exploring the genetic etiology in children with mitochondrial dysfunction and depression is essential both for safe medication and adequate counselling.},
affiliation = {Nijmegen Center for Mitochondrial Disorders, Department of Pediatrics, The Netherlands.},
number = {1-3},
pages = {327--32},
volume = {114},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Mitochondrial Diseases, Psychiatric Status Rating Scales, Phenotype, Depressive Disorder: Major, Sequence Deletion, Genetic Predisposition to Disease, Humans, Male, Adolescent, Magnetic Resonance Imaging, Child, Child: Preschool, DNA: Mitochondrial, Netherlands, Female, Genotype, Comorbidity},
date-added = {2010-03-22 12:40:45 +0100},
date-modified = {2010-07-29 19:31:26 +0200},
doi = {10.1016/j.jad.2008.06.023},
pii = {S0165-0327(08)00279-6},
pmid = {18692904},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0165-0327(08)00279-6},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Koene-2009-J%20Affect%20Disord_Major%20depression%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8864},
rating = {0}
}
@article{Waaijenborg:2009p4011,
author = {Sandra Waaijenborg and Aeilko H Zwinderman},
journal = {BMC Proc},
title = {Associating multiple longitudinal traits with high-dimensional single-nucleotide polymorphism data: application to the Framingham Heart Study},
abstract = {ABSTRACT : Cardiovascular diseases are associated with combinations of phenotypic traits, which are in turn caused by a combination of environmental and genetic factors. Because of the diversity of pathways that may lead to cardiovascular diseases, we examined the so-called intermediate phenotypes, which are often repeatedly measured. We developed a penalized nonlinear canonical correlation analysis to associate multiple repeatedly measured traits with high-dimensional single-nucleotide polymorphism data.},
affiliation = {Department of Clinical Epidemiology, Biostatistics and Bioinformatics, Academic Medical Center, Amsterdam, PO Box 22700, 1100 DE, The Netherlands. s.waaijenborg@amc.uva.nl.},
pages = {S47},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-18 14:59:18 +0100},
date-modified = {2010-07-29 19:21:19 +0200},
pmid = {20018039},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Waaijenborg-2009-BMC%20Proc_Associating%20multiple.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4011},
rating = {0}
}
@article{Hirsh:2009p13859,
author = {Jacob B Hirsh and Colin G DeYoung and Jordan B Peterson},
journal = {J Pers},
title = {Metatraits of the Big Five differentially predict engagement and restraint of behavior},
abstract = {Although initially believed to contain orthogonal dimensions, the Big Five personality taxonomy appears to have a replicable higher-order structure, with the metatrait of Plasticity reflecting the shared variance between Extraversion and Openness/Intellect, and the metatrait of Stability reflecting the shared variance among Neuroticism, Agreeableness, and Conscientiousness. These higher order traits have been theorized to relate to individual differences in the functioning of the dopamine and serotonin systems, respectively. As dopamine is associated with exploration and incentive-related action, and serotonin with satiety and constraint, this neuropharmacological trait theory has behavioral implications, which we tested in 307 adults by examining the association of a large number of behavioral acts with multi-informant reports of the metatraits. The frequencies of acts were consistently positively correlated with Plasticity and negatively correlated with Stability. At the broadest level of description, variation in human personality appears to reflect engagement and restraint of behavior.},
affiliation = {Department of Psychology, Sidney Smith Hall, University of Toronto, Toronto, ON M5S3G3, Canada. jacob.hirsh@utoronto.ca},
number = {4},
pages = {1085--102},
volume = {77},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Male, Internal-External Control, Self Concept, Psychometrics, Social Environment, Humans, Factor Analysis: Statistical, Reproducibility of Results, Personality, Extraversion (Psychology), Adult, Personality Assessment, Introversion (Psychology), Interpersonal Relations, Female},
date-added = {2010-07-29 17:44:21 +0200},
date-modified = {2010-07-29 17:44:22 +0200},
doi = {10.1111/j.1467-6494.2009.00575.x},
pii = {JOPY575},
pmid = {19558442},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13859},
rating = {0}
}
@article{Terwee:2007p7359,
author = {Caroline B Terwee and Sandra D M Bot and Michael R de Boer and Dani{\"e}lle A W M van der Windt and Dirk L Knol and Joost Dekker and Lex M Bouter and Henrica C W de Vet},
journal = {Journal of Clinical Epidemiology},
title = {Quality criteria were proposed for measurement properties of health status questionnaires},
abstract = {OBJECTIVES: Recently, an increasing number of systematic reviews have been published in which the measurement properties of health status questionnaires are compared. For a meaningful comparison, quality criteria for measurement properties are needed. Our aim was to develop quality criteria for design, methods, and outcomes of studies on the development and evaluation of health status questionnaires. STUDY DESIGN AND SETTING: Quality criteria for content validity, internal consistency, criterion validity, construct validity, reproducibility, longitudinal validity, responsiveness, floor and ceiling effects, and interpretability were derived from existing guidelines and consensus within our research group. RESULTS: For each measurement property a criterion was defined for a positive, negative, or indeterminate rating, depending on the design, methods, and outcomes of the validation study. CONCLUSION: Our criteria make a substantial contribution toward defining explicit quality criteria for measurement properties of health status questionnaires. Our criteria can be used in systematic reviews of health status questionnaires, to detect shortcomings and gaps in knowledge of measurement properties, and to design validation studies. The future challenge will be to refine and complete the criteria and to reach broad consensus, especially on quality criteria for good measurement properties.},
affiliation = {EMGO Institute, VU University Medical Center, Van der Boechorststraat 7, 1081 BT Amsterdam, The Netherlands. cb.terwee@vumc.nl},
number = {1},
pages = {34--42},
volume = {60},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Reproducibility of Results, Review Literature as Topic, Humans, Psychometrics, Research Design, Questionnaires, Evaluation Studies as Topic, Health Status Indicators},
date-added = {2010-03-10 20:29:15 +0100},
date-modified = {2010-03-10 20:29:15 +0100},
doi = {10.1016/j.jclinepi.2006.03.012},
pii = {S0895-4356(06)00174-0},
pmid = {17161752},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Terwee-2007-Journal%20of%20Clinical%20Epidemiology_Quality%20criteria%20wer.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7359},
rating = {0}
}
@article{Nicodemus:2010p5844,
author = {Kristin K Nicodemus and Joseph H Callicott and Rachel G Higier and Augustin Luna and Devon C Nixon and Barbara K Lipska and Radhakrishna Vakkalanka and Ina Giegling and Dan Rujescu and David St Clair and Pierandrea Muglia and Yin Yao Shugart and Daniel R Weinberger},
journal = {Hum Genet},
title = {Evidence of statistical epistasis between DISC1, CIT and NDEL1 impacting risk for schizophrenia: biological validation with functional neuroimaging},
abstract = {The etiology of schizophrenia likely involves genetic interactions. DISC1, a promising candidate susceptibility gene, encodes a protein which interacts with many other proteins, including CIT, NDEL1, NDE1, FEZ1 and PAFAH1B1, some of which also have been associated with psychosis. We tested for epistasis between these genes in a schizophrenia case-control study using machine learning algorithms (MLAs: random forest, generalized boosted regression and Monte Carlo logic regression). Convergence of MLAs revealed a subset of seven SNPs that were subjected to 2-SNP interaction modeling using likelihood ratio tests for nested unconditional logistic regression models. Of the (7)C(2) = 21 interactions, four were significant at the alpha = 0.05 level: DISC1 rs1411771-CIT rs10744743 OR = 3.07 (1.37, 6.98) p = 0.007; CIT rs3847960-CIT rs203332 OR = 2.90 (1.45, 5.79) p = 0.003; CIT rs3847960-CIT rs440299 OR = 2.16 (1.04, 4.46) p = 0.038; one survived Bonferroni correction (NDEL1 rs4791707-CIT rs10744743 OR = 4.44 (2.22, 8.88) p = 0.00013). Three of four interactions were validated via functional magnetic resonance imaging (fMRI) in an independent sample of healthy controls; risk associated alleles at both SNPs predicted prefrontal cortical inefficiency during the N-back task, a schizophrenia-linked intermediate biological phenotype: rs3847960-rs440299; rs1411771-rs10744743, rs4791707-rs10744743 (SPM5 p < 0.05, corrected), although we were unable to statistically replicate the interactions in other clinical samples. Interestingly, the CIT SNPs are proximal to exons that encode the DISC1 interaction domain. In addition, the 3' UTR DISC1 rs1411771 is predicted to be an exonic splicing enhancer and the NDEL1 SNP is ~3,000 bp from the exon encoding the region of NDEL1 that interacts with the DISC1 protein, giving a plausible biological basis for epistasis signals validated by fMRI.},
affiliation = {Genes, Cognition and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Room 4S-235, 10 Center Drive, Bethesda, MD, 20892, USA, kristin.nicodemus@well.ox.ac.uk.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-17 10:18:26 +0100},
date-modified = {2010-07-29 19:28:44 +0200},
doi = {10.1007/s00439-009-0782-y},
pmid = {20084519},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicodemus-2010-Hum%20Genet_Evidence%20of%20statisti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5844},
rating = {0}
}
@article{Saavalainen:2006p8634,
author = {Pia Saavalainen and Laila Luoma and Dermot Bowler and Tero Timonen and Sara M{\"a}{\"a}tt{\"a} and Eila Laukkanen and Eila Herrg{\aa}rd},
journal = {Dev Med Child Neurol},
title = {Naming skills of children born preterm in comparison with their term peers at the ages of 9 and 16 years},
abstract = {The linguistic abilities of children born preterm at 32 weeks' gestation or earlier at Kuopio University Hospital during 1984 to 1986 were evaluated during successive phases of a prospective study. The study protocol included the Rapid Automatic Naming test and Wechsler Intelligence Scale for Children - Revised at 9 years of age and a modified Stroop Color-Word test and the Wechsler Intelligence Scale - Revised at the age of 16 years. Fifty-one children born preterm (26 males, 25 females) and 51 age-matched and sex-matched term controls (26 males, 25 females) were studied at the age of 9 years. At the age of 16 years, 40 children born preterm (19 males, 21 females) and 31 term controls (14 males, 17 females) participated in the study. The children born preterm scored significantly lower in two naming tasks than the controls at the age of 9 years. However, there was no difference between the study groups in naming skills at the age of 16 years or in verbal IQ in either study phase. Maternal education level was not associated with naming skills. Thus, the consequences of preterm birth seem to be minor in relation to linguistic skills during school age and diminish by adolescence.},
affiliation = {Department of Psychology, University of Joensuu, Finland. pia.saavalainen@kuh.fi},
number = {1},
pages = {28--32},
volume = {48},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Child, Infant: Premature, Male, Prospective Studies, Intelligence Tests, Child Development, Semantics, Neuropsychological Tests, Female, Follow-Up Studies, Adolescent, Longitudinal Studies, Disability Evaluation, Humans, Educational Status, Infant: Newborn, Adolescent Development},
date-added = {2010-03-22 00:27:05 +0100},
date-modified = {2010-03-22 00:27:05 +0100},
doi = {10.1017/S0012162206000077},
pii = {S0012162206000077},
pmid = {16359591},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saavalainen-2006-Developmental%20medicine%20and%20child%20neurology_Naming%20skills%20of%20chi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8634},
rating = {0}
}
@article{Unalan:2008p5390,
author = {Demet Unalan and Ferhan Soyuer and Ahmet Ozturk and Selcuk Mistik},
journal = {Neurol India},
title = {Comparison of SF-36 and WHOQOL-100 in patients with stroke},
abstract = {BACKGROUND AND AIMS: Two widely used evaluation tools for the quality of life are the 36-item Short-Form Health Survey (SF-36) and World Health Organization Quality of Life Assessment (100-item version) (WHOQOL-100), however, these tools have not been compared for patients with stroke to date. The specific objectives of this study were: 1) to study the effect of stroke on quality of life (QOL) as measured by the SF-36 and by the WHOQOL-100, and 2) to compare these two instruments. SETTINGS AND DESIGN: Seventy patients who were admitted to the neurology clinic six months after stroke were included in this study. PATIENTS AND METHODS: As a data-collecting device, the SF-36 and WHOQOL-100 scales were used. An additional questionnaire was administered to obtain demographic data. STATISTICAL ANALYSIS: Pearson correlation analysis was performed and Blant-Altman Plots were used. Psychometric analysis was performed. RESULTS: In stroke, the most flustered domains of quality of life were vitality and general health perception fields in the SF-36 and in the WHOQL-100, independence level field, overall QOL and general health perceptions. While there was a fair degree of relationship (r= 0.25-0.50) between general health perceptions, physical, social and mental fields that were similar fields of scales, a fair and moderate to good relationship was found between different fields. Limits of agreement in similar domains of the two instruments were very large. In all four demonstrated Bland-Altman plots, there was agreement of the scales in the measurements of similar fields of quality of life. CONCLUSION: This study demonstrated that both the SF-36 and WHOQOL-100 quality of life scales are useful in the practical evaluation of patients with stroke.},
affiliation = {Erciyes University Halil Bayraktar Health Services Vocational College, TR-38039, Kayseri, Turkey. dunalan@erciyes.edu.tr},
number = {4},
pages = {426--32},
volume = {56},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Aged, Young Adult, Stroke, Humans, Questionnaires, Middle Aged, Female, Reproducibility of Results, Male, Adult, Quality of Life},
date-added = {2010-02-11 10:36:28 +0100},
date-modified = {2010-02-11 10:36:28 +0100},
pmid = {19127037},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5390},
rating = {0}
}
@article{Pejtersen:2010p1515,
author = {J H Pejtersen and J B Bjorner and P Hasle},
journal = {Scandinavian Journal of Public Health},
title = {Determining minimally important score differences in scales of the Copenhagen Psychosocial Questionnaire},
abstract = {Aim: To determine minimally important differences (MIDs) for scales in the first version of the Copenhagen Psychosocial Questionnaire (COPSOQ). Methods: Data were taken from two separate studies: a national population survey (N 1⁄4 1062), and an intervention study at 14 workplaces (N 1⁄4 1505). On the basis of the population survey, the MID for each COPSOQ scale was calculated as one-half of a standard deviation (0.5 SD). For the core COPSOQ scales on ``Quantitative demands'', ``Influence at work'', ``Predictability'', ``Social support (from colleagues and supervisors, respectively)'', and ``Job satisfaction'', the MIDs were evaluated in the intervention study, where score differences for the scales were linked to the respondents' global self-evaluation of the impact of the interventions. The scales were scored from 0 to 100 in both studies. Results: The MIDs calculated as 0.5 SD were, on average, 9.2 (range 6.8--14.9) for the long version scales, and 10.8 (range 7.6--14.9) for the medium-length version scales. The analysis of the self-evaluated changes on the scale scores for the core COPSOQ scales showed that the anchor-based estimates of MID were generally lower than 0.5 SD. Conclusions: We recommend the following MID values for the COPSOQ scales: ``Quantitative demands'', 0.3 SD; ``Influence'', 0.2 SD; ``Predictability'', 0.3 SD; ``Social support from colleagues'', 0.3 SD; ``Social support from supervisor'', 0.7 SD; and ``Job satisfaction'', 0.4 SD. For all other COPSOQ scales, where we do not have anchor-based results, we recommend the conventional MID value of 0.5 SD.},
affiliation = {National Research Centre for the Working Environment, Lers{\o} Parkalle ́ 105, DK 2100 Copenhagen, Denmark},
pages = {33--41},
volume = {38},
year = {2010},
keywords = {psychosocial factors, questionnaire, minimally important difference, Meaningful change, psychosocial work environment},
date-added = {2010-01-07 12:43:09 +0100},
date-modified = {2010-01-07 12:49:34 +0100},
doi = {10.1177/1403494809347024},
url = {http://sjp.sagepub.com/cgi/content/abstract/38/3_suppl/33},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pejtersen-2010-Scandinavian%20Journal%20of%20Public%20Health_Determining%20minimall.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1515},
rating = {0}
}
@article{Duncan:2010p4925,
author = {C E Duncan and M J Webster and D A Rothmond and S Bahn and M Elashoff and C S Weickert},
journal = {J Psychiatr Res},
title = {Prefrontal GABAA receptor a-subunit expression in normal postnatal human development and schizophrenia},
abstract = {Cortical GABA deficits that are consistently reported in schizophrenia may reflect an etiology of failed normal postnatal neurotransmitter maturation. Previous studies have found prefrontal cortical GABAA receptor a subunit alterations in schizophrenia, yet their relationship to normal developmental expres- sion profiles in the human cortex has not been determined. The aim of this study was to quantify GABAA receptor a-subunit mRNA expression patterns in human dorsolateral prefrontal cortex (DLPFC) during normal postnatal development and in schizophrenia cases compared to controls. Transcript levels of GABAA receptor a subunits were measured using microarray and qPCR analysis of 60 normal individuals aged 6 weeks to 49 years and in 37 patients with schizophrenia/schizoaffective disorder and 37 matched controls. We detected robust opposing changes in cortical GABAA receptor a1 and a5 subunits during the first few years of postnatal development, with a 60% decrease in a5 mRNA expression and a doubling of a1 mRNA expression with increasing age. In our Australian schizophrenia cohort we detected decreased GAD67 mRNA expression (p = 0.0012) and decreased a5 mRNA expression (p = 0.038) in the DLPFC with no significant change of other a subunits. Our findings confirm that GABA deficits (reduced GAD67) are a consistent feature of schizophrenia postmortem brain studies. Our study does not confirm alterations in cortical a1 or a2 mRNA levels in the schizophrenic DLPFC, as seen in previous studies, but instead we report a novel down-regulation of a5 subunit mRNA suggesting that post-synaptic alterations of inhibi- tory receptors are an important feature of schizophrenia but may vary between cohorts.},
year = {2010},
date-added = {2010-02-02 11:33:26 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Duncan-2010-J%20Psychiatr%20Res_Prefrontal%20GABAA%20rec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4925},
rating = {0}
}
@article{Pan:2010p9847,
author = {Yi Pan and Jingjing Gao and Michael Haber and Huiman X Barnhart},
journal = {Computer methods and programs in biomedicine},
title = {Estimation of coefficients of individual agreement (CIAs) for quantitative and binary data using SAS and R},
abstract = {The coefficients of individual agreement (CIAs), which are based on the ratio of the intra- and inter-observer disagreement, provide a general approach for evaluating agreement between two fixed methods of measurements or human observers. In this paper, programs in both SAS and R are presented for estimation of the CIAs between two observers with quantitative or binary measurements. A detailed illustration of the computations, macro variable definitions, input and output for the SAS and R programs are also included in the text. The programs provide estimations of CIAs, their standard errors as well as confidence intervals, for the cases with or without a reference method. Data from a carotid stenosis screening study is used as an example of quantitative measurements. Data from a study involving the evaluation of mammograms by ten radiologists is used to illustrate a binary data example.},
affiliation = {Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, 1518 Clifton Road NE, Atlanta, GA, 30322, United States.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-03-26 19:28:09 +0100},
date-modified = {2010-03-26 19:28:58 +0100},
doi = {10.1016/j.cmpb.2009.12.002},
pii = {S0169-2607(09)00305-8},
pmid = {20079947},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pan-2010-Computer%20methods%20and%20programs%20in%20biomedicine_Estimation%20of%20coeffi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9847},
rating = {4}
}
@article{Spiliotopoulou:2009p924,
author = {Georgia Spiliotopoulou},
journal = {Australian Occupational Therapy Journal},
title = {Reliability reconsidered: Cronbach's alpha and paediatric assessment in occupational therapy},
abstract = {Using reliable outcome measures is a necessity for the occupational therapy profession in enabling valid assessments of clients. Although Cronbach's alpha is the most widely applied index of internal consistency reliability, there are misconceptions about its use and interpretation. This paper aims to guide assessment developers in paediatric occupational therapy, as well as practitioners who are evaluating outcome measures in using and interpreting the Cronbach's alpha estimates appropriately. This will enable them to decide on the tools' clinical value and incorporate them into their practice with children. Method:
Previously published papers reporting on internal consistency issues of outcome measures in paediatric occupational therapy were searched through the Allied and Complementary Medicine database. These papers were used as a basis to discuss possible reasons for reporting of low internal consistency. Results:
The analysis demonstrates that Cronbach's alpha reports are not always interpreted in a sound way. The paper emphasises that one should be cautious about judging estimates of internal consistency. Low size of the coefficient alpha might not always indicate problems with the construction of the tool; whereas large sizes do not always suggest adequate reliability. Instead, these reports might be related to the data characteristics of the construct. Conclusion:
In judging an outcome measure's internal consistency, researchers and practitioners in occupational therapy should report and consider the nature of data, the scale's length and width, the linearity and the normality of response distribution, the central response tendency, the sample response variability and the sample size.},
affiliation = {School of Health Sciences and Social Care, Brunel University},
number = {3},
pages = {150--155},
volume = {56},
year = {2009},
date-added = {2010-01-03 19:18:07 +0100},
date-modified = {2010-01-03 19:19:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spiliotopoulou-2009-Australian%20Occupational%20Therapy%20Journal_Reliability%20reconsid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p924},
rating = {0}
}
@article{Derks:2006p1340,
author = {E M Derks and J J Hudziak and C E M van Beijsterveldt and C V Dolan and Dorret I Boomsma},
journal = {Behav Genet},
title = {Genetic analyses of maternal and teacher ratings on attention problems in 7-year-old Dutch twins},
abstract = {The goal of the present study is to examine genetic and environmental influences on maternal and teacher ratings of Attention Problems (AP) in 7-year-old children. Teachers completed the Teacher Report Form (N=2259 pairs), and mothers the Child Behavior Checklist (N=2057 pairs). Higher correlations were found in twins rated by the same teacher than in twins rated by different teachers. This can be explained by rater bias or by a greater environmental sharing in twins, who are in the same classroom. We further found that 41% of the variation in maternal and teacher ratings is explained by a common factor. The heritability of this common factor is 78%. The heritabilities of the rater specific factors of mothers and teachers are 76% and 39%, respectively. Because Attention Problems that are persistent over situations may indicate more serious behavior problems than context dependent Attention Problems, we believe that gene finding strategies should focus on this common phenotype.},
affiliation = {Department: Biological Psychology, Vrije Universiteit, Van der Boechorststraat 1, 1081 BT, Amsterdam, The Netherlands. em.derks@psy.vu.nl},
number = {6},
pages = {833--44},
volume = {36},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Mother-Child Relations, Models: Psychological, Models: Genetic, Attention, Twins: Dizygotic, Adult, Female, Teaching, Longitudinal Studies, Attention Deficit Disorder with Hyperactivity, Netherlands, Child, Humans, Twins: Monozygotic},
date-added = {2010-01-07 11:41:29 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1007/s10519-006-9084-5},
pmid = {16773450},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1340},
rating = {0}
}
@article{Godart:2007p13992,
author = {N T Godart and F Perdereau and Z Rein and S Berthoz and J Wallier and Ph Jeammet and M F Flament},
journal = {J Affect Disord},
title = {Comorbidity studies of eating disorders and mood disorders. Critical review of the literature},
abstract = {OBJECTIVE: We conducted a critical literature review of studies assessing the prevalence of mood disorders (MD) in subjects with eating disorders (ED; anorexia nervosa and bulimia nervosa). In the first part of this article, we discuss methodological issues relevant to comorbidity studies between ED and MD. In the second part, we summarize the findings of these studies in light of the methodological considerations raised. METHOD: A manual computerised search (Medline) was performed for all published studies on comorbidity between ED and MD. In order to have sufficiently homogeneous diagnostic criteria for both categories of disorders, this search was limited to articles published between 1985 and 2006. RESULTS: Too few studies include control groups, few studies compared diagnostic subgroups of ED subjects, and results are scarce or conflicting. DISCUSSION: The results are discussed in the light of the methodological problems observed. The implications when reviewing the results of published studies and planning future research are set out.},
affiliation = {Department of Psychiatry, Institut Mutualiste Montsouris (IMM), University, Ren{\'e} Descartes-Paris V, France. nathalie.godart@imm.fr},
number = {1-3},
pages = {37--49},
volume = {97},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Humans, Comorbidity, Mood Disorders, Bulimia Nervosa, Cross-Sectional Studies, Anorexia Nervosa},
date-added = {2010-08-04 09:21:51 +0200},
date-modified = {2010-08-04 09:21:51 +0200},
doi = {10.1016/j.jad.2006.06.023},
pii = {S0165-0327(06)00290-4},
pmid = {16926052},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Godart-2007-J%20Affect%20Disord_Comorbidity%20studies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13992},
rating = {0}
}
@inbook{Schaeffer:1999,
author = {NC Schaeffer},
journal = {Book},
title = {The science of self-report: Implications for research and practice},
chapter = {Asking questions about threatening topics: A selective overview},
pages = {105--122},
year = {1999},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p930},
rating = {0}
}
@article{Persson:2000p11583,
author = {M L Persson and D Wasserman and E G J{\"o}nsson and H Bergman and L Terenius and A Gyllander and J Neiman and T Geijer},
journal = {Psychiatry Res},
title = {Search for the influence of the tyrosine hydroxylase (TCAT)(n) repeat polymorphism on personality traits},
abstract = {A putatively functional tetranucleotide repeat polymorphism in the tyrosine hydroxylase gene (TH) has been investigated with regard to different aspects of psychopathology. We investigated whether reported associations of this TH polymorphism may reflect associations with common personality traits. Personality was assessed by the NEO Personality Inventory-Revised version (NEO PI-R), in 205 healthy Caucasian volunteers. Tendencies for higher scores in the neuroticism (N) facets, Angry hostility (P=0.008) and Vulnerability (P=0.021), were observed among carriers of one of the alleles (T8). Healthy women with the T6/T10 genotype had significantly higher scores (P=0.001) in the Deliberation and Dutifulness facets (P=0.031) (the Conscientiousness dimension, C) and lower scores (P=0.031) in the Feelings facet (the Openness dimension, O). We concluded that: (1) higher mean scores in the Neuroticism facets among T8 allele carriers are consistent with previous data and warrants further research; (2) the T6/T10 genotype may influence personality among women; (3) these data should be cautiously interpreted in the absence of corroborating data.},
affiliation = {Swedish National and Stockholm County Center for Suicide Research and Prevention, National Institute for Psychosocial Factors and Health, Department of Public Health Sciences, Karolinska Institutet, Stockholm, Sweden. maj-liz.persson@neurotec.ki.se},
number = {1},
pages = {1--8},
volume = {95},
year = {2000},
month = {Jul},
language = {eng},
keywords = {Alleles, Polymorphism: Genetic, Heterozygote Detection, Microsatellite Repeats, Personality, Gene Expression, Adult, Aged, Middle Aged, Tyrosine 3-Monooxygenase, Male, Personality Inventory, Humans, Psychometrics, Reference Values, Female},
date-added = {2010-05-09 18:26:57 +0200},
date-modified = {2010-05-09 18:27:01 +0200},
pii = {S0165178100001608},
pmid = {10904118},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Persson-2000-Psychiatry%20Res_Search%20for%20the%20influ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11583},
rating = {4}
}
@article{Jadad:1996,
author = {AR Jadad and RA Moore and D et al Carroll},
journal = {Controlled Clinical Trials},
title = {Assessing the quality of reports of randomised clinical trials: is blinding necessary?},
abstract = {It has been suggested that the quality of clinical trials should be assessed by blinded raters to limit the risk of introducing bias into meta-analyses and systematic reviews, and into the peer-review process. There is very little evidence in the literature to substantiate this. This study describes the development of an instrument to assess the quality of reports of randomized clinical trials (RCTs) in pain research and its use to determine the effect of rater blinding on the assessments of quality. A multidisciplinary panel of six judges produced an initial version of the instrument. Fourteen raters from three different backgrounds assessed the quality of 36 research reports in pain research, selected from three different samples. Seven were allocated randomly to perform the assessments under blind conditions. The final version of the instrument included three items. These items were scored consistently by all the raters regardless of background and could discriminate between reports from the different samples. Blind assessments produced significantly lower and more consistent scores than open assessments. The implications of this finding for systematic reviews, meta-analytic research and the peer-review process are discussed.},
pages = {1--12},
volume = {17},
year = {1996},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1050},
rating = {0}
}
@article{Cookson:2009p2730,
author = {William Cookson and Liming Liang and Gon{\c c}alo R Abecasis and Miriam Moffatt and Mark Lathrop},
journal = {Nat Rev Genet},
title = {Mapping complex disease traits with global gene expression},
abstract = {Variation in gene expression is an important mechanism underlying susceptibility to complex disease. The simultaneous genome-wide assay of gene expression and genetic variation allows the mapping of the genetic factors that underpin individual differences in quantitative levels of expression (expression QTLs; eQTLs). The availability of systematically generated eQTL information could provide immediate insight into a biological basis for disease associations identified through genome-wide association (GWA) studies, and can help to identify networks of genes involved in disease pathogenesis. Although there are limitations to current eQTL maps, understanding of disease will be enhanced with novel technologies and international efforts that extend to a wide range of new samples and tissues.},
affiliation = {National Heart and Lung Institute, Imperial College London, London SW3 6LY, UK. w.cookson@imperial.ac.uk},
number = {3},
pages = {184--94},
volume = {10},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Genome-Wide Association Study, Disease, Humans, Animals, Genetic Variation, Quantitative Trait Loci},
date-added = {2010-01-13 14:19:54 +0100},
date-modified = {2010-07-29 20:14:14 +0200},
doi = {10.1038/nrg2537},
pii = {nrg2537},
pmid = {19223927},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cookson-2009-Nat%20Rev%20Genet_Mapping%20complex%20dise.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2730},
rating = {0}
}
@article{Jakobsson:2008p3423,
author = {Mattias Jakobsson and Sonja W Scholz and Paul Scheet and J Raphael Gibbs and Jenna M VanLiere and Hon-Chung Fung and Zachary A Szpiech and James H Degnan and Kai Wang and Rita Guerreiro and Jose M Bras and Jennifer C Schymick and Dena G Hernandez and Bryan J Traynor and Javier Simon-Sanchez and Mar Matarin and Angela Britton and Joyce van de Leemput and Ian Rafferty and Maja Bucan and Howard M Cann and John A Hardy and Noah A Rosenberg and Andrew B Singleton},
journal = {Nature},
title = {Genotype, haplotype and copy-number variation in worldwide human populations},
abstract = {Genome-wide patterns of variation across individuals provide a powerful source of data for uncovering the history of migration, range expansion, and adaptation of the human species. However, high-resolution surveys of variation in genotype, haplotype and copy number have generally focused on a small number of population groups. Here we report the analysis of high-quality genotypes at 525,910 single-nucleotide polymorphisms (SNPs) and 396 copy-number-variable loci in a worldwide sample of 29 populations. Analysis of SNP genotypes yields strongly supported fine-scale inferences about population structure. Increasing linkage disequilibrium is observed with increasing geographic distance from Africa, as expected under a serial founder effect for the out-of-Africa spread of human populations. New approaches for haplotype analysis produce inferences about population structure that complement results based on unphased SNPs. Despite a difference from SNPs in the frequency spectrum of the copy-number variants (CNVs) detected--including a comparatively large number of CNVs in previously unexamined populations from Oceania and the Americas--the global distribution of CNVs largely accords with population structure analyses for SNP data sets of similar size. Our results produce new inferences about inter-population variation, support the utility of CNVs in human population-genetic research, and serve as a genomic resource for human-genetic studies in diverse worldwide populations.},
affiliation = {Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, Michigan 48109, USA.},
number = {7181},
pages = {998--1003},
volume = {451},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Haplotypes, Genetics: Population, Linkage Disequilibrium, Alleles, Polymorphism: Single Nucleotide, Gene Dosage, Geography, Africa, Humans, Chromosomes: Human: Pair 2, Genome: Human, Genetic Variation},
date-added = {2010-01-15 15:13:44 +0100},
date-modified = {2010-07-29 19:40:35 +0200},
doi = {10.1038/nature06742},
pii = {nature06742},
pmid = {18288195},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jakobsson-2008-Nature_Genotype%20haplotype.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3423},
read = {Yes},
rating = {0}
}
@article{Constantino:2002p12159,
author = {John N Constantino and C Robert Cloninger and Adrian R Clarke and Bahar Hashemi and Thomas Przybeck},
journal = {Psychiatry Res},
title = {Application of the seven-factor model of personality to early childhood},
abstract = {The seven-factor model of personality developed by Cloninger and colleagues describes personality as a function of developmental aspects of character superimposed on heritable dimensions of temperament. The objective of this study was to determine whether this model could be applied to early childhood. We tested a preschool version of the Temperament and Character Inventory (the preschool TCI) in 305 children aged 2-5 years. Exploratory factor analysis provided support for the presence of distinct domains of temperament (comprising four factors) and character (comprising three factors). The preschool TCI demonstrated high internal consistency for each of the seven factors (Cronbach's alpha values: 0.70-0.93). Inter-individual differences in novelty seeking, reward dependence and cooperativeness were highly preserved (Pearson's r values 0.75, 0.64 and 0.80, respectively) in 29 subjects who were studied over a 3-year period from toddlerhood to early school age. Future studies are warranted to test the extent to which early childhood measurements of the seven factors might predict the development of personality disorders.},
affiliation = {Department of Psychiatry, Washington University School of Medicine, Campus Box 8134, 660 South Euclid Ave., Saint Louis, MO 63110, USA. constantino@psychiatry.wustl.edu},
number = {3},
pages = {229--43},
volume = {109},
year = {2002},
month = {Apr},
language = {eng},
keywords = {Longitudinal Studies, Humans, Male, Character, Personality Development, Child: Preschool, Personality Assessment, Psychometrics, Reproducibility of Results, Temperament, Individuality, Female},
date-added = {2010-05-30 10:41:40 +0200},
date-modified = {2010-05-30 10:41:47 +0200},
pii = {S0165178102000082},
pmid = {11959360},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Constantino-2002-Psychiatry%20Res_Application%20of%20the%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12159},
rating = {4}
}
@article{Rainer:2006p1558,
author = {Johannes Rainer and Fatima Sanchez-Cabo and Gernot Stocker and Alexander Sturn and Zlatko Trajanoski},
journal = {Nucleic Acids Res},
title = {CARMAweb: comprehensive R- and bioconductor-based web service for microarray data analysis},
abstract = {CARMAweb (Comprehensive R-based Microarray Analysis web service) is a web application designed for the analysis of microarray data. CARMAweb performs data preprocessing (background correction, quality control and normalization), detection of differentially expressed genes, cluster analysis, dimension reduction and visualization, classification, and Gene Ontology-term analysis. This web application accepts raw data from a variety of imaging software tools for the most widely used microarray platforms: Affymetrix GeneChips, spotted two-color microarrays and Applied Biosystems (ABI) microarrays. R and packages from the Bioconductor project are used as an analytical engine in combination with the R function Sweave, which allows automatic generation of analysis reports. These report files contain all R commands used to perform the analysis and guarantee therefore a maximum transparency and reproducibility for each analysis. The web application is implemented in Java based on the latest J2EE (Java 2 Enterprise Edition) software technology. CARMAweb is freely available at https://carmaweb.genome.tugraz.at.},
affiliation = {Institute for Genomics and Bioinformatics, Graz University of Technology, Petersgasse 14, 8010 Graz, Austria.},
number = {Web Server issue},
pages = {W498--503},
volume = {34},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Internet, Gene Expression Profiling, Vocabulary: Controlled, Cluster Analysis, User-Computer Interface, Software, Oligonucleotide Array Sequence Analysis, Computer Graphics},
date-added = {2010-01-07 16:44:21 +0100},
date-modified = {2010-01-07 16:44:21 +0100},
doi = {10.1093/nar/gkl038},
pii = {34/suppl_2/W498},
pmid = {16845058},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rainer-2006-Nucleic%20Acids%20Res_CARMAweb%20comprehens.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1558},
rating = {0}
}
@article{Ayotte:2009p4741,
author = {Brian J Ayotte and Ranak Trivedi and Hayden B Bosworth},
journal = {Ethn Dis},
title = {Racial differences in hypertension knowledge: effects of differential item functioning},
abstract = {Health-related knowledge is an important component in the self-management of chronic illnesses. The objective of this study was to more accurately assess racial differences in hypertension knowledge by using a latent variable modeling approach that controlled for sociodemographic factors and accounted for measurement issues in the assessment of hypertension knowledge. Cross-sectional data from 1,177 participants (45% African American; 35% female) were analyzed using a multiple indicator multiple causes (MIMIC) modeling approach. Available sociodemographic data included race, education, sex, financial status, and age. All participants completed six items on a hypertension knowledge questionnaire. Overall, the final model suggested that females, Whites, and patients with at least a high school diploma had higher latent knowledge scores than males, African Americans, and patients with less than a high school diploma, respectively. The model also detected differential item functioning (DIF) based on race for two of the items. Specifically, the error rate for African Americans was lower than would be expected given the lower level of latent knowledge on the items, on the questions related to: (a) the association between high blood pressure and kidney disease, and (b) the increased risk African Americans have for developing hypertension. Not accounting for DIF resulted in the difference between Whites and African Americans to be underestimated. These results are discussed in the context of the need for careful measurement of health-related constructs, and how measurement-related issues can result in an inaccurate estimation of racial differences in hypertension knowledge.},
affiliation = {Center for Health Services Research in Primary Care, VA Medical Center (152), 508 Fulton St; Durham, NC 27705, USA. brian.ayotte@duke.edu},
number = {1},
pages = {23--7},
volume = {19},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Hypertension, Cross-Sectional Studies, Middle Aged, Educational Status, Aged: 80 and over, Humans, Sex Factors, Models: Statistical, Aged, European Continental Ancestry Group, Male, Young Adult, African Americans, Female, Questionnaires, Health Knowledge: Attitudes: Practice, Adult},
date-added = {2010-02-01 11:35:34 +0100},
date-modified = {2010-02-01 11:35:34 +0100},
pmid = {19341159},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ayotte-2009-Ethn%20Dis_Racial%20differences%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4741},
rating = {0}
}
@article{Kosinski:2006p7356,
author = {Mark Kosinski and Jakob B Bjorner and John E Ware and Elizabeth Sullivan and Walter L Straus},
journal = {Journal of Clinical Epidemiology},
title = {An evaluation of a patient-reported outcomes found computerized adaptive testing was efficient in assessing osteoarthritis impact},
abstract = {BACKGROUND AND OBJECTIVES: Evaluate a patient-reported outcomes questionnaire that uses computerized adaptive testing (CAT) to measure the impact of osteoarthritis (OA) on functioning and well-being. MATERIALS AND METHODS: OA patients completed 37 questions about the impact of OA on physical, social and role functioning, emotional well-being, and vitality. Questionnaire responses were calibrated and scored using item response theory, and two scores were estimated: a Total-OA score based on patients' responses to all 37 questions, and a simulated CAT-OA score where the computer selected and scored the five most informative questions for each patient. Agreement between Total-OA and CAT-OA scores was assessed using correlations. Discriminant validity of Total-OA and CAT-OA scores was assessed with analysis of variance. Criterion measures included OA pain and severity, patient global assessment, and missed work days. RESULTS: Simulated CAT-OA and Total-OA scores correlated highly (r = 0.96). Both Total-OA and simulated CAT-OA scores discriminated significantly between patients differing on the criterion measures. F-statistics across criterion measures ranged from 39.0 (P < .001) to 225.1 (P < .001) for the Total-OA score, and from 40.5 (P < .001) to 221.5 (P < .001) for the simulated CAT-OA score. CONCLUSIONS: CAT methods produce valid and precise estimates of the impact of OA on functioning and well-being with significant reduction in response burden.},
affiliation = {QualityMetric Incorporated, 640 George Washington Highway, Lincoln, RI 02865, USA. mkosinski@qualitymetric.com},
number = {7},
pages = {715--23},
volume = {59},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Osteoarthritis, Sickness Impact Profile, Adaptation: Psychological, Quality of Life, User-Computer Interface, Humans, Disability Evaluation, Treatment Outcome, Questionnaires},
date-added = {2010-03-10 20:27:46 +0100},
date-modified = {2010-03-10 20:27:46 +0100},
doi = {10.1016/j.jclinepi.2005.07.019},
pii = {S0895-4356(06)00010-2},
pmid = {16765275},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kosinski-2006-Journal%20of%20Clinical%20Epidemiology_An%20evaluation%20of%20a%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7356},
rating = {0}
}
@article{Overbeek:2010p11533,
author = {Geertjan Overbeek and Ad Vermulst and Ron de Graaf and Margreet ten Have and Rutger Engels and Ron Scholte},
journal = {J Psychiatr Res},
title = {Positive life events and mood disorders: Longitudinal evidence for an erratic lifecourse hypothesis},
abstract = {BACKGROUND: An unresolved issue in psychiatry research concerns the assumption that detrimental effects of negative life events on mental health may be buffered by a multitude of positive life events. However, there is clear lack of empirical evidence for this assumption, and one may even argue that positive life events act as additional stressors and thus increase (and not decrease) the risk for affective disorders. METHODS: Data were used from 4796 adults aged 18-64, who participated in 2 waves (i.e., 1997 and 1999) of NEMESIS, a prospective-epidemiological study. Measures were based on diagnoses of DSM-III-R mood disorders, and a life events questionnaire employed in the NEMESIS study. RESULTS: Although the prevalence of mood disorders correlated positively with both the number of negative and positive life events experienced, a multivariate path analysis (Mplus) demonstrated that only negative life events longitudinally predicted mood disorders. Positive life events predicted subsequent mood disorders only when in the same time period a high number of negative events were experienced. CONCLUSIONS: Positive life events do not buffer the detrimental impact of negative ones, but instead may function as additional stressor, in the context of highly erratic life course patterns that may be typical for depressed individuals.},
affiliation = {Department of Developmental Psychology, Utrecht University, PO Box 80140, 3508 TC Utrecht, The Netherlands.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:35:54 +0200},
date-modified = {2010-05-01 17:35:54 +0200},
doi = {10.1016/j.jpsychires.2010.03.019},
pii = {S0022-3956(10)00095-6},
pmid = {20427054},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Overbeek-2010-J%20Psychiatr%20Res_Positive%20life%20events.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11533},
rating = {0}
}
@article{Lopes:2004p6288,
author = {H F Lopes and M West},
journal = {Statistica Sinica},
title = {BAYESIAN MODEL ASSESSMENT IN FACTOR ANALYSIS},
abstract = {Factor analysis has been one of the most powerful and flexible tools for assessment of multivariate dependence and codependence. Loosely speaking, it could be argued that the origin of its success rests in its very exploratory nature, where various kinds of data-relationships amongst the variables at study can be iteratively verified and/or refuted. Bayesian inference in factor analytic models has received renewed attention in recent years, partly due to computational advances but also partly to applied focuses generating factor structures as exemplified by recent work in financial time series modeling. The focus of our current work is on exploring questions of uncertainty about the number of latent factors in a multi- variate factor model, combined with methodological and computational issues of model specification and model fitting. We explore reversible jump MCMC methods that build on sets of parallel Gibbs sampling-based analyses to generate suitable empirical proposal distributions and that address the challenging problem of finding efficient proposals in high-dimensional models. Alternative MCMC methods based on bridge sampling are discussed, and these fully Bayesian MCMC approaches are compared with a collection of popular model selection methods in empirical stud- ies. Various additional computational issues are discussed, including situations where prior information is scarce, and the methods are explored in studies of some simulated data sets and an econometric time series example.},
pages = {41--67},
volume = {14},
year = {2004},
date-added = {2010-02-20 19:59:07 +0100},
date-modified = {2010-02-20 19:59:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lopes-2004-Statistica%20Sinica_BAYESIAN%20MODEL%20ASSES.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6288},
rating = {0}
}
@article{Sutter:1997p12120,
author = {A L Sutter and V Leroy and D Dallay and H Verdoux and M Bourgeois},
journal = {J Affect Disord},
title = {Post-partum blues and mild depressive symptomatology at days three and five after delivery, A French cross sectional study},
abstract = {This cross-sectional work studies the prevalence of post-partum blues on days 3 and 5 after delivery and the links between post-partum blues and depressive symptomatology, using standardised interviews and rating scales (Kennerley and Gath Blues Scale. MADRS) to screen a consecutive series of 104 women on days three and five after a normal delivery. This study stresses the possibility of a difference between the symptomatology of a benign "classical" post-partum blues, and that of a more intense blues closer to the spectrum of depressive mood disorders and perhaps post-natal depression.},
affiliation = {IPSO, Bordeaux, France.},
number = {1},
pages = {1--4},
volume = {44},
year = {1997},
month = {Jun},
language = {eng},
keywords = {Female, Incidence, Depressive Disorder, Retrospective Studies, Humans, France, Cross-Sectional Studies, Puerperal Disorders},
date-added = {2010-05-30 10:01:52 +0200},
date-modified = {2010-05-30 10:01:53 +0200},
pii = {S0165-0327(97)01440-7},
pmid = {9186796},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12120},
rating = {0}
}
@article{BarnholtzSloan:2003p10249,
author = {Jill S Barnholtz-Sloan and Laila M Poisson and Steven W Coon and Gary A Chase and Benjamin A Rybicki},
journal = {BMC Genet},
title = {Analysis of gene x environment interactions in sibships using mixed models},
abstract = {BACKGROUND: Gene x environment models are widely used to assess genetic and environmental risks and their association with a phenotype of interest for many complex diseases. Mixed generalized linear models were used to assess gene x environment interactions with respect to systolic blood pressure on sibships adjusting for repeated measures and hierarchical nesting structures. A data set containing 410 sibships from the Framingham Heart Study offspring cohort (part of the Genetic Analysis Workshop 13 data) was used for all analyses. Three mixed gene x environment models, all adjusting for repeated measurement and varying levels of nesting, were compared for precision of estimates: 1) all sibships with adjustment for two levels of nesting (sibs within sibships and sibs within pedigrees), 2) all sibships with adjustment for one level of nesting (sibs within sibships), and 3) 100 data sets containing random draws of one sibship per extended pedigree adjusting for one level of nesting. RESULTS: The main effects were: gender, baseline age, body mass index (BMI), hypertensive treatment, cigarettes per day, grams of alcohol per day, and marker GATA48G07A. The interaction fixed effects were: baseline age by gender, baseline age by cigarettes per day, baseline age by hypertensive treatment, baseline age by BMI, hypertensive treatment by BMI, and baseline age by marker GATA48G07A. The estimates for all three nesting techniques were not widely discrepant, but precision of estimates and determination of significant effects did change with the change in adjustment for nesting. CONCLUSION: Our results show the importance of the adjustment for all levels of hierarchical nesting of sibs in the presence of repeated measures.},
affiliation = {Department of Internal Medicine (Oncology), Wayne State University School of Medicine and Karmanos Cancer Institute, 110 East Warren, Detroit, Michigan, USA. jbsloan@med.wayne.edu},
pages = {S18},
volume = {4 Suppl 1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Cohort Studies, Female, Systole, Siblings, Male, Adult Children, Models: Statistical, Environment, Genetic Markers, Humans, Phenotype, Blood Pressure},
date-added = {2010-04-02 10:52:40 +0200},
date-modified = {2010-04-02 10:52:40 +0200},
doi = {10.1186/1471-2156-4-S1-S18},
pii = {1471-2156-4-S1-S18},
pmid = {14975086},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barnholtz-Sloan-2003-BMC%20Genet_Analysis%20of%20gene%20x%20e.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10249},
rating = {0}
}
@article{Breiman:2001p539,
author = {Leo Breiman},
journal = {Machine Learning},
title = {Random Forests},
abstract = {Random forests are a combination of tree predictors such that each tree depends on the values of a random vector sampled independently and with the same distribution for all trees in the forest. The generalization error for forests converges a.s. to a limit as the number of trees in the forest becomes large. The generalization error of a forest of tree classifiers depends on the strength of the individual trees in the forest and the correlation between them. Using a random selection of features to split each node yields error rates that compare favorably to Adaboost (Y. Freund {\&} R. Schapire, Machine Learning: Proceedings of the Thirteenth International conference, ∗ ∗ ∗, 148--156), but are more robust with respect to noise. Internal estimates monitor error, strength, and correlation and these are used to show the response to increasing the number of features used in the splitting. Internal estimates are also used to measure variable importance. These ideas are also applicable to regression.},
affiliation = {Statistics Department, University of California, Berkeley, CA 94720},
pages = {5--32},
volume = {45},
year = {2001},
keywords = {classification, regression, ensemble},
date-added = {2010-01-03 14:02:39 +0100},
date-modified = {2010-01-03 14:04:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Breiman-2001-Machine%20Learning_Random%20Forests.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p539},
read = {Yes},
rating = {0}
}
@article{Lewi:2007p11603,
author = {P J Lewi and A Smith},
journal = {R{\&}D Management},
title = {Successful Pharmaceutical Discovery: Paul Janssen's Concept of Drug Research},
year = {2007},
date-added = {2010-05-09 21:37:39 +0200},
date-modified = {2010-05-09 21:38:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lewi-2007-R&D%20Management_Successful%20Pharmaceu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11603},
rating = {0}
}
@article{Birbeck:2000p7344,
author = {G L Birbeck and S Kim and R D Hays and B G Vickrey},
journal = {Neurology},
title = {Quality of life measures in epilepsy: how well can they detect change over time?},
abstract = {OBJECTIVE: To evaluate the ability of health-related quality of life (HRQOL) measures to detect change over time in persons with epilepsy. BACKGROUND: The application of HRQOL measures in clinical trials has been limited by a dearth of information regarding their abilities to measure change over time (i.e., their responsiveness). To calculate responsiveness, one must categorize subjects as "changed" or "unchanged" by a priori criteria. METHODS: The authors analyzed data collected at baseline and at 28-week follow-up from an antiepileptic drug trial. Two different criteria for classifying subjects as changed or unchanged-one based on seizure frequency (where changed = attainment of seizure freedom) and one based on self-reported overall condition (where changed = improvement in overall condition)-were used. We compared responsiveness indices for two generic (Short Form [SF]-36 and SF-12) and two epilepsy-targeted (Quality of Life in Epilepsy [QOLIE]-89 and QOLIE-31) HRQOL measures. Two scoring procedures for the SF-36, one based on classic test theory and the other on item response theory (IRT), were compared. RESULTS: Effect sizes of the most responsive HRQOL measures were medium to large. The shorter epilepsy-targeted measure had similar responsiveness indices to those of the longer measure. Epilepsy-targeted measures were consistently more responsive than generic measures under the overall condition criterion, but for the seizure freedom criterion, IRT scoring of the SF-36 yielded responsiveness indices comparable to those of the epilepsy-targeted measures. CONCLUSION: Epilepsy-targeted health-related quality of life measures may be preferable to generic ones in longitudinal studies. Selection of a shorter epilepsy-targeted measure does not compromise responsiveness. Item response theory scoring should be applied to epilepsy-targeted HRQOL measures.},
affiliation = {Department of Medicine, Robert Wood Johnson Clinical Scholars Program, University of California at Los Angeles, USA. gdike@ucla.edu},
number = {9},
pages = {1822--7},
volume = {54},
year = {2000},
month = {May},
language = {eng},
keywords = {Psychometrics, Quality of Life, Sensitivity and Specificity, Vigabatrin, Epilepsy, Female, Adult, Humans, Adolescent, Male, Sickness Impact Profile, Drug Therapy: Combination, Aged, Anticonvulsants, Middle Aged, Electroencephalography},
date-added = {2010-03-10 20:23:47 +0100},
date-modified = {2010-07-29 19:41:27 +0200},
pmid = {10802791},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7344},
rating = {0}
}
@article{Zhuang:2009p11373,
author = {Joanna J Zhuang and Andrew P Morris},
journal = {BMC Proc},
title = {Assessment of sex-specific effects in a genome-wide association study of rheumatoid arthritis},
abstract = {ABSTRACT : Rheumatoid arthritis (RA) is three times more common in females than in males, suggesting that sex may play a role in modifying genetic associations with disease. We have addressed this hypothesis by performing sex-differentiated and sex-interaction analyses of a genome-wide association study of RA in a North American population. Our results identify a number of novel associations that demonstrate strong evidence of association in both sexes combined, with no evidence of heterogeneity in risk between males and females. However, our analyses also highlight a number of associations with RA in males or females only. These signals may represent true sex-specific effects, or may reflect a lack of power to detect association in the smaller sample of males, and thus warrant further investigation.},
affiliation = {Genetic and Genomic Epidemiology Unit, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford, OX3 7BN, UK. zhuang@well.ox.ac.uk.},
pages = {S90},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-04-26 23:09:58 +0200},
date-modified = {2010-07-29 19:21:19 +0200},
pmid = {20018087},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhuang-2009-BMC%20Proc_Assessment%20of%20sex-sp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11373},
rating = {4}
}
@article{Farmer:2005p7290,
author = {Melissa M Farmer and Kenneth F Ferraro},
journal = {Soc Sci Med},
title = {Are racial disparities in health conditional on socioeconomic status?},
abstract = {Racial health inequality is related to socioeconomic status (SES), but debate ensues on the nature of the relationship. Using the US National Health and Nutrition Examination Survey I and the subsequent follow-up interviews, this research examines health disparities between white and black adults and whether the SES/health gradient differs across the two groups in the USA. Two competing mechanisms for the conditional or interactive relationship between race and SES on health are examined during a 20-year period for black and white Americans. Results show that black adults began the study with more serious illnesses and poorer self-rated health than white adults and that the disparity continued over the 20 years. Significant interactions were found between race and education as well as race and employment status on health outcomes. The interaction effect of race and education showed that the racial disparity in self-rated health was largest at the higher levels of SES, providing some evidence for the "diminishing returns" hypothesis; as education levels increased, black adults did not have the same improvement in self-rated health as white adults. Overall, the findings provide evidence for the continuing significance of both race and SES in determining health status over time.},
affiliation = {VA Center for the Study of Healthcare Provider Behavior, VA Health Services Research and Development Center of Excellence, Sepulveda Ambulatory and Nursing Home Center, Sepulveda, CA 91343, USA. farmermm@ucla.edu},
number = {1},
pages = {191--204},
volume = {60},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Longitudinal Studies, Health Status Indicators, Aged, Adult, Educational Status, Male, United States, Health Services Accessibility, Sick Role, Socioeconomic Factors, Poverty, Female, Cross-Sectional Studies, Chronic Disease, African Continental Ancestry Group, Humans, Life Style, Middle Aged, European Continental Ancestry Group, Disabled Persons},
date-added = {2010-03-10 20:18:56 +0100},
date-modified = {2010-03-10 20:18:56 +0100},
doi = {10.1016/j.socscimed.2004.04.026},
pii = {S0277953604002072},
pmid = {15482878},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Farmer-2005-Soc%20Sci%20Med_Are%20racial%20dispariti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7290},
rating = {0}
}
@article{Forkman:2008p13756,
author = {T Forkman},
title = {New Perspectives for the Assessment of Depression: Development of an Item Bank and a Screening Instrument Applying Rasch Analysis and Structural Equation Modelling},
year = {2008},
date-added = {2010-07-24 12:48:37 +0200},
date-modified = {2010-07-24 12:49:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Forkman-2008-_New%20Perspectives%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13756},
rating = {0}
}
@article{Gautam:2010p12881,
author = {P Gautam and K R Pardasani},
journal = {Journal of Computing},
title = {A novel approach for discovery multi level fuzzy association
rule mining},
abstract = {Finding multilevel association rules in transaction databases is most commonly seen in is widely used in data mining. In this paper, we present a model of mining multilevel association rules which satisfies the different minimum support at each level, we have employed fuzzy set concepts, multi-level taxonomy and different minimum supports to find fuzzy multilevel association rules in a given transaction data set. Apriori property is used in model to prune the item sets. The proposed model adopts a top- down progressively deepening approach to derive large itemsets. This approach incorporates fuzzy boundaries instead of sharp boundary intervals. An example is also given to demonstrate and support that the proposed mining algorithm can derive the multiple-level association rules under different supports in a simple and effective manner.},
number = {3},
pages = {56--64},
volume = {2},
year = {2010},
date-added = {2010-06-24 13:05:17 +0200},
date-modified = {2010-06-24 13:06:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gautam-2010-Journal%20of%20Computing_A%20novel%20approach%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12881},
rating = {0}
}
@article{Ioannidis:2007p10423,
author = {John P A Ioannidis and Thomas A Trikalinos},
journal = {Clin Trials},
title = {An exploratory test for an excess of significant findings},
abstract = {BACKGROUND: The published clinical research literature may be distorted by the pursuit of statistically significant results. PURPOSE: We aimed to develop a test to explore biases stemming from the pursuit of nominal statistical significance. METHODS: The exploratory test evaluates whether there is a relative excess of formally significant findings in the published literature due to any reason (e.g., publication bias, selective analyses and outcome reporting, or fabricated data). The number of expected studies with statistically significant results is estimated and compared against the number of observed significant studies. The main application uses alpha = 0.05, but a range of alpha thresholds is also examined. Different values or prior distributions of the effect size are assumed. Given the typically low power (few studies per research question), the test may be best applied across domains of many meta-analyses that share common characteristics (interventions, outcomes, study populations, research environment). RESULTS: We evaluated illustratively eight meta-analyses of clinical trials with >50 studies each and 10 meta-analyses of clinical efficacy for neuroleptic agents in schizophrenia; the 10 meta-analyses were also examined as a composite domain. Different results were obtained against commonly used tests of publication bias. We demonstrated a clear or possible excess of significant studies in 6 of 8 large meta-analyses and in the wide domain of neuroleptic treatments. LIMITATIONS: The proposed test is exploratory, may depend on prior assumptions, and should be applied cautiously. CONCLUSIONS: An excess of significant findings may be documented in some clinical research fields.},
affiliation = {Clinical Trials and Evidence Based Medicine Unit and Clinical and Molecular Epidemiology Unit, Department of Hygiene and Epidemiology, University of Ioannina School of Medicine, Ioannina, Greece. jioannid@cc.uoi.gr},
number = {3},
pages = {245--53},
volume = {4},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Antipsychotic Agents, Meta-Analysis as Topic, Data Interpretation: Statistical, Probability, Schizophrenia, Humans, Clinical Trials as Topic, Bias (Epidemiology)},
date-added = {2010-04-07 11:00:42 +0200},
date-modified = {2010-07-29 19:23:51 +0200},
doi = {10.1177/1740774507079441},
pii = {4/3/245},
pmid = {17715249},
url = {http://ctj.sagepub.com/cgi/reprint/4/3/245},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10423},
rating = {0}
}
@article{Buja:2004p921,
author = {A Buja and D F Swayne and M L Littman and N Dean and H Hofmann},
title = {Interactive Data Visualization with Multidimensional Scaling},
abstract = {We discuss interactive techniques for multidimensional scaling (MDS) and a two sys- tems, named ``GGvis'' and ``XGvis'', that implement these techniques.
MDS is a method for visualizing proximity data, that is, data where objects are char- acterized by dissimilarity values for all pairs of objects. MDS constructs maps (called ``configurations'') of these objects in IRk by interpreting the dissimilarities as distances.
As a data-mapping technique, MDS is fundamentally a visualization method. It is hence plausible that MDS gains in power if it is embedded in a data visualization environment. Consequently, the MDS systems presented here are conceived as exten- sions of multivariate data visualization systems (``GGvis'' and ``X/GGobi'' in this case). The visual analysis of MDS output profits from dynamic projection tools for viewing high-dimensional configurations, from brushing multiple linked views, from plot en- hancements such as labels, glyphs, colors, lines, and from selective removal of groups of objects. Powerful is also the ability to move points and groups of points interactively and thereby create new starting configurations for MDS optimization.
In addition to the benefits of a data visualization environment, we enhance MDS by providing interactive control over numerous options and parameters, a few of them novel. They include choices of 1) metric versus nonmetric MDS, 2) classical versus dis- tance MDS, 3) the configuration dimension, 4) power transformations for metric MDS, 5) distance transformations and 6) Minkowski metrics for distance MDS, 7) weights in the form of powers of dissimilarities and 8) as a function of group memberships, 9) var- ious types of group-dependent MDS such as multidimensional unfolding and external unfolding, 10) random subselection of dissimilarities, 11) perturbation of configura- tions, and 12) a separate window for diagnostics, including the Shepard plot.
MDS was originally developed for the social sciences, but it is now also used for laying out graphs. Graph layout is usually done in 2-D, but we allow layouts in arbitrary dimensions. We show applications to the mapping of computer usage data, to the dimension reduction of marketing segmentation data, to the layout of mathematical graphs and social networks, and finally to the spatial reconstruction of molecules.},
year = {2004},
keywords = {External Unfolding, Dimension Reduction, Dissimilarity Data, Multivariate Analysis, Multidimensional Unfolding, Proximity Data, Graph Layout, Molecular Conformation, Social Networks},
date-added = {2010-01-03 19:09:44 +0100},
date-modified = {2010-01-03 19:11:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buja-2004-_Interactive%20Data%20Vis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p921},
rating = {0}
}
@article{Bulik:2007p1321,
author = {Cynthia M Bulik and Margarita C T Slof-Op't Landt and Eric F van Furth and Patrick F Sullivan},
journal = {Annu Rev Nutr},
title = {The genetics of anorexia nervosa},
abstract = {Anorexia nervosa is a perplexing illness marked by low body weight and persistent fear of weight gain. Anorexia nervosa has the highest mortality rate of any psychiatric disease. Historically, anorexia nervosa was viewed as a disorder primarily influenced by sociocultural factors; however, over the past decade, this perception has been challenged. Family studies have consistently demonstrated that anorexia nervosa runs in families. Twin studies have underscored the contribution of additive genetic factors to the observed familial aggregation. With these bodies of literature as a starting point, we evaluate critically the current state of research on molecular genetic studies of anorexia nervosa and provide guidance for future research.},
affiliation = {Department of Psychiatry, University of North Carolina at Chapel Hill, NC 27599, USA.},
pages = {263--75},
volume = {27},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Twin Studies as Topic, Depressive Disorder, Linkage (Genetics), Genetic Predisposition to Disease, Diseases in Twins, Body Weight, Humans, Family, Anorexia Nervosa, Obesity, Risk Factors},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
doi = {10.1146/annurev.nutr.27.061406.093713},
pmid = {17430085},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1321},
rating = {0}
}
@article{Brugha:1999a,
author = {TS Brugha and PE Bebbington and R Jenkins and H Meltzer and NA Taub and M Janas and J Vernon},
journal = {Psychol Med},
title = {Cross validation of a general population survey diagnostic interview: a comparison of CIS-R with SCAN ICD-10 diagnostic categories},
abstract = {BACKGROUND: Comparisons of structured diagnostic interviews with clinical assessments in general population samples show marked discrepancies. In order to validate the CIS-R, a fully structured diagnostic interview used for the National Survey of Psychiatric Morbidity in Great Britain, it was compared with SCAN, a standard, semi-structured, clinical assessment. METHODS: A random sample of 1882 Leicestershire addresses from the Postcode Address File yielded 1157 eligible adults: of these 860 completed the CIS-R; 387 adults scores > or = 8 on the CIS-R and 205 of these completed a SCAN reference examination. Neurotic symptoms, in the previous week and month only, were enquired about. Concordance was estimated for ICD-10 neurotic and depressive disorders, F32 to F42 and for depression symptom score. RESULTS: Sociodemographic characteristics closely resembled National Survey and 1991 census profiles. Concordance was poor for any ICD-10 neurotic disorder (kappa = 0.25 (95% CI, 0.1-0.4)) and for depressive disorder (kappa = 0.23 (95% CI, 0-0.46)). Sensitivity to the SCAN reference classification was also poor. Specificity ranged from 0.8 to 0.9. Rank order correlation for total depression symptoms was 0.43 (Kendall's tau b; P < 0.001; N = 205). DISCUSSION: High specificity indicates that the CIS-R and SCAN agree that prevalence rates for specific disorders are low compared with estimates in some community surveys. We have revealed substantial discrepancies in case finding. Therefore, published data on service utilization designed to estimate unmet need in populations requires re-interpretation. The value of large-scale CIS-R survey data can be enhanced considerably by the incorporation of concurrent semi-structured clinical assessments.},
number = {5},
pages = {1029--1042},
volume = {29},
year = {1999},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:43:20 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1058},
rating = {0}
}
@article{Birmingham:2008p6046,
author = {Elina Birmingham and Walter F Bischof and Alan Kingstone},
journal = {Q J Exp Psychol (Colchester)},
title = {Social attention and real-world scenes: the roles of action, competition and social content},
abstract = {The present study examined how social attention is influenced by social content and the presence of items that are available for attention. We monitored observers' eye movements while they freely viewed real-world social scenes containing either 1 or 3 people situated among a variety of objects. Building from the work of Yarbus (1965/1967) we hypothesized that observers would demonstrate a preferential bias to fixate the eyes of the people in the scene, although other items would also receive attention. In addition, we hypothesized that fixations to the eyes would increase as the social content (i.e., number of people) increased. Both hypotheses were supported by the data, and we also found that the level of activity in the scene influenced attention to eyes when social content was high. The present results provide support for the notion that the eyes are selected by others in order to extract social information. Our study also suggests a simple and surreptitious methodology for studying social attention to real-world stimuli in a range of populations, such as those with autism spectrum disorders.},
affiliation = {Department of Psychology, University of British Columbia, 2136 West Mall, Vancouver, BC, Canada V6T 1Z4. ebirmingham2@yahoo.ca},
number = {7},
pages = {986--98},
volume = {61},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Semantics, Attention, Competitive Behavior, Eye Movements, Social Perception, Humans, Fixation: Ocular},
date-added = {2010-02-19 17:01:39 +0100},
date-modified = {2010-02-19 17:01:39 +0100},
pmid = {18938281},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6046},
rating = {0}
}
@article{Gutbrod:2000p7933,
author = {T Gutbrod and D Wolke and B Soehne and B Ohrt and K Riegel},
journal = {Arch Dis Child Fetal Neonatal Ed},
title = {Effects of gestation and birth weight on the growth and development of very low birthweight small for gestational age infants: a matched group comparison},
abstract = {AIMS: To investigate the effects of small for gestational age (SGA) in very low birthweight (VLBW) infants on growth and development until the fifth year of life. METHODS: VLBW (< 1500 g) infants, selected from a prospective study, were classified as SGA (n = 115) on the basis of birth weight below the 10th percentile for gestational age and were compared with two groups of appropriate for gestational age (AGA) infants matched according to birth weight (AGA-BW; n = 115) or gestation at birth (AGA-GA; n = 115). Prenatal, perinatal, and postnatal risk factors were recorded, and duration and intensity of treatment were computed from daily assessments. Body weight, length, and head circumference were measured at birth, five and 20 months (corrected for prematurity), and at 56 months. General development was assessed at five and 20 months with the Griffiths scale of babies abilities, and cognitive development at 56 months with the Columbia mental maturity scales, a vocabulary (AWST) and language comprehension test (LSVTA). RESULTS: Significant group differences were found in complications (pregnancy, birth, and neonatal), parity, and multiple birth rate. The AGA-GA group showed most satisfactory growth up to 56 months, with both the AGA-BW and SGA groups lagging behind. The AGA-GA group also scored significantly more highly on all developmental and cognitive tests than the other groups. Developmental test results were similar for the SGA and AGA-BW groups at five and 20 months, but AGA-BW infants (lowest gestation) had lower scores on performance intelligence quotient and language comprehension at 56 months than the SGA group. When prenatal and neonatal complications, parity, and multiple birth were accounted for, group differences in growth remained, but differences in cognitive outcome disappeared after five months. CONCLUSIONS: Being underweight and with a short gestation (SGA and VLBW) leads to poor weight gain and head growth in infancy but does not result in poorer growth than in infants of the same birth weight but shorter gestation (AGA-BW) in the long term. SGA is related to early developmental delay and later language problems; however, neonatal complications may have a larger detrimental effect on long term cognitive development of VLBW infants than whether they are born SGA or AGA.},
affiliation = {Department of Psychology, University of Hertfordshire, Hatfield, Hertfordshire, UK.},
number = {3},
pages = {F208--14},
volume = {82},
year = {2000},
month = {May},
language = {eng},
keywords = {Pregnancy, Child Development, Infant: Small for Gestational Age, Case-Control Studies, Cephalometry, Infant: Newborn, Gestational Age, Infant, Body Weight, Body Height, Infant: Very Low Birth Weight, Prognosis, Humans, Birth Weight, Child: Preschool, Female, Risk Factors},
date-added = {2010-03-20 19:25:17 +0100},
date-modified = {2010-03-20 19:25:17 +0100},
pmid = {10794788},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gutbrod-2000-Arch%20Dis%20Child%20Fetal%20Neonatal%20Ed_Effects%20of%20gestation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7933},
rating = {0}
}
@article{Partchev:2004p2711,
author = {I Partchev},
title = {A visual guide to item response theory},
year = {2004},
date-added = {2010-01-13 13:54:19 +0100},
date-modified = {2010-01-13 13:55:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Partchev-2004-_A%20visual%20guide%20to%20it.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2711},
rating = {0}
}
@inproceedings{Jiao:2004,
author = {Hong Jiao},
journal = {Proceedings},
title = {Evaluating the dimensionality of the Michigan English Language Assessment Battery},
pages = {27--52},
volume = {2},
year = {2004},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jiao-2004-Proceedings_Evaluating%20the%20dimen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2091},
rating = {0}
}
@article{Bechger:2000ab,
author = {Timo M Bechger and Norman D Verhelst and Huub H F M Verstralen},
title = {Identifiability of Non-Linear Logistic Test Models},
abstract = {The linear logistic test model (LLTM) specifies the item parameters as a weighted sum of basic parameters. The LLTM is a special case of a more general non-linear logistic test model (NLTM) where the weights are partially unknown. This paper is about the identifiability of the NLTM. Sufficient and necessary conditions for global identifiability are presented for a NLTM where the weights are linear functions, while conditions for local identifiability are shown to require less assumptions. It is also discussed how these conditions are checked using an algorithm due to Bekker, Merckens, and Wansbeek (1994). Several illustrations are given.},
year = {2000},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2000-_Identifiability%20of%20N.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1222},
rating = {0}
}
@article{Kim:2005p878,
author = {Seon-Young Kim and David J Volsky},
journal = {BMC Bioinformatics},
title = {PAGE: parametric analysis of gene set enrichment},
abstract = {BACKGROUND: Gene set enrichment analysis (GSEA) is a microarray data analysis method that uses predefined gene sets and ranks of genes to identify significant biological changes in microarray data sets. GSEA is especially useful when gene expression changes in a given microarray data set is minimal or moderate. RESULTS: We developed a modified gene set enrichment analysis method based on a parametric statistical analysis model. Compared with GSEA, the parametric analysis of gene set enrichment (PAGE) detected a larger number of significantly altered gene sets and their p-values were lower than the corresponding p-values calculated by GSEA. Because PAGE uses normal distribution for statistical inference, it requires less computation than GSEA, which needs repeated computation of the permutated data set. PAGE was able to detect significantly changed gene sets from microarray data irrespective of different Affymetrix probe level analysis methods or different microarray platforms. Comparison of two aged muscle microarray data sets at gene set level using PAGE revealed common biological themes better than comparison at individual gene level. CONCLUSION: PAGE was statistically more sensitive and required much less computational effort than GSEA, it could identify significantly changed biological themes from microarray data irrespective of analysis methods or microarray platforms, and it was useful in comparison of multiple microarray data sets. We offer PAGE as a useful microarray analysis method.},
affiliation = {Molecular Virology Division, St. Luke's-Roosevelt Hospital Center, Columbia University, New York, NY 10019, USA. kimsy@kribb.re.kr},
pages = {144},
volume = {6},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Energy Metabolism, Models: Statistical, Computational Biology, Gene Expression Profiling, Diabetes Mellitus, Humans, Muscle: Skeletal, Sensitivity and Specificity, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-03 18:09:19 +0100},
date-modified = {2010-01-03 18:09:19 +0100},
doi = {10.1186/1471-2105-6-144},
pii = {1471-2105-6-144},
pmid = {15941488},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kim-2005-BMC%20Bioinformatics_PAGE%20parametric%20ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p878},
rating = {0}
}
@article{Wallace:2002,
author = {K A Wallace and A J Wheeler},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization of the Life Satisfaction Index},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1861},
rating = {0}
}
@article{Raiche:2005,
author = {Gilles Ra{\^\i}che},
journal = {Rasch Measurement Transactions},
title = {Critical eigenvalue sizes in standardized residual principal components analysis},
number = {1},
pages = {1012},
volume = {19},
year = {2005},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ra%C3%AEche-2005-Rasch%20Measurement%20Transactions_Critical%20eigenvalue.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2185},
rating = {0}
}
@article{Willis:1999p3645,
author = {G B Willis},
title = {Cognitive Interviewing. A ``How To'' Guide},
year = {1999},
date-added = {2010-01-16 19:49:27 +0100},
date-modified = {2010-01-16 19:49:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Willis-1999-_Cognitive%20Interviewi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3645},
rating = {0}
}
@article{Pocock:2002p4001,
author = {Stuart J Pocock and Susan E Assmann and Laura E Enos and Linda E Kasten},
journal = {Stat Med},
title = {Subgroup analysis, covariate adjustment and baseline comparisons in clinical trial reporting: current practice and problems},
abstract = {Clinical trial investigators often record a great deal of baseline data on each patient at randomization. When reporting the trial's findings such baseline data can be used for (i) subgroup analyses which explore whether there is evidence that the treatment difference depends on certain patient characteristics, (ii) covariate-adjusted analyses which aim to refine the analysis of the overall treatment difference by taking account of the fact that some baseline characteristics are related to outcome and may be unbalanced between treatment groups, and (iii) baseline comparisons which compare the baseline characteristics of patients in each treatment group for any possible (unlucky) differences. This paper examines how these issues are currently tackled in the medical journals, based on a recent survey of 50 trial reports in four major journals. The statistical ramifications are explored, major problems are highlighted and recommendations for future practice are proposed. Key issues include: the overuse and overinterpretation of subgroup analyses; the underuse of appropriate statistical tests for interaction; inconsistencies in the use of covariate-adjustment; the lack of clear guidelines on covariate selection; the overuse of baseline comparisons in some studies; the misuses of significance tests for baseline comparability, and the need for trials to have a predefined statistical analysis plan for all these uses of baseline data.},
affiliation = {Medical Statistics Unit, London School of Hygiene {\&} Tropical Medicine, London, WC1E 7HT, UK. stuart.pocock@lshtm.ac.uk},
number = {19},
pages = {2917--30},
volume = {21},
year = {2002},
month = {Oct},
language = {eng},
keywords = {Periodicals as Topic, Data Interpretation: Statistical, Social Support, Humans, Male, Myocardial Infarction, Randomized Controlled Trials as Topic, Female, Publications, Antihypertensive Agents},
date-added = {2010-01-17 23:24:25 +0100},
date-modified = {2010-01-17 23:24:25 +0100},
doi = {10.1002/sim.1296},
pmid = {12325108},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4001},
rating = {0}
}
@article{deLeeuw:2005p4267,
author = {Jan de Leeuw},
title = {Linear multilevel models},
year = {2005},
date-added = {2010-01-23 21:31:49 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2005-_Linear%20multilevel%20mo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4267},
rating = {0}
}
@article{Watson:2009p5943,
author = {David Watson},
journal = {Annual review of clinical psychology},
title = {Differentiating the mood and anxiety disorders: a quadripartite model},
abstract = {Recent work has focused on explicating the relations among the current mood and anxiety disorders. This research has yielded some important findings (e.g., the very strong link between generalized anxiety disorder and the unipolar mood disorders). I discuss problems associated with disorder-based analyses, however, and I argue that they need to be supplemented by examining relations among the specific symptom dimensions within these diagnostic classes. I demonstrate that two quantitative elements need to be considered when analyzing the properties of symptoms-the level of specificity and the magnitude of the general distress variance. These quantitative elements can be used to organize relevant symptoms into four groups (i.e., a quadripartite model) that reflect varying combinations of distress and specificity. I illustrate the value of this approach by reviewing the properties of the major symptom dimensions within posttraumatic stress disorder, obsessive-compulsive disorder, and major depression.},
affiliation = {Department of Psychology, University of Iowa, Iowa City, IA 52242, USA. david-watson@uiowa.edu},
pages = {221--47},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Stress Disorders: Post-Traumatic, Diagnostic and Statistical Manual of Mental Disorders, Anxiety Disorders, Diagnosis: Differential, Mood Disorders},
date-added = {2010-02-18 23:17:30 +0100},
date-modified = {2010-02-18 23:17:30 +0100},
doi = {10.1146/annurev.clinpsy.032408.153510},
pmid = {19327030},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Watson-2009-Annual%20review%20of%20clinical%20psychology_Differentiating%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5943},
rating = {0}
}
@article{Kelly:2008p3358,
author = {Patrick Kelly and Yinghui Zhou and John Whitehead and Nigel Stallard and Clive Bowman},
journal = {Stat Med},
title = {Sequentially testing for a gene-drug interaction in a genomewide analysis},
abstract = {Assaying a large number of genetic markers from patients in clinical trials is now possible in order to tailor drugs with respect to efficacy. The statistical methodology for analysing such massive data sets is challenging. The most popular type of statistical analysis is to use a univariate test for each genetic marker, once all the data from a clinical study have been collected. This paper presents a sequential method for conducting an omnibus test for detecting gene-drug interactions across the genome, thus allowing informed decisions at the earliest opportunity and overcoming the multiple testing problems from conducting many univariate tests. We first propose an omnibus test for a fixed sample size. This test is based on combining F-statistics that test for an interaction between treatment and the individual single nucleotide polymorphism (SNP). As SNPs tend to be correlated, we use permutations to calculate a global p-value. We extend our omnibus test to the sequential case. In order to control the type I error rate, we propose a sequential method that uses permutations to obtain the stopping boundaries. The results of a simulation study show that the sequential permutation method is more powerful than alternative sequential methods that control the type I error rate, such as the inverse-normal method. The proposed method is flexible as we do not need to assume a mode of inheritance and can also adjust for confounding factors. An application to real clinical data illustrates that the method is computationally feasible for a large number of SNPs.},
affiliation = {School of Public Health, The University of Sydney, Sydney, NSW 2006, Australia. pkelly@health.usyd.edu.au},
number = {11},
pages = {2022--34},
volume = {27},
year = {2008},
month = {May},
language = {eng},
keywords = {Data Interpretation: Statistical, Pharmacogenetics, Drug Design, Polymorphism: Single Nucleotide, Clinical Trials as Topic, Gene Frequency, Algorithms, Humans, Models: Statistical},
date-added = {2010-01-15 14:38:14 +0100},
date-modified = {2010-03-31 20:17:04 +0200},
doi = {10.1002/sim.3059},
pmid = {17979181},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3358},
rating = {4}
}
@article{Meulman:1996p2328,
author = {J J Meulman and W J Heiser},
title = {Visual display of interaction in multiway contingency tables by use of homogeneity analysis: The 2x2x2x2 case},
year = {1996},
date-added = {2010-01-10 12:56:32 +0100},
date-modified = {2010-01-10 12:57:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meulman-1996-_Visual%20display%20of%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2328},
rating = {0}
}
@article{Vanyukov:2009p12679,
author = {Michael M Vanyukov and Levent Kirisci and Lisa Moss and Ralph E Tarter and Maureen D Reynolds and Brion S Maher and Galina P Kirillova and Ty Ridenour and Duncan B Clark},
journal = {Behav Genet},
title = {Measurement of the risk for substance use disorders: phenotypic and genetic analysis of an index of common liability},
abstract = {The inability to quantify the risk for disorders, such as substance use disorders (SUD), hinders etiology research and development of targeted intervention. Based on the concept of common transmissible liability to SUD related to illicit drugs, a method enabling quantification of this latent trait has been developed, utilizing high-risk design and item response theory. This study examined properties of a SUD transmissible liability index (TLI) derived using this method. Sons of males with or without SUD were studied longitudinally from preadolescence to young adulthood. The properties of TLI, including its psychometric characteristics, longitudinal risk assessment and ethnic variation, were examined. A pilot twin study was conducted to analyze the composition of TLI's phenotypic variance. The data suggest that TLI has concurrent, incremental, predictive and discriminant validity, as well as ethnic differences. The data suggest a high heritability of the index in males. The results suggest applicability of the method for genetic and other etiology-related research, and for evaluation of individual risk.},
affiliation = {Center for Education and Drug Abuse Research, Department of Pharmaceutical Sciences, School of Pharmacy, University of Pittsburgh, 711 Salk Hall, Pittsburgh, PA 15261, USA. mmv@pitt.edu},
number = {3},
pages = {233--44},
volume = {39},
year = {2009},
month = {May},
language = {eng},
keywords = {Pilot Projects, Substance-Related Disorders, Child of Impaired Parents, Twins: Dizygotic, Age Factors, Street Drugs, Twins: Monozygotic, Diseases in Twins, Longitudinal Studies, Opioid-Related Disorders, Child, Cocaine-Related Disorders, Young Adult, Phenotype, Social Environment, Adolescent, Humans, Proportional Hazards Models, Genetic Predisposition to Disease, Marijuana Abuse, Risk, Male, Genotype, Logistic Models},
date-added = {2010-06-15 22:43:28 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9269-9},
pmid = {19377872},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vanyukov-2009-Behav%20Genet_Measurement%20of%20the%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12679},
rating = {4}
}
@article{Motsinger:2006p3199,
author = {A A Motsinger and B S Donahue and N J Brown and D M Roden and M D Ritchie},
journal = {Pac Symp Biocomput},
title = {Risk Factor Interactions and Genetic Effects Associated with Post-Operative Atrial Fibrillation},
abstract = {Postoperative Atrial Fibrillation (PoAF) is the most common arrhythmia after heart surgery, and continues to be a major cause of morbidity. Due to the complexity of this condition, many genes and/or environmental factors may play a role in susceptibility. Previous findings have shown several clinical and genetic risk factors for the development of PoAF. The goal of this study was to determine whether interactions among candidate genes and a variety of clinical factors are associated with PoAF. We applied the Multifactor Dimensionality Reduction (MDR) method to detect interactions in a sample of 940 adult subjects undergoing elective procedures of the heart or great vessels, requiring general anesthesia and sternotomy or thoracotomy, where 255 developed PoAF. We took a random sample of controls matched to the 255 AF cases for a total sample size of 510 individuals. MDR is a powerful statistical approach used to detect gene-gene or gene-environment interactions in the presence or absence of statistically detectable main effects in pharmacogenomics studies. We chose polymorphisms in three (IL-6, ACE, and ApoE) candidate genes, all previously implicated in PoAF risk, and a variety of environmental factors for analysis. We detected a single locus effect of IL-6 which is able to correctly predict disease status with 58.8% (p<0.001) accuracy. We also detected an interaction between history of AF and length of hospital stay that predicted disease status with 68.34% (p<0.001) accuracy. These findings demonstrate the utility of novel computational approaches for the detection of disease susceptibility genes. While each of these results looks interesting, they only explain part of PoAF susceptibility. It will be important to collect a larger set of candidate genes and environmental factors to better characterize the development of PoAF. Applying this approach, we were able to elucidate potential associations with postoperative atrial fibrillation.},
pages = {584--595},
volume = {11},
year = {2006},
date-added = {2010-01-14 20:58:28 +0100},
date-modified = {2010-07-29 19:42:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Motsinger-2006-Pac%20Symp%20Biocomput_Risk%20Factor%20Interact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3199},
rating = {0}
}
@article{RabeHesketh:2008p3595,
author = {S Rabe-Hesketh and A Skrondal and H K Gjessing},
journal = {Biometrics},
title = {Biometrical modeling of twin and family data using standard mixed model software},
abstract = {Biometrical genetic modeling of twin or other family data can be used to decompose the variance of an observed response or 'phenotype' into genetic and environmental components. Convenient parameterizations requiring few random effects are proposed, which allow such models to be estimated using widely available software for linear mixed models (continuous phenotypes) or generalized linear mixed models (categorical phenotypes). We illustrate the proposed approach by modeling family data on the continuous phenotype birth weight and twin data on the dichotomous phenotype depression. The example data sets and commands for Stata and R/S-PLUS are available at the Biometrics website.},
affiliation = {Graduate School of Education {\&} Graduate Group in Biostatistics, University of California, Berkeley, CA 94720, USA. sophiarh@berkeley.edu},
number = {1},
pages = {280--8},
volume = {64},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Humans, Models: Statistical, Family, Models: Biological, Software, Twins, Biometry, Algorithms, Computer Simulation},
date-added = {2010-01-15 21:23:48 +0100},
date-modified = {2010-01-15 21:23:53 +0100},
doi = {10.1111/j.1541-0420.2007.00803.x},
pii = {BIOM803},
pmid = {17484777},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2008-Biometrics_Biometrical%20modeling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3595},
read = {Yes},
rating = {4}
}
@article{BatistaNeves:2009p4545,
author = {Susana Batista-Neves and Lucas C Quarantini and Amanda Galv{\~a}o-de Almeida and Maur{\'\i}cio Cardeal and Acioly L Lacerda and Raymundo Paran{\'a} and Irismar Reis de-Oliveira and Rodrigo A Bressan and Angela Miranda-Scippa},
journal = {Braz J Infect Dis},
title = {Impact of psychiatric disorders on the quality of life of brazilian HCV-infected patients},
abstract = {The aim of our study was to determine the impact of psychiatric comorbidities on the health-related quality of life of HCV-infected patients. Assessment of clinical, socio-demographic and quality of life data of the patients followed up at a Hepatology unit was performed by using a standard questionnaire and the SF-36 instrument. Psychiatric diagnoses were confirmed by using the Mini International Neuropsychiatric Interview, Brazilian version 5.0.0 (MINI Plus). Evaluation using the MINI plus demonstrated that 46 (51%) patients did not have any psychiatric diagnosis, while 44 (49%) had at least one psychiatric diagnosis. Among patients with a psychiatric comorbidity, 26 (59.1%) had a current mental disorder, out of which 22 (84.6%) had not been previously diagnosed. Patients with psychiatric disorders had lower scores in all dimensions of the SF-36 when compared to those who had no psychiatric diagnosis. Scores of physical functioning and bodily pain domains were lower for those suffering from a current psychiatric disorder when compared to those who had had a psychiatric disorder in the past. Females had lower scores of bodily pain and mental health dimensions when compared to males. Scores for mental health dimension were also lower for patients with advanced fibrosis. The presence of a psychiatric comorbidity was the variable that was most associated with the different scores in the SF-36, compared to other variables such as age, gender, aminotransferase levels, and degree of fibrosis.},
affiliation = {Hospital Universit{\'a}rio, Federal University of Bahia, Brazil.},
number = {1},
pages = {40--3},
volume = {13},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Hepatitis C: Chronic, Male, Mental Disorders, Female, Adult, Young Adult, Cross-Sectional Studies, Brazil, Questionnaires, Health Status, Humans, Middle Aged, Socioeconomic Factors, Quality of Life, Comorbidity},
date-added = {2010-01-29 22:28:52 +0100},
date-modified = {2010-01-29 22:28:52 +0100},
pii = {S1413-86702009000100009},
pmid = {19578628},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4545},
rating = {0}
}
@article{Okoniewski:2008p1605,
author = {Micha{\l} J Okoniewski and Crispin J Miller},
journal = {PLoS Comput Biol},
title = {Comprehensive analysis of affymetrix exon arrays using BioConductor},
affiliation = {Applied Computational Biology and Bioinformatics Group, Cancer Research UK.},
number = {2},
pages = {e6},
volume = {4},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Software, Sequence Analysis: DNA, Algorithms, Chromosome Mapping, RNA Splice Sites, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-07 17:00:38 +0100},
date-modified = {2010-01-07 17:00:38 +0100},
doi = {10.1371/journal.pcbi.0040006},
pmid = {18463711},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Okoniewski-2008-PLoS%20Comput%20Biol_Comprehensive%20analys.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1605},
rating = {0}
}
@article{Piek:2009p4205,
author = {Jan P Piek and Nicholas C Barrett and Murray J Dyck and Angela M Reiersen},
journal = {Dev Med Child Neurol},
title = {Can the Child Behavior Checklist be used to screen for motor impairment?},
abstract = {Aim It has been suggested that one approach to identifying motor impairment in children is to use the Child Behavior Checklist (CBCL) as a screening tool. The current study examined the validity of the CBCL in identifying motor impairment. Method A total of 398 children, 206 females and 192 males, aged from 3 years 9 months to 14 years 10 months were assessed on the McCarron Assessment of Neuromuscular Development to determine their motor ability. Parents completed the CBCL. Results The 'Clumsy' item on the CBCL was found to predict motor ability independent of the child's age, sex, and scores on other items of the CBCL. However, the sensitivity of the 'Clumsy' item in terms of identifying motor impairment was found to be a low 16.7% compared with specificity of 93.2%. The item 'Not liked' was also found to be a significant predictor of motor impairment. Interpretation Although the 'Clumsy' and 'Not liked' items were found to have a relationship with motor ability, they should not be relied upon to categorize children as motor impaired versus not impaired. It is possible that these items may be better indicators of motor impairment in children with developmental disorders such as attention-deficit-hyperactivity disorder, but clinical samples are needed to address this.},
affiliation = {School of Psychology, Curtin University of Technology, Perth, Western Australia, Australia.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-21 07:58:33 +0100},
date-modified = {2010-01-21 07:58:33 +0100},
doi = {10.1111/j.1469-8749.2009.03326.x},
pii = {DMCN3326},
pmid = {20015254},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4205},
rating = {0}
}
@article{Fox:2003p4099,
author = {J Fox},
journal = {Journal of Statistical Software},
title = {Effect Displays in R for Generalised Linear Models},
abstract = {This paper describes the implementation in R of a method for tabular or graphical display of terms in a complex generalised linear model. By complex, I mean a model that contains terms related by marginality or hierarchy, such as polynomial terms, or main effects and interactions. I call these tables or graphs effect displays. Effect displays are constructed by identifying high-order terms in a generalised linear model. Fitted values under the model are computed for each such term. The lower-order `relatives' of a high-order term (e.g., main effects marginal to an interaction) are absorbed into the term, allowing the predictors appearing in the high-order term to range over their values. The values of other predictors are fixed at typical values: for example, a covariate could be fixed at its mean or median, a factor at its proportional distribution in the data, or to equal proportions in its several levels. Variations of effect displays are also described, including representation of terms higher-order to any appearing in the model.},
number = {15},
volume = {8},
year = {2003},
date-added = {2010-01-19 23:30:14 +0100},
date-modified = {2010-01-19 23:30:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2003-Journal%20of%20Statistical%20Software_Effect%20Displays%20in%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4099},
rating = {0}
}
@article{Jaeger:2007p14004,
author = {T Florian Jaeger},
title = {Categorical Data Analysis: Away from ANOVAs (transformation or not) and towards Logit Mixed Models},
abstract = {This paper identifies several serious problems with the widespread use of ANOVAs for the analysis of categorical outcome variables such as forced-choice variables, question-answer accuracy, choice in production (e.g. in syntactic priming research), et cetera. I show that even after applying the arcsine-square-root transformation to proportional data, ANOVA can yield spurious results. I discuss conceptual issues underlying these problems and alternatives provided by modern statistics. Specifically, I introduce ordinary logit models (i.e. logistic regression), which are well-suited to analyze categorical data and offer many advantages over ANOVA. Unfortunately, ordinary logit models do not include random effect modeling. To address this issue, I describe mixed logit models (Generalized Linear Mixed Models for binomially distributed outcomes, Breslow {\&} Clayton, 1993), which combine the advantages of ordinary logit models with the ability to account for random subject and item effects in one step of analysis. Throughout the paper, I use a psycholinguistic data set to compare the different
statistical methods.},
year = {2007},
date-added = {2010-08-04 09:28:35 +0200},
date-modified = {2010-08-04 09:29:16 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jaeger-2007-_Categorical%20Data%20Ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14004},
rating = {0}
}
@article{Gavin:1989p8282,
author = {D R Gavin and H E Ross and H A Skinner},
journal = {Br J Addict},
title = {Diagnostic validity of the drug abuse screening test in the assessment of DSM-III drug disorders},
abstract = {Diagnostic validity of the DAST was assessed using a clinical sample of 501 drug/alcohol patients. Various DAST cut-points were validated against DSM-III drug abuse/dependence criteria, as assessed by the Diagnostic Interview Schedule. The DAST attained 85% overall accuracy in classifying patients according to DSM-III diagnosis. This accuracy was maintained between DAST score cut-points of 5/6 through 9/10. Receiver Operating Characteristic analysis indicated that 5/6 was the optimum threshold score. The DAST was also correlated with demographic variables, psychiatric history, and drug use. The results showed very good concurrent and discriminant validity. This study concluded that fairly accurate estimation of DSM-III drug criteria could be made using a brief self-administered questionnaire (DAST). However, caution must be expressed when generalizing these findings to other contexts (e.g. the justice system) where subjects may have stronger motivation to under-report drug involvement.},
note = {psytools},
number = {3},
pages = {301--7},
volume = {84},
year = {1989},
month = {Mar},
language = {eng},
keywords = {Predictive Value of Tests, Adult, Manuals as Topic, Female, Male, Humans, Psychometrics, Substance-Related Disorders, Psychiatric Status Rating Scales, Sensitivity and Specificity},
date-added = {2010-03-20 20:04:50 +0100},
date-modified = {2010-03-20 20:05:05 +0100},
pmid = {2650770},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gavin-1989-Br%20J%20Addict_Diagnostic%20validity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8282},
read = {Yes},
rating = {0}
}
@article{Pek:2009p493,
author = {Jolynn Pek and Sonya K Sterba and Bethany E Kok and Daniel J Bauer},
journal = {Multivariate Behavioral Research},
title = {Estimating and Visualizing Nonlinear Relations Among Latent Variables: A
Semiparametric Approach},
abstract = {The graphical presentation of any scientific finding enhances its description, in- terpretation, and evaluation. Research involving latent variables is no exception, especially when potential nonlinear effects are suspect. This article has multiple aims. First, it provides a nontechnical overview of a semiparametric approach to modeling nonlinear relationships among latent variables using mixtures of linear structural equations. Second, it provides several examples showing how the method works and how it is implemented and interpreted in practical applications. In particular, this article examines the potentially nonlinear relationships between positive and negative affect and cognitive processing. Third, a recommended dis- play format for illustrating latent bivariate relationships is demonstrated. Finally, the article describes an R package and an online utility that generate these displays automatically.},
pages = {407--436},
volume = {44},
year = {2009},
date-added = {2010-01-03 12:58:10 +0100},
date-modified = {2010-01-03 12:59:45 +0100},
doi = {10.1080/00273170903103290},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pek-2009-Multivariate%20Behavioral%20Research_Estimating%20and%20Visua.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p493},
rating = {0}
}
@article{Zheng:2007p11587,
author = {Y Zheng and M J Gierl and Y Cui},
journal = {NCME},
title = {Using Real Data to Compare DIF Detection and Effect Size Measures among Mantel-Haenszel, SIBTEST, and Logistic Regression Procedures},
abstract = {To date, many studies have been conducted to compare the performance of different DIF
procedures using simulated data sets. However, some results from these simulation studies are inconsistent with one other (e.g., Hidalgo {\&} L{\'o}pez-Pina, 2004; Jodoin {\&} Gierl, 2001). This study used real data to systematically investigate the consistencies of DIF detection and effect size among three widely-used DIF procedures: Mantel-Haenszel (MH), Simultaneous Item Bias Test (SIBTEST), and logistic regression (LR). Several indicators, including correlations among DIF procedures effect size measures, matching percentages, and relative matching percentages, were used to evaluate the consistencies among the DIF procedures. The results showed high correlations among DIF effect size measures, moderate to high matching percentages among DIF classifications, and a broad range of relative matching percentages among DIF procedures.},
year = {2007},
date-added = {2010-05-09 18:33:09 +0200},
date-modified = {2010-05-09 18:33:47 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zheng-2007-NCME_Using%20Real%20Data%20to%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11587},
rating = {0}
}
@article{Mohamed:2010p12316,
author = {S Mohamed and K Heller and Z Ghahramani},
title = {Bayesian Exponential Family PCA},
abstract = {Principal Components Analysis (PCA) has become established as one of the key tools for dimensionality reduction when dealing with real valued data. Ap- proaches such as exponential family PCA and non-negative matrix factorisation have successfully extended PCA to non-Gaussian data types, but these techniques fail to take advantage of Bayesian inference and can suffer from problems of over- fitting and poor generalisation. This paper presents a fully probabilistic approach to PCA, which is generalised to the exponential family, based on Hybrid Monte Carlo sampling. We describe the model which is based on a factorisation of the observed data matrix, and show performance of the model on both synthetic and real data.},
date-added = {2010-06-12 09:35:10 +0200},
date-modified = {2010-06-12 09:35:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mohamed--_Bayesian%20Exponential.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12316},
rating = {0}
}
@article{Harchaoui:2007p12333,
author = {Z Harchaoui and C L{\'e}vy-Leduc},
journal = {NIPS},
title = {Catching Change-points with Lasso},
abstract = {We propose a new approach for dealing with the estimation of the location of change-points in one-dimensional piecewise constant signals observed in white noise. Our approach consists in reframing this task in a variable selection con- text. We use a penalized least-squares criterion with a l1-type penalty for this purpose. We prove some theoretical results on the estimated change-points and on the underlying piecewise constant estimated function. Then, we explain how to implement this method in practice by combining the LAR algorithm and a re- duced version of the dynamic programming algorithm and we apply it to synthetic and real data.},
year = {2007},
date-added = {2010-06-12 10:12:15 +0200},
date-modified = {2010-07-29 19:41:58 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harchaoui-2007-NIPS_Catching%20Change-poin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12333},
rating = {0}
}
@article{Hansen:2009p12947,
author = {Nathan B Hansen and Ellen L Vaughan and Courtenay E Cavanaugh and Christian M Connell and Kathleen J Sikkema},
journal = {Health Psychol},
title = {Health-related quality of life in bereaved HIV-positive adults: relationships between HIV symptoms, grief, social support, and Axis II indication},
abstract = {OBJECTIVE: This study evaluated a model of the impact of borderline and antisocial personality disorder indications on HIV symptoms and health-related quality of life (HRQoL) in AIDS-bereaved adults, accounting for grief severity, social support, and years since HIV diagnosis. DESIGN: Structural equation modeling was used to test the proposed model in a sample of 268 HIV-seropositive adults enrolled in an intervention for coping with AIDS-related bereavement. MAIN OUTCOME MEASURES: Functional assessment of HIV infection, HIV symptoms. RESULTS: The proposed model demonstrated excellent fit with study data and all hypothesized paths were supported. Personality disorder indication was directly related to HIV symptoms and HRQoL and indirectly related through both social support and grief severity. Social support was negatively related to HIV symptoms and positively related to HRQoL, while grief severity was positively related to HIV symptoms and negatively related to HRQoL. Finally, HIV symptoms had a direct negative relationship with HRQoL. CONCLUSION: Personality disorders have a direct negative effect on HIV symptoms and HRQoL and indirect effects through grief severity and social support.},
affiliation = {Department of Psychiatry, Yale University School of Medicine, New Haven, CT 06511, USA. nathan.hansen@yale.edu},
number = {2},
pages = {249--57},
volume = {28},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Sick Role, Social Support, Adult, Female, HIV Seropositivity, Grief, Quality of Life, Antisocial Personality Disorder, Psychotherapy: Group, Comorbidity, Male, Personality Inventory, Adaptation: Psychological, Models: Psychological, Homosexuality: Male, Humans, Statistics as Topic, Acquired Immunodeficiency Syndrome, Bereavement, Borderline Personality Disorder},
date-added = {2010-06-25 22:03:16 +0200},
date-modified = {2010-06-25 22:03:17 +0200},
doi = {10.1037/a0013168},
pii = {2009-03297-013},
pmid = {19290717},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hansen-2009-Health%20Psychol_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12947},
rating = {0}
}
@article{Riddle:2002p6717,
author = {A S Riddle and M R Blais and U Hess},
journal = {Cirano},
title = {Static Versus Dynamic Structural Models of Depression: The Case of the CES-D},
abstract = {Depression is composed of multiple subcomponents including social, cognitive, affective, and somatic symptomatology. Many widely used self-report scales are also multidimensional, suggesting that the subcomponents of depression are empirically differentiated, yet the use of a composite score is the common practice. The authors argue that a closer examination of the subscales of symptom inventories, and their interrelationships, can further our understanding of the development and persistence of depression. Structural equation modeling is used on the French version of CES-D responses (Radloff, 1977) from 1,734 participants, providing an explicit test of causal relations between several response classes commonly associated with depression. These structural models are consistent with a view of depression as a process that unfolds over time and are tested within both a cross-sectional and a prospective framework. They are compared to a higher-order factor model which speaks to the nature, but not the development, of depression.},
volume = {37},
year = {2002},
date-added = {2010-03-05 22:10:06 +0100},
date-modified = {2010-03-05 22:11:04 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Riddle-2002-Cirano_Static%20Versus%20Dynami.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6717},
rating = {0}
}
@article{BecueBertaut:2008p4078,
author = {M B{\'e}cue-Bertaut and J Pag{\`e}s},
journal = {Computational Statistics},
title = {Multiple factor analysis and clustering of a mixture of quantitative, categorical and frequency data},
abstract = {Analysing and clustering units described by a mixture of sets of quantitative, categorical and frequency variables is a relevant challenge. Multiple factor analysis is extended to include these three types of variables in order to balance the influence of the different sets when a global distance between units is computed. Suitable coding is adopted to keep as close as possible to the approach offered by principal axes methods, that is, principal component analysis for quantitative sets, multiple correspondence analysis for categorical sets and correspondence analysis for frequency sets. In addition, the presence of frequency sets poses the problem of selecting the unit weighting, since this is fixed by the user (usually uniform) in principal component analysis and multiple correspondence analysis, but imposed by the table margin in correspondence analysis. The method's main steps are presented and illustrated by an example extracted from a survey that aimed to cluster respondents to a questionnaire that included both closed and open-ended questions.},
pages = {3255--3268},
volume = {52},
year = {2008},
date-added = {2010-01-19 15:56:06 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/B%C3%A9cue-Bertaut-2008-Computational%20Statistics_Multiple%20factor%20anal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4078},
rating = {0}
}
@article{Okazaki:2009p12790,
author = {S Okazaki},
journal = {Perspectives on Psychological Science},
title = {Impact of Racism on Ethnic Minority Mental Health},
abstract = {A problem in ethnic minority mental health that can be solved in the foreseeable future is understanding how subtle and covert forms of racism affect psychological health of racial minorities. Although scientific psychology has generated a large body of literature on racial prejudice, stereotypes, intergroup attitudes, and racial bias and their often implicit and automatic nature, relatively little is known about the effects of these subtle racial bias on minority indi- viduals. Following a selective review of recent developments in experimental psychology and multicultural psychology, I suggest some promising approaches and opportunities for future integration that would advance the field.},
number = {1},
pages = {103--107},
volume = {4},
year = {2009},
date-added = {2010-06-18 21:07:35 +0200},
date-modified = {2010-06-18 21:08:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Okazaki-2009-Perspectives%20on%20Psychological%20Science_Impact%20of%20Racism%20on.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12790},
rating = {0}
}
@article{Zeilis:2007p1769,
author = {A Zeilis and K Hornik and P Murrell},
title = {Escaping RGBland: Selecting Colors for Statistical Graphics},
abstract = {Statistical graphics are often augmented by the use of color coding information contained in some variable. When this involves the shading of areas (and not only points or lines)--- e.g., as in bar plots, pie charts, mosaic displays or heatmaps---it is important that the colors are perceptually based and do not introduce optical illusions or systematic bias. Here, we discuss how the perceptually-based Hue-Chroma-Luminance (HCL) color space can be used for deriving suitable color palettes for coding categorical data (qualitative palettes) and numerical variables (sequential and diverging palettes).},
affiliation = {Department of Statistics and Mathematics Wirtschaftsuniversit{\"a}t Wien},
year = {2007},
keywords = {HSV colors, perceptually-based color space, diverging palette, HCL colors, qualitative palette, sequential palette},
date-added = {2010-01-09 21:28:16 +0100},
date-modified = {2010-01-09 21:29:51 +0100},
url = {http://statmath.wu-wien.ac.at/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zeilis-2007-_Escaping%20RGBland%20Se.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1769},
rating = {0}
}
@article{Hampson:2009p13927,
author = {Sarah E Hampson and Lewis R Goldberg and Thomas M Vogt and Teresa A Hillier and Joan P Dubanoski},
journal = {J Health Psychol},
title = {Using physiological dysregulation to assess global health status: associations with self-rated health and health behaviors},
abstract = {Six measures of physiological dysregulation were derived from 11 clinically assessed biomarkers, and related to health outcomes and health behaviors for the Hawaii Personality and Health cohort (N = 470). Measures summing extreme scores at one tail of the biomarker distributions performed better than ones summing both tails, and continuous measures performed better than count scores. Health behaviors predicted men's dysregulation but not women's. Dysregulation and health behaviors predicted self-rated health for both men and women, and depressive symptoms predicted self-rated health only for women. These findings provide preliminary guidelines for constructing valid summary measures of global health status for use in health psychology.},
affiliation = {University of Surrey, UK {\&} Oregon Research Institute, Eugene, OR, USA. sarah@ori.org},
number = {2},
pages = {232--41},
volume = {14},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Humans, Biological Markers, Health Behavior, Male, Health Status Indicators, Allostasis, Middle Aged, World Health, Hawaii, Adult, Disclosure, Regression Analysis, Female},
date-added = {2010-07-29 18:58:14 +0200},
date-modified = {2010-07-29 18:58:15 +0200},
doi = {10.1177/1359105308100207},
pii = {14/2/232},
pmid = {19237490},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hampson-2009-J%20Health%20Psychol_Using%20physiological.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13927},
rating = {0}
}
@article{Slawski:2008p11612,
author = {M Slawski and M Daumer and A-L Boulesteix},
title = {CMA - A comprehensive Bioconductor package for supervised classification with high dimensional data},
number = {29},
year = {2008},
date-added = {2010-05-11 21:41:36 +0200},
date-modified = {2010-05-11 21:42:23 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Slawski-2008-_CMA%20-%20A%20comprehensiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11612},
rating = {0}
}
@article{Brown:2006p6464,
author = {David Brown and Peter Volkers and Simon Day},
journal = {Stat Med},
title = {An introductory note to CHMP guidelines: choice of the non-inferiority margin and data monitoring committees},
abstract = {The Committee on Medical Products for Human Use (CHMP) has recently issued two new guidance documents that are of particular note to statisticians. The purpose of this short note is to give a little background to the origins of these documents and a flavour of some of their most important features. The two guidelines are reproduced as the next two papers in the journal.},
affiliation = {MHRA, Market Towers, 1 Nine Elms Lane, London SW8 5NQ, U.K.},
number = {10},
pages = {1623--7},
volume = {25},
year = {2006},
month = {May},
language = {eng},
keywords = {Therapeutic Equivalency, Clinical Trials Data Monitoring Committees, European Union, Clinical Trials as Topic, Pharmaceutical Preparations, Humans, Guidelines as Topic},
date-added = {2010-02-23 08:33:22 +0100},
date-modified = {2010-02-23 08:33:22 +0100},
doi = {10.1002/sim.2561},
pmid = {16639776},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brown-2006-Stat%20Med_An%20introductory%20note.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6464},
rating = {0}
}
@article{Herzog:2007p3013,
author = {W Herzog and A Boomsma and S Reinecke},
journal = {Structural Equation Modeling},
title = {The Model-Size Effect on Traditional and Modified Tests of Covariance Structures},
abstract = {According to Kenny and McCoach (2003), chi-square tests of structural equation models produce inflated Type I error rates when the degrees of freedom increase. So far, the amount of this bias in large models has not been quantified. In a Monte Carlo study of confirmatory factor models with a range of 48 to 960 degrees of freedom it was found that the traditional maximum likelihood ratio statistic, TML, overestimates nominal Type I error rates up to 70% under conditions of multivariate normality. Some alternative statistics for the correction of model-size effects were also investigated: the scaled Satorra--Bentler statistic, TS C ; the adjusted Satorra-- Bentler statistic, TAD (Satorra {\&} Bentler, 1988, 1994); corresponding Bartlett corrections, TMLb, TSCb, and TADb (Bartlett, 1950); and corresponding Swain corrections, TMLs, TSCs, and TADs (Swain, 1975). The empirical findings in- dicate that the model test statistic TMLs should be applied when large structural equation models are analyzed and the observed variables have (approximately) a multivariate normal distribution.},
number = {3},
pages = {361--390},
volume = {14},
year = {2007},
date-added = {2010-01-13 23:27:06 +0100},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Herzog-2007-Structural%20Equation%20Modeling_The%20Model-Size%20Effec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3013},
rating = {0}
}
@article{Pocock:2007p4696,
author = {Stuart J Pocock and Thomas G Travison and Lisa M Wruck},
journal = {Trials},
title = {Figures in clinical trial reports: current practice {\&} scope for improvement},
abstract = {BACKGROUND: Most clinical trial publications include figures, but there is little guidance on what results should be displayed as figures and how. PURPOSE: To evaluate the current use of figures in Trial reports, and to make constructive suggestions for future practice. METHODS: We surveyed all 77 reports of randomised controlled trials in five general medical journals during November 2006 to January 2007. The numbers and types of figures were determined, and then each Figure was assessed for its style, content, clarity and suitability. As a consequence, guidelines are developed for presenting figures, both in general and for each specific common type of Figure. RESULTS: Most trial reports contained one to three figures, mean 2.3 per article. The four main types were flow diagram, Kaplan Meier plot, Forest plot (for subgroup analyses) and repeated measures over time: these accounted for 92% of all figures published. For each type of figure there is a considerable diversity of practice in both style and content which we illustrate with selected examples of both good and bad practice. Some pointers on what to do, and what to avoid, are derived from our critical evaluation of these articles' use of figures. CONCLUSION: There is considerable scope for authors to improve their use of figures in clinical trial reports, as regards which figures to choose, their style of presentation and labelling, and their specific content. Particular improvements are needed for the four main types of figures commonly used.},
affiliation = {London School of Hygiene and Tropical Medicine, London, UK. stuart.pocock@lshtm.ac.uk},
pages = {36},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-01-30 16:17:44 +0100},
date-modified = {2010-07-29 19:54:38 +0200},
doi = {10.1186/1745-6215-8-36},
pii = {1745-6215-8-36},
pmid = {18021449},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pocock-2007-Trials_Figures%20in%20clinical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4696},
rating = {0}
}
@article{Martyn:1989,
author = {CN Martyn and C Osmond and JA Edwardson and DJP Barker and EC Harris and RF Lacey},
journal = {Lancet},
title = {Geographical relation between Alzheimer's disease and aluminium in drinking water},
abstract = {In a survey of eighty-eight county districts within England and Wales, rates of Alzheimer's disease in people under the age of 70 years were estimated from the records of the computerised tomographic (CT) scanning units that served these districts. Rates were adjusted to compensate for differences in distance from the nearest CT scanning unit and for differences in the size of the population served by the units. Aluminium concentrations in water over the past 10 years were obtained from water authorities and water companies. The risk of Alzheimer's disease was 1.5 times higher in districts where the mean aluminium concentration exceeded 0.11 mg/l than in districts where concentrations were less than 0.01 mg/l. There was no evidence of a relation between other causes of dementia, or epilepsy, and aluminium concentrations in water.},
number = {8629},
pages = {59--62},
volume = {1},
year = {1989},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1035},
rating = {0}
}
@article{Zumbo:1999p4611,
author = {Bruno D Zumbo},
title = {A Handbook on the Theory and Methods of Differential Item Functioning (DIF)},
abstract = {That a test not be biased is an important consideration in the selection and use of any psychological test. That is, it is essential that a test is fair to all applicants, and is not biased against a segment of the applicant population. Bias can result in systematic errors that distort the inferences made in selection and classification. In many cases, test items are biased due to the fact that they contain sources of difficulty that are irrelevant or extraneous to the construct being measured, and these extraneous or irrelevant factors affect performance. Perhaps the item is tapping a secondary factor or factors over-and- above the one of interest. This issue, known as test bias, has been the subject of a great deal of recent research, and a technique called Differential Item Functioning (DIF) analysis has become the new standard in psychometric bias analysis. The purpose of this handbook is to provide a perspective and foundation for DIF, a review and recommendation of a family of statistical techniques (i.e., logistic regression) to conduct DIF analyses, and a series of examples to motivate its use in practice. DIF statistical techniques are based on the principle that if different groups of test-takers (e.g., males and females) have roughly the same level of something (e.g., knowledge), then they should perform similarly on individual test items regardless of group membership. In their essence, all DIF techniques match test takers from different groups according to their total test scores and then investigate how the different groups performed on individual test items to determine whether the test items are creating problems for a particular group.},
year = {1999},
date-added = {2010-01-30 15:10:56 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zumbo-1999-_A%20Handbook%20on%20the%20Th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4611},
rating = {0}
}
@article{Domschke:2010p10538,
author = {Katharina Domschke and Stephan Stevens and Bettina Pfleiderer and Alexander L Gerlach},
journal = {Clin Psychol Rev},
title = {Interoceptive sensitivity in anxiety and anxiety disorders: an overview and integration of neurobiological findings},
abstract = {Interoceptive sensitivity, particularly regarding heartbeat, has been suggested to play a pivotal role in the pathogenesis of anxiety and anxiety disorders. This review provides an overview of methods which are frequently used to assess heartbeat perception in clinical studies and summarizes presently available results referring to interoceptive sensitivity with respect to heartbeat in anxiety-related traits (anxiety sensitivity, state/trait anxiety), panic disorder and other anxiety disorders. In addition, recent neurobiological studies of neuronal activation correlates of heartbeat perception using positron emission tomography (PET), functional magnetic resonance imaging (fMRI) or electroencephalographic (EEG) techniques are presented. Finally, possible clinical and therapeutic implications (e.g., beta-blockers, biofeedback therapy, cognitive interventions and interoceptive exposure) of the effects of heartbeat perception on anxiety and the anxiety disorders and the potential use of interoceptive sensitivity as an intermediate phenotype of anxiety disorders in future neurobiological and genetic studies are discussed.},
affiliation = {Department of Psychiatry and Psychotherapy, University of M{\"u}nster, Albert-Schweitzer-Strasse 11, D-48149 M{\"u}nster, Germany. katharina.domschke@ukmuenster.de},
number = {1},
pages = {1--11},
volume = {30},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Anxiety, Heart Rate, Perception, Emotions, Awareness, Brain, Anxiety Disorders, Humans, Attention},
date-added = {2010-04-07 11:31:47 +0200},
date-modified = {2010-04-07 11:31:47 +0200},
doi = {10.1016/j.cpr.2009.08.008},
pii = {S0272-7358(09)00114-7},
pmid = {19751958},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VB8-4X3W499-1&_user=2432700&_coverDate=02%252F28%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=264bc6a3a7572fa71fdc012c99f4c081},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Domschke-2010-Clin%20Psychol%20Rev_Interoceptive%20sensit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10538},
rating = {0}
}
@article{Kerr:2001p13190,
author = {M K Kerr and G A Churchill},
journal = {Proc Natl Acad Sci USA},
title = {Bootstrapping cluster analysis: assessing the reliability of conclusions from microarray experiments},
abstract = {We introduce a general technique for making statistical inference from clustering tools applied to gene expression microarray data. The approach utilizes an analysis of variance model to achieve normalization and estimate differential expression of genes across multiple conditions. Statistical inference is based on the application of a randomization technique, bootstrapping. Bootstrapping has previously been used to obtain confidence intervals for estimates of differential expression for individual genes. Here we apply bootstrapping to assess the stability of results from a cluster analysis. We illustrate the technique with a publicly available data set and draw conclusions about the reliability of clustering results in light of variation in the data. The bootstrapping procedure relies on experimental replication. We discuss the implications of replication and good design in microarray experiments.},
affiliation = {The Jackson Laboratory, Bar Harbor, ME 04609, USA.},
number = {16},
pages = {8961--5},
volume = {98},
year = {2001},
month = {Jul},
language = {eng},
keywords = {Analysis of Variance, Models: Statistical, Oligonucleotide Array Sequence Analysis, Cluster Analysis},
date-added = {2010-07-01 15:23:42 +0200},
date-modified = {2010-07-01 15:23:49 +0200},
doi = {10.1073/pnas.161273698},
pii = {161273698},
pmid = {11470909},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kerr-2001-Proc%20Natl%20Acad%20Sci%20USA_Bootstrapping%20cluste.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13190},
rating = {5}
}
@article{Hooper:2008p6791,
author = {D Hooper and J Coughlan and M R Mullen},
journal = {The Electronic Journal of Business Research Methods},
title = {Structural Equation Modelling: Guidelines for Determining Model Fit},
abstract = {The following paper presents current thinking and research on fit indices for structural equation modelling. The paper presents a selection of fit indices that are widely regarded as the most informative indices available to researchers. As well as outlining each of these indices, guidelines are presented on their use. The paper also provides reporting strategies of these indices and concludes with a discussion on the future of fit indices.},
number = {1},
pages = {53--60},
volume = {6},
year = {2008},
date-added = {2010-03-05 22:29:06 +0100},
date-modified = {2010-03-05 22:30:15 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hooper-2008-The%20Electronic%20Journal%20of%20Business%20Research%20Methods_Structural%20Equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6791},
rating = {0}
}
@inproceedings{Gerber:1994,
author = {ER Gerber},
journal = {Proceedings},
title = {Hidden assumptions: The use of vignettes in cognitive interviewing},
abstract = {This paper examines the use of vignettes in cognitive particular living situations, and to provide us with interviews as a means of examining this evidence of the way respondents use residence terms. implicit social knowledge. Our intent was to investigate The first aim was accomplished by choosing situations in a broad range of naturally occurring terms and concepts, which we believed that respondents might have difficulty and not just those which appear in the roster questions in defining...},
year = {1994},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:44:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p931},
rating = {0}
}
@article{Zhu:2009p3741,
author = {Chengsong Zhu and Jianming Yu},
journal = {Genetics},
title = {Nonmetric multidimensional scaling corrects for population structure in association mapping with different sample types},
abstract = {Recent research has developed various promising methods to control for population structure in genomewide association mapping of complex traits, but systematic examination of how well these methods perform under different genetic scenarios is still lacking. Appropriate methods for controlling genetic relationships among individuals need to balance the concern of false positives and statistical power, which can vary for different association sample types. We used a series of simulated samples and empirical data sets from cross- and self-pollinated species to demonstrate the performance of several contemporary methods in correcting for different types of genetic relationships encountered in association analysis. We proposed a two-stage dimension determination approach for both principal component analysis and nonmetric multidimensional scaling (nMDS) to capture the major structure pattern in association mapping samples. Our results showed that by exploiting both genotypic and phenotypic information, this two-stage dimension determination approach balances the trade-off between data fit and model complexity, resulting in an effective reduction in false positive rate with minimum loss in statistical power. Further, the nMDS technique of correcting for genetic relationship proved to be a powerful complement to other existing methods. Our findings highlight the significance of appropriate application of different statistical methods for dealing with complex genetic relationships in various genomewide association studies.},
affiliation = {Department of Agronomy, Kansas State University, Manhattan, Kansas, 66506, USA.},
number = {3},
pages = {875--88},
volume = {182},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Genetics: Population, Algorithms, Crosses: Genetic, Quantitative Trait: Heritable, Models: Genetic, Phenotype, Polymorphism: Single Nucleotide, Zea mays, Pollination, Genotype, Arabidopsis, Plants, Genome-Wide Association Study, Genome: Plant, Chromosome Mapping},
date-added = {2010-01-16 20:58:22 +0100},
date-modified = {2010-01-16 20:58:22 +0100},
doi = {10.1534/genetics.108.098863},
pii = {genetics.108.098863},
pmid = {19414565},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3741},
rating = {0}
}
@article{Cordell:2009p5278,
author = {Heather J Cordell},
journal = {Nat Rev Genet},
title = {Genome-wide association studies: Detecting gene-gene interactions that underlie human diseases},
abstract = {Following the identification of several disease-associated polymorphisms by genome-wide association (GWA) analysis, interest is now focusing on the detection of effects that, owing to their interaction with other genetic or environmental factors, might not be identified by using standard single-locus tests. In addition to increasing the power to detect associations, it is hoped that detecting interactions between loci will allow us to elucidate the biological and biochemical pathways that underpin disease. Here I provide a critical survey of the methods and related software packages currently used to detect the interactions between genetic loci that contribute to human genetic disease. I also discuss the difficulties in determining the biological relevance of statistical interactions.},
affiliation = {Institute of Human Genetics, Newcastle University, International Centre for Life, Central Parkway, Newcastle upon Tyne NE1 3BZ, UK. heather.cordell@ncl.ac.uk.},
pages = {},
year = {2009},
month = {May},
language = {ENG},
date-added = {2010-02-09 22:28:36 +0100},
date-modified = {2010-07-29 19:40:47 +0200},
doi = {10.1038/nrg2579},
pii = {nrg2579},
pmid = {19434077},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5278},
rating = {0}
}
@article{Fuhrer:1999,
author = {R Fuhrer and SA Stansfeld and J Chemali and MJ Shipley},
journal = {Social Science and Medicine},
title = {Gender, social relations and mental health: prospective findings from an occupational cohort (Whitehall II)},
abstract = {Gender differences in social support tend to suggest that women have larger social networks and both give and receive more support than men. Nevertheless, although social support has been identified as protective of mental health, women have higher rates of psychological distress than men. We examine the prospective association between social support and psychological distress by gender in a cohort study of middle aged British Civil Servants, the Whitehall II study. In this sample we found that women have a larger number of close persons than men although men have larger social networks. We also found that the effects of marital status, social support within and outside the workplace and social networks on subsequent occurrence of psychological distress were similar for men and women independently of baseline mental health status.},
number = {1},
pages = {77--87},
volume = {48},
year = {1999},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1085},
rating = {0}
}
@article{VanRoy:2003p2313,
author = {P Van Roy and S Haridi},
title = {Concepts, Techniques, and Models of Computer Programming},
year = {2003},
date-added = {2010-01-10 12:28:48 +0100},
date-modified = {2010-01-10 12:29:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Van%20Roy-2003-_Concepts%20Techniques.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2313},
rating = {0}
}
@article{Bock:2008p2294,
author = {H H Bock},
journal = {Electronic Journ@l for History of Probability and Statistics},
title = {Origins and extensions of the k-means algorithm in cluster
analysis},
abstract = {This paper presents a historical view of the well-known k-means al- gorithm that aims at minimizing (approximately) the classical SSQ or variance criterion in cluster analysis . We show to which authors the different (discrete and continuous) versions of this algorithm can be traced back, and which were the underlying applications. Moreover, the paper describes a series of extensions and generalizations of this algorithm (for fuzzy clustering, maximum likelihood cluster- ing, convexity-based criteria,...) that shows the importance and usefulness of the k-means approach and related alternating minimization techniques in data analysis.},
number = {2},
volume = {4},
year = {2008},
date-added = {2010-01-10 12:08:09 +0100},
date-modified = {2010-01-10 12:08:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bock-2008-Electronic%20Journ@l%20for%20History%20of%20Probability%20and%20Statistics_Origins%20and%20extensio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2294},
rating = {0}
}
@article{Yu:2009p9909,
author = {Fuli Yu and Alon Keinan and Hua Chen and Russell J Ferland and Robert S Hill and Andre A Mignault and Christopher A Walsh and David Reich},
journal = {Hum Mol Genet},
title = {Detecting natural selection by empirical comparison to random regions of the genome},
abstract = {Historical episodes of natural selection can skew the frequencies of genetic variants, leaving a signature that can persist for many tens or even hundreds of thousands of years. However, formal tests for selection based on allele frequency skew require strong assumptions about demographic history and mutation, which are rarely well understood. Here, we develop an empirical approach to test for signals of selection that compares patterns of genetic variation at a candidate locus with matched random regions of the genome collected in the same way. We apply this approach to four genes that have been implicated in syndromes of impaired neurological development, comparing the pattern of variation in our re-sequencing data with a large-scale, genomic data set that provides an empirical null distribution. We confirm a previously reported signal at FOXP2, and find a novel signal of selection centered at AHI1, a gene that is involved in motor and behavior abnormalities. The locus is marked by many high frequency derived alleles in non-Africans that are of low frequency in Africans, suggesting that selection at this or a closely neighboring gene occurred in the ancestral population of non-Africans. Our study also provides a prototype for how empirical scans for ancient selection can be carried out once many genomes are sequenced.},
affiliation = {Department of Genetics, Harvard Medical School, Boston, MA, USA. fyu@bcm.edu},
number = {24},
pages = {4853--67},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Nerve Tissue Proteins, Sequence Analysis: DNA, Polymorphism: Single Nucleotide, Genome: Human, Humans, Neurogenesis, Models: Genetic, Selection: Genetic, Forkhead Transcription Factors, Haplotypes, Computer Simulation, Receptors: G-Protein-Coupled, Gene Frequency, Adaptor Proteins: Signal Transducing},
date-added = {2010-03-26 19:35:10 +0100},
date-modified = {2010-07-29 19:28:52 +0200},
doi = {10.1093/hmg/ddp457},
pii = {ddp457},
pmid = {19783549},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9909},
rating = {0}
}
@article{vanLang:2006p1839,
author = {Natasja D J van Lang and Anne Boomsma and Sjoerd Sytema and Annelies A de Bildt and Dirk W Kraijer and Cees Ketelaars and Ruud B Minderaa},
journal = {J Child Psychol Psychiatry},
title = {Structural equation analysis of a hypothesised symptom model in the autism spectrum},
abstract = {BACKGROUND: Several studies showed a different symptom structure underlying the spectrum of autistic-like disorders from the behaviour triad as mentioned in the DSM-IV. In the present study, a hypothesised symptom model for autism was constructed, based on earlier explorative findings, and was put to a confirmatory test. METHOD: Items from the Autism Diagnostic Interview-Revised (ADI-R) were used to examine the goodness of fit of the DSM-IV model, the hypothesised symptom model, and two additional models for autism. All models were tested in a group of 255 verbal and nonverbal individuals with minor to severe autistic symptomatology. RESULTS: The DSM-IV model encountered estimation problems. Conversely, the hypothesised symptom model had no such problems and proved to have a better fit to the sample data than the two additional models for autism. However, some of the observed variables were weak indicators of the three latent factors in the model. CONCLUSIONS: The hypothesised symptom model appeared to be a plausible model in a group of individuals with a broad range of autistic behaviours and levels of functioning. Nevertheless, the stability of the model needs further examination in a larger group of individuals with disorders in the autism spectrum, and with varying degrees of intellectual functioning.},
affiliation = {University of Groningen, Department of Child and Adolescent Psychiatry, The Netherlands.},
number = {1},
pages = {37--44},
volume = {47},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Female, Autistic Disorder, Factor Analysis: Statistical, Humans, Interview: Psychological, Child, Severity of Illness Index, Male},
date-added = {2010-01-10 10:31:54 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
doi = {10.1111/j.1469-7610.2005.01434.x},
pii = {JCPP1434},
pmid = {16405639},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Lang-2006-J%20Child%20Psychol%20Psychiatry_Structural%20equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1839},
read = {Yes},
rating = {4}
}
@article{Kottner:2010p12848,
author = {J Kottner and L Audig{\'e} and S Brorson and A Donner and B J Gajewski and A Hrobjartsson and C Roberts and M Shoukri and D L Streiner},
journal = {Journal of Clinical Epidemiology},
title = {Guidelines for Reporting Reliability and Agreement Studies (GRRAS) were proposed},
abstract = {Objective: Results of reliability and agreement studies are intended to provide information about the amount of error inherent in any diagnosis, score, or measurement. The level of reliability and agreement among users of scales, instruments, or classifications is widely unknown. Therefore, there is a need for rigorously conducted interrater and intrarater reliability and agreement studies. Information about sample selection, study design, and statistical analysis is often incomplete. Because of inadequate reporting, interpretation and synthesis of study results are often difficult. Widely accepted criteria, standards, or guidelines for reporting reliability and agreement in the health care and medical field are lacking. The objective was to develop guidelines for reporting reliability and agreement studies.
Study Design and Setting: Eight experts in reliability and agreement investigation developed guidelines for reporting.
Results: Fifteen issues that should be addressed when reliability and agreement are reported are proposed. The issues correspond to the headings usually used in publications.
Conclusion: The proposed guidelines intend to improve the quality of reporting.},
year = {2010},
date-added = {2010-06-21 20:12:12 +0200},
date-modified = {2010-06-21 20:13:28 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kottner-2010-Journal%20of%20Clinical%20Epidemiology_Guidelines%20for%20Repor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12848},
rating = {0}
}
@article{Jenkinson:2001,
author = {C Jenkinson and R Fitzpatrick and A Garratt and V Peto and S Stewart-Brown},
journal = {J Neurol Neurosurg Psychiatry},
title = {Can item response theory reduce patient burden when measuring health status in neurological disorders? Results from Rasch analysis of the SF-36 physical functioning scale (PF-10).},
abstract = {BACKGROUND: Indices of physical function may have a hierarchy of items. In cases where this can be demonstrated it may be possible to reduce patient burden by asking them to complete only those items which relate directly to their own level of ability. OBJECTIVES: To determine whether statistical procedures, operationalising what is known as item response theory (IRT), can be used to assess the unidimensionality of the 10 item physical functioning domain of the SF-36 in patients with Parkinson's disease and motor neuron disease, and, secondly, to determine whether it would be possible to administer subsets of items to certain patients, on the basis of their replies to other items in the scale, thereby reducing patient burden. METHODS: Rasch analysis, a form of IRT methodology, of the 10 item physical functioning domain (PF-10) in two neurological patient samples was undertaken and the results compared with results of a Rasch analysis of data gained from a population survey (the third Oxford healthy lifestyles survey). RESULTS: Evidence from the analyses suggests that the PF-10 does not form a perfect hierarchy on a unidimensional scale. However, certain items seem to form a hierarchy, and responses to some of them are contingent on responses to the other items. CONCLUSIONS: Rasch analysis of the PF-10 in neurological patients has indicated that certain items of the scale are hierarchically ordered, and consequently not all respondents would need to complete them all: indeed those most severely ill would be required to complete less items than those with only limited disabilities. The implications of this are discussed.},
affiliation = {Health Services Research Unit, Department of Public Health, University of Oxford, Institute of Health Sciences, Headington, Oxford OX3 7LF, UK. crispin.jenkinson@dphpc.ox.ac.uk},
number = {2},
pages = {220--224},
volume = {71},
year = {2001},
month = {Aug},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
pmid = {11459897},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1132},
rating = {0}
}
@article{Groenvold:2006p7351,
author = {Mogens Groenvold and Morten Aa Petersen and Neil K Aaronson and Juan I Arraras and Jane M Blazeby and Andrew Bottomley and Peter M Fayers and Alexander de Graeff and Eva Hammerlid and Stein Kaasa and Mirjam A G Sprangers and Jakob B Bjorner and EORTC Quality of Life Group},
journal = {Eur J Cancer},
title = {The development of the EORTC QLQ-C15-PAL: a shortened questionnaire for cancer patients in palliative care},
abstract = {This study aimed at developing a shortened version of the EORTC QLQ-C30, one of the most widely used health-related quality of life questionnaires in oncology, for palliative care research. The study included interviews with 41 patients and 66 health care professionals in palliative care to determine the appropriateness, relevance and importance of the various domains of the QLQ-C30. Item response theory methods were used to shorten scales. Patients and health care professionals rated pain, physical function, emotional function, fatigue, global health status/quality of life, nausea/vomiting, appetite, dyspnoea, constipation, and sleep as most important. Therefore, these scales/items were retained in the questionnaire. Four scales were shortened without reducing measurement precision. Important dimensions not covered by the questionnaire were identified. The resulting 15-item EORTC QLQ-C15-PAL is a 'core questionnaire' for palliative care. Depending on the research questions, it may be supplemented by additional items, modules or questionnaires.},
affiliation = {Research Unit, Department of Palliative Medicine, Bispebjerg Hospital, 23, Bispebjerg Bakke, DK-2400 Copenhagen NV, Denmark. mg02@bbh.hosp.dk},
number = {1},
pages = {55--64},
volume = {42},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Neoplasms, Adult, Quality of Life, Vomiting, Aged: 80 and over, Constipation, Eating Disorders, Nausea, Palliative Care, Cognition Disorders, Health Status, Fatigue, Pain, Cost of Illness, Questionnaires, Emotions, Interpersonal Relations, Activities of Daily Living, Humans, Middle Aged, Dyspnea, Aged},
date-added = {2010-03-10 20:24:44 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
doi = {10.1016/j.ejca.2005.06.022},
pii = {S0959-8049(05)00616-7},
pmid = {16162404},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7351},
rating = {0}
}
@article{Clarke:2004p9427,
author = {Sally-Ann Clarke and Christine Eiser},
journal = {Health Qual Life Outcomes},
title = {The measurement of health-related quality of life (QOL) in paediatric clinical trials: a systematic review},
abstract = {BACKGROUND: The goal of much care in chronic childhood illness is to improve quality of life (QOL). However, surveys suggest QOL measures are not routinely included. In addition, there is little consensus about the quality of many QOL measures. OBJECTIVES: To determine the extent to which quality of life (QOL) measures are used in paediatric clinical trials and evaluate the quality of measures used. DESIGN: Systematic literature review. REVIEW METHODS: Included paediatric trials published in English between 1994 and 2003 involving children and adolescents up to the age of 20 years, and use of a standardised QOL measure. Data Sources included MEDLINE, CINAHL, EMB Reviews, AMED, BNI, PSYCHINFO, the Cochrane library, Internet, and reference lists from review articles. RESULTS: We identified 18 trials including assessment of QOL (4 Asthma, 4 Rhinitis, 2 Dermatitis, and single studies of Eczema, Cystic fibrosis, Otis media, Amblyopia, Diabetes, Obesity associated with a brain tumour, Idiopathic short stature, and Congenital agranulocytosis). In three trials, parents rated their own QOL but not their child's. Fourteen different QOL measures were used but only two fulfilled our minimal defined criteria for quality. CONCLUSIONS: This review confirms previous reports of limited use of QOL measures in paediatric clinical trials. Our review provides information about availability and quality of measures which will be of especial value to trial developers.},
affiliation = {Department of Psychology, University of Sheffield, Western Bank, Sheffield, UK. s.a.clarke@sheffield.ac.uk},
pages = {66},
volume = {2},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Humans, Quality of Life, Pediatrics, Adolescent Psychology, Child Psychology, Sickness Impact Profile, Clinical Trials as Topic, Adolescent, Chronic Disease, Child, Psychometrics},
date-added = {2010-03-23 18:57:07 +0100},
date-modified = {2010-03-23 18:57:07 +0100},
doi = {10.1186/1477-7525-2-66},
pii = {1477-7525-2-66},
pmid = {15555077},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clarke-2004-Health%20and%20Quality%20of%20Life%20Outcomes_The%20measurement%20of%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9427},
rating = {0}
}
@article{Beckles:2007,
author = {Gloria L A Beckles and David F Williamson and Arleen F Brown and Edward W Gregg and Andrew J Karter and Catherine Kim and R Adams Dudley and Monika M Safford and Mark R Stevens and Theodore J Thompson},
journal = {Med Care},
title = {Agreement between self-reports and medical records was only fair in a cross-sectional study of performance of annual eye examinations among adults with diabetes in managed care.},
abstract = {BACKGROUND: Despite consensus about the importance of measuring quality of diabetes care and the widespread use of self-reports and medical records to assess quality, little is known about the degree of agreement between these data sources. OBJECTIVES: To evaluate agreement between self-reported and medical record data on annual eye examinations and to identify factors associated with agreement. RESEARCH DESIGN AND SUBJECTS: Data from interviews and medical records were available for 8409 adults with diabetes who participated in the baseline round of the Translating Research Into Action for Diabetes (TRIAD) Study. MEASURES: Agreement between self-reports and medical records was evaluated as concordance and Cohen's kappa coefficient. RESULTS: Self-reports indicated a higher performance of annual dilated eye examinations than did medical records (75.9% vs. 38.8%). Concordance between the data sources was 57.9%. Agreement was only fair (kappa coefficient = 0.25; 95% confidence interval, 0.23-0.26). Nearly two-thirds (64.6%) of discordance was due to lack of evidence in the medical record to support self-reported performance of the procedure. After adjustment, agreement was most strongly related to health plan (chi = 977.9, df = 9; P < 0.0001), and remained significantly better for 3 of the 10 health plans (P < 0.00001) and for persons younger than 45 years of age (P = 0.00002). CONCLUSIONS: The low level of agreement between self-report and medical records suggests that many providers of diabetes care do not have easily available accurate information on the eye examination status of their patients.},
affiliation = {Division of Diabetes Translation, National Center for Chronic Disease Prevention and Health Promotion, Centers for Disease Control and Prevention, Atlanta, Georgia 30341, USA.},
number = {9},
pages = {876--883},
volume = {45},
year = {2007},
month = {Sep},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/MLR.0b013e3180ca95fa},
pii = {00005650-200709000-00010},
pmid = {17712258},
url = {http://dx.doi.org/10.1097/MLR.0b013e3180ca95fa},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1168},
rating = {0}
}
@article{Erfurth:2005p4390,
author = {Andreas Erfurth and Alexander L Gerlach and Nikolaus Michael and Ines Boenigk and Inga Hellweg and Salvatore Signoretta and Kareen Akiskal and Hagop S Akiskal},
journal = {J Affect Disord},
title = {Distribution and gender effects of the subscales of a German version of the temperament autoquestionnaire briefTEMPS-M in a university student population},
abstract = {BACKGROUND: This paper examines the distribution of the temperamental characteristics and gender effects of a new autoquestionnaire developed by Akiskal et al. (TEMPS-A) in its German briefTEMPS-M version. METHODS: As described in a companion article [J. Affect. Disord. 85 (2005), 53, this issue], based on a study population of 1056 students of the Westf{\"a}lische-Wilhelms-Universit{\"a}t in M{\"u}nster, Germany, we constructed the briefTEMPS-M. In the present paper we report on the basic descriptive statistics of the five subscales of the briefTEMPS (depressive, cyclothymic, hyperthymic, irritable, and anxious), as well as gender differences. RESULTS: Except for the hyperthymic, these subscales are capable of representing the full range of temperament in a sample of German students. Characteristics of the distribution (skewness, kurtosis) of the subscales are well in acceptable limits. We found higher depressive, cyclothymic, and anxious, as well as lower hyperthymic, temperament values in women as compared to men. Cut-off scores to determine extreme groups are provided. To render our results comparable to a similar study using the interview version of the TEMPS-I in an Italian student population [J. Affect. Disord. 47 (1998) 1; J. Affect. Disord. 51 (1998) 7], we computed the rates for dominant temperaments based on the z scores +2 S.D., and obtained the following: depressive, 4.7%; cyclothymic, 4.7%; hyperthymic, 2.1%; irritable, 4.0%; and anxious, 4.2%. CONCLUSIONS: The briefTEMPS-M is a potentially valuable scale to quickly assess temperament in research, clinical and normal samples.},
affiliation = {Department of Psychiatry, M{\"u}nster University Hospital, Albert-Schweitzer-Str. 11, 48129 M{\"u}nster, Germany. andreas.erfurth@bkh-augsburg.de},
number = {1-2},
pages = {71--6},
volume = {85},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Psychometrics, Reproducibility of Results, Students, Affective Symptoms, Computer Graphics, Female, Adult, Male, Reference Values, Language, Temperament, Cross-Cultural Comparison, Adolescent, Universities, Sex Factors, Humans, Italy, Germany, Personality Inventory, Personality Assessment},
date-added = {2010-01-28 16:32:03 +0100},
date-modified = {2010-07-29 20:18:17 +0200},
doi = {10.1016/j.jad.2003.07.003},
pii = {S0165032703002532},
pmid = {15780677},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4390},
rating = {0}
}
@article{Byrne:2007p7513,
author = {Enda Byrne and Maria Stillitano and Christopher J Williams and Joe C Christian},
journal = {Behav Genet},
title = {The influence of twin pair permutation on likelihood-based-estimates of genetic variance that require ordering of twin-pairs},
abstract = {Results from analyses of twin data that use models assuming a bivariate distribution of twin values will change when twins within pairs are reordered. We examined the effect of twin pair ordering on additive genetic variance estimates and hypothesis tests, from a bivariate normal model, both via simulation and through examination of real twin data. The simulations generated twin data for varying sample sizes and amounts of additive genetic and common environmental variance. The real data sets had sample sizes of 60 or less per zygosity. The results indicate that for moderate or large size studies, the effects of twin pair ordering are unlikely to greatly change the results of the data analysis; but for small studies the results can be sensitive to twin pair ordering. We therefore suggest that methods, not sensitive to within twin-pair differences be compared to the results obtained from twin-pair ordering. Methods not influenced by twin-pair ordering include least squares methods or covariance matrices approaches as described by Carey (2005, Behav Genet 35:667-670) or Guo and Wang (2002, Behav Genet 32:37-49).},
affiliation = {Trinity College Dublin, Dublin, Ireland.},
number = {4},
pages = {617--20},
volume = {37},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Likelihood Functions, Computer Simulation, Humans, Twins, Models: Genetic, Genetic Variation, Mutation},
date-added = {2010-03-10 20:53:33 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-007-9154-3},
pmid = {17473978},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Byrne-2007-Behav%20Genet_The%20influence%20of%20twi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7513},
rating = {0}
}
@article{Eysenck:1994,
author = {HJ Eysenck},
journal = {British Medical Journal},
title = {Meta-analysis and its problems},
abstract = {Including all relevant material - good, bad, and indifferent - in meta -analysis admits the subjective judgments that meta-analysis was designed to avoid. Several problems arise in meta-analysis: regressions are often non -linear; effects are often multivariate rather than univariate; coverage can be restricted; bad studies may be included; the data summarised may not be homogeneous; grouping different causal factors may lead to meaningless estimates of effects; and the theory-directed approach may obscure discrepancies. Meta-analysis may not be the one best method for studying the diversity of fields for which it has been used. Why do we undertake systematic reviews of a given field? The most important reason is perhaps that we are concerned about a particular theory and wish to know how the evidence for and against stacks up. There are also practical reasons; single studies often use small numbers of subjects, and basing our estimates of effect sizes on large numbers of studies drastically lowers the fiducial limits around our estimates. Systematic reviews can be of several different kinds: traditional reviews, often not very systematic, and frequently biased; meta-analyses, including (we hope) all relevant material, good, bad, and different, and leading to an estimate of effect size*RF 1-3*; best-evidence synthesis4; and the hypothetico-deductive approach,5 in which the effort is directed at evaluating the evidence for and against a given theory, in an attempt to solve the problem of why contradictory results appear, rather than simply averaging often incompatible data.},
pages = {789--792},
volume = {309},
year = {1994},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1089},
rating = {0}
}
@inproceedings{Bianco:2005,
author = {Maryse Bianco and Philippe Dessus and Beno{\^\i}t Lemaire and Sonia Mandin and Patrick Mendelsohn},
journal = {Proceedings},
title = {Mod{\'e}lisation des processus de hi{\'e}rarchisation et d'application de macror{\`e}gles et conception d'un prototype d'aide au r{\'e}sum{\'e}},
year = {2005},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bianco-2005-Proceedings_Mod%C3%A9lisation%20des%20pro.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2085},
rating = {0}
}
@article{Simianer:1989p6978,
author = {H Simianer and L R Schaeffer},
journal = {Genet Sel Evol},
title = {Estimation of covariance components between one continuous and one binary trait},
abstract = {A method is described to estimate variance and covariance components in a multiple trait situation with one continuous and one binary trait. An underlying bivariate normal distribution is assumed with one variable dichotomized on the observable scale through a fixed threshold. A mixed linear model is applied to the underlying scale, and Bayesian arguments are employed to derive estimation procedures for both location and dispersion parameters. This leads to a nonlinear system of equations similar to the mixed model equations for observations that have been transformed by a Cholesky decomposition of the residual variance-covariance matrix so that the residual covariance between the two transformed traits is zero, thereby simplifying construction of the multiple trait mixed model equations. The procedures for estimating genetic variances and covariances and the residual variance for the continuous trait are equivalent to restricted maximum likelihood in the multivariate normal case. The residual correlation is estimated using a maximum likelihood approach. Suitable computing strategies are indicated and a simulation study is giventoillustratetheuseofthemethod.Theimpactofsmallsubclasssizeontheestimates is seen to be a serious drawback to the proposed method. Possible generalizations of the method and potential problems in its practical application are discussed.},
pages = {303--315},
volume = {21},
year = {1989},
date-added = {2010-03-06 19:44:45 +0100},
date-modified = {2010-03-06 19:45:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Simianer-1989-Genet%20Sel%20Evol_Estimation%20of%20covari.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6978},
rating = {0}
}
@article{Williams:2010p12779,
author = {Valerie S L Williams and Robert J Morlock and Douglas Feltner},
journal = {Health Qual Life Outcomes},
title = {Psychometric evaluation of a visual analog scale for the assessment of anxiety},
abstract = {ABSTRACT: BACKGROUND: : Fast-acting medications for the management of anxiety are important to patients and society. Measuring early onset, however, requires a sensitive and clinically responsive tool. This study evaluates the psychometric properties of a patient-reported Global Anxiety - Visual Analog Scale (GA-VAS). METHOD: : Data from a double-blind, randomized, placebo-controlled study of lorazepam and paroxetine in patients with Generalized Anxiety Disorder were analyzed to assess the reliability, validity, responsiveness, and utility of the GA-VAS. The GA-VAS was completed at clinic visits and at home during the first week of treatment. Targeted psychometric analyses - test-retest reliabilities, validity correlations, responsiveness statistics, and minimum important differences - were conducted. RESULTS: : The GA-VAS correlates well with other anxiety measures, at Week 4, r=0.60 (p<0.0001) with the Hamilton Rating Scale for Anxiety and r=0.74 (p<0.0001) with the Hospital Anxiety and Depression Scale - Anxiety subscale. In terms of convergent and divergent validity, the GA-VAS correlated -0.54 (p<0.0001), -0.48 (p<0.0001), and -0.68 (p<0.0001) with the SF-36 Emotional Role, Social Function, and Mental Health subscales, respectively, but correlated much lower with the SF-36 physical functioning subscales. Preliminary minimum important difference estimates cluster between 10 and 15 mm. CONCLUSIONS: : The GA-VAS is capable of validly and effectively capturing a reduction in anxiety as quickly as 24 hours post-dose.},
number = {1},
pages = {57},
volume = {8},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-06-18 20:45:54 +0200},
date-modified = {2010-06-18 20:45:54 +0200},
doi = {10.1186/1477-7525-8-57},
pii = {1477-7525-8-57},
pmid = {20529361},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Psychometric%20evaluat-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12779},
rating = {0}
}
@article{Grezes:2009p13989,
author = {J Gr{\`e}zes and B Wicker and S Berthoz and B de Gelder},
journal = {Neuropsychologia},
title = {A failure to grasp the affective meaning of actions in autism spectrum disorder subjects},
abstract = {The ability to grasp emotional messages in everyday gestures and respond to them is at the core of successful social communication. The hypothesis that abnormalities in socio-emotional behavior in people with autism are linked to a failure to grasp emotional significance conveyed by gestures was explored. We measured brain activity using fMRI during perception of fearful or neutral actions and showed that whereas similar activation of brain regions known to play a role in action perception was revealed in both autistics and controls, autistics failed to activate amygdala, inferior frontal gyrus and premotor cortex when viewing gestures expressing fear. Our results support the notion that dysfunctions in this network may contribute significantly to the characteristic communicative impairments documented in autism.},
affiliation = {Laboratoire de Neurosciences Cognitives, INSERM U960 {\&} DEC, Ecole Normale Sup{\'e}rieure, Paris, France. julie.grezes@ens.fr},
number = {8-9},
pages = {1816--25},
volume = {47},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Photic Stimulation, Emotions, Magnetic Resonance Imaging, Hand Strength, Image Processing: Computer-Assisted, Young Adult, Adolescent, Oxygen, Humans, Autistic Disorder, Female, Adult, Middle Aged, Brain, Neuropsychological Tests, Male, Brain Mapping},
date-added = {2010-08-04 09:20:25 +0200},
date-modified = {2010-08-04 09:20:25 +0200},
doi = {10.1016/j.neuropsychologia.2009.02.021},
pii = {S0028-3932(09)00087-6},
pmid = {19428413},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gr%C3%A8zes-2009-Neuropsychologia_A%20failure%20to%20grasp%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13989},
rating = {0}
}
@article{Clayton:2009p2283,
author = {David G Clayton},
journal = {Genome Med},
title = {Sex chromosomes and genetic association studies},
abstract = {ABSTRACT: Although the literature concerning statistical testing for genotype-phenotype association in family-based and population-based studies is very extensive, until recently the sex chromosomes have received little attention. Here it is shown that the X chromosome in particular presents special problems with respect to efficient analysis of mixed-sex population studies, and as a result of X inactivation. This paper reviews recent developments in approaching these problems.},
affiliation = {Wellcome Trust/Juvenile Diabetes Research Foundation Diabetes and Inflammation Laboratory, Cambridge University, Department of Medical Genetics, Cambridge Institute for Medical Research, Wellcome Trust/MRC Building, Addenbrooke's Hospital, Cambridge CB2 0XY, UK. david.clayton@cimr.cam.ac.uk.},
number = {11},
pages = {110},
volume = {1},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-01-10 12:01:10 +0100},
date-modified = {2010-01-10 12:01:10 +0100},
doi = {10.1186/gm110},
pii = {gm110},
pmid = {19939292},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clayton-2009-Genome%20Med_Sex%20chromosomes%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2283},
rating = {0}
}
@article{Coons:2009p8806,
author = {Stephen Joel Coons and Chad J Gwaltney and Ron D Hays and J Jason Lundy and Jeff A Sloan and Dennis A Revicki and William R Lenderking and David Cella and Ethan Basch and ISPOR ePRO Task Force},
journal = {Value Health},
title = {Recommendations on evidence needed to support measurement equivalence between electronic and paper-based patient-reported outcome (PRO) measures: ISPOR ePRO Good Research Practices Task Force report},
abstract = {BACKGROUND: Patient-reported outcomes (PROs) are the consequences of disease and/or its treatment as reported by the patient. The importance of PRO measures in clinical trials for new drugs, biological agents, and devices was underscored by the release of the US Food and Drug Administration's draft guidance for industry titled "Patient-Reported Outcome Measures: Use in Medical Product Development to Support Labeling Claims." The intent of the guidance was to describe how the FDA will evaluate the appropriateness and adequacy of PRO measures used as effectiveness end points in clinical trials. In response to the expressed need of ISPOR members for further clarification of several aspects of the draft guidance, ISPOR's Health Science Policy Council created three task forces, one of which was charged with addressing the implications of the draft guidance for the collection of PRO data using electronic data capture modes of administration (ePRO). The objective of this report is to present recommendations from ISPOR's ePRO Good Research Practices Task Force regarding the evidence necessary to support the comparability, or measurement equivalence, of ePROs to the paper-based PRO measures from which they were adapted. METHODS: The task force was composed of the leadership team of ISPOR's ePRO Working Group and members of another group (i.e., ePRO Consensus Development Working Group) that had already begun to develop recommendations regarding ePRO good research practices. The resulting task force membership reflected a broad array of backgrounds, perspectives, and expertise that enriched the development of this report. The prior work became the starting point for the Task Force report. A subset of the task force members became the writing team that prepared subsequent iterations of the report that were distributed to the full task force for review and feedback. In addition, review beyond the task force was sought and obtained. Along with a presentation and discussion period at an ISPOR meeting, a draft version of the full report was distributed to roughly 220 members of a reviewer group. The reviewer group comprised individuals who had responded to an emailed invitation to the full membership of ISPOR. This Task Force report reflects the extensive internal and external input received during the 16-month good research practices development process. RESULTS/RECOMMENDATIONS: An ePRO questionnaire that has been adapted from a paper-based questionnaire ought to produce data that are equivalent or superior (e.g., higher reliability) to the data produced from the original paper version. Measurement equivalence is a function of the comparability of the psychometric properties of the data obtained via the original and adapted administration mode. This comparability is driven by the amount of modification to the content and format of the original paper PRO questionnaire required during the migration process. The magnitude of a particular modification is defined with reference to its potential effect on the content, meaning, or interpretation of the measure's items and/or scales. Based on the magnitude of the modification, evidence for measurement equivalence can be generated through combinations of the following: cognitive debriefing/testing, usability testing, equivalence testing, or, if substantial modifications have been made, full psychometric testing. As long as only minor modifications were made to the measure during the migration process, a substantial body of existing evidence suggests that the psychometric properties of the original measure will still hold for the ePRO version. Hence, an evaluation limited to cognitive debriefing and usability testing only may be sufficient. However, where more substantive changes in the migration process has occurred, confirming that the adaptation to the ePRO format did not introduce significant response bias and that the two modes of administration produce essentially equivalent results is necessary. Recommendations regarding the study designs and statistical approaches for assessing measurement equivalence are provided. CONCLUSIONS: The electronic administration of PRO measures offers many advantages over paper administration. We provide a general framework for decisions regarding the level of evidence needed to support modifications that are made to PRO measures when they are migrated from paper to ePRO devices. The key issues include: 1) the determination of the extent of modification required to administer the PRO on the ePRO device and 2) the selection and implementation of an effective strategy for testing the measurement equivalence of the two modes of administration. We hope that these good research practice recommendations provide a path forward for researchers interested in migrating PRO measures to electronic data collection platforms.},
affiliation = {Center for Health Outcomes and PharmacoEconomic Research, College of Pharmacy, University of Arizona, Tucson, AZ 85721-0202, USA. coons@pharmacy.arizona.edu},
number = {4},
pages = {419--29},
volume = {12},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Leadership, Questionnaires, Software, United States Food and Drug Administration, Quality of Life, United States, Evidence-Based Medicine, Randomized Controlled Trials as Topic, Paper, Cognition, Outcome Assessment (Health Care), Statistics as Topic, Benchmarking, Decision Making, Psychometrics, Medical Records Systems: Computerized, Cross-Over Studies, Feasibility Studies, Humans},
date-added = {2010-03-22 12:09:13 +0100},
date-modified = {2010-03-22 12:09:13 +0100},
doi = {10.1111/j.1524-4733.2008.00470.x},
pii = {VHE470},
pmid = {19900250},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8806},
rating = {0}
}
@article{Zwick:1990,
author = {Rebecca Zwick},
journal = {Journal of Educational Statistics},
title = {When do item reponse function and Mantel-Haenszel definitions of Differential Item Functioning coincide?},
number = {3},
pages = {185--197},
volume = {15},
year = {1990},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 20:46:26 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2102},
rating = {0}
}
@article{Liao:2010p12782,
author = {Yi-Chu Liao and Hsiu-Fen Lin and Yuh-Cherng Guo and Ming-Lung Yu and Ching-Kuan Liu and Suh-Hang Hank Juo},
journal = {BMC Med Genet},
title = {Sex-differential genetic effect of phosphodiesterase 4D (PDE4D) on carotid atherosclerosis},
abstract = {ABSTRACT: BACKGROUND: The phosphodiesterase 4D (PDE4D) gene was reported as a susceptibility gene to stroke. The genetic effect might be attributed to its role in modulating the atherogenic process in the carotid arteries. Using carotid intima-media thickness (IMT) and plaque index as phenotypes, the present study sought to determine the influence of this gene on subclinical atherosclerosis. METHODS: Carotid ultrasonography was performed on 1013 stroke-free subjects who participated in the health screening programs at the Kaohsiung Medical University Hospital (age 52.6 +- 12.2; 47.6% men). Genotype distribution was compared among high- (plaque index>= 4), low-risk (index=1-3), and reference (index=0) groups. We analyzed continuous IMT data and further dichotomized IMT data using mean plus one standard deviation as the cutoff level. Because the plaque prevalence and IMT values displayed a notable difference between men and women, we carried out sex-specific analyses in addition to analyzing the overall data. Rs702553 at the PDE4D gene was selected because it confers a risk for young stroke in our previous report. Previous young stroke data (190 cases and 211 controls) of additional 532 control subjects without ultrasonic data were shown as a cross-validation for the genetic effect. RESULTS: In the overall analyses, the rare homozygote of rs702553 led to OR of 3.1 (p = 0.034) for a plaque index >= 4. When subjects were stratified by sex, the genetic effect was only evident in men but not in women. Comparing male subjects with plaque index >= 4 and plaque index = 0, the TT genotype was over-represented (27.6% vs. 13.4%, p = 0.008). For dichotomized IMT data in men, the TT genotype had an OR of 2.1 (p = 0.032) for a thicker IMT at the common carotid artery compared with the (AA+AT) genotypes. In women, neither IMT nor plaque index was associated with rs702553. Similarly, SNP rs702553 was only significant in young stroke men (OR=1.8, p=0.025) but not in women (p= 0.27). CONCLUSIONS: The present study demonstrates a sex-differential effect of PDE4D on IMT, plaque index and stroke, which highlights its influence on various aspects of atherogenesis.},
number = {1},
pages = {93},
volume = {11},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-06-18 20:46:42 +0200},
date-modified = {2010-06-18 20:46:42 +0200},
doi = {10.1186/1471-2350-11-93},
pii = {1471-2350-11-93},
pmid = {20540798},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liao-2010-BMC%20Med%20Genet_Sex-differential%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12782},
rating = {0}
}
@article{Lee:2009p1453,
author = {Brian K Lee and Justin Lessler and Elizabeth A Stuart},
journal = {Stat Med},
title = {Improving propensity score weighting using machine learning},
abstract = {Machine learning techniques such as classification and regression trees (CART) have been suggested as promising alternatives to logistic regression for the estimation of propensity scores. The authors examined the performance of various CART-based propensity score models using simulated data. Hypothetical studies of varying sample sizes (n=500, 1000, 2000) with a binary exposure, continuous outcome, and 10 covariates were simulated under seven scenarios differing by degree of non-linear and non-additive associations between covariates and the exposure. Propensity score weights were estimated using logistic regression (all main effects), CART, pruned CART, and the ensemble methods of bagged CART, random forests, and boosted CART. Performance metrics included covariate balance, standard error, per cent absolute bias, and 95 per cent confidence interval (CI) coverage. All methods displayed generally acceptable performance under conditions of either non-linearity or non-additivity alone. However, under conditions of both moderate non-additivity and moderate non-linearity, logistic regression had subpar performance, whereas ensemble methods provided substantially better bias reduction and more consistent 95 per cent CI coverage. The results suggest that ensemble methods, especially boosted CART, may be useful for propensity score weighting. Copyright (c) 2009 John Wiley {\&} Sons, Ltd.},
affiliation = {Department of Epidemiology and Biostatistics, Drexel University School of Public Health, Philadelphia, PA, U.S.A.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-07 12:24:27 +0100},
date-modified = {2010-01-07 12:24:27 +0100},
doi = {10.1002/sim.3782},
pmid = {19960510},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2009-Stat%20Med_Improving%20propensity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1453},
rating = {0}
}
@article{Martin:1996p2805,
author = {J K Martin and D S Hirschberg},
title = {Small sample statistics for classification error rates II: Confidence intervals and significance tests},
year = {1996},
date-added = {2010-01-13 14:49:36 +0100},
date-modified = {2010-01-13 14:50:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-1996-_Small%20sample%20statist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2805},
rating = {0}
}
@article{Lopez:2008p6045,
author = {Beatriz L{\'o}pez and Susan R Leekam and Gerda R J Arts},
journal = {Autism},
title = {How central is central coherence? Preliminary evidence on the link between conceptual and perceptual processing in children with autism},
abstract = {This study aimed to test the assumption drawn from weak central coherence theory that a central cognitive mechanism is responsible for integrating information at both conceptual and perceptual levels. A visual semantic memory task and a face recognition task measuring use of holistic information were administered to 15 children with autism and 16 typically developing children. If there is a central integration mechanism, performance on the two tasks should be positively associated. No relationship was found, however, between the two abilities in the comparison group and, unexpectedly, a strong significant inverse correlation was found in the autism group. Classification data further confirmed this finding and indicated the possibility of the presence of subgroups in autism. The results add to emerging evidence suggesting that central coherence is not a unitary construct.},
affiliation = {University of the West of England, UK. lopez@uwe.ac.uk},
number = {2},
pages = {159--71},
volume = {12},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Autistic Disorder, Visual Perception, Case-Control Studies, Neuropsychological Tests, Reaction Time, Memory Disorders, Cognition Disorders, Child, Concept Formation, Perceptual Disorders, Humans},
date-added = {2010-02-19 17:01:56 +0100},
date-modified = {2010-02-19 17:01:56 +0100},
doi = {10.1177/1362361307086662},
pii = {12/2/159},
pmid = {18308765},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6045},
rating = {0}
}
@article{Erosheva:2006p1770,
author = {E A Erosheva},
title = {Latent class representation of the Grade of Membership model},
abstract = {Latent class and the Grade of Membership (GoM) models are two examples of latent structure models. Latent class models are discrete mixture models. The GoM model has been originally developed as an extension of latent class models to a continuous mixture. This note describes a constrained latent class model which is equivalent to the GoM model, and provides a detailed proof of this equivalence. Implications for model fitting and interpretation are discussed.},
affiliation = {Department of Statistics, University of Washington, Box 354322 Seattle, WA 98195-4322, U. S. A.},
year = {2006},
keywords = {Class membership, Stochastic subject, Mixture models, Latent structure, Contingency tables},
date-added = {2010-01-09 21:30:05 +0100},
date-modified = {2010-01-09 21:31:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Erosheva-2006-_Latent%20class%20represe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1770},
rating = {0}
}
@article{Zhao:2004p11368,
author = {Wei Zhao and Changxing Ma and James M Cheverud and Rongling Wu},
journal = {Physiol Genomics},
title = {A unifying statistical model for QTL mapping of genotype x sex interaction for developmental trajectories},
abstract = {Most organisms display remarkable differences in morphological, anatomical, and developmental features between the two sexes. It has been recognized that these sex-dependent differences are controlled by an array of specific genetic factors, mediated through various environmental stimuli. In this paper, we present a unifying statistical model for mapping quantitative trait loci (QTL) that are responsible for sexual differences in growth trajectories during ontogenetic development. This model is derived within the maximum likelihood context, incorporated by sex-stimulated differentiation in growth form that is described by mathematical functions. A typical structural model is implemented to approximate time-dependent covariance matrices for longitudinal traits. This model allows for a number of biologically meaningful hypothesis tests regarding the effects of QTL on overall growth trajectories or particular stages of development. It is particularly powerful to test whether and how the genetic effects of QTL are expressed differently in different sexual backgrounds. Our model has been employed to map QTL affecting body mass growth trajectories in both male and female mice of an F2 population derived from the large (LG/J) and small (SM/J) mouse strains. We detected four growth QTL on chromosomes 6, 7, 11, and 15, two of which trigger different effects on growth curves between the two sexes. All the four QTL display significant genotype-sex interaction effects on the timing of maximal growth rate in the ontogenetic growth of mice. The implications of our model for studying the genetic architecture of growth trajectories and its extensions to some more general situations are discussed.},
affiliation = {Department of Statistics, University of Florida, Gainesville, Florida 32611, USA.},
number = {2},
pages = {218--27},
volume = {19},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Models: Statistical, Quantitative Trait Loci, Gene Expression Regulation: Developmental, Genotype, Male, Animals, Sex Determination (Genetics), Female, Mice, Chromosome Mapping, Body Mass Index},
date-added = {2010-04-26 23:08:16 +0200},
date-modified = {2010-04-26 23:08:16 +0200},
doi = {10.1152/physiolgenomics.00129.2004},
pii = {00129.2004},
pmid = {15304622},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhao-2004-Physiol%20Genomics_A%20unifying%20statistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11368},
rating = {0}
}
@article{Wang:2006p4363,
author = {Lu-Yong Wang and D Fasulo},
journal = {Conf Proc IEEE Eng Med Biol Soc},
title = {A fast boosting-based screening method for large-scale association study in complex traits with genetic heterogeneity},
abstract = {Genome-wide association study for complex diseases will generate massive amount of single nucleotide polymorphisms (SNPs) data. Univariate statistical test (i.e. Fisher exact test) was used to single out non-associated SNPs. However, the disease-susceptible SNPs may have little marginal effects in population and are unlikely to retain after the univariate tests. Also, model-based methods are impractical for large-scale dataset. Moreover, genetic heterogeneity makes the traditional methods harder to identify the genetic causes of diseases. A more recent random forest method provides a more robust method for screening the SNPs in thousands scale. However, for more large-scale data, i.e., Affymetrix Human Mapping 100K GeneChip data, a faster screening method is required to screening SNPs in whole-genome large scale association analysis with genetic heterogeneity. We propose a boosting-based method for rapid screening in large-scale analysis of complex traits in the presence of genetic heterogeneity. It provides a relatively fast and fairly good tool for screening and limiting the candidate SNPs for further more complex computational modeling task.},
affiliation = {Integrated Data Syst. Dept., Siemens Corp. Res. Inc., Princeton, NJ 08540, USA. luyong.wang@siemens.com},
pages = {5771--4},
volume = {1},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Oligonucleotide Array Sequence Analysis, Linkage (Genetics), Algorithms, Genome: Human, Linkage Disequilibrium, Humans, Phenotype, Software, Models: Genetic, Programming Languages, Genetic Heterogeneity, Models: Statistical, Polymorphism: Single Nucleotide, Genomics, Computational Biology},
date-added = {2010-01-28 13:30:52 +0100},
date-modified = {2010-01-28 13:30:52 +0100},
doi = {10.1109/IEMBS.2006.260585},
pmid = {17946332},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4363},
rating = {0}
}
@book{Turner:1984,
author = {CF Turner and E Martin},
journal = {Book},
title = {Surveying subjective phenomena},
year = {1984},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p946},
rating = {0}
}
@article{Novembre:2009p7186,
author = {John Novembre and Anna Di Rienzo},
journal = {Nat Rev Genet},
title = {Spatial patterns of variation due to natural selection in humans},
abstract = {Empowered by technology and sampling efforts designed to facilitate genome-wide association mapping, human geneticists are now studying the geography of genetic variation in unprecedented detail. With high genomic coverage and geographic resolution, these studies are identifying loci with spatial signatures of selection, such as extreme levels of differentiation and correlations with environmental variables. Collectively, patterns at these loci are beginning to provide new insights into the process of human adaptation. Here, we review the challenges of these studies and emerging results, including how human population structure has influenced the response to novel selective pressures.},
affiliation = {Department of Ecology and Evolutionary Biology, Interdepartmental Program in Bioinformatics, University of California-Los Angeles, Los Angeles, California 90095-1606, USA. jnovembre@ucla.edu},
number = {11},
pages = {745--55},
volume = {10},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Humans, Selection: Genetic, Genetic Variation, Genome-Wide Association Study, Animals},
date-added = {2010-03-06 21:18:17 +0100},
date-modified = {2010-03-06 21:18:17 +0100},
doi = {10.1038/nrg2632},
pii = {nrg2632},
pmid = {19823195},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7186},
rating = {0}
}
@article{Mohamed:2010p5896,
author = {S Mohamed and K Heller and Z Ghahramani},
title = {Sparse Exponential Family Latent Variable Models},
year = {2010},
date-added = {2010-02-17 21:14:06 +0100},
date-modified = {2010-02-17 21:15:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mohamed-2010-_Sparse%20Exponential%20F.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5896},
rating = {0}
}
@article{Terracciano:2008p1448,
author = {A Terracciano and S Sanna and M Uda and B Deiana and G Usala and F Busonero and A Maschio and M Scally and N Patriciu and W-M Chen and M A Distel and E P Slagboom and Dorret I Boomsma and S Villafuerte and E Sliwerska and M Burmeister and N Amin and A C J W Janssens and C M van Duijn and D Schlessinger and Gon{\c c}alo R Abecasis and P T Costa},
journal = {Mol Psychiatry},
title = {Genome-wide association scan for five major dimensions of personality},
abstract = {Personality traits are summarized by five broad dimensions with pervasive influences on major life outcomes, strong links to psychiatric disorders and clear heritable components. To identify genetic variants associated with each of the five dimensions of personality we performed a genome-wide association (GWA) scan of 3972 individuals from a genetically isolated population within Sardinia, Italy. On the basis of the analyses of 362 129 single-nucleotide polymorphisms we found several strong signals within or near genes previously implicated in psychiatric disorders. They include the association of neuroticism with SNAP25 (rs362584, P=5 x 10(-5)), extraversion with BDNF and two cadherin genes (CDH13 and CDH23; Ps<5 x 10(-5)), openness with CNTNAP2 (rs10251794, P=3 x 10(-5)), agreeableness with CLOCK (rs6832769, P=9 x 10(-6)) and conscientiousness with DYRK1A (rs2835731, P=3 x 10(-5)). Effect sizes were small (less than 1% of variance), and most failed to replicate in the follow-up independent samples (N up to 3903), though the association between agreeableness and CLOCK was supported in two of three replication samples (overall P=2 x 10(-5)). We infer that a large number of loci may influence personality traits and disorders, requiring larger sample sizes for the GWA approach to confidently identify associated genetic variants.Molecular Psychiatry advance online publication, 28 October 2008; doi:10.1038/mp.2008.113.},
affiliation = {1National Institute on Aging, NIH, Baltimore, MD, USA.},
pages = {},
year = {2008},
month = {Oct},
language = {ENG},
date-added = {2010-01-07 12:22:16 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1038/mp.2008.113},
pii = {mp2008113},
pmid = {18957941},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Terracciano-2008-Mol%20Psychiatry_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1448},
read = {Yes},
rating = {3}
}
@article{McKinley:1985p2702,
author = {R L McKinley and C N Mills},
journal = {Applied Psychological Measurement},
title = {A Comparison of Several Goodness-of-Fit Statistics},
number = {1},
pages = {49--57},
volume = {9},
year = {1985},
date-added = {2010-01-13 10:21:10 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McKinley-1985-Applied%20Psychological%20Measurement_A%20Comparison%20of%20Seve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2702},
rating = {0}
}
@article{Gelman:2010p7203,
author = {A Gelman},
title = {Causality and Statistical Learning},
year = {2010},
date-added = {2010-03-06 21:20:31 +0100},
date-modified = {2010-03-06 21:20:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gelman-2010-_Causality%20and%20Statis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7203},
rating = {0}
}
@article{DeYoung:2010p13852,
author = {Colin G DeYoung and Jacob B Hirsh and Matthew S Shane and Xenophon Papademetris and Nallakkandi Rajeevan and Jeremy R Gray},
journal = {Psychol Sci},
title = {Testing predictions from personality neuroscience: brain structure and the big five},
abstract = {We used a new theory of the biological basis of the Big Five personality traits to generate hypotheses about the association of each trait with the volume of different brain regions. Controlling for age, sex, and whole-brain volume, results from structural magnetic resonance imaging of 116 healthy adults supported our hypotheses for four of the five traits: Extraversion, Neuroticism, Agreeableness, and Conscientiousness. Extraversion covaried with volume of medial orbitofrontal cortex, a brain region involved in processing reward information. Neuroticism covaried with volume of brain regions associated with threat, punishment, and negative affect. Agreeableness covaried with volume in regions that process information about the intentions and mental states of other individuals. Conscientiousness covaried with volume in lateral prefrontal cortex, a region involved in planning and the voluntary control of behavior. These findings support our biologically based, explanatory model of the Big Five and demonstrate the potential of personality neuroscience (i.e., the systematic study of individual differences in personality using neuroscience methods) as a discipline.},
affiliation = {University of Minnesota, 75 East River Rd., Minneapolis, MN 55455, USA. ccdeyoung@umn.edu},
number = {6},
pages = {820--8},
volume = {21},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-29 17:44:14 +0200},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1177/0956797610370159},
pii = {0956797610370159},
pmid = {20435951},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13852},
rating = {0}
}
@article{Dipple:2000p5530,
author = {K M Dipple and E R McCabe},
journal = {Am J Hum Genet},
title = {Phenotypes of patients with "simple" Mendelian disorders are complex traits: thresholds, modifiers, and systems dynamics},
number = {6},
pages = {1729--35},
volume = {66},
year = {2000},
month = {Jun},
language = {eng},
keywords = {Genetic Diseases: Inborn, Phenotype, Environment, Animals, Genetic Variation, Mutation, Syndrome, Humans, Models: Genetic, Genotype},
date-added = {2010-02-12 15:29:50 +0100},
date-modified = {2010-02-12 15:29:50 +0100},
doi = {10.1086/302938},
pii = {S0002-9297(07)63525-3},
pmid = {10793008},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dipple-2000-Am%20J%20Hum%20Genet_Phenotypes%20of%20patien.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5530},
rating = {0}
}
@article{Vivien:2010p12011,
author = {M Vivien and R Sabatier},
title = {Generalized orthogonal multiple co-inertia analysis (-PLS): new multiblock component and regression methods},
date-added = {2010-05-23 22:30:54 +0200},
date-modified = {2010-05-23 22:32:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vivien--_Generalized%20orthogon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12011},
rating = {3}
}
@article{Hays:1993p9577,
author = {R D Hays and R Anderson and D Revicki},
journal = {Qual Life Res},
title = {Psychometric considerations in evaluating health-related quality of life measures},
abstract = {How does one determine if a measure of health-related quality of life (HRQL) is adequate for clinical trials? Psychometric methods are frequently used to answer this question. What is psychometrics all about? In this paper we address these questions, discussing common psychometric evaluation procedures applied to HRQL measures. Specifically, we discuss issues regarding the evaluation of reliability and validity (including responsiveness).},
affiliation = {RAND, Social Policy Department, Santa Monica, CA 90407-2138.},
number = {6},
pages = {441--9},
volume = {2},
year = {1993},
month = {Dec},
language = {eng},
keywords = {Cross-Cultural Comparison, Questionnaires, Health Surveys, Reproducibility of Results, Humans, Psychometrics, Quality of Life},
date-added = {2010-03-23 20:58:29 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
pmid = {8161978},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hays-1993-Qual%20Life%20Res_Psychometric%20conside.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9577},
rating = {4}
}
@article{Bartlett:2009p12030,
author = {James C Bartlett and Kalyan K Shastri and Herv{\'e} Abdi and Marsha Neville-Smith},
journal = {J Exp Psychol Learn Mem Cogn},
title = {Component structure of individual differences in true and false recognition of faces},
abstract = {Principal-component analyses of 4 face-recognition studies uncovered 2 independent components. The first component was strongly related to false-alarm errors with new faces as well as to facial "conjunctions" that recombine features of previously studied faces. The second component was strongly related to hits as well as to the conjunction/new difference in false-alarm errors. The pattern of loadings on both components was impressively invariant across the experiments, which differed in age range of participants, stimulus set, list length, facial orientation, and the presence versus absence of familiarized lures along with conjunction and entirely new lures in the recognition test. Taken together, the findings show that neither component was exclusively related to discrimination, criterion, configural processing, featural processing, context recollection, or familiarity. Rather, the data are consistent with a neuropsychological model that distinguishes frontal and occipitotemporal contributions to face recognition memory. Within the framework of the model, findings showed that frontal and occipitotemporal contributions are discernible from the pattern of individual differences in behavioral performance among healthy young adults.},
affiliation = {School of Behavioral and Brain Sciences, University of Texas at Dallas, Campus Mailbox GR41, Richardson, TX 75080-3021, USA. jbartlet@utdallas.edu},
number = {5},
pages = {1207--30},
volume = {35},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Facial Expression, Repression, Humans, Principal Component Analysis, Male, Adult, Recognition (Psychology), Analysis of Variance, Neuropsychological Tests, ROC Curve, Photic Stimulation, Female, Judgment, Young Adult, Factor Analysis: Statistical, Discrimination (Psychology), Pattern Recognition: Visual, Face, Adolescent, Middle Aged},
date-added = {2010-05-24 10:25:57 +0200},
date-modified = {2010-07-29 20:14:08 +0200},
doi = {10.1037/a0016368},
pii = {2009-12193-009},
pmid = {19686016},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bartlett-2009-J%20Exp%20Psychol%20Learn%20Mem%20Cogn_Component%20structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12030},
rating = {0}
}
@article{Anonymous:2003p11759,
title = {Bayesian Inference and Sampling Theory},
year = {2003},
date-added = {2010-05-23 10:06:22 +0200},
date-modified = {2010-05-23 10:07:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2003-_Bayesian%20Inference%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11759},
read = {Yes},
rating = {0}
}
@article{Lustgarten:2008p12954,
author = {Jonathan L Lustgarten and Vanathi Gopalakrishnan and Himanshu Grover and Shyam Visweswaran},
journal = {AMIA Annual Symposium proceedings / AMIA Symposium AMIA Symposium},
title = {Improving classification performance with discretization on biomedical datasets},
abstract = {Discretization acts as a variable selection method in addition to transforming the continuous values of the variable to discrete ones. Machine learning algorithms such as Support Vector Machines and Random Forests have been used for classification in high-dimensional genomic and proteomic data due to their robustness to the dimensionality of the data. We show that discretization can help improve significantly the classification performance of these algorithms as well as algorithms like Na{\"\i}ve Bayes that are sensitive to the dimensionality of the data.},
affiliation = {Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA, USA.},
pages = {445--9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Database Management Systems, Decision Support Techniques, Pattern Recognition: Automated, Artificial Intelligence, Algorithms, Databases: Factual},
date-added = {2010-06-25 22:08:47 +0200},
date-modified = {2010-06-25 22:08:50 +0200},
pmid = {18999186},
url = {http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Retrieve&list_uids=18999186&dopt=abstractplus},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lustgarten-2008-AMIA%20Annual%20Symposium%20proceedings%20AMIA%20Symposium%20AMIA%20Symposium_Improving%20classifica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12954},
rating = {0}
}
@article{Gierl:2004p4613,
author = {M Gierl and J Bisanz and Y Y Li},
title = {Using the Multidimensionality-Based DIF Analysis Paradigm to Study Cognitive Skills that Elicit Group Differences: A Critique},
year = {2004},
date-added = {2010-01-30 15:13:49 +0100},
date-modified = {2010-01-30 15:15:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gierl-2004-_Using%20the%20Multidimen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4613},
rating = {0}
}
@article{Nandakumar:1998,
author = {R Nandakumar and F Yu and H-H Li and W Stout},
journal = {Applied Psychological Measurement},
title = {Assessing Unidimensionality of Polytomous Data},
abstract = {This study investigated the performance of Poly-DIMTEST (PD) to assess unidimensionality of test data produced by polytomous items. Two types of polytomous data were considered: (1) tests in which all items had the same number of response categories, and (2) tests in which items had a mixed number of response categories. Test length, sample size, and the type of correlation matrix (used in factor analysis for selecting ATI subset items) were varied in Type I error analyses. For the power study, the correlation between Os and the item-0 loadings were also varied. The results showed that PD was able to confirm unidimensionality for unidimensional simulated test data, with the average observed level of significance slightly below the nominal level. PD was also highly effective in detecting lack of unidimensionality in various two-dimensional tests. As expected, power increased as the sample size and test length increased, and the correlation between the Os decreased. The results also demonstrated that use of Pearson correlations to select ATI items led to equally good or better performance than using polychoric correlations; therefore Pearson correlations are recommended for future use.},
number = {2},
pages = {99--115},
volume = {22},
year = {1998},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1180},
rating = {4}
}
@mastersthesis{Davis:2002,
author = {Laurie Laughlin Davis},
journal = {Masters Thesis},
title = {Strategies for controlling item exposure in computerized adaptive testing with polytomously scored items},
affiliation = {University of Texas at Austin},
year = {2002},
month = {May},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Davis-2002-Masters%20Thesis_Strategies%20for%20contr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2021},
rating = {0}
}
@article{Schwender:2007p1757,
author = {H Schwender},
title = {Statistical Analysis of Genotype and Gene Expression Data},
year = {2007},
date-added = {2010-01-09 21:12:05 +0100},
date-modified = {2010-01-09 21:12:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schwender-2007-_Statistical%20Analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1757},
rating = {0}
}
@article{Lin:2009p8347,
author = {Jin-Mann S Lin and Dana J Brimmer and Elizabeth M Maloney and Ernestina Nyarko and Rhonda Belue and William C Reeves},
journal = {Popul Health Metr},
title = {Further validation of the Multidimensional Fatigue Inventory in a US adult population sample},
abstract = {ABSTRACT: BACKGROUND: The Multidimensional Fatigue Inventory (MFI-20) was developed in 1995. Since then, it has been widely used in cancer research and cancer-related illnesses but has never been validated in fatiguing illnesses or in a large US population-selected sample. In this study, we sought to examine the reliability and validity of the MFI-20 in the population of the state of Georgia, USA. Further, we assessed whether the MFI-20 could serve as a complementary diagnostic tool in chronically fatigued and unwell populations. METHODS: The data derive from a cross-sectional population-based study investigating the prevalence of chronic fatigue syndrome (CFS) in Georgia. The study sample was comprised of three diagnostic groups: CFS-like (292), chronically unwell (269), and well (222). Participants completed the MFI-20 along with several other measures of psychosocial functioning, including the Medical Outcomes Survey Short Form-36 (SF-36), the Zung Self-Rating Depression Scale (SDS), and the Spielberger State-Trait Anxiety Inventory (STAI). We assessed the five MFI-20 subscales using several criteria: inter-item correlations, corrected item-total correlations, internal consistency reliability (Cronbach's alpha coefficients), construct validity, discriminant (known-group) validity, floor/ceiling effects, and convergent validity through correlations with the SF-36, SDS, and STAI instruments. RESULTS: Averaged inter-item correlations ranged from 0.38 to 0.61, indicating no item redundancy. Corrected item-total correlations for all MFI-20 subscales were greater than 0.30, and Cronbach's alpha coefficients achieved an acceptable level of 0.70. No significant floor/ceiling effect was observed. Factor analysis demonstrated factorial complexity. The MFI-20 also distinguished clearly between three diagnostic groups on all subscales. Furthermore, correlations with depression (SDS), anxiety (STAI), and functional impairment (SF-36) demonstrated strong convergent validity. CONCLUSIONS: This study provides support for the MFI-20 as a valuable tool when used in chronically unwell and well populations. It also suggests that the MFI-20 could serve as a complementary diagnostic tool in fatiguing illnesses, such as CFS.},
affiliation = {Chronic Viral Diseases Branch, National Center for Zoonotic, Vector-borne and Enteric Diseases, Centers for Disease Control and Prevention, Mail Stop A-15, 1600 Clifton Rd, NE, Atlanta, GA, USA. dwe3@cdc.gov.},
pages = {18},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:50:11 +0100},
date-modified = {2010-07-29 19:44:07 +0200},
doi = {10.1186/1478-7954-7-18},
pii = {1478-7954-7-18},
pmid = {20003524},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lin-2009-Popul%20Health%20Metr_Further%20validation%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8347},
rating = {0}
}
@article{Willke:2004p4449,
author = {Richard J Willke and Laurie B Burke and Pennifer Erickson},
journal = {Controlled Clinical Trials},
title = {Measuring treatment impact: a review of patient-reported outcomes and other efficacy endpoints in approved product labels},
abstract = {CONTEXT: The term "patient-reported outcomes" (PROs) has evolved to include any endpoint derived from patient reports, whether collected in the clinic, in a diary, or by other means, including single-item outcome measures, event logs, symptom reports, formal instruments to measure health-related quality of life (HRQL), health status, adherence, and satisfaction with treatment. This term coincides with the explicit interest from drug development researchers and regulatory authorities in the appropriate utilization and reporting of treatment impact measures. OBJECTIVE: To determine the level and nature of use of PROs compared to other types of effectiveness endpoints in approved product labeling for new drugs recently approved in the United States. DESIGN AND SOURCES: Review and analysis of effectiveness endpoints as reported in clinical study descriptions in approved product labeling of new molecular entities (NMEs) approved in the United States from 1997 through 2002. MAIN OUTCOME MEASURES: Effectiveness study endpoints reported in approved product labeling that fall into the following categories of measurement: PROs, clinician-reported outcomes (CROs), and laboratory test/device measurement endpoints. RESULTS: PROs were reported in 64 (30%) of the 215 product labels reviewed. Clinician-reported outcomes were reported most frequently (62%) followed by laboratory/device endpoints (50%). PROs were the only type of endpoint used in the FDA-approved label for 23 products. Formal multiitem PRO scales were cited 22 times. Use of PROs is most common in antiinflammatory, CNS, gastrointestinal, respiratory, allergic conjunctivitis, and urologic therapy areas. The frequency of reported PRO use over this period did not change. CONCLUSION: PROs, although quite variable as a class of study endpoints, were found to have a significant role in the development and evaluation of new medicines. More formal guidance from the FDA about use of such measures along with continued collaboration by PRO researchers to develop and disseminate standards will enhance the appropriate use of PROs in future drug development and labeling.},
affiliation = {Pfizer Inc., Bridgewater, NJ 08807, USA. richard.j.willke@pfizer.com},
number = {6},
pages = {535--52},
volume = {25},
year = {2004},
month = {Dec},
language = {eng},
keywords = {Health Status, Drug Labeling, Reproducibility of Results, Drug Therapy, Patient Satisfaction, Pharmaceutical Preparations, Endpoint Determination, Humans, Psychometrics, Outcome Assessment (Health Care), Clinical Trials as Topic, Questionnaires, Quality of Life, Drug Prescriptions},
date-added = {2010-01-29 21:36:34 +0100},
date-modified = {2010-01-29 21:36:34 +0100},
doi = {10.1016/j.cct.2004.09.003},
pii = {S0197-2456(04)00091-1},
pmid = {15588741},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Willke-2004-Controlled%20Clinical%20Trials_Measuring%20treatment.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4449},
rating = {0}
}
@article{Hudziak:2004p9137,
author = {James J Hudziak and C E M van Beijsterveldt and Robert R Althoff and Catherine Stanger and David C Rettew and Elliot C Nelson and Richard D Todd and Meike Bartels and Dorret I Boomsma},
journal = {Arch Gen Psychiatry},
title = {Genetic and environmental contributions to the Child Behavior Checklist Obsessive-Compulsive Scale: a cross-cultural twin study},
abstract = {CONTEXT: We have reported elsewhere on the development of an 8-item Obsessive-Compulsive Scale (OCS) contained in the Child Behavior Checklist (CBCL) to identify children who meet criteria for DSM-IV obsessive-compulsive disorder. Twin studies of obsessive-compulsive disorder have indicated a significant genetic component to its expression. OBJECTIVE: To determine the relative contributions of genetic and environmental influences on childhood obsessive-compulsive behavior using the CBCL OCS in twin samples. DESIGN: The CBCL data were received by survey of twins in the Netherlands Twin Registry (NTR) and the Missouri Twin Study (USA/MOTWIN). SETTING: General community twin samples. PARTICIPANTS: Participants were 4246 twin pairs aged 7 years, 2841 aged 10 years, and 1562 aged 12 years (who also participated in the study at 7 and 10 years of age) from the NTR and 1461 mixed-age twin pairs (average age, approximately 9 years) from the USA/MOTWIN. MAIN OUTCOME MEASURES: Model fitting to test for genetic and environmental influences, sex differences, and sibling interaction/rater contrast effects on the CBCL OCS. RESULTS: In each case, the best-fitting model was one that indicated significant additive genetic influences (range, 45%-58%; 95% confidence interval [CI], 45%-61%), and unique environmental influences (range, 42%-55%; 95% CI, 39%-55%), with shared environmental influences in the NTR sample aged 12 years (16%). Sex differences were seen in the mixed-age USA/MOTWIN model, but not in the NTR samples. No evidence of dominance, sibling interaction, or rater-contrast effects was seen. These data were relatively consistent across age and cultures. CONCLUSIONS: The CBCL OCS is influenced by genetic factors (approximately 55%) and unique environmental factors (approximately 45%) in the younger sample, with common environmental influences only at 12 years of age. These effects do not vary with differences in sex or sibling interaction/rater contrast effects. Our data reveal higher genetic influences for obsessive-compulsive behavior and do not demonstrate genetic differences across sex.},
affiliation = {Department of Psychiatry, University of Vermont, Burlington; Vrije University, Amsterdam, The Netherlands. james.hudziak@uvm.edu},
number = {6},
pages = {608--16},
volume = {61},
year = {2004},
month = {Jun},
language = {eng},
keywords = {Phenotype, Netherlands, Models: Genetic, Gene Expression, Twins: Monozygotic, Personality Inventory, Missouri, Twins: Dizygotic, Obsessive-Compulsive Disorder, Male, Female, Sex Factors, Age Factors, Psychiatric Status Rating Scales, Humans, United States, Social Environment, Cross-Cultural Comparison, Molecular Biology, Child, Diseases in Twins},
date-added = {2010-03-22 13:29:46 +0100},
date-modified = {2010-03-22 13:29:46 +0100},
doi = {10.1001/archpsyc.61.6.608},
pii = {61/6/608},
pmid = {15184240},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hudziak-2004-Arch%20Gen%20Psychiatry_Genetic%20and%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9137},
rating = {0}
}
@article{Cordell:2003p5246,
author = {Heather J Cordell and Joanna M M Howson and David G Clayton},
journal = {BMC Genet},
title = {Linkage analysis of a derived glucose phenotype in the Genetic Analysis Workshop 13 simulated data using a variety of Haseman-Elston based regression methods},
abstract = {A variety of Haseman-Elston type regression procedures were used to perform a genome scan across five chromosomes, using replicates 1-5 of the Genetic Analysis Workshop 13 simulated data. The traits of interest were variables corresponding to 'baseline' and 'slope' effects derived from the fasting glucose phenotypes. Performance in terms of detecting the locations of known trait loci was poor for all methods, even when all five replicates were combined to produce a large data set (9230 sib pairs). All methods performed well, however, when applied to new simulated data in which the true genetic effects were allowed to explain a greater proportion of the overall variance.},
affiliation = {University of Cambridge, Department of Medical Genetics, JDRF/WT Diabetes and Inflammation Laboratory, Cambridge Institute for Medical Research, Wellcome Trust/MRC Building, Addenbrookes Hospital, United Kingdom. heather.cordell@cimr.cam.ac.uk},
pages = {S6},
volume = {4 Suppl 1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Adult Children, Female, Quantitative Trait Loci, Male, Humans, Regression Analysis, Fasting, Phenotype, Longitudinal Studies, Computer Simulation, Linkage (Genetics), Blood Glucose, Models: Statistical, Matched-Pair Analysis, Siblings},
date-added = {2010-02-09 22:25:51 +0100},
date-modified = {2010-02-09 22:25:51 +0100},
doi = {10.1186/1471-2156-4-S1-S6},
pii = {1471-2156-4-S1-S6},
pmid = {14975074},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cordell-2003-BMC%20Genet_Linkage%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5246},
rating = {0}
}
@article{Farcomeni:2008p4686,
author = {Alessio Farcomeni},
journal = {Stat Methods Med Res},
title = {A review of modern multiple hypothesis testing, with particular attention to the false discovery proportion},
abstract = {In the last decade a growing amount of statistical research has been devoted to multiple testing, motivated by a variety of applications in medicine, bioinformatics, genomics, brain imaging, etc. Research in this area is focused on developing powerful procedures even when the number of tests is very large. This paper attempts to review research in modern multiple hypothesis testing with particular attention to the false discovery proportion, loosely defined as the number of false rejections divided by the number of rejections. We review the main ideas, stepwise and augmentation procedures; and resampling based testing. We also discuss the problem of dependence among the test statistics. Simulations make a comparison between the procedures and with Bayesian methods. We illustrate the procedures in applications in DNA microarray data analysis. Finally, few possibilities for further research are highlighted.},
affiliation = {Universit{\`a} di Roma La Sapienza, Roma, Italy. alessio.farcomeni@uniroma1.it},
number = {4},
pages = {347--88},
volume = {17},
year = {2008},
month = {Aug},
language = {eng},
keywords = {False Positive Reactions, Bayes Theorem, Models: Theoretical},
date-added = {2010-01-30 16:13:05 +0100},
date-modified = {2010-01-30 16:13:07 +0100},
doi = {10.1177/0962280206079046},
pii = {0962280206079046},
pmid = {17698936},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4686},
rating = {4}
}
@article{OLeary:2009p12875,
author = {R A O'Leary and R W Francis and K W Carter and M J Firth and U R Kees and N H de Klerk},
journal = {18th World IMACS / MODSIM Congress},
title = {A comparison of Bayesian classification trees and random forest to identify classifiers for childhood leukaemia},
abstract = {Recently, microarrays technologies have been extensively used to distinguish gene expression in acute lymphoblastic leukaemia (ALL) (e.g. Pui et al., 2004; Hoffmann et al., 2008). ALL is the most common type of leukaemia diagnosed in children, with an incidence rate of about 4 per 100,000 per year (Pizzo and Poplack, 2001; Milne et al., 2008). There are six main subtypes of leukaemia, one of which is T- cell acute lymphoblastic leukaemia (T-ALL) which generally has lower cure rates than other forms of ALL. Ribonucleic acid (RNA) samples from each patient can be put onto microarrays to provide gene expression levels for around 20 thousand genes (depending on which microarray chip is used). One of the challenges with microarray analysis in leukaemia research is identifying the smallest possible set of genes that predict relapse with the highest predictive performance.},
year = {2009},
date-added = {2010-06-24 12:57:39 +0200},
date-modified = {2010-06-24 12:58:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/O'Leary-2009-18th%20World%20IMACS%20MODSIM%20Congress_A%20comparison%20of%20Baye.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12875},
rating = {0}
}
@article{Kendall:1988,
author = {PC Kendall and WM Grove},
journal = {Behavioral Assessment},
title = {Normative comparisons in therapy outcome},
abstract = {Normative comparisons are a procedure for evaluating the clinical significance of therapeutic interventions. Although a step-by-step statistical methodology for conducting normative comparisons has been reported elsewhere (P. C. Kendall, A. Marrs-Garcia, S. R. Nath, {\&} R. C. Sheldrick, 1999), questions regarding the collecting of normative data remain. For this study, all treatment outcome studies published in the Journal of Consulting and Clinical Psychology from 1988 to 1997 were examined and reviewed, and the 5 most commonly used outcome measures were identified. For these outcome measures, multiple sources of normative data were located. Although we identified a dearth of normative data on measures used for treatment outcome, results discussed here nevertheless provide information that may be of use to therapy outcome evaluators when conducting normative comparisons. In addition, equations to determine the minimum sample size needed in a normative sample for a given treatment outcome study are provided.},
pages = {147--158},
volume = {10},
year = {1988},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-01-03 19:35:29 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1024},
rating = {0}
}
@article{Goldstein:2010p13172,
author = {Benjamin A Goldstein and Alan E Hubbard and Adele Cutler and Lisa F Barcellos},
journal = {BMC Genet},
title = {An application of Random Forests to a genome-wide association dataset: Methodological considerations {\&} new findings},
abstract = {ABSTRACT: BACKGROUND: As computational power improves, the application of more advanced machine learning techniques to the analysis of large genome-wide association (GWA) datasets becomes possible. While most traditional statistical methods can only elucidate main effects of genetic variants on risk for disease, certain machine learning approaches are particularly suited to discover higher order and non-linear effects. One such approach is the Random Forests (RF) algorithm. The use of RF for SNP discovery related to human disease has grown in recent years; however, most work has focused on small datasets or simulation studies which are limited. RESULTS: Using a multiple sclerosis (MS) case-control dataset comprised of ~300K SNP genotypes across the genome, we outline an approach and some considerations for optimally tuning the RF algorithm based on the empirical dataset. Importantly, results show that typical default parameter values are not appropriate for large GWA datasets. Furthermore, gains can be made by sub-sampling the data, pruning based on linkage disequilibrium (LD), and removing strong effects from RF analyses. The new RF results are compared to findings from the original MS GWA study and demonstrate overlap. In addition, four new interesting candidate MS genes are identified, MPHOSPH9, CTNNA3, PHACTR2 and IL7, by RF analysis and warrant further follow-up in independent studies. CONCLUSIONS: This study presents one of the first illustrations of successfully analyzing GWA data with a machine learning algorithm. It is shown that RF is computationally feasible for GWA data and the results obtained make biologic sense based on previous studies. More importantly, new genes were identified as potentially being associated with MS, suggesting new avenues of investigation for this complex disease.},
number = {1},
pages = {49},
volume = {11},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-06-26 11:18:21 +0200},
date-modified = {2010-06-26 11:18:25 +0200},
doi = {10.1186/1471-2156-11-49},
pii = {1471-2156-11-49},
pmid = {20546594},
url = {http://www.biomedcentral.com/1471-2156/11/49},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldstein-2010-BMC%20Genet_An%20application%20of%20Ra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13172},
read = {Yes},
rating = {5}
}
@article{Ioannidis:2001p10436,
author = {J P Ioannidis and E E Ntzani and T A Trikalinos and D G Contopoulos-Ioannidis},
journal = {Nat Genet},
title = {Replication validity of genetic association studies},
abstract = {The rapid growth of human genetics creates countless opportunities for studies of disease association. Given the number of potentially identifiable genetic markers and the multitude of clinical outcomes to which these may be linked, the testing and validation of statistical hypotheses in genetic epidemiology is a task of unprecedented scale. Meta-analysis provides a quantitative approach for combining the results of various studies on the same topic, and for estimating and explaining their diversity. Here, we have evaluated by meta-analysis 370 studies addressing 36 genetic associations for various outcomes of disease. We show that significant between-study heterogeneity (diversity) is frequent, and that the results of the first study correlate only modestly with subsequent research on the same association. The first study often suggests a stronger genetic effect than is found by subsequent studies. Both bias and genuine population diversity might explain why early association studies tend to overestimate the disease protection or predisposition conferred by a genetic polymorphism. We conclude that a systematic meta-analytic approach may assist in estimating population-wide effects of genetic risk factors in human disease.},
affiliation = {Clinical and Molecular Epidemiology Unit, Department of Hygiene and Epidemiology, University of Ioannina School of Medicine, Ioannina 45110, Greece. jioannid@cc.uoi.gr},
number = {3},
pages = {306--9},
volume = {29},
year = {2001},
month = {Nov},
language = {eng},
keywords = {Reproducibility of Results, Chromosome Mapping, Bias (Epidemiology), Genetic Markers, Humans, Linkage (Genetics), Polymorphism: Genetic, Genetic Predisposition to Disease, Genetic Variation, Odds Ratio, Meta-Analysis as Topic, Disease, Regression Analysis},
date-added = {2010-04-07 11:01:42 +0200},
date-modified = {2010-04-07 11:01:51 +0200},
doi = {10.1038/ng749},
pii = {ng749},
pmid = {11600885},
url = {http://www.nature.com/ng/journal/v29/n3/abs/ng749.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ioannidis-2001-Nat%20Genet_Replication%20validity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10436},
read = {Yes},
rating = {4}
}
@article{Noh:2006p6785,
author = {M Noh and B Yip and Y Lee and Y Pawitan},
journal = {Genet Epidemiol},
title = {Multicomponent variance estimation for binary traits in family-based studies},
abstract = {In biometrical genetic analyses of binary traits, the use of family data overcomes some limitations of twin studies, particularly in terms of sample size and types of genetic or environmental factors that can be estimated. However, because of computational problems, recent methods in the application of generalized linear mixed models for family data structure have limited the ability to handle large data sets with general covariates. In this paper, we investigate the use of the hierarchical likelihood approach to the analysis of binary traits from family data. In a simulation study, the method is shown to be highly accurate for the estimation of both the variance components and fixed regression parameters, even for small family sizes. For illustration, we analyze a real data set of familial aggregation of preeclampsia, a pregnancy-induced hypertension. When possible, the analysis is compared with the exact maximum likelihood approach.},
affiliation = {Department of Statistics, Seoul National University, South Korea.},
number = {1},
pages = {37--47},
volume = {30},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Female, Models: Genetic, Genotype, Humans, Cytogenetic Analysis, Quantitative Trait Loci, Pregnancy, Pre-Eclampsia, Analysis of Variance, Genetic Predisposition to Disease, Likelihood Functions, Linear Models},
date-added = {2010-03-05 22:25:30 +0100},
date-modified = {2010-03-05 22:25:30 +0100},
doi = {10.1002/gepi.20099},
pmid = {16265627},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6785},
rating = {0}
}
@article{Parkes:2008p3279,
author = {Jackie Parkes and Melanie White-Koning and Heather O Dickinson and Ute Thyen and Catherine Arnaud and Eva Beckung and Jerome Fauconnier and Marco Marcelli and Vicki McManus and Susan I Michelsen and Kathryn Parkinson and Allan Colver},
journal = {J Child Psychol Psychiatry},
title = {Psychological problems in children with cerebral palsy: a cross-sectional European study},
abstract = {OBJECTIVES: To describe psychological symptoms in 8-12-year-old children with cerebral palsy; to investigate predictors of these symptoms and their impact on the child and family. DESIGN: A cross-sectional multi-centre survey. PARTICIPANTS: Eight hundred and eighteen children with cerebral palsy, aged 8-12 years, identified from population-based registers of cerebral palsy in eight European regions and from multiple sources in one further region. MAIN OUTCOME MEASURES: The Strengths and Difficulties Questionnaire (SDQ)(P4-16) and the Total Difficulties Score (TDS) dichotomised into normal/borderline (TDS < or = 16) versus abnormal (TDS > 16). STATISTICAL ANALYSIS: Multilevel, multivariable logistic regression to relate the presence of psychological symptoms to child and family characteristics. RESULTS: About a quarter of the children had TDS > 16 indicating significant psychological symptoms, most commonly in the domain Peer Problems. Better gross motor function, poorer intellect, more pain, having a disabled or ill sibling and living in a town were independently associated with TDS > 16. The risk of TDS > 16 was odds ratio (OR) = .2 (95% CI: .1 to .3) comparing children with the most and least severe functional limitations; OR = 3.2 (95%CI: 2.1 to 4.8) comparing children with IQ < 70 and others; OR = 2.7 (95% CI: 1.5 to 4.6) comparing children in severe pain and others; OR = 2.7 (95% CI:1.6 to 4.6) comparing children with another disabled sibling or OR = 1.8 (95%CI: 1.2 to 2.8) no siblings and others; OR = 1.8 (95% CI: 1.1 to 2.8) comparing children resident in a town and others. Among parents who reported their child to have psychological problems, 95% said they had lasted over a year, 37% said they distressed their child and 42% said they burdened the family at least 'quite a lot'. CONCLUSIONS: A significant proportion of children with cerebral palsy have psychological symptoms or social impairment sufficiently severe to warrant referral to specialist services. Care must be taken in the assessment and management of children with cerebral palsy to ensure psychological problems are not overlooked and potentially preventable risk factors like pain are treated effectively. The validity of the SDQ for children with severe disability warrants further assessment.},
affiliation = {School of Nursing {\&} Midwifery, Queen's University Belfast, UK. j.parkes@qub.ac.uk},
number = {4},
pages = {405--13},
volume = {49},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Siblings, Mental Retardation, Europe, Cerebral Palsy, Social Adjustment, Comorbidity, Social Environment, Male, Child Behavior Disorders, Disability Evaluation, Affective Symptoms, Referral and Consultation, Humans, Sick Role, Female, Cross-Sectional Studies, Pain, Personality Assessment, Peer Group, Child, Health Surveys, Risk Factors},
date-added = {2010-01-14 21:12:33 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
doi = {10.1111/j.1469-7610.2007.01845.x},
pii = {JCPP1845},
pmid = {18081767},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parkes-2008-J%20Child%20Psychol%20Psychiatry_Psychological%20proble.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3279},
rating = {0}
}
@article{Knoch:2007p4102,
author = {U Knoch},
journal = {Spaan Fellow Working Papers in Second or Foreign Language Assessment},
title = {Do Empirically Developed Rating Scales Function Differently to Conventional Rating Scales for Academic Writing?},
abstract = {Rating scales with detailed level descriptors are used in writing performance assessment to give raters an explicit basis on which to award scores. These scales, however, are generally constructed by a team of developers who rely largely on intuition of what they think writers produce rather than what they actually produce. The descriptors have furthermore been criticized for often being too vague to result in reliable ratings. In recent years there has been a call for more empirically based methods of scale development (Fulcher, 2003; Upshur {\&} Turner, 1999), as this process should greatly improve the validity and the reliability of the ratings. The aim of this study is to investigate whether such an empirically developed rating scale for writing does in fact result in more reliable and valid ratings than more intuitively developed measures. The validation process involved 10 trained raters rating 100 scripts (produced as part of a large-scale diagnostic assessment administered to both native and nonnative speakers of English at a large university) using both sets of descriptors. The quantitative analysis was undertaken using FACETS. Questionnaires and interviews were also administered to elicit the raters' perceptions of the efficacy of the two types of scales. The results suggest that the raters used very different cognitive processes when employing the two sets of descriptors, resulting in two different score profiles. The findings are discussed in terms of their implications for rater training and rating scale development.},
volume = {5},
year = {2007},
date-added = {2010-01-19 23:36:34 +0100},
date-modified = {2010-01-19 23:37:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Knoch-2007-Spaan%20Fellow%20Working%20Papers%20in%20Second%20or%20Foreign%20Language%20Assessment_Do%20Empirically%20Devel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4102},
rating = {0}
}
@article{McRae:2007p1722,
author = {Allan F McRae and Nicholas A Matigian and Lata Vadlamudi and John C Mulley and Bryan Mowry and Nicholas G Martin and Sam F Berkovic and Nicholas K Hayward and Peter M Visscher},
journal = {Hum Mol Genet},
title = {Replicated effects of sex and genotype on gene expression in human lymphoblastoid cell lines},
abstract = {The expression level for 15,887 transcripts in lymphoblastoid cell lines from 19 monozygotic twin pairs (10 male, 9 female) were analysed for the effects of genotype and sex. On an average, the effect of twin pairs explained 31% of the variance in normalized gene expression levels, consistent with previous broad sense heritability estimates. The effect of sex on gene expression levels was most noticeable on the X chromosome, which contained 15 of the 20 significantly differentially expressed genes. A high concordance was observed between the sex difference test statistics and surveys of genes escaping X chromosome inactivation. Notably, several autosomal genes showed significant differences in gene expression between the sexes despite much of the cellular environment differences being effectively removed in the cell lines. A publicly available gene expression data set from the CEPH families was used to validate the results. The heritability of gene expression levels as estimated from the two data sets showed a highly significant positive correlation, particularly when both estimates were close to one and thus had the smallest standard error. There was a large concordance between the genes significantly differentially expressed between the sexes in the two data sets. Analysis of the variability of probe binding intensities within a probe set indicated that results are robust to the possible presence of polymorphisms in the target sequences.},
affiliation = {Genetic Epidemiology Group, Queensland Institute of Medical Research, Herston, QLD 4029, Australia. allan.mcrae@qimr.edu.au},
number = {4},
pages = {364--73},
volume = {16},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Middle Aged, Oligonucleotide Array Sequence Analysis, Adult, Genotype, Cell Transformation: Viral, Female, Family, Twins: Monozygotic, Male, Gene Expression Regulation, Databases: Factual, Humans, Lymphocytes, Cell Line: Transformed, Sex Characteristics},
date-added = {2010-01-09 20:31:05 +0100},
date-modified = {2010-01-09 20:31:06 +0100},
doi = {10.1093/hmg/ddl456},
pii = {ddl456},
pmid = {17164263},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McRae-2007-Hum%20Mol%20Genet_Replicated%20effects%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1722},
rating = {0}
}
@article{Prelic:2006p12869,
author = {Amela Preli{\'c} and Stefan Bleuler and Philip Zimmermann and Anja Wille and Peter B{\"u}hlmann and Wilhelm Gruissem and Lars Hennig and Lothar Thiele and Eckart Zitzler},
journal = {Bioinformatics},
title = {A systematic comparison and evaluation of biclustering methods for gene expression data},
abstract = {MOTIVATION: In recent years, there have been various efforts to overcome the limitations of standard clustering approaches for the analysis of gene expression data by grouping genes and samples simultaneously. The underlying concept, which is often referred to as biclustering, allows to identify sets of genes sharing compatible expression patterns across subsets of samples, and its usefulness has been demonstrated for different organisms and datasets. Several biclustering methods have been proposed in the literature; however, it is not clear how the different techniques compare with each other with respect to the biological relevance of the clusters as well as with other characteristics such as robustness and sensitivity to noise. Accordingly, no guidelines concerning the choice of the biclustering method are currently available. RESULTS: First, this paper provides a methodology for comparing and validating biclustering methods that includes a simple binary reference model. Although this model captures the essential features of most biclustering approaches, it is still simple enough to exactly determine all optimal groupings; to this end, we propose a fast divide-and-conquer algorithm (Bimax). Second, we evaluate the performance of five salient biclustering algorithms together with the reference model and a hierarchical clustering method on various synthetic and real datasets for Saccharomyces cerevisiae and Arabidopsis thaliana. The comparison reveals that (1) biclustering in general has advantages over a conventional hierarchical clustering approach, (2) there are considerable performance differences between the tested methods and (3) already the simple reference model delivers relevant patterns within all considered settings.},
affiliation = {Computer Engineering and Networks Laboratory, ETH Zurich, 8092 Zurich, Switzerland.},
number = {9},
pages = {1122--9},
volume = {22},
year = {2006},
month = {May},
language = {eng},
keywords = {cluster analysis, Pattern Recognition: Automated, Algorithms, Artificial Intelligence, Oligonucleotide Array Sequence Analysis, Databases: Genetic, Gene Expression Profiling, Gene Expression},
date-added = {2010-06-24 12:51:37 +0200},
date-modified = {2010-06-24 12:51:37 +0200},
doi = {10.1093/bioinformatics/btl060},
pii = {btl060},
pmid = {16500941},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Preli%C4%87-2006-Bioinformatics_A%20systematic%20compari.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12869},
rating = {0}
}
@article{Hasin:2004p3415,
author = {Yehudit Hasin and Nili Avidan and Dani Bercovich and Amos Korczyn and Israel Silman and Jacques S Beckmann and Joel L Sussman},
journal = {Hum Mutat},
title = {A paradigm for single nucleotide polymorphism analysis: the case of the acetylcholinesterase gene},
abstract = {Acetylcholinesterase (AChE) plays a crucial physiological role in termination of impulse transmission at cholinergic synapses through rapid hydrolysis of acetylcholine. It is a highly conserved molecule, and only a few naturally occurring genetic polymorphisms have been reported in the human gene. The goal of the present study was to make a systematic effort to identify natural single nucleotide polymorphisms (SNPs) in the human ACHE gene. To this end, the genomic coding sequences for acetylcholinesterase of 96 unrelated control individuals from three distinct ethnic groups were analyzed. A total of 13 ACHE SNPs were identified, 10 of which are newly described, and five that should produce amino acid substitutions [c.101G>A (p.Arg34Gln), c.169G>A (p.Gly57Arg), c.1031A>G (p.Glu344Gly), c.1057C>A (p.His353Asn), and c.1775C>G (p.Pro592Arg)]. Population frequencies of 11 of the 13 SNPs were established in four different populations: African Americans, Ashkenazi Jews, Sephardic Jews, and Israeli Arabs; 15 haplotypes and five ethnospecific alleles were identified. The low number of SNPs identified until now in the ACHE gene is ascribed to technical hurdles arising from the high GC content and the presence of numerous repeat sequences, and does not reflect its intrinsic heterozygosity. Among the SNPs resulting in an amino acid substitution, three are within the mature protein, mapping on its external surface: they are thus unlikely to affect its catalytic properties, yet could have antigenic consequences or affect putative protein-protein interactions. Furthermore, the newly identified SNPs open the door to a study of the possible association of AChE with deleterious phenotypes-such as adverse drug responses to AChE inhibitors employed in treatment of Alzheimer patients and hypersensitivity to pesticides.},
affiliation = {Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel.},
number = {5},
pages = {408--16},
volume = {24},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Acetylcholinesterase, Molecular Sequence Data, Base Composition, Haplotypes, Mutation: Missense, Gene Frequency, 3' Untranslated Regions, Polymorphism: Single Nucleotide, Exons, Protein Conformation, Models: Molecular, Amino Acid Sequence, Introns, DNA Mutational Analysis, Base Sequence, Ethnic Groups, Humans, Catalysis},
date-added = {2010-01-15 14:52:09 +0100},
date-modified = {2010-01-15 14:52:09 +0100},
doi = {10.1002/humu.20106},
pmid = {15459952},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hasin-2004-Hum%20Mutat_A%20paradigm%20for%20singl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3415},
rating = {0}
}
@article{Wermuth:2005p6306,
author = {N Wermuth},
title = {On implications of recent results on graphical Markov models for the design and analysis of observational studies},
year = {2005},
date-added = {2010-02-20 20:18:22 +0100},
date-modified = {2010-02-20 20:18:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wermuth-2005-_On%20implications%20of%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6306},
rating = {0}
}
@article{Missiuna:1995p12938,
author = {C Missiuna and H Polatajko},
journal = {Am J Occup Ther},
title = {Developmental dyspraxia by any other name: are they all just clumsy children?},
abstract = {The recent introduction of the diagnostic category developmental coordination disorder (DCD) (American Psychiatric Association [APA], 1987, 1994), has generated confusion among researchers and clinicians in many fields, including occupational therapy. Although the diagnostic criteria appear to be similar to those used to define clumsy children, children with developmental dyspraxia, or children with sensory integrative dysfunction, we are left with the question: Are children who receive the diagnosis of DCD the same as those who receive the other diagnoses, a subgroup, or an entirely distinct group of children? This article will examine the theoretical and empirical literature and use the results to support the thesis that these terms are not interchangeable and yet are not being used in the literature in a way that clearly defines each subgroup of children. Clear definitions and characteristic features need to be identified and associated with each term to guide occupational therapy assessment and intervention and clinical research.},
affiliation = {School of Occupational Therapy and Physiotherapy, McMaster University, Hamilton, Ontario.},
number = {7},
pages = {619--27},
volume = {49},
year = {1995},
month = {Jan},
language = {eng},
keywords = {Child, Terminology as Topic, Humans, Developmental Disabilities},
date-added = {2010-06-25 21:46:32 +0200},
date-modified = {2010-06-25 21:46:32 +0200},
pmid = {7573332},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12938},
rating = {0}
}
@article{Kulas:2008p7240,
author = {J T Kulas and J Merriam and Y Onama},
journal = {Journal of Research in Personality},
title = {Item--trait association, scale multidimensionality, and differential item functioning identification in personality assessment},
abstract = {This report documents relationships between differential item functioning (DIF) identification and: (1) item--trait asso- ciation, and (2) scale multidimensionality in personality assessment. Applying [Zumbo, B. D. (1999). A handbook on the theory and methods of differential item functioning (DIF): Logistic regression modeling as a unitary framework for binary and Likert-type (ordinal) item scores. Ottawa, ON: Directorate of Human Resources Research and Evaluation, Depart- ment of National Defense.] logistic regression model, DIF effect size is found to become increasingly inflated as investi- gated item associations with trait scores decrease. Similar patterns were noted for the influence of scale multidimensionality on DIF identification. Individuals who investigate DIF in personality assessment applications are pro- vided with estimates regarding the impact of the magnitude of item and trait association and scale multidimensionality on DIF occurrence and effect size. The results emphasize the importance of excluding investigated items in focal trait identi- fication prior to conducting DIF analyses and reporting item and scale psychometric properties in DIF reports.},
pages = {1102--1108},
volume = {42},
year = {2008},
date-added = {2010-03-10 20:07:06 +0100},
date-modified = {2010-07-29 19:36:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kulas-2008-Journal%20of%20Research%20in%20Personality_Item%E2%80%93trait%20associati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7240},
rating = {4}
}
@article{Horst:1956p13810,
author = {P Horst and K W Schaie},
journal = {Journal of Experimental Education},
title = {The multiple group method of factor analysis and rotation to a simple structure hypothesis},
pages = {231--237},
volume = {24},
year = {1956},
date-added = {2010-07-29 12:29:34 +0200},
date-modified = {2010-07-29 12:31:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Horst-1956-Journal%20of%20Experimental%20Education_The%20multiple%20group%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13810},
rating = {3}
}
@article{Ambroise:2009p12786,
author = {Christophe Ambroise and J Chiquet and C Matias},
journal = {Electronic Journal of Statistics},
title = {Inferring sparse Gaussian graphical models with latent structure},
abstract = {Ourconcernisselectingtheconcentrationmatrix'snonzeroco- efficients for a sparse Gaussian graphical model in a high-dimensional set- ting. This corresponds to estimating the graph of conditional dependencies between the variables. We describe a novel framework taking into account a latent structure on the concentration matrix. This latent structure is used to drive a penalty matrix and thus to recover a graphical model with a constrained topology. Our method uses an l1 penalized likelihood crite- rion. Inference of the graph of conditional dependencies between the vari- ates and of the hidden variables is performed simultaneously in an iterative em-like algorithm named SIMoNe (Statistical Inference for Modular Net- works). Performances are illustrated on synthetic as well as real data, the latter concerning breast cancer. For gene regulation networks, our method can provide a useful insight both on the mutual influence existing between genes, and on the modules existing in the network.},
pages = {205--238},
volume = {3},
year = {2009},
date-added = {2010-06-18 20:58:57 +0200},
date-modified = {2010-07-29 20:21:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ambroise-2009-Electronic%20Journal%20of%20Statistics_Inferring%20sparse%20Gau.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12786},
rating = {0}
}
@article{Widiger:2009p5942,
author = {Thomas A Widiger and Stephanie N Mullins-Sweatt},
journal = {Annual review of clinical psychology},
title = {Five-factor model of personality disorder: a proposal for DSM-V},
abstract = {The predominant dimensional model of general personality structure within psychology is the five-factor model (FFM). Research indicates that the personality disorders of the American Psychiatric Association's diagnostic manual can be understood as maladaptive variants of the domains and facets of the FFM. The current review provides a proposal for the classification of personality disorder from the perspective of the FFM. Discussed as well are implications and issues associated with an FFM of personality disorder, including the integration of a psychiatric nomenclature with general personality structure, the inclusion of a domain of openness to experience, the identification of problems in living associated with maladaptive personality traits, the setting of a diagnostic threshold, prototypal matching, feasibility, and clinical utility.},
affiliation = {Department of Psychology, University of Kentucky, Lexington, KY 40506-0044, USA. widiger@pop.uky.edu},
pages = {197--220},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Diagnostic and Statistical Manual of Mental Disorders, Humans, Factor Analysis: Statistical, Adaptation: Psychological, Personality Disorders, Psychotherapy, Feasibility Studies},
date-added = {2010-02-18 23:17:11 +0100},
date-modified = {2010-02-18 23:17:11 +0100},
doi = {10.1146/annurev.clinpsy.032408.153542},
pmid = {19046124},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Widiger-2009-Annual%20review%20of%20clinical%20psychology_Five-factor%20model%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5942},
rating = {0}
}
@article{Wolfe:1998,
author = {M B W Wolfe and M E Schreiner and B Rehder and D Laham},
journal = {Discourse Processes},
title = {Learning from text: Matching readers and texts by latent semantic analysis},
pages = {309--336},
volume = {25},
year = {1998},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 19:25:23 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wolfe-1998-Discourse%20Processes_Learning%20from%20text.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1903},
rating = {0}
}
@article{PearsonFuhrhop:2009p9790,
author = {Kristin M Pearson-Fuhrhop and Jeffrey A Kleim and Steven C Cramer},
journal = {Top Stroke Rehabil},
title = {Brain plasticity and genetic factors},
abstract = {Brain plasticity refers to changes in brain function and structure that arise in a number of contexts. One area in which brain plasticity is of considerable interest is recovery from stroke, both spontaneous and treatment-induced. A number of factors influence these poststroke brain events. The current review considers the impact of genetic factors. Polymorphisms in the human genes coding for brain-derived neurotrophic factor (BDNF) and apolipoprotein E (ApoE) have been studied in the context of plasticity and/or stroke recovery and are discussed here in detail. Several other genetic polymorphisms are indirectly involved in stroke recovery through their modulating influences on processes such as depression and pharmacotherapy effects. Finally, new genetic polymorphisms that have not been studied in the context of stroke are proposed as new directions for study. A better understanding of genetic influences on recovery and response to therapy might allow improved treatment after stroke.},
affiliation = {Department of Anatomy {\&} Neurobiology, University of California, Irvine, Orange, USA.},
number = {4},
pages = {282--99},
volume = {16},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Neuronal Plasticity, Recovery of Function, Humans, Nerve Tissue Proteins, Stroke, Animals},
date-added = {2010-03-26 19:20:35 +0100},
date-modified = {2010-03-26 19:20:35 +0100},
doi = {10.1310/tsr1604-282},
pii = {72UT2147G631P441},
pmid = {19740733},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9790},
rating = {0}
}
@article{Fowler:1992,
author = {FJ Fowler},
journal = {Public Opinion Quarterly},
title = {How unclear terms affect survey data},
abstract = {Although writing clear questions is accepted as a general goal in surveys, procedures to ensure that each key term is consistently understood are not routine. Researchers who do not adequately test respondent understanding of questions must assume that ambiguity will not have a large or systematic effect on their results. Seven questions that were drawn from questions used in national health surveys were subjected to special pretest procedures and found to contain one or more poorly defined terms. When the questions were revised to clarify the definition of key terms, significantly different estimates resulted.The implication is that unclear terms are likely to produce biased estimates. The results indicate that evaluation of survey questions to identify key terms that are not consistently understood and defining unclear terms are ways to reduce systematic error in survey measurement.},
pages = {18--231},
volume = {56},
year = {1992},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:47:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1003},
rating = {0}
}
@article{Cook:2008p6039,
author = {Edwin H Cook and Stephen W Scherer},
journal = {Nature},
title = {Copy-number variations associated with neuropsychiatric conditions},
abstract = {Neuropsychiatric conditions such as autism and schizophrenia have long been attributed to genetic alterations, but identifying the genes responsible has proved challenging. Microarray experiments have now revealed abundant copy-number variation--a type of variation in which stretches of DNA are duplicated, deleted and sometimes rearranged--in the human population. Genes affected by copy-number variation are good candidates for research into disease susceptibility. The complexity of neuropsychiatric genetics, however, dictates that assessment of the biomedical relevance of copy-number variants and the genes that they affect needs to be considered in an integrated context.},
affiliation = {Institute for Juvenile Research, Department of Psychiatry, University of Illinois, 1747 West Roosevelt Road, Chicago, Illinois 60608, USA.},
number = {7215},
pages = {919--23},
volume = {455},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Gene Dosage, Mental Disorders, Autistic Disorder, Schizophrenia, Genomics, Nervous System Diseases, Animals, Humans, Genetic Predisposition to Disease},
date-added = {2010-02-19 17:01:10 +0100},
date-modified = {2010-02-19 17:01:10 +0100},
doi = {10.1038/nature07458},
pii = {nature07458},
pmid = {18923514},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6039},
rating = {0}
}
@article{Haber:2006p9845,
author = {Michael Haber and Huiman X Barnhart},
journal = {Stat Methods Med Res},
title = {Coefficients of agreement for fixed observers},
abstract = {Agreement between fixed observers or methods that produce readings on a continuous scale is usually evaluated via one of several intraclass correlation coefficients (ICCs). This article presents and discusses a few related issues that have not been raised before. ICCs are usually presented in the context of a two-way analysis of variance (ANOVA) model. We argue that the ANOVA model makes inadequate assumptions, such as the homogeneity of the error variances and of the pairwise correlation coefficients between observers. We then present the concept of observer relational agreement which has been used in the social sciences to derive the common ICCs without making the restrictive ANOVA assumptions. This concept did not receive much attention in the biomedical literature. When observer agreement is defined in terms of the difference of the readings of different observers on the same subject (absolute agreement), the corresponding relational agreement coefficient coincides with the concordance correlation coefficient (CCC), which is also an ICC. The CCC, which has gained popularity over the past 15 years, compares the mean squared difference between readings of observers on the same subject with the expected value of this quantity under the assumption of 'chance agreement', which is defined as independence between observers. We argue that the assumption of independence is unrealistic in this context and present a new coefficient that is not based on the concept of chance agreement.},
affiliation = {Department of Biostatistics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA. mhaber@sph.emory.edu},
number = {3},
pages = {255--71},
volume = {15},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Analysis of Variance, Computer Simulation, Humans, Reproducibility of Results, Biomedical Research, Models: Statistical, Magnetic Resonance Angiography, Clinical Trials as Topic, Observer Variation, Carotid Stenosis},
date-added = {2010-03-26 19:29:19 +0100},
date-modified = {2010-03-26 19:29:20 +0100},
pmid = {16768299},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haber-2006-Stat%20Methods%20Med%20Res_Coefficients%20of%20agre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9845},
rating = {0}
}
@article{Muthen:1992p6779,
author = {B O Muth{\'e}n},
journal = {Alcohol Health {\&} Research World},
title = {Latent variable modeling in epidemiology},
number = {4},
pages = {286--292},
volume = {16},
year = {1992},
date-added = {2010-03-05 22:19:51 +0100},
date-modified = {2010-03-05 22:21:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1992-Alcohol%20Health%20&%20Research%20World_Latent%20variable%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6779},
rating = {0}
}
@article{Duerr:2006p5605,
author = {Richard H Duerr and Kent D Taylor and Steven R Brant and John D Rioux and Mark S Silverberg and Mark J Daly and A Hillary Steinhart and Clara Abraham and Miguel Regueiro and Anne Griffiths and Themistocles Dassopoulos and Alain Bitton and Huiying Yang and Stephan Targan and Lisa Wu Datta and Emily O Kistner and L Philip Schumm and Annette T Lee and Peter K Gregersen and M Michael Barmada and Jerome I Rotter and Dan L Nicolae and Judy H Cho},
journal = {Science},
title = {A genome-wide association study identifies IL23R as an inflammatory bowel disease gene},
abstract = {The inflammatory bowel diseases Crohn's disease and ulcerative colitis are common, chronic disorders that cause abdominal pain, diarrhea, and gastrointestinal bleeding. To identify genetic factors that might contribute to these disorders, we performed a genome-wide association study. We found a highly significant association between Crohn's disease and the IL23R gene on chromosome 1p31, which encodes a subunit of the receptor for the proinflammatory cytokine interleukin-23. An uncommon coding variant (rs11209026, c.1142G>A, p.Arg381Gln) confers strong protection against Crohn's disease, and additional noncoding IL23R variants are independently associated. Replication studies confirmed IL23R associations in independent cohorts of patients with Crohn's disease or ulcerative colitis. These results and previous studies on the proinflammatory role of IL-23 prioritize this signaling pathway as a therapeutic target in inflammatory bowel disease.},
affiliation = {Division of Gastroenterology, Hepatology and Nutrition, Department of Medicine, School of Medicine, University of Pittsburgh, University of Pittsburgh Medical Center Presbyterian, Mezzanine Level, C-Wing, 200 Lothrop Street, Pittsburgh, PA 15213, USA.},
number = {5804},
pages = {1461--3},
volume = {314},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Linkage Disequilibrium, Polymorphism: Single Nucleotide, Genome: Human, Haplotypes, Alleles, Genetic Markers, Genetic Testing, Chromosomes: Human: Pair 1, Crohn Disease, Colitis: Ulcerative, Humans, Case-Control Studies, Signal Transduction, Jews, Genetic Predisposition to Disease, Interleukin-23, Receptors: Interleukin, Cohort Studies},
date-added = {2010-02-12 15:45:45 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1135245},
pii = {1135245},
pmid = {17068223},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Duerr-2006-Science_A%20genome-wide%20associ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5605},
rating = {0}
}
@article{Patterson:2006p3418,
author = {N Patterson},
title = {Population structure and eigenanalysis},
year = {2006},
date-added = {2010-01-15 14:54:08 +0100},
date-modified = {2010-01-15 14:54:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patterson-2006-_Population%20structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3418},
rating = {0}
}
@article{Beautrais:2001,
author = {AL Beautrais},
journal = {Psychol Med},
title = {Suicides and serious suicide attempts: two populations or one?},
abstract = {Background. Few studies have examined the extent to which populations of suicides and attempted suicides are similar, or different. This paper compares suicides and serious suicide attempts in terms of known risk factors for suicidal behaviour. Methods. Using case--control methodology, risk factors for suicidal behaviour were examined in 202 individuals who died by suicide, 275 individuals who made medically serious suicide attempts and 984 randomly selected control subjects. Based on data from significant others, measures used spanned sociodemographic factors, childhood experiences, psychiatric morbidity and psychiatric history, exposure to recent stressful life events and social interaction. Results. Multiple logistic regression identified the following risk factors that were common to suicide and serious suicide attempts: current mood disorder; previous suicide attempts; prior out-patient psychiatric treatment; admission to psychiatric hospital within the previous year; low income; a lack of formal educational qualifications; exposure to recent stressful interpersonal, legal and work-related life events. Suicides and suicide attempts were distinguished in the following ways: suicides were more likely to be male (OR = 1·9, 95% CI 1·1, 3·2); older (OR = 1·03, 95% CI 1·02, 1·04); and to have a current diagnosis of non-affective psychosis (OR = 8·5, 95% CI 2·0, 35·9). Suicide attempts were more likely than suicides to have a current diagnosis of anxiety disorder (OR = 3·5, 95% CI 1·6, 7·8) and to be socially isolated (OR = 2·0, 95% CI 1·2, 3·5). These findings were confirmed by discriminant function analysis, which identified two functions that described the three subject groups: the first function discriminated the two suicide groups from control subjects on a dimension corresponding to risk factors for suicide; the second function discriminated suicide from suicide attempt subjects on a series of factors including gender, non-affective psychosis and anxiety disorder. Conclusions. Suicides and medically serious suicide attempts are two overlapping populations that share common psychiatric diagnostic and history features, but are distinguished by gender and patterning of psychiatric disorder.},
pages = {837--845},
volume = {31},
year = {2001},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1040},
rating = {0}
}
@article{Lau:2009p5751,
author = {Jennifer Y F Lau and Thalia C Eley},
journal = {Annual review of clinical psychology},
title = {The Genetics of Mood Disorders},
abstract = {Studying the genetics of mood disorders has never been more exciting. We have moved rapidly from establishing the genetic basis of depression to asking questions about how genes are expressed. This has been made possible by the capacity to collect and sequence DNA for large samples cheaply. But "multidisciplinary" approaches investigating interrelationships between risk factors have also been increasingly adopted, encouraging collaborations between those studying genes and those studying the brain, cognition, and/or the social environment. In this review, we first describe findings from quantitative and molecular studies investigating the genetic basis of depression. Second, we present overviews of three hot topics of genetic research: gene-environment interplay, which considers how genetic factors shape exposure and responses toward the social environment; endophenotypic research, which identifies neurophysiological and psychological mediators of genetic risk; and epigenetics, which explain how early environments can foster changes in gene expression, altering subsequent emotional development. Expected final online publication date for the Annual Review of Clinical Psychology Volume 6 is March 27, 2010. Please see http://www.annualreviews.org/catalog/pubdates.aspx for revised estimates.},
affiliation = {Department of Experimental Psychology, University of Oxford, OX1 4AU, United Kingdom; jennifer.lau@psy.ox.ac.uk.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-02-15 20:28:49 +0100},
date-modified = {2010-02-15 20:28:49 +0100},
doi = {10.1146/annurev.clinpsy.121208.131308},
pmid = {20001729},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5751},
rating = {0}
}
@article{Pek:2009p11945,
author = {J Pek and S K Sterba and B E Kok and D J Bauer},
journal = {Multivariate Behavioral Research},
title = {Estimating and Visualizing Nonlinear Relations Among Latent Variables: A
Semiparametric Approach},
abstract = {The graphical presentation of any scientific finding enhances its description, in- terpretation, and evaluation. Research involving latent variables is no exception, especially when potential nonlinear effects are suspect. This article has multiple aims. First, it provides a nontechnical overview of a semiparametric approach to modeling nonlinear relationships among latent variables using mixtures of linear structural equations. Second, it provides several examples showing how the method works and how it is implemented and interpreted in practical applications. In particular, this article examines the potentially nonlinear relationships between positive and negative affect and cognitive processing. Third, a recommended dis- play format for illustrating latent bivariate relationships is demonstrated. Finally, the article describes an R package and an online utility that generate these displays automatically.},
pages = {407--436},
volume = {44},
year = {2009},
date-added = {2010-05-23 17:04:19 +0200},
date-modified = {2010-05-23 17:06:07 +0200},
doi = {10.1080/00273170903103290},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pek-2009-Multivariate%20Behavioral%20Research_Estimating%20and%20Visua-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11945},
rating = {4}
}
@article{Chotai:2003p9959,
author = {Jayanti Chotai and Alessandro Serretti and Enrico Lattuada and Cristina Lorenzi and Roberta Lilli},
journal = {Psychiatry Res},
title = {Gene-environment interaction in psychiatric disorders as indicated by season of birth variations in tryptophan hydroxylase (TPH), serotonin transporter (5-HTTLPR) and dopamine receptor (DRD4) gene polymorphisms},
abstract = {Genetic and environmental factors, as well as their interactions, are likely to be involved in psychiatric disorders. Considerable progress has been made in association and linkage studies with various candidate genes, at times with conflicting or ambiguous results. An environmental factor that has persistently shown associations with several psychiatric and neurological disorders is the season of birth. If it is the interaction of a specific gene allele with a specific season of birth that constitutes an increased (or decreased) risk for a disorder, then the individuals with this disorder are likely to have a season of birth variation in this gene allele. We investigated the variations in TPH, 5-HTTLPR and DRD4 gene polymorphisms according to seasonality of birth in 954 patients with unipolar affective disorder, bipolar affective disorder, and schizophrenia, respectively, and in 395 controls. We first analyzed season of birth variations in the gene alleles with one cycle or two cycles per year, and then compared specified birth seasons with each other. We found season of birth variations in these gene alleles that were different for different psychiatric disorders. Significant differences between cases and controls could be obtained when restricting the analysis within certain birth seasons but not within others. Our results thus suggest an interaction between the seasons of birth and the expression of the candidate genes, and that season of birth is a confounding variable when investigating the role of the candidate genes in susceptibility to psychiatric disorders.},
affiliation = {Division of Psychiatry, Department of Clinical Sciences, University of Ume{\aa}, 901 85, Ume{\aa}, Sweden. jayanti.chotai@vll.se},
number = {1-2},
pages = {99--111},
volume = {119},
year = {2003},
month = {Jul},
language = {eng},
keywords = {Introns, Adult, Genetic Predisposition to Disease, Tryptophan Hydroxylase, Environment, Genotype, Seasons, Serotonin, Italy, Incidence, Male, Middle Aged, Schizophrenia, Receptors: Dopamine D2, Alleles, Polymorphism: Genetic, Gene Expression, Receptors: Dopamine D4, Birth Rate, Female, Mood Disorders, Mental Disorders, Humans, Bipolar Disorder},
date-added = {2010-03-31 16:12:41 +0200},
date-modified = {2010-07-29 19:45:28 +0200},
pii = {S0165178103001124},
pmid = {12860364},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chotai-2003-Psychiatry%20Res_Gene-environment%20int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9959},
rating = {0}
}
@article{Devouche:2001p4616,
author = {E Devouche and M Gratier},
journal = {Devenir},
title = {Microanalyse du rythme dans les {\'e}changes vocaux et gestuels entre la m{\`e}re et son b{\'e}b{\'e} de 10 semaines},
number = {2},
pages = {55--82},
volume = {13},
year = {2001},
date-added = {2010-01-30 15:19:48 +0100},
date-modified = {2010-01-30 15:21:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Devouche-2001-Devenir_Microanalyse%20du%20ryth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4616},
rating = {0}
}
@article{Nicodemus:2007p5841,
author = {Kristin K Nicodemus and Wenyi Wang and Yin Yao Shugart},
journal = {BMC Proc},
title = {Stability of variable importance scores and rankings using statistical learning tools on single-nucleotide polymorphisms and risk factors involved in gene x gene and gene x environment interactions},
abstract = {Risk of complex disorders is thought to be multifactorial, involving interactions between risk factors. However, many genetic studies assess association between disease status and markers one single-nucleotide polymorphism (SNP) at a time, due to the high-dimensional nature of the search space of all possible interactions. Three ensemble methods have been recently proposed for use in high-dimensional data (Monte Carlo logic regression, random forests, and generalized boosted regression). An intuitive way to detect an association between genetic markers and disease status is to use variable importance measures, even though the stability of these measures in the context of a whole-genome association study is unknown. For the simulated data of Problem 3 in the Genetic Analysis Workshop 15 (GAW15), we examined the variability of both rankings and magnitude of variable importance measures using 10 variables simulated to participate in gene x gene and gene x environment interactions. We conducted 500 analyses per method on one randomly selected replicate, tallying the rankings and importance measures for each of the 10 variables of interest. When the simulated effect size was strong, all three methods showed stable rankings and estimates of variable importance. However, under conditions more commonly expected to be encountered in complex diseases, random forests and generalized boosted regression showed more stable estimates of variable importance and variable rankings. Individuals endeavoring to apply statistical learning methods to detect interaction in complex disease studies should perform repeated analyses in order to assure variable importance measures and rankings do not vary greatly, even for statistical learning algorithms that are thought to be stable.},
affiliation = {Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK. nicodemusk@mail.nih.gov},
pages = {S58},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-02-17 10:15:59 +0100},
date-modified = {2010-07-29 19:21:19 +0200},
pmid = {18466558},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicodemus-2007-BMC%20Proc_Stability%20of%20variabl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5841},
rating = {0}
}
@article{Penedo:2003p13043,
author = {Frank J Penedo and Jeffrey S Gonzalez and Jason R Dahn and Mike Antoni and Robert Malow and Paul Costa and Neil Schneiderman},
journal = {J Psychosom Res},
title = {Personality, quality of life and HAART adherence among men and women living with HIV/AIDS},
abstract = {Very few studies have documented relations between personality traits and quality of life among individuals living with human immunodeficiency virus (HIV)/acquired immune deficiency syndrome (AIDS). Some have shown that poor perceived quality of life as determined by a sense of purpose may be associated with inadequate adherence to highly active antiretroviral treatment (HAART) in this population. Although adequate HAART adherence is critical to achieve the full therapeutic effects of newly and highly effective regimens, very little is known of how both personality factors and HIV-specific quality of life may impact adherence to these medication regimens. This study evaluated relations among personality traits, quality of life and HAART adherence among 116 men and women living with HIV/AIDS. Results showed that personality traits such as neuroticism were significantly associated with poorer quality of life, whereas conscientiousness and extraversion were associated with better quality of life. In contrast, personality traits were not directly related to HAART adherence. Both higher overall functioning and lower medication worries scores were significantly associated with HAART adherence. Findings suggest that personality traits are associated with HIV-specific quality of life on the one hand, and that HIV-specific quality of life is related to HAART adherence on the other. Future studies assessing the efficacy of psychosocial interventions in improving quality of life and HAART adherence should consider the role of personality traits in promoting better quality of life.},
affiliation = {Department of Psychology, University of Miami, P.O. 248185, Coral Gables, FL 33134, USA. fpenedo@miami.edu},
number = {3},
pages = {271--8},
volume = {54},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Adult, Acquired Immunodeficiency Syndrome, Antiretroviral Therapy: Highly Active, Middle Aged, Quality of Life, Patient Compliance, Male, Health Status, Humans, Female, Personality},
date-added = {2010-06-26 09:35:54 +0200},
date-modified = {2010-06-26 09:35:54 +0200},
pii = {S0022399902004828},
pmid = {12614837},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Penedo-2003-J%20Psychosom%20Res_Personality%20quality.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13043},
rating = {0}
}
@article{Finstad:2010p13737,
author = {K Finstad},
journal = {Journal of Usability Studies},
title = {Response Interpolation and Scale
Sensitivity: Evidence Against
5-Point Scales},
abstract = {A series of usability tests was run on two enterprise software applications, followed by verbal administration of the System Usability Scale. The original instrument with its 5-point Likert items was presented, as well as an alternate version modified with 7-point Likert items. Participants in the 5-point scale condition were more likely than those presented with the 7-point scale to interpolate, i.e., attempt a response between two discrete values presented to them. In an applied setting, this implied that electronic radio-button style survey tools using 5-point items might not be accurately measuring participant responses. This finding supported the conclusion that 7-point Likert items provide a more accurate measure of a participant's true evaluation and are more appropriate for electronically-distributed and otherwise unsupervised usability questionnaires.},
number = {3},
pages = {104--110},
volume = {5},
year = {2010},
date-added = {2010-07-24 12:26:39 +0200},
date-modified = {2010-07-24 12:27:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finstad-2010-Journal%20of%20Usability%20Studies_Response%20Interpolati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13737},
rating = {0}
}
@article{Bechger:2003ac,
author = {Timo M Bechger and Gunter Maris},
title = {The componential Nedelsky model: A first exploration},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2003-_The%20componential%20Ned.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1191},
rating = {0}
}
@article{Knoblauch:2008p5528,
author = {Kenneth Knoblauch and Laurence T Maloney},
journal = {J Vis},
title = {Estimating classification images with generalized linear and additive models},
abstract = {Conventional approaches to modeling classification image data can be described in terms of a standard linear model (LM). We show how the problem can be characterized as a Generalized Linear Model (GLM) with a Bernoulli distribution. We demonstrate via simulation that this approach is more accurate in estimating the underlying template in the absence of internal noise. With increasing internal noise, however, the advantage of the GLM over the LM decreases and GLM is no more accurate than LM. We then introduce the Generalized Additive Model (GAM), an extension of GLM that can be used to estimate smooth classification images adaptively. We show that this approach is more robust to the presence of internal noise, and finally, we demonstrate that GAM is readily adapted to estimation of higher order (nonlinear) classification images and to testing their significance.},
affiliation = {Stem Cell and Brain Research Institute, D{\'e}partement Neurosciences Int{\'e}gratives, Bron, France. ken.knoblauch@inserm.fr},
number = {16},
pages = {10.1--19},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Signal Detection: Psychological, Linear Models, Artifacts, Visual Perception, Computer Simulation, Nonlinear Dynamics, Humans, Classification, Vision: Ocular},
date-added = {2010-02-12 15:27:01 +0100},
date-modified = {2010-02-12 15:27:01 +0100},
doi = {10.1167/8.16.10},
pii = {/8/16/10/},
pmid = {19146276},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Knoblauch-2008-J%20Vis_Estimating%20classific.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5528},
rating = {0}
}
@article{Chan:1996p5903,
author = {J C Chan},
journal = {The Journal of National Chengchi University},
title = {Estimating the latent trait from Lickert-type data: A comparison of factor analysis, item reponse theory, and multidimensional scaling},
pages = {299--320},
volume = {72},
year = {1996},
date-added = {2010-02-18 23:03:18 +0100},
date-modified = {2010-02-18 23:06:37 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chan-1996-The%20Journal%20of%20National%20Chengchi%20University_Estimating%20the%20laten.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5903},
rating = {0}
}
@article{McGraw:1996p3195,
author = {K O McGraw and S P Wong},
journal = {Psychological Methods},
title = {Forming Inferences About Some Intraclass Correlation Coefficients},
abstract = {Although intraclass correlation coefficients (ICCs) are commonly used in behavioral measurement, psychometrics, and behavioral genetics, procedures available for forming inferences about ICCs are not widely known. Following a review of the distinction between various forms of the ICC, this article presents procedures available for calculating confidence intervals and con- ducting tests on ICCs developed using data from one-way and two-way ran- dom and mixed-effect analysis of variance models.},
number = {1},
pages = {30--46},
volume = {1},
year = {1996},
date-added = {2010-01-14 20:53:41 +0100},
date-modified = {2010-01-14 20:54:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McGraw-1996-Psychological%20Methods_Forming%20Inferences%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3195},
rating = {0}
}
@article{Lewis:1999p10285,
author = {J A Lewis},
journal = {Stat Med},
title = {Statistical principles for clinical trials (ICH E9): an introductory note on an international guideline},
affiliation = {Medicines Control Agency, Market Towers, 1 Nine Elms Lane, London, SW8 5NQ, U.K.},
number = {15},
pages = {1903--42},
volume = {18},
year = {1999},
month = {Aug},
language = {eng},
keywords = {Japan, United States, International Cooperation, Europe, Humans, Clinical Trials as Topic, Guidelines as Topic},
date-added = {2010-04-02 16:18:48 +0200},
date-modified = {2010-04-02 16:18:48 +0200},
pii = {10.1002/(SICI)1097-0258(19990815)18:15<1903::AID-SIM188>3.0.CO;2-F},
pmid = {10440877},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lewis-1999-Stat%20Med_Statistical%20principl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10285},
rating = {0}
}
@article{Dumenci:2008p5950,
author = {Levent Dumenci and Thomas M Achenbach},
journal = {Psychol Assess},
title = {Effects of estimation methods on making trait-level inferences from ordered categorical items for assessing psychopathology},
abstract = {In assessments of attitudes, personality, and psychopathology, unidimensional scale scores are commonly obtained from Likert scale items to make inferences about individuals' trait levels. This study approached the issue of how best to combine Likert scale items to estimate test scores from the practitioner's perspective: Does it really matter which method is used to estimate a trait? Analyses of 3 data sets indicated that commonly used methods could be classified into 2 groups: methods that explicitly take account of the ordered categorical item distributions (i.e., partial credit and graded response models of item response theory, factor analysis using an asymptotically distribution-free estimator) and methods that do not distinguish Likert-type items from continuously distributed items (i.e., total score, principal component analysis, maximum-likelihood factor analysis). Differences in trait estimates were found to be trivial within each group. Yet the results suggested that inferences about individuals' trait levels differ considerably between the 2 groups. One should therefore choose a method that explicitly takes account of item distributions in estimating unidimensional traits from ordered categorical response formats. Consequences of violating distributional assumptions were discussed.},
affiliation = {Department of Social and Behavioral Health, Virginia Commonwealth University, Richmond, VA 23298, USA. ldumenci@vcu.edu},
number = {1},
pages = {55--62},
volume = {20},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Adolescent, Personality Assessment, Male, Factor Analysis: Statistical, Statistics as Topic, Age Factors, Mental Disorders, Aged: 80 and over, Middle Aged, Principal Component Analysis, Child, Adult, Psychometrics, Humans, Female, Aged},
date-added = {2010-02-18 23:20:50 +0100},
date-modified = {2010-07-29 20:15:47 +0200},
doi = {10.1037/1040-3590.20.1.55},
pii = {2008-02315-006},
pmid = {18315399},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dumenci-2008-Psychol%20Assess_Effects%20of%20estimatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5950},
rating = {0}
}
@inproceedings{Meade:2004,
author = {A W Meade and J K Ellington and S B Craig},
journal = {Proceedings},
title = {Exploratory Measurement Invariance: A New Method Based on Item Response Theory},
year = {2004},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meade-2004-Proceedings_Exploratory%20Measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2112},
rating = {0}
}
@article{Posthuma:2005p7211,
author = {D Posthuma and Dorret I Boomsma},
journal = {Behav Genet},
title = {Mx scripts library: structural equation modeling scripts for twin and family data},
abstract = {Structural equation modeling (SEM) provides a flexible tool to carry out genetic analyses of family and twin data. The basic model which decomposes the variance between and within families for a particular trait into genetic and non-genetic components can be generalized to multivariate and/or longitudinal data, incorporate sex differences in parameter estimates, and model the effects of measured environment, candidate genes or DNA marker data. We introduce a web-based library (http://www.psy.vu.nl/mxbib) of scripts for uni- and multivariate genetic epidemiological analyses, as well as for linkage and genetic association tests. The scripts are written to be used with the freely available software package Mx and provide a flexible and uniform approach to the analysis of data from relatives.},
affiliation = {Department of Biological Psychology, Vrije Universiteit, Van der Boechorststraat 1, 1081, BT, Amsterdam, The Netherlands.},
number = {4},
pages = {499--505},
volume = {35},
year = {2005},
month = {Jul},
language = {eng},
keywords = {Multivariate Analysis, Models: Statistical, Twin Studies as Topic, Genetic Markers, Sex Factors, DNA, Software, Inheritance Patterns, Longitudinal Studies, Humans},
date-added = {2010-03-08 19:23:48 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1007/s10519-005-2791-5},
pmid = {15971030},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Posthuma-2005-Behav%20Genet_Mx%20scripts%20library.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7211},
rating = {0}
}
@article{Feinerer:2008p4273,
author = {I Feinerer and K Hornik and D Meyer},
journal = {Journal of Statistical Software},
title = {Text Mining Infrastructure in R},
abstract = {During the last decade text mining has become a widely used discipline utilizing sta- tistical and machine learning methods. We present the tm package which provides a framework for text mining applications within R. We give a survey on text mining facili- ties in R and explain how typical application tasks can be carried out using our framework. We present techniques for count-based analysis methods, text clustering, text classification and string kernels.},
number = {5},
volume = {25},
year = {2008},
date-added = {2010-01-23 21:44:41 +0100},
date-modified = {2010-01-23 21:59:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Feinerer-2008-Journal%20of%20Statistical%20Software_Text%20Mining%20Infrastr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4273},
rating = {0}
}
@article{Levy:2008p1571,
author = {R Levy},
title = {Factors Affecting the Dimension of Best Measurement and Connections with Unidimensional Modeling of Multidimensional Data},
abstract = {When items exhibit multidimensionality, the dimension along which the collection of items
maximally discriminates is the dimension of best measurement. Foundational theoretical results regarding compensatory multidimensionality and the dimension of best measurement are reviewed and served to motivate the current investigations. Key factors of multidimensional data and their influences on the dimension of best measurement are presented and discussed. A theoretical study and a simulation study illustrates these results and investigates the relationship between the dimension of best measurement and the dimension that is estimated when a unidimensional model is fit to the data. The results provide evidence in support of hypotheses regarding (a) factors influencing the dimension of best measurement and (b) the relationship between the dimension of best measurement and the dimension resulting from fitting a unidimensional model. Discussions of implications for practice and future development conclude the paper.},
year = {2008},
date-added = {2010-01-07 16:57:41 +0100},
date-modified = {2010-01-07 16:58:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2008-_Factors%20Affecting%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1571},
rating = {0}
}
@article{Allen:2006p6470,
author = {Diane D Allen and Mark Wilson},
journal = {Health Educ Res},
title = {Introducing multidimensional item response modeling in health behavior and health education research},
abstract = {When measuring participant-reported attitudes and outcomes in the behavioral sciences, there are many instances when the common measurement assumption of unidimensionality does not hold. In these cases, the application of a multidimensional measurement model is both technically appropriate and potentially advantageous in substance. In this paper, we illustrate the usefulness of a multidimensional approach to measurement using an empirical example taken from the Behavior Change Consortium. Data from the Treatment Self-Regulation Questionnaire have been analyzed to investigate whether self-regulation can be regarded as a single construct, or if it has multiple dimensions based on the type of regulation or motivation that participants say helps them consider an improvement in healthy behavior. Comparison with consecutive analyses shows the advantages of multidimensional measurement for interpreting participant-reported data.},
affiliation = {Graduate School of Education, University of California, Berkeley, CA 94720, USA.},
pages = {i73--i84},
volume = {21 Suppl 1},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Psychometrics, Research Design, Models: Educational, Health Education, Models: Statistical, Humans, Health Behavior},
date-added = {2010-02-23 08:35:07 +0100},
date-modified = {2010-02-23 08:35:09 +0100},
doi = {10.1093/her/cyl086},
pii = {cyl086},
pmid = {17018769},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Allen-2006-Health%20Educ%20Res_Introducing%20multidim.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6470},
rating = {4}
}
@article{Savitz:2009p8865,
author = {Jonathan Savitz and Wayne C Drevets},
journal = {Neurosci Biobehav Rev},
title = {Bipolar and major depressive disorder: neuroimaging the developmental-degenerative divide},
abstract = {Both major depressive disorder and bipolar disorder are the subject of a voluminous imaging and genetics literature. Here, we attempt a comprehensive review of MRI and metabolic PET studies conducted to date on these two disorders, and interpret our findings from the perspective of developmental and degenerative models of illness. Elevated activity and volume loss of the hippocampus, orbital and ventral prefrontal cortex are recurrent themes in the literature. In contrast, dorsal aspects of the PFC tend to display hypometabolism. Ventriculomegaly and white matter hyperintensities are intimately associated with depression in elderly populations and likely have a vascular origin. Important confounding influences are medication, phenotypic and genetic heterogeneity, and technological limitations. We suggest that environmental stress and genetic risk variants interact with each other in a complex manner to alter neural circuitry and precipitate illness. Imaging genetic approaches hold out promise for advancing our understanding of affective illness.},
affiliation = {Section on Neuroimaging in Mood and Anxiety Disorders, Mood and Anxiety Disorders Program, National Institute of Mental Health/NIH, Bethesda, MD 20892, USA. savitzj@mail.nih.gov},
number = {5},
pages = {699--771},
volume = {33},
year = {2009},
month = {May},
language = {eng},
keywords = {Humans, Depressive Disorder: Major, Brain, Bipolar Disorder, Stress: Psychological, Models: Neurological, Genetic Predisposition to Disease, Magnetic Resonance Imaging, Aging, Positron-Emission Tomography},
date-added = {2010-03-22 12:38:46 +0100},
date-modified = {2010-03-22 12:38:46 +0100},
doi = {10.1016/j.neubiorev.2009.01.004},
pii = {S0149-7634(09)00006-2},
pmid = {19428491},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T0J-4VDY81H-2&_user=2432700&_coverDate=05%252F31%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=3341750edea748f1fa0c600afc11059d},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Savitz-2009-Neurosci%20Biobehav%20Rev_Bipolar%20and%20major%20de.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8865},
rating = {0}
}
@article{Scharpf:2007p2915,
author = {R B Scharpf and G Parmigiani and J Pevnser and I Ruczinski},
journal = {Johns Hopkins University, Dept. of Biostatistics Working Papers},
title = {A Hidden Markov model for joint estimation of genotype and copy number in high-throughput SNP chips},
abstract = {Amplifications and deletions of chromosomal DNA, as well as copy-neutral loss of heterozygosity have been associated with diseases processes. High-throughput single nucleotide polymorphism (SNP) arrays are useful for making genome- wide estimates of copy number and genotype calls. Because neighboring SNPs in high throughput SNP arrays are likely to have dependent copy number and genotype due to the underlying haplotype structure and linkage disequilibrium, hidden Markov models (HMM) may be useful for improving genotype calls and copy number estimates that do not incorporate information from nearby SNPs. We improve previous approaches that utilize a HMM framework for inference in high throughput SNP arrays by integrating copy number, genotype calls, and the corresponding confidence scores when available. Using simulated data, we demonstrate how confidence scores control smoothing in a probabilistic frame- work. Software for fitting HMMs to SNP array data is available in the R package ICE.},
number = {136},
year = {2007},
date-added = {2010-01-13 21:46:04 +0100},
date-modified = {2010-01-13 21:47:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharpf-2007-Johns%20Hopkins%20University%20Dept.%20of%20Biostatistics%20Working%20Papers_A%20Hidden%20Markov%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2915},
rating = {0}
}
@article{Hoggart:2008p10191,
author = {Clive J Hoggart and John C Whittaker and Maria De Iorio and David J Balding},
journal = {PLoS Genet},
title = {Simultaneous analysis of all SNPs in genome-wide and re-sequencing association studies},
abstract = {Testing one SNP at a time does not fully realise the potential of genome-wide association studies to identify multiple causal variants, which is a plausible scenario for many complex diseases. We show that simultaneous analysis of the entire set of SNPs from a genome-wide study to identify the subset that best predicts disease outcome is now feasible, thanks to developments in stochastic search methods. We used a Bayesian-inspired penalised maximum likelihood approach in which every SNP can be considered for additive, dominant, and recessive contributions to disease risk. Posterior mode estimates were obtained for regression coefficients that were each assigned a prior with a sharp mode at zero. A non-zero coefficient estimate was interpreted as corresponding to a significant SNP. We investigated two prior distributions and show that the normal-exponential-gamma prior leads to improved SNP selection in comparison with single-SNP tests. We also derived an explicit approximation for type-I error that avoids the need to use permutation procedures. As well as genome-wide analyses, our method is well-suited to fine mapping with very dense SNP sets obtained from re-sequencing and/or imputation. It can accommodate quantitative as well as case-control phenotypes, covariate adjustment, and can be extended to search for interactions. Here, we demonstrate the power and empirical type-I error of our approach using simulated case-control data sets of up to 500 K SNPs, a real genome-wide data set of 300 K SNPs, and a sequence-based dataset, each of which can be analysed in a few hours on a desktop workstation.},
affiliation = {Department of Epidemiology and Public Health, Imperial College, London, United Kingdom. c.hoggart@ic.ac.uk},
number = {7},
pages = {e1000130},
volume = {4},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Algorithms, Bayes Theorem, Case-Control Studies, Linkage Disequilibrium, Genotype, Software, Physical Chromosome Mapping, Chromosomes: Human, Humans, Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Haplotypes, Computer Simulation, Likelihood Functions, Genome: Human, Diabetes Mellitus: Type 2, Sequence Analysis: DNA, Feasibility Studies},
date-added = {2010-04-01 18:14:50 +0200},
date-modified = {2010-04-01 18:14:50 +0200},
doi = {10.1371/journal.pgen.1000130},
pmid = {18654633},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoggart-2008-PLoS%20Genet_Simultaneous%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10191},
rating = {0}
}
@article{Skrondal:2001p7204,
author = {A Skrondal and P Laake},
journal = {Psychometrika},
title = {REGRESSION AMONG FACTOR SCORES},
number = {4},
pages = {563--576},
volume = {66},
year = {2001},
date-added = {2010-03-06 21:22:49 +0100},
date-modified = {2010-03-06 21:23:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Skrondal-2001-Psychometrika_REGRESSION%20AMONG%20FAC.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7204},
rating = {0}
}
@article{dAlcheBuc:2008p4062,
author = {Florence d'Alch{\'e}-Buc and Louis Wehenkel},
journal = {BMC Proc},
title = {Machine learning in systems biology},
abstract = {This supplement contains extended versions of a selected subset of papers presented at the workshop MLSB 2007, Machine Learning in Systems Biology, Evry, France, from September 24 to 25, 2007.},
affiliation = {IBISC CNRS FRE 3190, Universit{\'e} d'Evry-Val d'Essonne, Genopole, Tour Evry II, Evry, France. florence.dalche@ibisc.univ-evry.fr},
pages = {S1},
volume = {2 Suppl 4},
year = {2008},
month = {Jan},
language = {eng},
date-added = {2010-01-19 15:47:03 +0100},
date-modified = {2010-01-19 15:47:03 +0100},
pmid = {19091048},
local-url = {file://localhost/Users/chl/Dropbox/Papers/d'Alch%C3%A9-Buc-2008-BMC%20Proc_Machine%20learning%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4062},
rating = {0}
}
@article{vandenOord:2000p12582,
author = {E J van den Oord and E Simonoff and L J Eaves and A Pickles and J Silberg and H Maes},
journal = {Behav Genet},
title = {An evaluation of different approaches for behavior genetic analyses with psychiatric symptom scores},
abstract = {We used a simulation study to evaluate six approaches for behavior genetic analyses of psychiatric symptom scores. For the selection of the correct model, the best results were obtained with approaches using transformed scores in combination with a procedure involving p-values. With normalizing transformations, the chi 2 test statistic gave a reasonable impression of the overall fit of the model but was less accurate when used as a difference test. The asymptotic distribution free estimation methods yielded chi 2s that were much too large. All data analysis techniques yielded substantially biased parameter estimates. The most biased results were obtained with normalizing transformations. The least biased results were obtained with tobit correlations, but because of its large standard errors the most precise estimates were obtained with polychoric correlations and optimal scale scores. An empirical study showed that a recognition of the role of methodological factors was helpful to understand part of the differences between assessment instruments, raters, and data analysis techniques that were found in the real data.},
affiliation = {MRC Child Psychiatry Unit, Institute of Psychiatry, London, U.K. E.vandenOord@fss.uu.nl},
number = {1},
pages = {1--18},
volume = {30},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Genetics: Behavioral, Adolescent, Personality Assessment, Male, Models: Genetic, Adult, Humans, Conduct Disorder, Diseases in Twins, Child, Psychometrics},
date-added = {2010-06-15 22:35:30 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {10934795},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20den%20Oord-2000-Behav%20Genet_An%20evaluation%20of%20dif.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12582},
rating = {0}
}
@article{Ao:2005p13191,
author = {S I Ao and Kevin Yip and Michael Ng and David Cheung and Pui-Yee Fong and Ian Melhado and Pak C Sham},
journal = {Bioinformatics},
title = {CLUSTAG: hierarchical clustering and graph methods for selecting tag SNPs},
abstract = { Cluster and set-cover algorithms are developed to obtain a set of tag single nucleotide polymorphisms (SNPs) that can represent all the known SNPs in a chromosomal region, subject to the constraint that all SNPs must have a squared correlation R2>C with at least one tag SNP, where C is specified by the user. AVAILABILITY: http://hkumath.hku.hk/web/link/CLUSTAG/CLUSTAG.html CONTACT: mng@maths.hku.hk.},
affiliation = {Department of Mathematics, The University of Hong Kong, Pokfulam, Hong Kong.},
number = {8},
pages = {1735--6},
volume = {21},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Pattern Recognition: Automated, Humans, Expressed Sequence Tags, Genome: Human, Genetics: Population, Algorithms, DNA Mutational Analysis, Chromosome Mapping, Cluster Analysis, Software},
date-added = {2010-07-01 15:25:38 +0200},
date-modified = {2010-07-01 15:25:38 +0200},
doi = {10.1093/bioinformatics/bti201},
pii = {bti201},
pmid = {15585525},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ao-2005-Bioinformatics_CLUSTAG%20hierarchica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13191},
rating = {0}
}
@article{Zhao:2000p10383,
author = {J H Zhao and D Curtis and P C Sham},
journal = {Hum Hered},
title = {Model-free analysis and permutation tests for allelic associations},
abstract = {In this short report, we address some practical problems in performing likelihood-based allelic association analysis of case-control data. Model-free statistics are proposed and their properties assessed by simulation, and procedures based on permutation tests are described for marker-marker as well as marker-disease associations. A memory-efficient algorithm is developed which enables several highly polymorphic markers to be analysed.},
affiliation = {Department of Psychological Medicine, Institute of Psychiatry, St. Bartholomew's and Royal London School of Medicine and Dentistry, London, UK. j.zhao@iop.kcl.ac.uk},
number = {2},
pages = {133--9},
volume = {50},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Algorithms, Models: Genetic, Software, Genotype, Haplotypes, Alleles},
date-added = {2010-04-02 18:23:07 +0200},
date-modified = {2010-04-02 18:23:07 +0200},
pii = {hhe50133},
pmid = {10799972},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhao-2000-Hum%20Hered_Model-free%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10383},
rating = {0}
}
@article{Hanke:2009p4840,
author = {Michael Hanke and Yaroslav O Halchenko and Per B Sederberg and Emanuele Olivetti and Ingo Fr{\"u}nd and Jochem W Rieger and Christoph S Herrmann and James V Haxby and Stephen Jos{\'e} Hanson and Stefan Pollmann},
journal = {Frontiers in neuroinformatics},
title = {PyMVPA: A Unifying Approach to the Analysis of Neuroscientific Data},
abstract = {The Python programming language is steadily increasing in popularity as the language of choice for scientific computing. The ability of this scripting environment to access a huge code base in various languages, combined with its syntactical simplicity, make it the ideal tool for implementing and sharing ideas among scientists from numerous fields and with heterogeneous methodological backgrounds. The recent rise of reciprocal interest between the machine learning (ML) and neuroscience communities is an example of the desire for an inter-disciplinary transfer of computational methods that can benefit from a Python-based framework. For many years, a large fraction of both research communities have addressed, almost independently, very high-dimensional problems with almost completely non-overlapping methods. However, a number of recently published studies that applied ML methods to neuroscience research questions attracted a lot of attention from researchers from both fields, as well as the general public, and showed that this approach can provide novel and fruitful insights into the functioning of the brain. In this article we show how PyMVPA, a specialized Python framework for machine learning based data analysis, can help to facilitate this inter-disciplinary technology transfer by providing a single interface to a wide array of machine learning libraries and neural data-processing methods. We demonstrate the general applicability and power of PyMVPA via analyses of a number of neural data modalities, including fMRI, EEG, MEG, and extracellular recordings.},
affiliation = {Department of Psychology, University of Magdeburg Magdeburg, Germany.},
pages = {3},
volume = {3},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-02-01 20:24:03 +0100},
date-modified = {2010-02-01 20:24:03 +0100},
doi = {10.3389/neuro.11.003.2009},
pmid = {19212459},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hanke-2009-Frontiers%20in%20neuroinformatics_PyMVPA%20A%20Unifying%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4840},
rating = {0}
}
@article{Leserman:2002p9539,
author = {J Leserman and J M Petitto and H Gu and B N Gaynes and J Barroso and R N Golden and D O Perkins and J D Folds and D L Evans},
journal = {Psychol Med},
title = {Progression to AIDS, a clinical AIDS condition and mortality: psychosocial and physiological predictors},
abstract = {BACKGROUND: The primary aim of this study is to examine prospectively the association of stressful life events, social support, depressive symptoms, anger, serum cortisol and lymphocyte subsets with changes in multiple measures of human immunodeficiency virus (HIV) disease progression. METHODS: Ninety-six HIV-infected gay men without symptoms or anti-retroviral medication use at baseline were studied every 6 months for up to 9 years. Disease progression was defined in three ways using the Centers for Disease Control (CDC) classifications (e.g. AIDS, clinical AIDS condition and mortality). Cox regression models with time-dependent covariates were used, adjusting for control variables (e.g. race, age, baseline, CD4 T cells and viral load, number of anti-retroviral medications). RESULTS: Higher cumulative average stressful life events and lower cumulative average social support predicted faster progression to both the CDC AIDS classification and a clinical AIDS condition. Higher anger scores and CD8 T cells were associated with faster progression to AIDS, and depressive symptoms were associated with faster development of an AIDS clinical condition. Higher levels of serum cortisol predicted all three measures of disease progression. CONCLUSIONS: These results suggest that stressful life events, dysphoric mood and limited social support are associated with more rapid clinical progression in HIV infection, with serum cortisol also exerting an independent effect on disease progression.},
affiliation = {Department of Psychiatry, University of North Carolina School of Medicine, Chapel Hill 27599-7160, USA.},
number = {6},
pages = {1059--73},
volume = {32},
year = {2002},
month = {Aug},
language = {eng},
keywords = {HIV Infections, Acquired Immunodeficiency Syndrome, Prospective Studies, Adult, Homosexuality: Male, CD4 Lymphocyte Count, Stress: Psychological, Humans, Life Change Events, Middle Aged, Anger, Depression, Male, Disease Progression, Social Support, Adolescent, Hydrocortisone, Sampling Studies},
date-added = {2010-03-23 20:43:06 +0100},
date-modified = {2010-03-23 20:43:06 +0100},
pmid = {12214787},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9539},
rating = {0}
}
@article{Patz:2000p2665,
author = {R J Patz and B W Junker and MS Johnson},
title = {The Hierarchical Rater Model for Rated Test Items and its Application to Large-Scale Educational Assessment Data},
abstract = {Single and multiple ratings of test items have become a stock component of standardized ed- ucational tests and surveys. For both formative and summative evaluation of raters, a number of multiple-read rating designs are now commonplace (Wilson and Hoskens, 1999), including designs with as many as six raters per item (e.g. Sykes, Heidorn and Lee, 1999). As digital image based distributed rating becomes commonplace, we expect the use of multiple raters as a routine part of test scoring to grow; increasing the number of raters also raises the possibility of improving the precision of examinee proficiency estimates. In this paper we develop Patz's (1996) hierarchical rater model (HRM) for polytomously scored item response data, and show how it can be used, for example, to scale examinees and items, to model aspects of consen- sus among raters, and to model individual rater severity and consistency effects. The HRM treats examinee responses to open-ended items as unobserved discrete variables, and it explic- itly models the ``proficiency'' of raters in assigning accurate scores as well as the proficiency of examinees in providing correct responses. We show how the HRM ``fits in'' to the generaliz- ability theory framework that has been the traditional analysis tool for rated item response data, and give some relationships between the HRM, the design effects correction of Bock, Brennan and Muraki (1999), and the rater bundles model of Wilson and Hoskens (1999). Using simu- lated data, we compare analyses using the conventional IRT Facets model for rating data (e.g. Linacre, 1989; Engelhard, 1994, 1996) and illustrate parameter recovery for the HRM. We also analyze data from a study of three different rating modalities intended to support a Grade 5 mathematics exam given in the State of Florida (Sykes, Heidorn and Lee, 1999) to show how the HRM can be used to identify individual raters of poor reliability or excessive severity, how standard errors of estimation of examinee scale scores are affected by multiple reads, and how the HRM scales up to rating designs involving large numbers of raters.},
year = {2000},
date-added = {2010-01-12 23:01:05 +0100},
date-modified = {2010-01-12 23:01:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patz-2000-_The%20Hierarchical%20Rat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2665},
rating = {0}
}
@article{Zinbarg:2005,
author = {R E Zinbarg and W Revelle and I Yovel and W Li},
journal = {Psychometrika},
title = {Cronbach's {\$}\alpha{\$}, Revelle's {\$}\beta{\$}, and McDonald's {\$}\omega_H{\$}: Their Relations with Each Other and Two Alternative Conceptualizations of Reliability},
abstract = {We make theoretical comparisons among five coefficients--Cronbach's [alpha], Revelle's [beta], McDonald's [omega][sub h], and two alternative conceptualizations of reliability. Though many end users and psychometricians alike may not distinguish among these five coefficients, we demonstrate formally their nonequivalence. Specifically, whereas there are conditions under which [alpha], [beta], and [omega][sub h] are equivalent to each other and to one of the two conceptualizations of reliability considered here, we show that equality with this conceptualization of reliability and between [alpha] and [omega][sub h] holds only under a highly restrictive set of conditions and that the conditions under which [beta] equals [omega][sub h] are only somewhat more general. The nonequivalence of [alpha], [beta], and [omega][sub h] suggests that important information about the psychometric properties of a scale may be missing when scale developers and users only report [alpha] as is almost always the case.},
number = {1},
pages = {123--133},
volume = {70},
year = {2005},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1145},
read = {Yes},
rating = {0}
}
@article{Schultz:1995,
author = {KF Schultz and I Chalmers and RJ Hayes and Douglas G Altman},
journal = {JAMA},
title = {Empirical evidence of bias: dimensions of methodological quality associated with estimates of treatment effects in controlled trials},
abstract = {OBJECTIVE--To determine if inadequate approaches to randomized controlled trial design and execution are associated with evidence of bias in estimating treatment effects. DESIGN--An observational study in which we assessed the methodological quality of 250 controlled trials from 33 meta-analyses and then analyzed, using multiple logistic regression models, the associations between those assessments and estimated treatment effects. DATA SOURCES--Meta-analyses from the Cochrane Pregnancy and Childbirth Database. MAIN OUTCOME MEASURES--The associations between estimates of treatment effects and inadequate allocation concealment, exclusions after randomization, and lack of double-blinding. RESULTS--Compared with trials in which authors reported adequately concealed treatment allocation, trials in which concealment was either inadequate or unclear (did not report or incompletely reported a concealment approach) yielded larger estimates of treatment effects (P < .001). Odds ratios were exaggerated by 41% for inadequately concealed trials and by 30% for unclearly concealed trials (adjusted for other aspects of quality). Trials in which participants had been excluded after randomization did not yield larger estimates of effects, but that lack of association may be due to incomplete reporting. Trials that were not double-blind also yielded larger estimates of effects (P = .01), with odds ratios being exaggerated by 17%. CONCLUSIONS--This study provides empirical evidence that inadequate methodological approaches in controlled trials, particularly those representing poor allocation concealment, are associated with bias. Readers of trial reports should be wary of these pitfalls, and investigators must improve their design, execution, and reporting of trials.},
pages = {408--412},
volume = {273},
year = {1995},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1030},
rating = {0}
}
@article{Poulin:1997p5160,
author = {C Poulin and I Webster and E Single},
journal = {CMAJ},
title = {Alcohol disorders in Canada as indicated by the CAGE questionnaire},
abstract = {OBJECTIVE: To describe alcohol disorders in the general Canadian population, using as a standard indicator the CAGE questionnaire (Have you felt you needed to cut down on your drinking? Have you felt annoyed by criticism of your drinking? Have you felt guilty about drinking? Have you felt you needed a drink first thing in the morning [eye-opener]?). DESIGN: Secondary analysis of data from Canada's Alcohol and Other Drugs Survey (CADS), a national telephone survey conducted in 1994 of a representative sample of 12,155 people aged 15 years or more. PARTICIPANTS: The CAGE questionnaire was administered to 5894 drinkers who had consumed alcohol in the 12 months before the CADS survey. MAIN OUTCOME MEASURES: Respondents with positive (2 or more affirmative responses) and negative results on the CAGE questionnaire were compared as to demographic characteristics, alcohol consumption and harmful consequences of their drinking. Independent predictors of a positive result were identified by means of logistic regression analysis. RESULTS: A total of 5.8% of CAGE-tested current drinkers had a positive result on the past-year CAGE in 1994. The proportion of respondents reporting alcohol-related problems in one or more areas of their life was 7 times greater among drinkers with a positive result on the CAGE questionnaire than among those with a negative result (66.8% v. 9.5%) (p < 0.0001). When all demographic characteristics were controlled for simultaneously, male sex, residence in the Atlantic provinces, Quebec or the Prairies, single/never married or divorced/separated marital status, and low education level were found to be independent risk factors for a positive result on the CAGE questionnaire. About 85% of the respondents with a positive result had not sought help for their drinking. Applying the estimated sensitivity and specificity of the CAGE questionnaire in detecting alcohol dependence, as per criteria of the Diagnostic and Statistical Manual, in a general US population, the authors estimated that 4.1% of Canadians had an alcohol dependence in 1994. CONCLUSION: The large proportion of current drinkers with a positive result on the CAGE questionnaire who did not seek help for their drinking underscores the need for identification and brief interventions by physicians. Further research is needed to elucidate the underlying reasons for regional differences in CAGE status.},
affiliation = {Department of Community Health and Epidemiology, Faculty of Medicine, Dalhousie University, Halifax, NS. Christiane.Poulin@dal.ca},
number = {11},
pages = {1529--35},
volume = {157},
year = {1997},
month = {Dec},
language = {eng},
keywords = {Humans, Alcohol Drinking, Adult, Female, Questionnaires, Middle Aged, Adolescent, Aged, Chi-Square Distribution, Odds Ratio, Socioeconomic Factors, Prevalence, Logistic Models, Male, Canada, Alcohol-Related Disorders},
date-added = {2010-02-07 12:23:01 +0100},
date-modified = {2010-07-29 19:23:30 +0200},
pmid = {9400407},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Poulin-1997-CMAJ_Alcohol%20disorders%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5160},
rating = {0}
}
@article{Ratcliff:1993p10818,
author = {R Ratcliff},
journal = {Psychological Bulletin},
title = {Methods for dealing with reaction time outliers},
abstract = {The effect of outliers on reaction time analyses is evaluated. The first section assesses the power of different methods of minimizing the effect of outliers on analysis of variance (ANOVA) and makes recommendations about the use of transformations and cutoffs. The second section examines the effect of outliers and cutoffs on different measures of location, spread, and shape and concludes using quantitative examples that robust measures are much less affected by outliers and cutoffs than measures based on moments. The third section examines fitting explicit distribution functions as a way of recovering means and standard deviations and concludes that unless fitting the distribution function is used as a model of distribution shape, the method is probably not worth routine use.},
affiliation = {Department of Psychology, Northwestern University, Evanston, Illinois 60208.},
number = {3},
pages = {510--32},
volume = {114},
year = {1993},
month = {Nov},
language = {eng},
keywords = {Task Performance and Analysis, Humans, Female, Reaction Time, Male, Analysis of Variance},
date-added = {2010-04-10 03:28:37 +0200},
date-modified = {2010-04-10 03:28:37 +0200},
pmid = {8272468},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ratcliff-1993-Psychological%20Bulletin_Methods%20for%20dealing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10818},
rating = {0}
}
@misc{Lazarevska:2005,
author = {Elena Lazarevska and Jayne M Sholl and Michael Young},
journal = {Miscellaneous},
title = {The distinctive language of terrorists},
year = {2005},
month = {Feb},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lazarevska-2005-Miscellaneous_The%20distinctive%20lang.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2222},
rating = {0}
}
@article{Irwin:2010p11004,
author = {Debra E Irwin and Brian Stucky and Michelle M Langer and David Thissen and Esi Morgan DeWitt and Jin-Shei Lai and James W Varni and Karin Yeatts and Darren A DeWalt},
journal = {Qual Life Res},
title = {An item response analysis of the pediatric PROMIS anxiety and depressive symptoms scales},
abstract = {PURPOSE: The Patient-Reported Outcomes Measurement Information System (PROMIS) aims to develop self-reported item banks for clinical research. The PROMIS pediatrics (aged 8-17) project focuses on the development of item banks across several health domains (physical function, pain, fatigue, emotional distress, social role relationships, and asthma symptoms). The psychometric properties of the anxiety and depressive symptom item banks are described. METHODS: Participants (n = 1,529) were recruited in public school settings, hospital-based outpatient and subspecialty pediatrics clinics. The anxiety (k = 18) and depressive symptoms (k = 21) items were split between two test administration forms. Hierarchical confirmatory factor-analytic models (CFA) were conducted to evaluate scale dimensionality and local dependence. IRT analyses were then used to finalize item banks and short forms. RESULTS: CFA results confirmed that anxiety and depressive symptoms are separate constructs and indicative of negative affect. Items with local dependence and DIF were removed resulting in 15 anxiety and 14 depressive symptoms items. The psychometric differences between short forms and simulated computer adaptive tests are presented. CONCLUSIONS: PROMIS pediatric item banks were developed to provide efficient assessment of health-related quality of life domains. This sample provides initial calibrations of anxiety and depressive symptoms item banks and creates PROMIS pediatric instruments, version 1.0.},
affiliation = {Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA. dirwin@email.unc.edu},
number = {4},
pages = {595--607},
volume = {19},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-04-14 06:39:48 +0200},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-010-9619-3},
pmid = {20213516},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Irwin-2010-Qual%20Life%20Res_An%20item%20response%20ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11004},
rating = {5}
}
@article{Campbell:1959p5169,
author = {D T Campbell and D W Fiske},
journal = {Psychological Bulletin},
title = {Convergent and discriminant validation by the multitrait-multimethod matrix},
pages = {81--105},
volume = {56},
year = {1959},
date-added = {2010-02-07 12:34:32 +0100},
date-modified = {2010-02-07 12:35:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Campbell-1959-Psychological%20Bulletin_Convergent%20and%20discr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5169},
rating = {0}
}
@article{Smoller:2000p1694,
author = {J W Smoller and K L Lunetta and J Robins},
journal = {Am J Med Genet},
title = {Implications of comorbidity and ascertainment bias for identifying disease genes},
abstract = {Comorbidity, the co-occurrence of disorders, is frequently observed to occur at higher rates in clinically ascertained samples than in population-based samples. An explanation for this finding is that subjects suffering from multiple illnesses are more likely to seek medical care and receive a diagnostic evaluation. We refer to the component of the comorbidity between illnesses due to such ascertainment bias as "spurious comorbidity." When spurious comorbidity is present, an apparent association between a candidate locus and the phenotype of interest may actually be attributable to an association between the locus and a comorbid phenotype. This phenomenon, which we call "spurious comorbidity bias," could thus produce misleading association findings. In this article, we describe this phenomenon and demonstrate that it may produce marked bias in the conclusions of family-based association studies. Because of the extremely high rates of comorbidity among psychiatric disorders in clinical samples, this problem may be particularly salient for genetic studies of neuropsychiatric disorders. We conclude that ascertainment bias may contribute to the frequent difficulty in replicating candidate gene study findings in psychiatry. Am. J. Med. Genet. (Neuropsychiatr. Genet.) 96:817-822, 2000.},
affiliation = {Harvard School of Public Health, Boston, Massachusetts, USA. jordan_smoller@hms.harvard.edu},
number = {6},
pages = {817--22},
volume = {96},
year = {2000},
month = {Dec},
language = {eng},
keywords = {Comorbidity, Alleles, Models: Genetic, Genetic Predisposition to Disease, Phenotype, Penetrance, Depressive Disorder, Humans, Gene Frequency, Bias (Epidemiology)},
date-added = {2010-01-09 18:49:31 +0100},
date-modified = {2010-01-09 18:49:31 +0100},
pii = {10.1002/1096-8628(20001204)96:6<817::AID-AJMG25>3.0.CO;2-A},
pmid = {11121189},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smoller-2000-Am%20J%20Med%20Genet_Implications%20of%20como.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1694},
rating = {0}
}
@article{Halperin:2009p4678,
author = {Eran Halperin and Dietrich A Stephan},
journal = {Nat Biotechnol},
title = {SNP imputation in association studies},
affiliation = {International Computer Science Institute, Berkeley, CA, USA.},
number = {4},
pages = {349--51},
volume = {27},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Chromosome Mapping, Genome-Wide Association Study, Polymorphism: Single Nucleotide, Genetic Variation, Models: Genetic},
date-added = {2010-01-30 16:08:05 +0100},
date-modified = {2010-01-30 16:08:05 +0100},
doi = {10.1038/nbt0409-349},
pii = {nbt0409-349},
pmid = {19352374},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Halperin-2009-Nat%20Biotechnol_SNP%20imputation%20in%20as.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4678},
rating = {0}
}
@article{Samuelsson:2006p7936,
author = {Stefan Samuelsson and Orvar Finnstr{\"o}m and Olof Flodmark and Per-Olof G{\"a}ddlin and Ingemar Leijon and Marie Wadsby},
journal = {J Pediatr Psychol},
title = {A longitudinal study of reading skills among very-low-birthweight children: is there a catch-up?},
abstract = {OBJECTIVE: To examine the development of reading skills among very-low-birthweight (VLBW) children and to what extent reading difficulties at 9 years of age persist unchanged, are attenuated, or are enhanced at 15 years of age. METHODS: Fifty-six VLBW and 52 normal birthweight (NBW) children were assessed on word decoding, word recognition, and reading comprehension at 9 and 15 years of age. RESULTS: VLBW children showed deficits in reading skill at 9 years of age, while most differences obtained at 15 years of age did not reach significance. VLBW children improved their reading comprehension between 9 and 15 years of age more than NBW children, and when controlling for individual differences in IQ, VLBW children improved both their reading comprehension and word-recognition skill. CONCLUSION: The results suggest that VLBW children display positive changes over time in reading skills.},
affiliation = {Department of Behavioral Sciences, Link{\"o}ping University, S-581 83 Link{\"o}ping, Sweden. stesa@ibv.liu.se},
number = {9},
pages = {967--77},
volume = {31},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Wechsler Scales, Infant: Very Low Birth Weight, Male, Female, Cognition Disorders, Humans, Child, Dyslexia, Adolescent, Infant: Premature, Infant: Newborn},
date-added = {2010-03-20 19:26:11 +0100},
date-modified = {2010-07-29 19:35:17 +0200},
doi = {10.1093/jpepsy/jsj108},
pii = {jsj108},
pmid = {16510770},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Samuelsson-2006-J%20Pediatr%20Psychol_A%20longitudinal%20study.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7936},
rating = {0}
}
@article{Goldberg:1993p13974,
author = {L R Goldberg},
journal = {Am Psychol},
title = {The structure of phenotypic personality traits},
abstract = {This personal historical article traces the development of the Big-Five factor structure, whose growing acceptance by personality researchers has profoundly influenced the scientific study of individual differences. The roots of this taxonomy lie in the lexical hypothesis and the insights of Sir Francis Galton, the prescience of L. L. Thurstone, the legacy of Raymond B. Cattell, and the seminal analyses of Tupes and Christal. Paradoxically, the present popularity of this model owes much to its many critics, each of whom tried to replace it, but failed. In reaction, there have been a number of attempts to assimilate other models into the five-factor structure. Lately, some practical implications of the emerging consensus can be seen in such contexts as personnel selection and classification.},
affiliation = {Department of Psychology, University of Oregon.},
number = {1},
pages = {26--34},
volume = {48},
year = {1993},
month = {Jan},
language = {eng},
keywords = {Temperament, Personality, Personality Tests, Individuality, Humans},
date-added = {2010-07-29 19:06:28 +0200},
date-modified = {2010-07-29 19:06:32 +0200},
pmid = {8427480},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1993-Am%20Psychol_The%20structure%20of%20phe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13974},
rating = {4}
}
@article{KovessMasfety:2006p8372,
author = {Viviane Kovess-Masf{\'e}ty and Miguel Xavier and Berta Moreno Kustner and Agnieszka Suchocka and Christine Sevilla-Dedieu and Jacques Dubuis and Elisabeth Lacalmontie and Jacques Pellet and Jean-Luc Roelandt and Dermot Walsh},
journal = {BMC Psychiatry},
title = {Schizophrenia and quality of life: a one-year follow-up in four EU countries},
abstract = {BACKGROUND: This article systematically monitors the quality of life (QOL) of patients with schizophrenia from seven different sites across four European countries: France, Ireland, Portugal and Spain. METHODS: A one-year prospective cohort study was carried out. Inclusion criteria for patients were: a clinical lifetime diagnosis of schizophrenia according to ICD-10 (F20) diagnostic criteria for research, age between 18 and 65 years and at least one contact with mental health services in 1993. Data concerning QOL were recorded in seven sites from four countries: France, Portugal, Ireland and Spain, and were obtained using the Baker and Intagliata scale. At baseline, 339 patients answered the QOL questionnaire. At one-year follow-up, Spain could not participate, so only 263 patients were contacted and 219 agreed to take part. QOL was compared across centres by areas and according to a global index. QOL was correlated with presence of clinical and social problems, needs for care and interventions provided during the one-year follow-up. RESULTS: We did not find any link between gender and QOL. There were some significant differences between centres concerning many items. What is more, these differences were relative: in Lisbon where the lowest level of satisfaction was recorded, people were satisfied with food but highly dissatisfied with finances, whereas in St Etienne, where the highest level of satisfaction was recorded, people were less satisfied with food when they were more satisfied with finances. The evolution in one year among those respondents who took part in the follow-up (excluding the subjects from Granada) showed different patterns depending on the items. CONCLUSION: The four countries have different resources and patients live in rather different conditions. However, the main differences as far as their QOL is concerned very much depend on extra-psychiatric variables, principally marital status and income.},
affiliation = {MGEN Foundation for Public Health, EA 4069 University of Paris 5, 3, square Max Hymans, 75748 Paris Cedex 15, France. vkovess@mgen.fr},
pages = {39},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Male, Prospective Studies, Patient Satisfaction, Quality of Life, Europe, Needs Assessment, Female, Schizophrenic Psychology, Marriage, Humans, Schizophrenia, Adult, Income},
date-added = {2010-03-21 13:04:22 +0100},
date-modified = {2010-03-21 13:04:22 +0100},
doi = {10.1186/1471-244X-6-39},
pii = {1471-244X-6-39},
pmid = {16984637},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kovess-Masf%C3%A9ty-2006-BMC%20Psychiatry_Schizophrenia%20and%20qu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8372},
rating = {0}
}
@misc{Huang:2003,
author = {Chun-Wei Huang},
journal = {Miscellaneous},
title = {Psychometric analyses based on evidence-centered design and cognitive science of learning to explore students' problem-solving in physics},
year = {2003},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huang-2003-Miscellaneous_Psychometric%20analyse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2204},
rating = {0}
}
@article{Steyerberg:2004p4066,
author = {Ewout W Steyerberg and Gerard J J M Borsboom and Hans C van Houwelingen and Marinus J C Eijkemans and J Dik F Habbema},
journal = {Stat Med},
title = {Validation and updating of predictive logistic regression models: a study on sample size and shrinkage},
abstract = {A logistic regression model may be used to provide predictions of outcome for individual patients at another centre than where the model was developed. When empirical data are available from this centre, the validity of predictions can be assessed by comparing observed outcomes and predicted probabilities. Subsequently, the model may be updated to improve predictions for future patients. As an example, we analysed 30-day mortality after acute myocardial infarction in a large data set (GUSTO-I, n = 40 830). We validated and updated a previously published model from another study (TIMI-II, n = 3339) in validation samples ranging from small (200 patients, 14 deaths) to large (10,000 patients, 700 deaths). Updated models were tested on independent patients. Updating methods included re-calibration (re-estimation of the intercept or slope of the linear predictor) and more structural model revisions (re-estimation of some or all regression coefficients, model extension with more predictors). We applied heuristic shrinkage approaches in the model revision methods, such that regression coefficients were shrunken towards their re-calibrated values. Parsimonious updating methods were found preferable to more extensive model revisions, which should only be attempted with relatively large validation samples in combination with shrinkage.},
affiliation = {Center for Clinical Decision Sciences, Department of Public Health, Erasmus Medical Center, Rotterdam, The Netherlands. e.steyerberg@erasmusmc.nl},
number = {16},
pages = {2567--86},
volume = {23},
year = {2004},
month = {Aug},
language = {eng},
keywords = {Logistic Models, Reproducibility of Results, Myocardial Infarction, Humans, Sample Size, Multicenter Studies as Topic, Computer Simulation, Data Interpretation: Statistical},
date-added = {2010-01-19 15:48:57 +0100},
date-modified = {2010-01-19 15:48:57 +0100},
doi = {10.1002/sim.1844},
pmid = {15287085},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steyerberg-2004-Stat%20Med_Validation%20and%20updat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4066},
rating = {0}
}
@article{Day:2009p1298,
author = {Jemma Day and Andrew Ternouth and David A Collier},
journal = {Epidemiol Psichiatr Soc},
title = {Eating disorders and obesity: two sides of the same coin?},
abstract = {The eating disorders anorexia and bulimia nervosa have traditionally been regarded as entirely separate from obesity. Eating disorders have been regarded as Western culture-bound syndromes, arising in societies with excessive emphasis on weight, shape and appearance, and best treated by psychological therapies, in particular cognitive behavioural therapy or family-based interventions. In contrast, obesity has been considered a medical illness with metabolic and genetic origins, and thought to be best treated by mainstream medicine, involving dietary, drug or surgical treatment. We believe that this polarisation is fundamentally flawed, and research and treatment of both types of disorder would be better served by greater appreciation of the psychosocial components of obesity and the biological and genetic components of eating disorders. There are similarities in phenotype (such as excessive attempts at weight control, binge eating behaviours) and in risk factors (such as low self-esteem, external locus of control, childhood abuse and neglect, dieting, media exposure, body image dissatisfaction, weight-related teasing and shared susceptibility genes). One example of shared genetic risk is the brain-derived neurotrophic factor (BNDF) gene, in which the valine allele of the Val66Met amino acid polymorphism predisposes to obesity, whereas the methionine allele predisposes to eating disorders. Thus the evidence suggests that these disorders will have both shared and distinct susceptibility factors; some will predispose to both types of disorder, some will push in opposite directions, and some will separate them.},
number = {2},
pages = {96--100},
volume = {18},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Eating Disorders, Obesity, Humans},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
pmid = {19526739},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1298},
rating = {0}
}
@article{Bonneau:2010p5535,
author = {D Bonneau and S Marlin and D Sanlaville and J-M Dupont and H Sobol and M Gonzales and M Le Merrer and P Malzac and F Razavi and S Manouvrier and S Odent and D Stoppa-Lyonnet},
journal = {Pathologie-biologie},
title = {[Genetic testing in the context of the revision of the French law on bioethics.]},
abstract = {This article focuses on six questions raised by genetic testing in human: (1) the use of genetic tests, (2) information given to relatives of patients affected with genetic disorders, (3) prenatal and preimplantatory diagnosis for late onset genetic diseases and the use of pangenomic tests in prenatal diagnosis, (4) direct-to-consumer genetic testing, (5) population screening in the age of genomic medicine and (6) incidental findings when genetic testing are used.},
affiliation = {Inserm U 694, service de g{\'e}n{\'e}tique, CHU d'Angers, 4, rue Larrey, 49933 Angers cedex 9, France.},
pages = {},
year = {2010},
month = {Jan},
language = {FRE},
date-added = {2010-02-12 15:30:35 +0100},
date-modified = {2010-02-12 15:30:35 +0100},
doi = {10.1016/j.patbio.2009.12.002},
pii = {S0369-8114(09)00233-8},
pmid = {20116936},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5535},
rating = {0}
}
@misc{Sijtsma:2001,
author = {K Sijtsma and L Andries van der Ark},
journal = {Miscellaneous},
title = {Progress in NIRT Analysis of Polytomous Item Scores: Dilemmas and Practical Solutions},
abstract = {This paper discusses three open problems in nonparametric polytomous item re- sponse theory: (1) theoretically, the latent trait {\$}\theta{\$} is not stochastically ordered by the observed total score X+; (2) the models do not imply an invariant item ordering; and (3) the regression of an item score on the total score X+ or on the restscore R is not a monotone nondecreasing function and, as a result, it cannot be used for investigating the monotonicity of the item step response function. Tentative solutions for these problems are discussed. The computer program MSP for nonparametric IRT analysis is based on models which neither imply the stochastic ordering property nor an invariant item ordering. Also, MSP uses item-restscore regression for investigating item step response functions. It is discussed whether computer programs may be based temporarily) on models which lack desirable properties and use methods which are not (yet) supported by sound psychometric theory.},
year = {2001},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sijtsma-2001-Miscellaneous_Progress%20in%20NIRT%20Ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2205},
rating = {0}
}
@article{Chiu:2009p4969,
author = {Yen-Feng Chiu and Hui-Yi Kao and Yi-Shin Chen and Fang-Chi Hsu and Hsin-Chou Yang},
journal = {BMC Proc},
title = {Assessment of gene-covariate interactions by incorporating covariates into association mapping},
abstract = {ABSTRACT : The HLA region is considered to be the main genetic risk factor for rheumatoid arthritis. Previous research demonstrated that HLA-DRB1 alleles encoding the shared epitope are specific for disease that is characterized by antibodies to cyclic citrullinated peptides (anti-CCP). In the present study, we incorporated the shared epitope and either anti-CCP antibodies or rheumatoid factor into linkage disequilibrium mapping, to assess the association between the shared epitope or antibodies with the disease gene identified. Incorporating the covariates into the association mapping provides a mechanism 1) to evaluate gene-gene and gene-environment interactions and 2) to dissect the pathways underlying disease induction/progress in quantitative antibodies.},
affiliation = {Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, 35 Keyan Road, Zhunan, Miaoli County 350, Taiwan, Republic of China. yfchiu@nhri.org.tw.},
pages = {S85},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-02-05 00:05:01 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {20018081},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chiu-2009-BMC%20Proc_Assessment%20of%20gene-c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4969},
rating = {0}
}
@article{Muthen:2002p6291,
author = {B O Muth{\'e}n},
journal = {Behaviormetrika},
title = {Beyond SEM: General Latent Variable Modeling},
number = {1},
pages = {81--117},
volume = {29},
year = {2002},
date-added = {2010-02-20 20:01:48 +0100},
date-modified = {2010-02-20 20:03:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-2002-Behaviormetrika_Beyond%20SEM%20General.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6291},
rating = {0}
}
@article{Bilder:2009p4073,
author = {R M Bilder and F W Sabb and T D Cannon and E D London and J D Jentsch and D Stott Parker and R A Poldrack and C Evans and N B Freimer},
journal = {Neuroscience},
title = {Phenomics: the systematic study of phenotypes on a genome-wide scale},
abstract = {Phenomics is an emerging transdiscipline dedicated to the systematic study of phenotypes on a genome-wide scale. New methods for high-throughput genotyping have changed the priority for biomedical research to phenotyping, but the human phenome is vast and its dimensionality remains unknown. Phenomics research strategies capable of linking genetic variation to public health concerns need to prioritize development of mechanistic frameworks that relate neural systems functioning to human behavior. New approaches to phenotype definition will benefit from crossing neuropsychiatric syndromal boundaries, and defining phenotypic features across multiple levels of expression from proteome to syndrome. The demand for high throughput phenotyping may stimulate a migration from conventional laboratory to web-based assessment of behavior, and this offers the promise of dynamic phenotyping-the iterative refinement of phenotype assays based on prior genotype-phenotype associations. Phenotypes that can be studied across species may provide greatest traction, particularly given rapid development in transgenic modeling. Phenomics research demands vertically integrated research teams, novel analytic strategies and informatics infrastructure to help manage complexity. The Consortium for Neuropsychiatric Phenomics at UCLA has been supported by the National Institutes of Health Roadmap Initiative to illustrate these principles, and is developing applications that may help investigators assemble, visualize, and ultimately test multi-level phenomics hypotheses. As the transdiscipline of phenomics matures, and work is extended to large-scale international collaborations, there is promise that systematic new knowledge bases will help fulfill the promise of personalized medicine and the rational diagnosis and treatment of neuropsychiatric syndromes.},
affiliation = {Department of Psychiatry and Biobehavioral Sciences, David Geffen School of Medicine at University of California, Los Angeles, CA, USA. rbilder@mednet.ucla.edu},
number = {1},
pages = {30--42},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Models: Genetic, Mental Disorders, Genome, Humans, Genetic Techniques, Phenotype, Biomedical Research, Animals},
date-added = {2010-01-19 15:51:30 +0100},
date-modified = {2010-03-16 13:14:17 +0100},
doi = {10.1016/j.neuroscience.2009.01.027},
pii = {S0306-4522(09)00048-7},
pmid = {19344640},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bilder-2009-Neuroscience_Phenomics%20the%20syste.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4073},
rating = {3}
}
@article{Zuckerman:1993p12180,
author = {Marvin Zuckerman},
journal = {Neuropsychobiology},
title = {P-impulsive sensation seeking and its behavioral, psychophysiological and biochemical correlates},
abstract = {Impulsive unsocialized sensation seeking (ImpUSS) is a major factor discovered in factor analyses of scales used in psychobiological research. It is strongly convergent with Eysenck's P dimension and conscientiousness in the 'big five'. The components of the dimension and the P scale, have been validated as correlates of various kinds of disinhibited behaviors, criminality, sexuality, and substance use and abuse. ImpUSS is related to a failure in passive avoidance learning, probably as a function of impulsivity and attention to reward stimuli. Psychophysiological markers for the trait include strong orienting and weak defensive reflexes and an augmenting, rather than reducing, of cortical reaction to intense stimuli. At the neurochemical level the trait is related to low levels of monoamine oxidase (MAO) and the neurotransmitters norepinephrine and serotonin, and theoretically high levels of dopaminergic activity. The trait components have high heritabilities for a personality trait.},
affiliation = {Department of Psychology, University of Delaware, Newark 19716-2577.},
number = {1-2},
pages = {30--6},
volume = {28},
year = {1993},
month = {Jan},
language = {eng},
keywords = {Psychophysiology, Impulsive Behavior, Humans, Social Behavior, Personality},
date-added = {2010-05-30 10:45:03 +0200},
date-modified = {2010-07-29 20:47:17 +0200},
pmid = {8255407},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12180},
rating = {0}
}
@article{Friendly:2006,
author = {Michael Friendly},
journal = {Journal of Computational and Graphical Statistics},
title = {HE plots fo multivariate general linear models},
year = {2006},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Friendly-2006-Journal%20of%20Computational%20and%20Graphical%20Statistics_HE%20plots%20fo%20multivar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1123},
rating = {0}
}
@article{Tsai:2009p13132,
author = {Hsin Chun Tsai and Tzung Lieh Yeh and Ming Hong Hsieh and I Hui Lee and Kao Ching Chen and Po See Chen and Yen Kuang Yang and Wei Jen Yao},
journal = {Prog Neuropsychopharmacol Biol Psychiatry},
title = {Association between serotonin transporter availability and overall rating scores of quality of life in healthy volunteers},
abstract = {Depression and impaired quality of life (QOL) are frequently observed in patients suffering from a variety of diseases. In addition, it has been reported that an enhanced degradation of the serotonin precursor tryptophan may contribute to QOL deterioration in some diseases. However, it is unclear whether the correlation between the QOL scores and the central serotonergic tone is only mediated by the severity of either the depression symptoms or the physical illness itself. The present study examined the relationship between serotonin transporter (SERT) availability and life quality as measured by the World Health Organization Quality of Life brief version questionnaire (WHO-QOL) in healthy participants in order to exclude the influence of depressive mood and disease. The SERT availability in the midbrain was approximated using SPECT with [(123)I] ADAM ligand in fifty-eight healthy volunteers. The overall rating sub scores of the WHO-QOL correlated positively with serotonin transporter availability in the males. Central serotoninergic activity may play a role in the overall rating scores of the WHO-QOL.},
affiliation = {Department of Psychiatry, Hospital and College of Medicine, National Cheng Kung University, Tainan, Taiwan.},
number = {4},
pages = {711--4},
volume = {33},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Association, Male, Doxorubicin, Mitolactol, Tomography: Emission-Computed: Single-Photon, Mitomycins, Adult, Serotonin Plasma Membrane Transport Proteins, Female, Sex Factors, Quality of Life, Brain, Health Status, Humans, Young Adult, Antineoplastic Combined Chemotherapy Protocols, Questionnaires, Iodine Isotopes},
date-added = {2010-06-26 11:05:24 +0200},
date-modified = {2010-07-29 19:45:33 +0200},
doi = {10.1016/j.pnpbp.2009.03.018},
pii = {S0278-5846(09)00094-3},
pmid = {19332100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tsai-2009-Prog%20Neuropsychopharmacol%20Biol%20Psychiatry_Association%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13132},
rating = {0}
}
@article{Tractenberg:2009p5456,
author = {R E Tractenberg},
journal = {J Nutr Health Aging},
title = {Analytic methods for factors, dimensions and endpoints in clinical trials for Alzheimer's disease},
abstract = {Alzheimer's disease (AD) is a complex disease process, so finding a single biomarker to track in clinical trials has proven difficult. This paper describes and contrasts statistical methods that might be used with biomarkers in clinical trials for AD, highlighting their differences, limitations and interpretations. The first method is traditional regression, within which one dependent variable, the Best Empirically Supported Indicator (BESI), must be identified. In this approach one biomarker (e.g., the ratio of tau to Abeta42 from CSF) is the indicator for an individual's disease status, and change in that status. The second approach is an exploratory factor analysis (EFA) to consolidate a multitude of candidate dependent variables into a sample-dependent, mathematically-optimized smaller set of 'factors'. The third method is latent variable (LV) modeling of multiple indicators of an entity (e.g., "disease burden"). The LV approach can yield a complex 'dependent variable', the Best Measurement Model Indicator (BMMI). A measurement model represents an entity that several dependent variables reflect or measure, and so can include many 'dependent variables', and estimate their relative contributions to the underlying entity. The selection of a single BESI is an artifact of regression that limits the investigator's ability to utilize all relevant variables representing the entity of interest. EFA results in sample-specific combination of biomarkers that might not generalize to a new sample - and fit of the EFA results cannot be tested. Latent variable methods can be useful to construct powerful, efficient statistical models that optimally combine diverse biomarkers into a single, multidimensional dependent variable that can generalize across samples when they are theory-driven and not sample-dependent. This paper shows that EFA can work to uncover underlying structure, but that it does not always yield solutions that 'fit' the data. It is not recommended as a method to build BMMIs, which will be useful in establishing diagnostic criteria, creating and evaluating benchmarks, and monitoring progression in clinical trials.},
affiliation = {Department of Neurology, Georgetown University School of Medicine, Washington, DC 20057, USA. ret7@georgetown.edu},
number = {3},
pages = {249--55},
volume = {13},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Brain, Alzheimer Disease, Humans, Clinical Trials as Topic, Factor Analysis: Statistical, Biological Markers},
date-added = {2010-02-12 14:10:33 +0100},
date-modified = {2010-02-12 14:10:33 +0100},
pmid = {19262962},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5456},
rating = {0}
}
@article{Stewart:2005,
author = {N Stewart and G D A Brown and N Chater},
journal = {Psychological Review},
title = {Absolute Identification by Relative Judgment},
number = {4},
pages = {881--911},
volume = {112},
year = {2005},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stewart-2005-Psychological%20Review_Absolute%20Identificat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1953},
rating = {0}
}
@article{Keller:2010p4693,
author = {F Keller and W Kempf},
title = {Some Latent Trait and Latent Class Analyses of the Beck- Depression-Inventory (BDI)},
date-added = {2010-01-30 16:15:46 +0100},
date-modified = {2010-01-30 16:16:11 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keller--_Some%20Latent%20Trait%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4693},
rating = {0}
}
@article{Newnham:2007p5384,
author = {E A Newnham and A C Page},
journal = {Behaviour Change},
title = {Client-Focused Research: New Directions in Outcome Assessment},
abstract = {The emergence of client-focused research has led to substantial change in the field of outcome assessment. Using the client's clinical characteristics to determine expected outcome, client monitoring assists clinicians in assessing the current treatment plan and client progress. The methodology has been shown to be effec- tive in outpatient samples, by implementing change in real time for the benefit of the individual (Lambert, Harmon, Slade, Whipple, {\&} Hawkins, 2005). Accordingly, the framework is an appropriate and important addition to the assessment of clinical practice.},
number = {1},
pages = {1--6},
volume = {24},
year = {2007},
date-added = {2010-02-11 10:31:24 +0100},
date-modified = {2010-02-11 10:32:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newnham-2007-Behaviour%20Change_Client-Focused%20Resea.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5384},
rating = {0}
}
@article{Bogaerts:2005p11294,
author = {S Bogaerts and S Vanheule and F Declercq},
journal = {The Journal of Forensic Psychiatry {\&} Psychology},
title = {Recalled parental bonding, adult attachment style, and personality disorders in child molesters: A comparative study},
abstract = {This article studies recalled parental bonding, adult attachment style, and personality disorders in child molesters and reports on the findings of two separate studies. The first study examines differences between a group of 84 child molesters and 80 matched normal control subjects. This study found that the antisocial and the schizoid personality disorders are typical for the molester group, and that at an interpersonal level this group can be typified by recollections of an uncaring father and mother, recollections of an elevated level of autonomy emanating from the father, and insecure current attachment patterns. The second study compares a subgroup of personality-disordered child molesters to a subgroup without personality disorders. This study revealed that recollections of the role of the father in parenting are decisive. The personality-disordered group reports that the father was both more uncaring and granted more autonomy. Regarding current adult attachment style, an avoidant and anxious-ambivalent attachment style characterised the disordered subgroup. We argue that the results can be useful for treatment. Since recalled parental experiences play a role in the development of personality disorders and child molestation, psychotherapists should integrate interpersonal tools into treatment, especially in therapeutic work with child molesters who received less parental sensitivity and suffer from personality disorders.},
number = {3},
pages = {445--458},
volume = {16},
year = {2005},
date-added = {2010-04-25 21:35:21 +0200},
date-modified = {2010-04-25 21:36:18 +0200},
doi = {10.1080/14789940500094524},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bogaerts-2005-The%20Journal%20of%20Forensic%20Psychiatry%20&%20Psychology_Recalled%20parental%20bo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11294},
rating = {0}
}
@article{Bryce:1981,
author = {T G K Bryce},
journal = {British Educational Research Journal},
title = {Rasch-Fitting},
number = {2},
volume = {7},
year = {1981},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1928},
rating = {0}
}
@article{Ernst:2009p4762,
author = {Monique Ernst and Julie L Fudge},
journal = {Neurosci Biobehav Rev},
title = {A developmental neurobiological model of motivated behavior: anatomy, connectivity and ontogeny of the triadic nodes},
abstract = {Adolescence is the transition period that prepares individuals for fulfilling their role as adults. Most conspicuous in this transition period is the peak level of risk-taking behaviors that characterize adolescent motivated behavior. Significant neural remodeling contributes to this change. This review focuses on the functional neuroanatomy underlying motivated behavior, and how ontogenic changes can explain the typical behavioral patterns in adolescence. To help model these changes and provide testable hypotheses, a neural systems-based theory is presented. In short, the Triadic Model proposes that motivated behavior is governed by a carefully orchestrated articulation among three systems, approach, avoidance and regulatory. These three systems map to distinct, but overlapping, neural circuits, whose representatives are the striatum, the amygdala and the medial prefrontal cortex. Each of these system-representatives will be described from a functional anatomy perspective that includes a review of their connectivity and what is known of their ontogenic changes.},
affiliation = {Mood and Anxiety Disorders, Program National Institute of Mental Health, National Institutes of Health, 15K North Drive, Bethesda, MD 20892, United States.},
number = {3},
pages = {367--82},
volume = {33},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Neural Pathways, Models: Biological, Amygdala, Adolescent, Brain Mapping, Corpus Striatum, Prefrontal Cortex, Magnetic Resonance Imaging, Motivation, Humans, Animals},
date-added = {2010-02-01 20:19:10 +0100},
date-modified = {2010-02-01 20:19:10 +0100},
doi = {10.1016/j.neubiorev.2008.10.009},
pii = {S0149-7634(08)00186-3},
pmid = {19028521},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ernst-2009-Neurosci%20Biobehav%20Rev_A%20developmental%20neur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4762},
rating = {0}
}
@article{Gorlov:2009p1683,
author = {Ivan P Gorlov and Gary E Gallick and Olga Y Gorlova and Christopher Amos and Christopher J Logothetis},
journal = {PLoS ONE},
title = {GWAS meets microarray: are the results of genome-wide association studies and gene-expression profiling consistent? Prostate cancer as an example},
abstract = {BACKGROUND: Genome-wide association studies (GWASs) and global profiling of gene expression (microarrays) are two major technological breakthroughs that allow hypothesis-free identification of candidate genes associated with tumorigenesis. It is not obvious whether there is a consistency between the candidate genes identified by GWAS (GWAS genes) and those identified by profiling gene expression (microarray genes). METHODOLOGY/PRINCIPAL FINDINGS: We used the Cancer Genetic Markers Susceptibility database to retrieve single nucleotide polymorphisms from candidate genes for prostate cancer. In addition, we conducted a large meta-analysis of gene expression data in normal prostate and prostate tumor tissue. We identified 13,905 genes that were interrogated by both GWASs and microarrays. On the basis of P values from GWASs, we selected 1,649 most significantly associated genes for functional annotation by the Database for Annotation, Visualization and Integrated Discovery. We also conducted functional annotation analysis using same number of the top genes identified in the meta-analysis of the gene expression data. We found that genes involved in cell adhesion were overrepresented among both the GWAS and microarray genes. CONCLUSIONS/SIGNIFICANCE: We conclude that the results of these analyses suggest that combining GWAS and microarray data would be a more effective approach than analyzing individual datasets and can help to refine the identification of candidate genes and functions associated with tumor development.},
affiliation = {Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA. ipgorlov@mdanderson.org},
number = {8},
pages = {e6511},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-08 22:30:33 +0100},
date-modified = {2010-01-08 22:30:33 +0100},
doi = {10.1371/journal.pone.0006511},
pmid = {19652704},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1683},
rating = {0}
}
@article{Hofmann:1999p12861,
author = {T Hofmann and J Puzieha},
journal = {Proceedings of the Sixteenth International Joint Conference on Artificial Intelligence},
title = {Latent Class Models for Collaborative Filtering},
abstract = {This paper presents a statistical approach to collaborative filtering and investigates the use of latent class models for predicting individ- ual choices and preferences based on observed preference behavior. Two models are discussed and compared: the aspect model, a proba- bilistic latent space model which models indi- vidual preferences as a convex combination of preference factors, and the two-sided clustering model, which simultaneously partitions persons and objects into clusters. We present EM algo- rithms for different variants of the aspect model and derive an approximate EM algorithm based on a variational principle for the two-sided clus- tering model. The benefits of the different mod- els are experimentally investigated on a large
movie data set.},
year = {1999},
date-added = {2010-06-24 12:37:58 +0200},
date-modified = {2010-06-24 12:39:40 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hofmann-1999-Proceedings%20of%20the%20Sixteenth%20International%20Joint%20Conference%20on%20Artificial%20Intelligence_Latent%20Class%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12861},
rating = {0}
}
@article{Ma:2006p6649,
author = {Shuangge Ma and Xiao Song and Jian Huang},
journal = {BMC Bioinformatics},
title = {Regularized binormal ROC method in disease classification using microarray data},
abstract = {BACKGROUND: An important application of microarrays is to discover genomic biomarkers, among tens of thousands of genes assayed, for disease diagnosis and prognosis. Thus it is of interest to develop efficient statistical methods that can simultaneously identify important biomarkers from such high-throughput genomic data and construct appropriate classification rules. It is also of interest to develop methods for evaluation of classification performance and ranking of identified biomarkers. RESULTS: The ROC (receiver operating characteristic) technique has been widely used in disease classification with low dimensional biomarkers. Compared with the empirical ROC approach, the binormal ROC is computationally more affordable and robust in small sample size cases. We propose using the binormal AUC (area under the ROC curve) as the objective function for two-sample classification, and the scaled threshold gradient directed regularization method for regularized estimation and biomarker selection. Tuning parameter selection is based on V-fold cross validation. We develop Monte Carlo based methods for evaluating the stability of individual biomarkers and overall prediction performance. Extensive simulation studies show that the proposed approach can generate parsimonious models with excellent classification and prediction performance, under most simulated scenarios including model mis-specification. Application of the method to two cancer studies shows that the identified genes are reasonably stable with satisfactory prediction performance and biologically sound implications. The overall classification performance is satisfactory, with small classification errors and large AUCs. CONCLUSION: In comparison to existing methods, the proposed approach is computationally more affordable without losing the optimality possessed by the standard ROC method.},
affiliation = {Department of Biostatistics, University of Washington, Seattle, WA 98195, USA. shuangge@u.washington.edu},
pages = {253},
volume = {7},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Models: Biological, Models: Statistical, Normal Distribution, Sensitivity and Specificity, ROC Curve, Data Interpretation: Statistical, Neoplasm Proteins, Tumor Markers: Biological, Reproducibility of Results, Computer Simulation, Oligonucleotide Array Sequence Analysis, Genetic Predisposition to Disease, Gene Expression Profiling, Humans, Neoplasms, Diagnosis: Computer-Assisted},
date-added = {2010-03-03 20:35:56 +0100},
date-modified = {2010-03-03 20:35:56 +0100},
doi = {10.1186/1471-2105-7-253},
pii = {1471-2105-7-253},
pmid = {16684357},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6649},
rating = {0}
}
@article{Lipscomb:2007p9439,
author = {Joseph Lipscomb and Carolyn C Gotay and Claire F Snyder},
journal = {CA Cancer J Clin},
title = {Patient-reported outcomes in cancer: a review of recent research and policy initiatives},
abstract = {There is growing recognition that patient-reported outcome (PRO) measures--encompassing, for example, health-related quality of life--can complement traditional biomedical outcome measures (eg, survival, disease-free survival) in conveying important information for cancer care decision making. This paper provides an integrated review and interpretation of how PROs have been defined, measured, and used in a range of recent cancer research and policy initiatives. We focus, in turn, on the role of PRO measurement in the evaluation and approval of cancer therapies, the assessment of cancer care in the community, patient-provider decision making in clinical oncology practice, and population surveillance of cancer patients and survivors. The paper concludes with a discussion of future challenges and opportunities in PRO measure development and application, given the advancing state of the science in cancer outcomes measurement and the evolving needs of cancer decision makers at all levels.},
affiliation = {Rollins School of Publci Health, Emory Universoity, Atlanta, GA, USA.},
number = {5},
pages = {278--300},
volume = {57},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Pain Measurement, Practice Guidelines as Topic, Quality of Life, Policy Making, Decision Making, United States, Patient Satisfaction, Health Services Research, Humans, Neoplasms, Disease-Free Survival, Health Status, Survival Analysis, Outcome Assessment (Health Care), Primary Health Care, United States Food and Drug Administration, Population Surveillance},
date-added = {2010-03-23 19:35:35 +0100},
date-modified = {2010-03-23 19:35:35 +0100},
doi = {10.3322/CA.57.5.278},
pii = {57/5/278},
pmid = {17855485},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9439},
rating = {0}
}
@article{Gelernter:2009p3745,
author = {Joel Gelernter and Henry R Kranzler},
journal = {Hum Genet},
title = {Genetics of alcohol dependence},
abstract = {Alcohol dependence (AD), a genetically influenced phenotype, is extremely costly to individuals and to society in the United States and throughout the world, contributing to morbidity and mortality and a host of economic, interpersonal, and societal problems. Although until recently the only genes established to affect risk for AD were those encoding several alcohol metabolizing enzymes, there are now several other genes that can be regarded as confirmed risk loci, discovered through linkage and candidate gene association studies. While the mechanism of action of the effects of alcohol-metabolizing enzymes on AD risk is thought to be well understood, we are still in the early stages of understanding the physiology of other risk loci. Further, it is clear that only a small number of the many genes that influence risk for AD have been identified. Newer methodologies (e.g., genomewide association, study of copy number variation, and deep sequencing of candidate loci to identify rare risk variants) that have improved our understanding of other complex traits hold the promise of identifying a greater set of AD susceptibility loci.},
affiliation = {Department of Psychiatry, VAMC 116A2, Yale University School of Medicine, 950 Campbell Avenue, West Haven, CT 06516, USA. joel.gelernter@yale.edu},
number = {1},
pages = {91--9},
volume = {126},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Genetic Variation, Chromosome Mapping, Promoter Regions: Genetic, Risk Factors, Lod Score, Gene Dosage, Humans, Linkage (Genetics), Alcoholism, Genetic Predisposition to Disease, United States, Polymorphism: Genetic},
date-added = {2010-01-16 20:58:15 +0100},
date-modified = {2010-07-29 19:28:44 +0200},
doi = {10.1007/s00439-009-0701-2},
pmid = {19533172},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3745},
rating = {0}
}
@article{Piek:2004p6231,
author = {Jan P Piek and Murray J Dyck},
journal = {Hum Mov Sci},
title = {Sensory-motor deficits in children with developmental coordination disorder, attention deficit hyperactivity disorder and autistic disorder},
abstract = {Children who have been diagnosed with any one developmental disorder are very likely to meet diagnostic criteria for some other developmental disorder. Although comorbidity has long been acknowledged in childhood disorders, little is understood about the mechanisms that are responsible for the high level of comorbidity. In a series of studies, we have investigated the link between sensory-motor deficits and developmental disorders. Poor sensory-motor integration has long been implicated as a cause of motor problems in developmental disorders such as developmental coordination disorder (DCD), and our recent research has also investigated sensory-motor deficits in children with attention deficit hyperactivity disorder (ADHD) and autistic disorder. Based on a critical examination of relevant literature and some of our recent research findings, we argue that the importance of poor sensory-motor functioning in discriminating children with different disorders has been underestimated. Poor sensory-motor coordination appears to be linked to DCD, but not ADHD. Also, sensory-motor deficits in children with DCD and autistic disorder may provide insight into some of the social difficulties found in these groups of children. This research will increase our understanding of why children with one developmental disorder typically also have problems in other areas.},
affiliation = {School of Psychology, Curtin University of Technology, GPO Box U1987, Perth 6845, Australia. j.piek@curtin.edu.au},
number = {3-4},
pages = {475--88},
volume = {23},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Autistic Disorder, Motor Skills Disorders, Child, Comorbidity, Attention Deficit Disorder with Hyperactivity, Humans, Psychomotor Disorders},
date-added = {2010-02-19 20:28:38 +0100},
date-modified = {2010-02-19 20:28:38 +0100},
doi = {10.1016/j.humov.2004.08.019},
pii = {S0167-9457(04)00062-4},
pmid = {15541530},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Piek-2004-Hum%20Mov%20Sci_Sensory-motor%20defici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6231},
rating = {0}
}
@article{Owens:2009p12868,
author = {Clifford Conley Owens and T M Murali and N Ramakrishnan},
journal = {SAC'09},
title = {Capturing Truthiness: Mining Truth Tables in Binary Datasets},
abstract = {We introduce a new data mining problem: mining truth tables in binary datasets. Given a matrix of objects and the properties they satisfy, a truth table identifies a subset of properties that exhibit maximal variability (and hence, complete independence) in occurrence patterns over the un- derlying objects. This problem is relevant in many domains, e.g., in bioinformatics where we seek to identify and model independent components of combinatorial regulatory path- ways, and in social/economic demographics where we desire to determine independent behavioral attributes of popula- tions. We outline a family of levelwise approaches adapted to mining truth tables, algorithmic optimizations, and ap- plications to bioinformatics and political datasets.},
year = {2009},
date-added = {2010-06-24 12:50:11 +0200},
date-modified = {2010-06-24 12:50:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Owens-2009-SAC%E2%80%9909_Capturing%20Truthiness.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12868},
rating = {0}
}
@article{Mitkov:2005,
author = {R Mitkov and L An Ha and N Karamanis},
journal = {Natural Language Engineering},
title = {A computer-aided environment for generating multiple-choice test items},
number = {1},
pages = {1--17},
volume = {1},
year = {2005},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mitkov-2005-Natural%20Language%20Engineering_A%20computer-aided%20env.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1988},
rating = {0}
}
@article{vonBorries:2010p12910,
author = {G von Borries},
journal = {SAS Global Forum 2009},
title = {A SAS{\textregistered}/JMP{\textregistered} Integration for Implementation of a Clustering Algorithm for High Dimensional Low Sample Size Data},
abstract = {A SAS macro solution is presented for clustering of high dimensional low sample size (HDLLSS) data using a new algorithm based o p-values as similarity measure. The algorithm PPCLUST was developed by von Borries (2008) and implemented using SAS macro language with the macro autocall facility and window macro command for friendly interface. The SAS interface to JMP was used to run a SAS macro inside JMP and automatically produce graphs using adaptable JMP scripts. An example with partial data from microarray study is presented.},
date-added = {2010-06-24 17:39:40 +0200},
date-modified = {2010-06-24 17:40:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/von%20Borries--SAS%20Global%20Forum%202009_A%20SAS%C2%AEJMP%C2%AE%20Integrat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12910},
rating = {0}
}
@article{Skiadas:2007p5305,
author = {C Skiadas and T Kjosmoen},
journal = {The PracTEX Journal},
title = {LATEXing with TextMate},
abstract = {This article discusses the TextMate text editor and its many capabilities that make working with LATEX documents a lot easier. Some of its features in- clude syntax highlighting, various methods for automatic insertion of text (such as the begin-end blocks in environments and automatic labels for sec- tion commands), lookup of labels and cite keys based on partial matches, as well as tools for dealing with large projects.
TextMate is designed with the user in mind, so it is easy to customize it to your needs. During its short lifetime (about two and a half years) it has gained many supporters and has become a very popular text editor for the Mac OS X platform, and especially among LATEX users, as can be seen from the exponential growth in the number of users, and the large number of LATEX related questions on the TextMate mailing list.
In addition to this article, the first author's weblog can be used as a starting point for learning more about using TextMate for LATEX: http:// skiadas.dcostanet.net/afterthought},
volume = {3},
year = {2007},
date-added = {2010-02-10 19:48:29 +0100},
date-modified = {2010-07-29 19:52:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Skiadas-2007-The%20PracTEX%20Journal_LATEXing%20with%20TextMa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5305},
rating = {0}
}
@article{Borsboom:2009p7023,
author = {D Borsboom},
journal = {Structural Equation Modeling},
title = {Educational Measurement},
pages = {702--711},
volume = {16},
year = {2009},
date-added = {2010-03-06 20:04:04 +0100},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2009-Structural%20Equation%20Modeling_Educational%20Measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7023},
rating = {0}
}
@article{Ghosh:2001p3638,
author = {M Ghosh and Y H Kim},
journal = {The Canadian Journal of Statistics},
title = {The Behrens-Fisher problem revisited: A Bayes-frequentist synthesis},
abstract = {The Behrens-Fisher problem concerns the inference for the difference between the means of two normal populations whose ratio of variances is unknown. In this situation, Fisher's fiducial interval differs markedly from the Neyman-Pearson confidence interval. A prior proposed by Jeffreys leads to a credible interval that is equivalent to Fisher's solution, but carries a different interpretation. The authors propose an alternative prior leading to a credible interval whose asymptotic coverage probability matches the frequentist cover- age probability more accurately than Jeffreys' interval. Their simulation results indicate excellent matching even in small samples.},
number = {1},
volume = {29},
year = {2001},
date-added = {2010-01-16 19:41:10 +0100},
date-modified = {2010-01-16 19:42:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ghosh-2001-The%20Canadian%20Journal%20of%20Statistics_The%20Behrens-Fisher%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3638},
rating = {0}
}
@article{Wiklund:2004p5955,
author = {Ingela Wiklund},
journal = {Fundam Clin Pharmacol},
title = {Assessment of patient-reported outcomes in clinical trials: the example of health-related quality of life},
abstract = {As the patient is the primary recipient of treatment, there is a need to recognize and value the patient's perception of change in response to treatment in clinical trials. A new outcomes classification, patient-reported outcomes (PROs), has been proposed by regulators. The PROs are used as an umbrella term and include, for example measures of subjective symptoms, health-related quality of life (HRQL) and treatment satisfaction. In this sense, the PROs are unique and complementary indicators of disease activity as well as of treatment efficacy. Frequently, pharmaceutical companies desire to include PRO benefits in the product label in order to reach a broad range of customers, including prescribers as well as patients. Therefore such information must be based on results that are scientifically valid. The measurement strategy, i.e. the thinking about and decision-making related to PRO and HRQL evaluations, needs to be explicit for clinical trials. First of all it is necessary to specify and provide the rationale for measuring the PROs. Similarly, the reason for selecting particular instruments should be stated and, for the selected instruments, the psychometric evidence should be summarized. The key PRO domains must be prespecified and evidence of their importance to patients should be provided. The research question under study and potential claims need to be clearly delineated. Hence, instrument selection is a key initial step for planning successful and scientifically adequate clinical trials intended to support labelling and promotional claims of PRO benefits to patients. The scientific criteria and design issues of clinical trials are the same for clinical and PRO endpoints. However, important issues of particular relevance to PRO assessments, such as missing values, multiple outcomes, and the statistical analysis, require careful attention. The thinking and planning involved in developing the PRO component of the clinical trial need to be articulated. Successful evaluation of PROs in clinical trials relies on careful planning provided the treatment shows sufficient effectiveness.},
affiliation = {Outcomes Research, AstraZeneca, S-431 83 M{\"o}lndal, Sweden. ingela.wiklund@astrazeneca.com},
number = {3},
pages = {351--63},
volume = {18},
year = {2004},
month = {Jun},
language = {eng},
keywords = {Reproducibility of Results, Outcome Assessment (Health Care), Clinical Trials as Topic, Quality of Life, Psychometrics, Patient Satisfaction, Questionnaires, Humans},
date-added = {2010-02-18 23:24:38 +0100},
date-modified = {2010-02-18 23:24:38 +0100},
doi = {10.1111/j.1472-8206.2004.00234.x},
pii = {FCP234},
pmid = {15147288},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5955},
rating = {0}
}
@article{Preston:2003p12083,
author = {J M Preston and R L Kirlin},
journal = {Can J Fish Aquat Sci},
title = {Comment on "Acoustic seabed classification: improved statistical method"},
pages = {1299--1300},
volume = {60},
year = {2003},
date-added = {2010-05-24 10:59:02 +0200},
date-modified = {2010-05-24 11:00:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Preston-2003-Can%20J%20Fish%20Aquat%20Sci_Comment%20on%20%22Acoustic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12083},
rating = {0}
}
@article{Angermeyer:2002p8582,
author = {Matthias C Angermeyer and A Holzinger and H Matschinger and K Stengler-Wenzke},
journal = {Int J Soc Psychiatry},
title = {Depression and quality of life: results of a follow-up study},
abstract = {BACKGROUND: Although there is sufficient evidence that the quality of life of people suffering from depression is reduced hardly anything is known about their quality of life after the remission of a depressive episode. AIMS: We therefore set out to study the quality of life of patients with depression (ICD-10 F32, F33) one, four and seven months after discharge from hospital. For comparison, a random sample of the general population was studied in addition. METHOD: Quality of life was assessed by means of the WHOQOL-100, a self-administered questionnaire developed by WHO. RESULTS: Although, shortly after discharge, quality of life of patients whose depression remitted was better than that of patients with persisting depression it was still slightly worse than that of the general population. During the subsequent six months, there was no further improvement of quality of life, i.e. even at the end of the follow-up period there was a slight lack of quality of life, especially as concerns the level of independence, spirituality/religion/personal beliefs and physical health. CONCLUSIONS: Thus, what already had been reported based on the objective assessment of quality of life, namely that depression implies a persisting impairment of social functioning and living conditions, can be replicated to some extent from the point of view of the patients themselves.},
affiliation = {University of Leipzig, Department of Psychiatry, Germany.},
number = {3},
pages = {189--99},
volume = {48},
year = {2002},
month = {Sep},
language = {eng},
keywords = {Adult, Humans, Follow-Up Studies, Questionnaires, Male, Middle Aged, Female, Aged, Quality of Life, Depressive Disorder: Major},
date-added = {2010-03-21 21:28:00 +0100},
date-modified = {2010-07-29 20:35:06 +0200},
pmid = {12413247},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8582},
rating = {0}
}
@article{Butler:2005p5719,
author = {Joe M Butler and D Timothy Bishop and Jennifer H Barrett},
journal = {BMC Genet},
title = {Strategies for selecting subsets of single-nucleotide polymorphisms to genotype in association studies},
abstract = {In genetic association studies, linkage disequilibrium (LD) within a region can be exploited to select a subset of single-nucleotide polymorphisms (SNPs) to genotype with minimal loss of information. A novel entropy-based method for selecting SNPs is proposed and compared to an existing method based on the coefficient of determination (R2) using simulated data from Genetic Analysis Workshop 14. The effect of the size of the sample used to investigate LD (by estimating haplotype frequencies) and hence select the SNPs is also investigated for both measures. It is found that the novel method and the established method select SNP subsets that do not differ greatly. The entropy-based measure may thus have value because it is easier to compute than R2. Increasing the sample size used to estimate haplotype frequencies improves the predictive power of the subset of SNPs selected. A smaller subset of SNPs chosen using a large initial sample to estimate LD can in some instances be more informative than a larger subset chosen based on poor estimates of LD (using a small initial sample). An initial sample size of 50 individuals is sufficient in most situations investigated, which involved selection from a set of 7 SNPs, although to select a larger number of SNPs, a larger initial sample size may be required.},
affiliation = {Cancer Research UK Genetic Epidemiology Division, University of Leeds, Cancer Genetics Building, St James's University Hospital, Beckett Street, Leeds LS9 7TF, UK. joe.butler@cancer.org.uk},
pages = {S72},
volume = {6 Suppl 1},
year = {2005},
month = {Jan},
language = {eng},
date-added = {2010-02-15 20:26:19 +0100},
date-modified = {2010-02-15 20:26:19 +0100},
doi = {10.1186/1471-2156-6-S1-S72},
pii = {1471-2156-6-S1-S72},
pmid = {16451686},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Butler-2005-BMC%20Genet_Strategies%20for%20selec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5719},
rating = {0}
}
@article{Grider:2008p10203,
author = {Rebecca C Grider and Kenneth J Malmberg},
journal = {Mem Cognit},
title = {Discriminating between changes in bias and changes in accuracy for recognition memory of emotional stimuli},
abstract = {A debate has emerged as to whether recognition of emotional stimuli is more accurate or more biased than recognition of nonemotional stimuli. Teasing apart changes in accuracy versus changes in bias requires a measurement model. However, different models have been adopted by different researchers, and this has contributed to the current debate. In this article, different measurement models are discussed, and the signal detection model that is most appropriate for recognition is adopted to investigate the effects of valence and arousal on recognition memory performance, using receiver operating characteristic analyses. In addition, complementary two-alternative forced choice experiments were conducted in order to generalize the empirical findings and interpret them under a relatively relaxed set of measurement assumptions. Across all experiments, accuracy was greater for highly valenced stimuli and stimuli with high arousal value. In addition, a bias to endorse positively valenced stimuli was observed. These results are discussed within an adaptive memory framework that assumes that emotion plays an important role in the allocation of attentional resources.},
affiliation = {University of South Florida, Tampa, Florida, USA.},
number = {5},
pages = {933--46},
volume = {36},
year = {2008},
month = {Jul},
language = {eng},
keywords = {ROC Curve, Recognition (Psychology), Discrimination (Psychology), Models: Psychological, Memory, Attention, Affect, Humans},
date-added = {2010-04-01 18:18:23 +0200},
date-modified = {2010-04-01 18:18:24 +0200},
pmid = {18630200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10203},
rating = {0}
}
@article{Marcu:2009p11005,
author = {Inbal Marcu and David Oppenheim and Nina Koren-Karie and Smadar Dolev and Nurit Yirmiya},
journal = {J Autism Dev Disord},
title = {Attachment and symbolic play in preschoolers with autism spectrum disorders},
abstract = {The association between attachment and symbolic play was examined in a sample of 45 preschool age boys with autism spectrum disorders. Attachment was assessed using the strange situation procedure, and the frequency, duration, diversity and complexity of child-initiated symbolic play was assessed from observations of mother-child interactions during free play and doll play. We hypothesized that children with secure attachments will score higher on measures of symbolic play compared to children with insecure attachments, and that children with organized attachments will also score higher on measures of symbolic play compared to children with disorganized attachments. Only the second hypothesis received support, and the reasons for this, as well as the implications of the findings for attachment theory, are discussed.},
affiliation = {Center for the Study of Child Development, University of Haifa, Haifa, Israel. inbalmarcu@gmail.com},
number = {9},
pages = {1321--8},
volume = {39},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Psychometrics, Child: Preschool, Symbolism, Mother-Child Relations, Social Behavior, Male, Humans, Autistic Disorder, Object Attachment, Personality Assessment, Social Environment, Reproducibility of Results, Early Intervention (Education), Play and Playthings},
date-added = {2010-04-14 13:32:34 +0200},
date-modified = {2010-04-14 13:32:34 +0200},
doi = {10.1007/s10803-009-0747-y},
pmid = {19421849},
url = {http://www.springerlink.com/content/957815g202h82n41/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marcu-2009-J%20Autism%20Dev%20Disord_Attachment%20and%20symbo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11005},
rating = {0}
}
@article{Weiss:2009p4223,
author = {Lauren A Weiss},
journal = {Expert Rev Mol Diagn},
title = {Autism genetics: emerging data from genome-wide copy-number and single nucleotide polymorphism scans},
abstract = {Autism and related traits are highly heritable but cannot be explained by currently known genetic risk factors. Therefore, the advent of genome-wide single nucleotide polymorphism (SNP) and copy number variant (CNV) microarray technologies heralded identification of additional autism loci. CNVs associated with autism seem to show variable expressivity, also leading to other phenotypes, such as schizophrenia, mental retardation/developmental delay and epilepsy. Initial genome-wide SNP-association studies have each identified a single novel associated locus with modest effect. Based on the lessons from other complex common disease, larger sample sizes and meta-analyses are likely to identify additional SNP loci, and the genes implicated may act on multiple related disorders. Even if common alleles or rare variants hold little predictive value, neurodevelopmental pathways disrupted in autism may be identified. Future research might yet uncover common CNV risk loci and rare single nucleotide risk alleles, which are currently difficult to detect. The genetic architecture and phenotypic heterogeneity identified so far suggest additional approaches, such as population-based research and study of relevant neurobiological endophenotypes.},
affiliation = {Department of Psychiatry, Institute for Human Genetics, Center for Neurobiology and Psychiatry, Nina Ireland Laboratory, Box F-0984, San Francisco, CA 94143-0984, USA. lauren.weiss@ucsf.edu},
number = {8},
pages = {795--803},
volume = {9},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Autistic Disorder, Genetic Variation, Genome: Human, Genome-Wide Association Study, Humans, Phenotype, DNA Copy Number Variations, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide},
date-added = {2010-01-21 10:59:02 +0100},
date-modified = {2010-01-21 10:59:02 +0100},
doi = {10.1586/erm.09.59},
pmid = {19895225},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4223},
rating = {0}
}
@inproceedings{Schein:2003,
author = {Andrew I Schein and Lawrence K Saul and Lyle H Ungar},
journal = {Proceedings},
title = {A generalized linear model for principal component analysis of binary data},
year = {2003},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schein-2003-Proceedings_A%20generalized%20linear.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2121},
rating = {0}
}
@misc{Bystrom:2007,
author = {K Bystr{\"o}m and K J{\"a}rvelin},
journal = {Miscellaneous},
title = {TASK COMPLEXITY AFFECTS INFORMATION SEEKING AND USE},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bystr%C3%B6m-2007-Miscellaneous_TASK%20COMPLEXITY%20AFFE.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1926},
rating = {0}
}
@article{Lindeboom:2008p6330,
author = {Jerome A Lindeboom and Elisabeth S Bruijnesteijn van Coppenraet and Ed J Kuijper and Roger M Polsbroek and Roy B Horsthuis and Jan M Prins and Robert Lindeboom},
journal = {Journal of Clinical Epidemiology},
title = {Interpretation and precision of the Observer Scar Assessment Scale improved by a revised scoring},
abstract = {OBJECTIVE: To apply Rasch measurement to develop a rule for clinical interpretation of the Observer Scar Assessment Scale (OSAS) to help surgeons judge reported sum scores clinically. STUDY DESIGN AND SETTING: We used cross-sectional data of a multicenter randomized clinical trial for the treatment of nontuberculous cervicofacial lymphadenitis in children. Rasch analysis was used on the OSAS scores obtained from scar photographs of 100 children after surgical or antibiotic treatment. RESULTS: Rasch analysis showed that all OSAS item rating scales needed revision and weighting. After doing so, raw scale scores could be converted into quantitative interval scale-based measures of scar quality. The clinical interpretation of the OSAS was clearly improved by the revised scoring. By using the Rasch-modeled item and person measures, the most likely OSAS score patterns associated with the revised OSAS sum scores could be determined. CONCLUSIONS: The Rasch analysis improved the measurement properties and clinical interpretability of the OSAS instrument.},
affiliation = {Department of Oral and Maxillofacial Surgery, Academic Medical Center, Amsterdam, The Netherlands. j.a.lindeboom@amc.uva.nl},
number = {12},
pages = {1289--95},
volume = {61},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Adolescent, Treatment Outcome, Child, Infant, Child: Preschool, Cicatrix, Skin Pigmentation, Humans, Regional Blood Flow, Photography, Elasticity, Epidemiologic Methods, Face, Esthetics, Lymphadenitis, Anti-Bacterial Agents, Neck, Skin},
date-added = {2010-02-23 08:20:39 +0100},
date-modified = {2010-02-23 08:20:39 +0100},
doi = {10.1016/j.jclinepi.2008.04.001},
pii = {S0895-4356(08)00116-9},
pmid = {18619791},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lindeboom-2008-Journal%20of%20Clinical%20Epidemiology_Interpretation%20and%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6330},
rating = {0}
}
@phdthesis{Ark:1999,
author = {L Andries van der Ark},
journal = {PhD Thesis},
title = {Contributions to Latent Budget Analysis: A Tool For the Analysis of Compositional Data.},
affiliation = {Universiteit Utrecht},
year = {1999},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andries%20van%20der%20Ark-1999-PhD%20Thesis_Contributions%20to%20Lat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1948},
rating = {0}
}
@article{Liang:2008p4085,
author = {Y Liang and A Kelemen},
journal = {Statistics Surveys},
title = {Statistical advances and challenges for analyzing correlated high dimensional SNP data in genomic study for complex diseases},
abstract = {Recent advances of information technology in biomedical sci- ences and other applied areas have created numerous large diverse data sets with a high dimensional feature space, which provide us a tremendous amount of information and new opportunities for improving the quality of human life. Meanwhile, great challenges are also created driven by the continuous arrival of new data that requires researchers to convert these raw data into scientific knowledge in order to benefit from it. Association studies of complex diseases using SNP data have become more and more popular in biomedical research in recent years. In this paper, we present a review of recent statistical advances and challenges for analyzing correlated high dimensional SNP data in genomic association studies for complex dis- eases. The review includes both general feature reduction approaches for high dimensional correlated data and more specific approaches for SNPs data, which include unsupervised haplotype mapping, tag SNP selection, and supervised SNPs selection using statistical testing/scoring, statistical modeling and machine learning methods with an emphasis on how to iden- tify interacting loci.},
pages = {43--60},
volume = {2},
year = {2008},
date-added = {2010-01-19 16:04:33 +0100},
date-modified = {2010-01-19 16:05:38 +0100},
doi = {10.1214/07-SS026},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liang-2008-Statistics%20Surveys_Statistical%20advances.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4085},
read = {Yes},
rating = {5}
}
@article{Rosenberg:2002p4349,
author = {Noah A Rosenberg and Jonathan K Pritchard and James L Weber and Howard M Cann and Kenneth K Kidd and Lev A Zhivotovsky and Marcus W Feldman},
journal = {Science},
title = {Genetic structure of human populations},
abstract = {We studied human population structure using genotypes at 377 autosomal microsatellite loci in 1056 individuals from 52 populations. Within-population differences among individuals account for 93 to 95% of genetic variation; differences among major groups constitute only 3 to 5%. Nevertheless, without using prior information about the origins of individuals, we identified six main genetic clusters, five of which correspond to major geographic regions, and subclusters that often correspond to individual populations. General agreement of genetic and predefined populations suggests that self-reported ancestry can facilitate assessments of epidemiological risks but does not obviate the need to use genetic information in genetic association studies.},
affiliation = {Molecular and Computational Biology, 1042 West 36th Place DRB 289, University of Southern California, Los Angeles, CA 90089, USA. noahr@usc.edu},
number = {5602},
pages = {2381--5},
volume = {298},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Probability, Language, Genetics: Medical, Algorithms, Genotype, Middle East, Genetic Drift, Alleles, Asia, Europe, Humans, Risk Factors, Analysis of Variance, Americas, Geography, Microsatellite Repeats, Genetic Predisposition to Disease, Genetics: Population, Africa South of the Sahara, Cluster Analysis, Genetic Variation, Gene Frequency, Pacific Islands, Heterozygote},
date-added = {2010-01-26 13:56:37 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1078311},
pii = {298/5602/2381},
pmid = {12493913},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rosenberg-2002-Science_Genetic%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4349},
rating = {0}
}
@article{CarvajalRodriguez:2009p10038,
author = {Antonio Carvajal-Rodr{\'\i}guez and Jacobo de U{\~n}a-Alvarez and Emilio Rol{\'a}n-Alvarez},
journal = {BMC Bioinformatics},
title = {A new multitest correction (SGoF) that increases its statistical power when increasing the number of tests},
abstract = {BACKGROUND: The detection of true significant cases under multiple testing is becoming a fundamental issue when analyzing high-dimensional biological data. Unfortunately, known multitest adjustments reduce their statistical power as the number of tests increase. We propose a new multitest adjustment, based on a sequential goodness of fit metatest (SGoF), which increases its statistical power with the number of tests. The method is compared with Bonferroni and FDR-based alternatives by simulating a multitest context via two different kinds of tests: 1) one-sample t-test, and 2) homogeneity G-test. RESULTS: It is shown that SGoF behaves especially well with small sample sizes when 1) the alternative hypothesis is weakly to moderately deviated from the null model, 2) there are widespread effects through the family of tests, and 3) the number of tests is large. CONCLUSION: Therefore, SGoF should become an important tool for multitest adjustment when working with high-dimensional biological data.},
affiliation = {Departamento de Bioqu{\'\i}mica, Gen{\'e}tica e Inmunolog{\'\i}a, Facultad de Biolog{\'\i}a, Universidad de Vigo, Vigo, Spain. acraaj@uvigo.es},
pages = {209},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Models: Statistical, Sample Size, Computer Simulation},
date-added = {2010-03-31 20:07:34 +0200},
date-modified = {2010-03-31 20:07:42 +0200},
doi = {10.1186/1471-2105-10-209},
pii = {1471-2105-10-209},
pmid = {19586526},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carvajal-Rodr%C3%ADguez-2009-BMC%20Bioinformatics_A%20new%20multitest%20corr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10038},
rating = {4}
}
@article{AlMarzouki:2005p3997,
author = {Sanaa Al-Marzouki and Ian Roberts and Tom Marshall and Stephen Evans},
journal = {Contemporary clinical trials},
title = {The effect of scientific misconduct on the results of clinical trials: a Delphi survey},
abstract = {OBJECTIVES: To discover what types of scientific misconduct are most likely to influence the results of a clinical trial. DESIGN: Delphi survey of expert opinion with three rounds of consultation. SETTING: Non-industry clinical trial "community". PARTICIPANTS: Experts identified from invitees to a previous MRC consultation on clinical trials. 32 out of the 40 experts approached agreed to participate. RESULTS: We identified thirteen forms of scientific misconduct for which there was majority agreement (>50%) that they would be likely or very likely to distort the results and majority agreement (>50%) that they would be likely or very likely to occur. Of these, the over-interpretation of 'significant' findings in small trials, selective reporting and inappropriate subgroup analyses were the main themes. CONCLUSIONS: According to this expert group, the most important forms of scientific misconduct in clinical trials are selective reporting and the opportunistic use of the play of chance. Data fabrication and falsification were not rated highly because it was considered that these were unlikely to occur. Registration and publication of detailed clinical trial protocols could make an important contribution to preventing scientific misconduct.},
affiliation = {Department of Epidemiology and Population Health, London School of Hygiene {\&} Tropical Medicine, 49-51 Bedford Square, London, WC1B 3DP, United Kingdom. sanaa.al-marzouki@lshtm.ac.uk},
number = {3},
pages = {331--7},
volume = {26},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Ethics: Research, Delphi Technique, Great Britain, Humans, Treatment Outcome, Bias (Epidemiology), Clinical Trials as Topic, Scientific Misconduct, Data Collection, Research Design, State Medicine, Consensus},
date-added = {2010-01-17 23:24:54 +0100},
date-modified = {2010-01-17 23:24:54 +0100},
doi = {10.1016/j.cct.2005.01.011},
pii = {S1551-7144(05)00041-8},
pmid = {15911467},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3997},
rating = {0}
}
@article{Wicherts:2010p5616,
author = {J M Wicherts and D Borsboom and C V Dolan},
journal = {Personality and Individual Differences},
title = {Evolution, brain size, and the national IQ of peoples around 3000 years B.C},
abstract = {In this rejoinder, we respond to comments by Lynn, Rushton, and Templer on our previous paper in which we criticized the use of national IQs in studies of evolutionary theories of race differences in intelligence. We reiterate that because of the Flynn Effect and psychometric issues, national IQs cannot be taken to reflect populations' levels of g as fixed since the last ice age. We argue that the socio-cultural achieve- ments of peoples of Mesopotamia and Egypt in 3000 B.C. stand in stark contrast to the current low level of national IQ of peoples of Iraq and Egypt and that these ancient achievements appear to contradict evo- lutionary accounts of differences in national IQ. We argue that race differences in brain size, even if these were entirely of genetic origin, leave unexplained 91--95% of the black-white IQ gap. We highlight addi- tional problems with hypotheses raised by Rushton and Templer. National IQs cannot be viewed solely in evolutionary terms but should be considered in light of global differences in socio-economic develop- ment, the causes of which are unknown.},
pages = {104--106},
volume = {48},
year = {2010},
date-added = {2010-02-12 15:51:55 +0100},
date-modified = {2010-02-12 15:52:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wicherts-2010-Personality%20and%20Individual%20Differences_Evolution%20brain%20siz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5616},
rating = {0}
}
@article{McAdams:1992p8319,
author = {D P McAdams},
journal = {J Pers},
title = {The five-factor model in personality: a critical appraisal},
abstract = {This critical appraisal aims to position the five-factor model within the multifaceted field of personality psychology by highlighting six important limitations of the model. These are the model's (a) inability to address core constructs of personality functioning beyond the level of traits; (b) limitations with respect to the prediction of specific behavior and the adequate description of persons' lives; (c) failure to provide compelling causal explanations for human behavior and experience; (d) disregard of the contextual and conditional nature of human experience; (e) failure to offer an attractive program for studying personality organization and integration; and (f) reliance on simple, noncontingent, and implicitly comparative statements about persons. The five-factor model is essentially a "psychology of the stranger," providing information about persons that one would need to know when one knows nothing else about them. It is argued that because of inherent limitations, the Big Five may be viewed as one important model in personality studies but not the integrative model of personality.},
affiliation = {Northwestern University, Evanston, IL 60208.},
number = {2},
pages = {329--61},
volume = {60},
year = {1992},
month = {Jun},
language = {eng},
keywords = {Cross-Cultural Comparison, Social Behavior, Personality Assessment, Humans, Motivation, Psychometrics, Personality Development, Personality Inventory, Individuality, Internal-External Control},
date-added = {2010-03-20 20:11:41 +0100},
date-modified = {2010-03-20 20:11:41 +0100},
pmid = {1635046},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8319},
rating = {0}
}
@article{Terracciano:2008p1447,
author = {Antonio Terracciano and Corinna E L{\"o}ckenhoff and Rosa M Crum and O Joseph Bienvenu and Paul T Costa},
journal = {BMC Psychiatry},
title = {Five-Factor Model personality profiles of drug users},
abstract = {BACKGROUND: Personality traits are considered risk factors for drug use, and, in turn, the psychoactive substances impact individuals' traits. Furthermore, there is increasing interest in developing treatment approaches that match an individual's personality profile. To advance our knowledge of the role of individual differences in drug use, the present study compares the personality profile of tobacco, marijuana, cocaine, and heroin users and non-users using the wide spectrum Five-Factor Model (FFM) of personality in a diverse community sample. METHOD: Participants (N = 1,102; mean age = 57) were part of the Epidemiologic Catchment Area (ECA) program in Baltimore, MD, USA. The sample was drawn from a community with a wide range of socio-economic conditions. Personality traits were assessed with the Revised NEO Personality Inventory (NEO-PI-R), and psychoactive substance use was assessed with systematic interview. RESULTS: Compared to never smokers, current cigarette smokers score lower on Conscientiousness and higher on Neuroticism. Similar, but more extreme, is the profile of cocaine/heroin users, which score very high on Neuroticism, especially Vulnerability, and very low on Conscientiousness, particularly Competence, Achievement-Striving, and Deliberation. By contrast, marijuana users score high on Openness to Experience, average on Neuroticism, but low on Agreeableness and Conscientiousness. CONCLUSION: In addition to confirming high levels of negative affect and impulsive traits, this study highlights the links between drug use and low Conscientiousness. These links provide insight into the etiology of drug use and have implications for public health interventions.},
affiliation = {National Institute on Aging, NIH, DHHS, Baltimore, USA. TerraccianoA@grc.nia.nih.gov},
pages = {22},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Personality, Heroin Dependence, Substance-Related Disorders, Prevalence, Cross-Sectional Studies, Baltimore, Humans, Marijuana Abuse, Smoking, Models: Psychological, Sample Size, Middle Aged, Cocaine-Related Disorders},
date-added = {2010-01-07 12:21:58 +0100},
date-modified = {2010-05-23 17:17:24 +0200},
doi = {10.1186/1471-244X-8-22},
pii = {1471-244X-8-22},
pmid = {18405382},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Terracciano-2008-BMC%20Psychiatry_Five-Factor%20Model%20pe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1447},
read = {Yes},
rating = {5}
}
@article{Gruijter:1988,
author = {D N M de Gruijter},
journal = {Applied Psychological Measurement},
title = {Standard Errors of Item Parameter Estimates in Incomplete Designs},
pages = {109--116},
volume = {12},
year = {1988},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gruijter-1988-Applied%20Psychological%20Measurement_Standard%20Errors%20of%20I.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2076},
rating = {0}
}
@article{Maris:2003ad,
author = {Gunter Maris and Timo M Bechger},
title = {Two methods for the practical analysis of rating data},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2003-_Two%20methods%20for%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1189},
rating = {0}
}
@article{Huang:2004p5655,
author = {Bin Huang and Siva Sivaganesan and Paul Succop and Elizabeth Goodman},
journal = {Stat Med},
title = {Statistical assessment of mediational effects for logistic mediational models},
abstract = {The concept of mediation has broad applications in medical health studies. Although the statistical assessment of a mediational effect under the normal assumption has been well established in linear structural equation models (SEM), it has not been extended to the general case where normality is not a usual assumption. In this paper, we propose to extend the definition of mediational effects through causal inference. The new definition is consistent with that in linear SEM and does not rely on the assumption of normality. Here, we focus our attention on the logistic mediation model, where all variables involved are binary. Three approaches to the estimation of mediational effects-Delta method, bootstrap, and Bayesian modelling via Monte Carlo simulation are investigated. Simulation studies are used to examine the behaviour of the three approaches. Measured by 95 per cent confidence interval (CI) coverage rate and root mean square error (RMSE) criteria, it was found that the Bayesian method using a non-informative prior outperformed both bootstrap and the Delta methods, particularly for small sample sizes. Case studies are presented to demonstrate the application of the proposed method to public health research using a nationally representative database. Extending the proposed method to other types of mediational model and to multiple mediators are also discussed.},
affiliation = {Center for Epidemiology and Biostatistics, Children's Hospital Medical Center, Cincinnati, OH 45229-3039, USA. bin.huang@cchmc.org},
number = {17},
pages = {2713--28},
volume = {23},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Depression, Computer Simulation, Female, Data Interpretation: Statistical, Bayes Theorem, Humans, Monte Carlo Method, Logistic Models, Public Health, Social Class, Adolescent},
date-added = {2010-02-12 20:21:20 +0100},
date-modified = {2010-02-12 20:21:21 +0100},
doi = {10.1002/sim.1847},
pmid = {15316954},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5655},
rating = {0}
}
@article{Jaworska:2009p918,
author = {Natalia Jaworska and Angelina ChupetlovskaAnastasova},
journal = {Tutorial in Quantitative Methods for Psychology},
title = {A Review of Multidimensional Scaling (MDS) and its Utility in Various Psychological Domains},
abstract = {This paper aims to provide a non‐technical overview of multidimensional scaling (MDS) so that a broader population of psychologists, in particular, will consider using this statistical procedure. A brief description regarding the type of data used in MDS, its acquisition and analyses via MDS is provided. Also included is a commentary on the unique challenges associated with assessing the output of MDS. Our second aim, by way of discussing representative studies, is to highlight and evaluate the utility of this method in various domains in psychology.},
affiliation = {University of Ottawa},
number = {1},
pages = {1--10},
volume = {5},
year = {2009},
date-added = {2010-01-03 19:05:28 +0100},
date-modified = {2010-07-29 19:54:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jaworska-2009-Tutorial%20in%20Quantitative%20Methods%20for%20Psychology_A%20Review%20of%20Multidim.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p918},
rating = {0}
}
@article{Chavance:2010p11423,
author = {M Chavance and S Escolano and M Romon and A Basdevant and B de Lauzon-Guillain and M-A Charles},
journal = {BMC Med Res Methodol},
title = {Latent variables and structural equation models for longitudinal relationships: an illustration in nutritional epidemiology},
abstract = {Background
The use of structural equation modeling and latent variables remains uncommon in epidemiology despite its potential usefulness. The latter was illustrated by studying cross-sectional and longitudinal relationships between eating behavior and adiposity, using four different indicators of fat mass.
Methods
Using data from a longitudinal community-based study, we fitted structural equation models including two latent variables (respectively baseline adiposity and adiposity change after 2 years of follow-up), each being defined, by the four following anthropometric measurement (respectively by their changes): body mass index, waist circumference, skinfold thickness and percent body fat. Latent adiposity variables were hypothesized to depend on a cognitive restraint score, calculated from answers to an eating-behavior questionnaire (TFEQ-18), either cross-sectionally or longitudinally.
Results
We found that high baseline adiposity was associated with a 2-year increase of the cognitive restraint score and no convincing relationship between baseline cognitive restraint and 2-year adiposity change could be established.
Conclusions
The latent variable modeling approach enabled presentation of synthetic results rather than separate regression models and detailed analysis of the causal effects of interest. In the general population, restrained eating appears to be an adaptive response of subjects prone to gaining weight more than as a risk factor for fat-mass increase.},
number = {37},
volume = {10},
year = {2010},
date-added = {2010-05-01 16:54:13 +0200},
date-modified = {2010-05-01 16:55:37 +0200},
doi = {10.1186/1471-2288-10-37},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chavance-2010-BMC%20Med%20Res%20Methodol_Latent%20variables%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11423},
rating = {0}
}
@article{Christensen:2010p9368,
author = {Helen Christensen and Kathleen M Griffiths and Andrew J Mackinnon and Kanupriya Kalia and Philip J Batterham and Justin Kenardy and Claire Eagleson and Kylie Bennett},
journal = {BMC Psychiatry},
title = {Protocol for a randomised controlled trial investigating the effectiveness of an online e health application for the prevention of Generalised Anxiety Disorder},
abstract = {ABSTRACT: BACKGROUND: Generalised Anxiety Disorder (GAD) is a highly prevalent psychiatric disorder. Effective prevention in young adulthood has the potential to reduce the prevalence of the disorder, to reduce disability and lower the costs of the disorder to the community. The present trial (the WebGAD trial) aims to evaluate the effectiveness of an evidence-based online prevention website for GAD. METHODS: The principal clinical question under investigation is the effectiveness of an online GAD intervention (E-couch) using a community-based sample. We examine whether the effect of the intervention can be maximised by either human support, in the form of telephone calls, or by automated support through emails. The primary outcome will be a reduction in symptoms on the GAD-7 in the active arms relative to the non active intervention arms. DISCUSSION: The WebGAD trial will be the first to evaluate the use of an internet-based cognitive behavioural therapy (CBT) program contrasted with a credible control condition for the prevention of GAD and the first formal RCT evaluation of a web-based program for GAD using community recruitment. In general, internet-based CBT programs have been shown to be effective for the treatment of other anxiety disorders such as Post Traumatic Stress Disorder, Social Phobia, Panic Disorder and stress in clinical trials; however there is no evidence for the use of internet CBT in the prevention of GAD. Given the severe shortage of therapists identified in Australia and overseas, and the low rates of treatment seeking in those with a mental illness, the successful implementation of this protocol has important practical outcomes. If found to be effective, WebGAD will provide those experiencing GAD with an easily accessible, free, evidence-based prevention tool which can be promoted and disseminated immediately. Trial Registration Controlled-trials.com: ISRCTN76298775.},
number = {1},
pages = {25},
volume = {10},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-23 18:41:34 +0100},
date-modified = {2010-03-23 18:41:34 +0100},
doi = {10.1186/1471-244X-10-25},
pii = {1471-244X-10-25},
pmid = {20302678},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Christensen-2010-BMC%20Psychiatry_Protocol%20for%20a%20rando-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9368},
rating = {0}
}
@article{Wicherts:2009p11944,
author = {Jelte M Wicherts and Roger E Millsap},
journal = {Am Psychol},
title = {The absence of underprediction does not imply the absence of measurement bias},
affiliation = {Department of Psychology, University of Amsterdam, The Netherlands. j.m.wicherts@uva.nl},
number = {4},
pages = {281-3; discussion 285--7},
volume = {64},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Aptitude, Stereotyping, Bias (Epidemiology), European Continental Ancestry Group, Aptitude Tests, Psychometrics, African Continental Ancestry Group, Culture, Achievement},
date-added = {2010-05-23 16:56:41 +0200},
date-modified = {2010-07-29 19:51:31 +0200},
doi = {10.1037/a0014992},
pii = {2009-06923-014},
pmid = {19449995},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wicherts-2009-Am%20Psychol_The%20absence%20of%20under.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11944},
rating = {4}
}
@book{Liu1997,
author = {B H Liu},
journal = {Book},
title = {Statistical Genomics: Linkage, Mapping, and QTL Analysis},
year = {1997},
date-added = {2010-01-12 14:26:52 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2527},
rating = {0}
}
@article{Deming:1978,
author = {WE Deming},
journal = {International Statistical Review},
title = {An essay on screening, or two-phase sampling, applied to surveys of a community},
pages = {28--37},
volume = {45},
year = {1978},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1070},
rating = {0}
}
@article{Carletta:1996,
author = {J Carletta},
journal = {Computational Linguistics},
title = {Assessing agreement on classification tasks: the kappa statistic},
number = {2},
volume = {22},
year = {1996},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carletta-1996-Computational%20Linguistics_Assessing%20agreement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1858},
rating = {0}
}
@article{Ghosh:2008p7666,
author = {Arpita Ghosh and Fei Zou and Fred A Wright},
journal = {Am J Hum Genet},
title = {Estimating odds ratios in genome scans: an approximate conditional likelihood approach},
abstract = {In modern whole-genome scans, the use of stringent thresholds to control the genome-wide testing error distorts the estimation process, producing estimated effect sizes that may be on average far greater in magnitude than the true effect sizes. We introduce a method, based on the estimate of genetic effect and its standard error as reported by standard statistical software, to correct for this bias in case-control association studies. Our approach is widely applicable, is far easier to implement than competing approaches, and may often be applied to published studies without access to the original data. We evaluate the performance of our approach via extensive simulations for a range of genetic models, minor allele frequencies, and genetic effect sizes. Compared to the naive estimation procedure, our approach reduces the bias and the mean squared error, especially for modest effect sizes. We also develop a principled method to construct confidence intervals for the genetic effect that acknowledges the conditioning on statistical significance. Our approach is described in the specific context of odds ratios and logistic modeling but is more widely applicable. Application to recently published data sets demonstrates the relevance of our approach to modern genome scans.},
affiliation = {Department of Biostatistics, The University of North Carolina at Chapel Hill, NC 27599, USA.},
number = {5},
pages = {1064--74},
volume = {82},
year = {2008},
month = {May},
language = {eng},
keywords = {Humans, Likelihood Functions, Odds Ratio, Models: Genetic, Haplotypes, Software, Genome: Human},
date-added = {2010-03-15 23:44:02 +0100},
date-modified = {2010-03-15 23:44:02 +0100},
doi = {10.1016/j.ajhg.2008.03.002},
pii = {S0002-9297(08)00212-7},
pmid = {18423522},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7666},
rating = {0}
}
@article{Poinstingl:2009p7714,
author = {H Poinstingl},
journal = {Psychology Science Quarterly},
title = {The Linear Logistic Test Model (LLTM) as the methodological foundation of item generating rules for a new verbal reasoning test},
abstract = {Based on the demand for new verbal reasoning tests to enrich psychological test inventory, a pilot version of a new test was analysed: the 'Family Relation Reasoning Test' (FRRT; Poinstingl, Kubinger, Skoda {\&} Schechtner, forthcoming), in which several basic cognitive operations (logical rules) have been embedded/implemented. Given family relationships of varying complexity embedded in short stories, testees had to logically conclude the correct relationship between two individuals within a family. Using empirical data, the linear logistic test model (LLTM; Fischer, 1972), a special case of the Rasch model, was used to test the construct validity of the test: The hypothetically assumed basic cognitive operations had to explain the Rasch model's item difficulty parameters. After being shaped in LLTM's matrices of weights ((qij)), none of these operations were corroborated by means of the Ander- sen's Likelihood Ratio Test.},
number = {2},
pages = {123--134},
volume = {51},
year = {2009},
date-added = {2010-03-17 20:46:30 +0100},
date-modified = {2010-07-29 19:46:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Poinstingl-2009-Psychology%20Science%20Quarterly_The%20Linear%20Logistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7714},
rating = {0}
}
@article{vanMontfort:2004p4006,
author = {K van Montfort and Jan de Leeuw},
title = {Factor analyses for non-normal variables by fitting characteristic functions},
year = {2004},
date-added = {2010-01-17 23:31:08 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Montfort-2004-_Factor%20analyses%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4006},
rating = {0}
}
@misc{Cui:2006,
author = {Ying Cui and Jacqueline P Leighton and Mark J Gierl and Steve M Hunka},
journal = {Miscellaneous},
title = {The hierarchy consistency index: A person-fit statistic for the attribute hierarchy model},
year = {2006},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cui-2006-Miscellaneous_The%20hierarchy%20consis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2191},
rating = {0}
}
@article{Glas:2003a,
author = {C A W Glas and R R Meijer},
journal = {Applied Psychological Measurement},
title = {A Bayesian Approach to Person Fit Analysis in Item Response Theory Models},
pages = {217--233},
volume = {27},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2003-Applied%20Psychological%20Measurement_A%20Bayesian%20Approach.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1884},
rating = {0}
}
@article{Bond:2003,
author = {Trevor G Bond},
journal = {Metodologia de las Ciencias del Comportamiento},
title = {Validity and assessment: a rasch measurement perspective},
abstract = {This paper argues that the Rasch model, unlike the other models generally referred to as IRT models, and those that fall into the tradition of True Score models, encompasses a set of rigorous prescriptions for what scientific measurement would be like if it were to be achieved in the social sciences. As a direct consequence, the Rasch measurement approach to the construction and monitoring of variables is sensitive to the issues raised in Messick's (1995) broader conception of construct validity. The theory / practice dialectic (Bond {\&} Fox, 2001) ensures that validity is foremost in the mind of those developing measures and that genuine scientific measurement is foremost in the minds of those who seek valid outcomes from assessment. Failures of invariance, such as those referred to as DIF, should alert researchers to the need to modify assessment procedures or the substantive theory under investigation, or both.},
number = {2},
pages = {179--194},
volume = {5},
year = {2003},
keywords = {IRT, Construct validity, measurement, Rasch},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bond-2003-Metodologia%20de%20las%20Ciencias%20del%20Comportamiento_Validity%20and%20assessm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1950},
read = {Yes},
rating = {2}
}
@article{Adams:1997,
author = {R J Adams and M Wilson and W-C Wang},
journal = {Applied Psychological Measurement},
title = {The Multidimensional Random Coefficients Multinomial Logit Model},
pages = {1--24},
volume = {21},
year = {1997},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-07-29 20:16:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Adams-1997-Applied%20Psychological%20Measurement_The%20Multidimensional.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2170},
rating = {0}
}
@techreport{Walker:2000,
author = {S G Walker},
journal = {Techreport},
title = {Forecasting the political behavior of leaders with the verbs in context system of operational code analysis},
year = {2000},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Walker-2000-Techreport_Forecasting%20the%20poli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2048},
rating = {0}
}
@article{Wei:2009p908,
author = {Zhi Wei and Kai Wang and Hui-Qi Qu and Haitao Zhang and Jonathan Bradfield and Cecilia Kim and Edward Frackleton and Cuiping Hou and Joseph T Glessner and Rosetta Chiavacci and Charles Stanley and Dimitri Monos and Struan F A Grant and Constantin Polychronakos and Hakon Hakonarson},
journal = {PLoS Genet},
title = {From disease association to risk assessment: an optimistic view from genome-wide association studies on type 1 diabetes},
abstract = {Genome-wide association studies (GWAS) have been fruitful in identifying disease susceptibility loci for common and complex diseases. A remaining question is whether we can quantify individual disease risk based on genotype data, in order to facilitate personalized prevention and treatment for complex diseases. Previous studies have typically failed to achieve satisfactory performance, primarily due to the use of only a limited number of confirmed susceptibility loci. Here we propose that sophisticated machine-learning approaches with a large ensemble of markers may improve the performance of disease risk assessment. We applied a Support Vector Machine (SVM) algorithm on a GWAS dataset generated on the Affymetrix genotyping platform for type 1 diabetes (T1D) and optimized a risk assessment model with hundreds of markers. We subsequently tested this model on an independent Illumina-genotyped dataset with imputed genotypes (1,008 cases and 1,000 controls), as well as a separate Affymetrix-genotyped dataset (1,529 cases and 1,458 controls), resulting in area under ROC curve (AUC) of approximately 0.84 in both datasets. In contrast, poor performance was achieved when limited to dozens of known susceptibility loci in the SVM model or logistic regression model. Our study suggests that improved disease risk assessment can be achieved by using algorithms that take into account interactions between a large ensemble of markers. We are optimistic that genotype-based disease risk assessment may be feasible for diseases where a notable proportion of the risk has already been captured by SNP arrays.},
affiliation = {Department of Computer Science, New Jersey Institute of Technology, Newark, New Jersey, United States of America.},
number = {10},
pages = {e1000678},
volume = {5},
year = {2009},
month = {Oct},
language = {eng},
date-added = {2010-01-03 18:49:56 +0100},
date-modified = {2010-01-03 18:49:56 +0100},
doi = {10.1371/journal.pgen.1000678},
pmid = {19816555},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wei-2009-PLoS%20Genet_From%20disease%20associa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p908},
rating = {0}
}
@inbook{Reeve:2004,
author = {BB Reeve and LC Masse},
journal = {Book},
title = {Methods for testing and evaluating survey questionnaires},
abstract = {In this chapter we provide a basic introduction to IRT modeling (item response theory), including a discussion of the common IRT models used in research, underlying assumptions of these models, and differences between CTT and IRT modeling. The introduction is followed by a demonstration of the information that can be gained by using IRT to evaluate the psychometric properties of a questionnaire.},
chapter = {Item response theory modeling for questionnaire evaluation},
year = {2004},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p992},
rating = {0}
}
@article{Dai:2006p4647,
author = {J Y Dai and I Ruczinski and M LeBlanc and C Kooperberg},
journal = {UW Biostatistics Working Paper Series},
title = {Comparison of Haplotype-based and Tree-based SNP Imputation in Association Studies},
abstract = {Missing single nucleotide polymorphisms (SNPs) are quite common in ge- netic association studies. Subjects with missing SNPs are often discarded in analyses, which may seriously undermine the inference of SNP-disease associa- tion. In this article, we compare two haplotype-based imputation approaches and one regression tree-based imputation approach for association studies. The goal is to assess the imputation accuracy, and to evaluate the impact of imputa- tion on parameter estimation. Haplotype-based approaches build on haplotype reconstruction by the expectation-maximization (EM) algorithm or a weighted EM (WEM) algorithm, depending on whether case-control status is taken into account. The tree-based approach uses a Gibbs sampler to iteratively sample from a full conditional distribution, which is obtained from the classification and regression tree (CART) algorithm. We employ a standard multiple imputation procedure to account for the uncertainty of imputation. We apply the methods to simulated data as well as a case-control study on developmental dyslexia. Our results suggest that imputation generally improves over the standard practice of ignoring missing data in terms of bias and efficiency. The haplotype-based approaches slightly outperform the tree-based approach when there are a small number of SNPs in linkage disequilibrium (LD), but the latter has a computa- tional advantage. Finally, we demonstrate that utilizing the disease status in imputation helps to reduce the bias in the subsequent parameter estimation.},
volume = {278},
year = {2006},
date-added = {2010-01-30 16:04:50 +0100},
date-modified = {2010-07-29 19:55:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dai-2006-UW%20Biostatistics%20Working%20Paper%20Series_Comparison%20of%20Haplot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4647},
rating = {0}
}
@article{Penttila:2008p5005,
author = {Jani Penttil{\"a} and Marie-Laure Paill{\`e}re-Martinot and Jean-Luc Martinot and Jean-Fran{\c c}ois Mangin and Lisa Burke and Richard Corrigall and Sophia Frangou and Arnaud Cachia},
journal = {J Am Acad Child Adolesc Psychiatry},
title = {Global and Temporal Cortical Folding in Patients With Early-Onset Schizophrenia},
abstract = {OBJECTIVE:: Adult-onset schizophrenia has repeatedly been associated with disturbances in the temporal lobes and alterations in cortical folding, which are thought to reflect neurodevelopmental impairment. Early-onset schizophrenia (EOS; onset before 18 years) is considered to involve even more pronounced neurodevelopmental deviance across a wide range of brain structural measures. We hypothesized that overall alteration of cortical folding also applies to EOS, and EOS involves prominent structural aberrations in superior temporal and collateral sulci. METHOD:: Magnetic resonance T1 images of 51 patients with EOS and 59 healthy participants were investigated. A fully automated method was applied to the images to extract, label, and measure the sulcus area in the whole cortex. Cortical folding was assessed by computing global sulcal indices (the ratio between total sulcal area and total outer cortex area) for each hemisphere and local sulcal indices (the ratio between the area of labeled sulcus and total outer cortex area in the corresponding hemisphere) for superior temporal and collateral sulci. RESULTS:: Relative to healthy individuals, patients with EOS had significantly lower global sulcal indices in both hemispheres and a lower local sulcal index in the left collateral sulcus. CONCLUSIONS:: Reduced hemispheric sulcation appears to be a feature of schizophrenia, irrespective of age at onset. Structural aberration involving the left collateral sulcus may contribute to neurobiological substrate of EOS.},
affiliation = {Drs. Penttil{\"a}, Cachia, Paill{\`e}re-Martinot, Mangin, and Martinot are with the Research Unit "Neuroimaging {\&} Psychiatry" U797, Institut National de la Sant{\'e} et de la Recehrche M{\'e}dicale, IFR49; Commissariat {\`a} l'Energie Atomique, Hospital Department Fr{\'e}d{\'e}ric Joliot, I2BM, Orsay; and Paris Sud University; Rene Descartes Unversity. Drs. Burke and Corrigall are with the Maudsley NHS Foundation Trust. Professor Frangou is with the Section of Neurobiology of Psychosis, Institue of Psychiatry, King's college.},
pages = {},
year = {2008},
month = {Aug},
language = {ENG},
date-added = {2010-02-05 00:07:50 +0100},
date-modified = {2010-02-05 00:07:50 +0100},
doi = {10.1097/CHI.0b013e3181825aa7},
pmid = {18725863},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Penttil%C3%A4-2008-J%20Am%20Acad%20Child%20Adolesc%20Psychiatry_Global%20and%20Temporal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5005},
rating = {0}
}
@article{Newson:2002p2712,
author = {R Newson},
journal = {The Stata Joumal},
title = {Parameters behind ``nonparametric'' statistics: Kendall's tau, Somers' D and median
Abstract.
differences},
abstract = {So-called ``nonparametric'' statistical methods are often in fact based on pop- ulation parameters, which can be estimated (with confidence limits) using the corresponding sample statistics. This article reviews the uses of three such param- eters, namely Kendall's τa, Somers' D and the Hodges--Lehmann median difference. Confidence intervals for these are demonstrated using the somersd package. It is argued that confidence limits for these parameters, and their differences, are more informative than the traditional practice of reporting only p-values. These three parameters are also important in defining other tests and parameters, such as the Wilcoxon test, the area under the receiver operating characteristic (ROC) curve, Harrell's C, and the Theil median slope.},
affiliation = {King's College, London, UK},
number = {1},
pages = {45--64},
volume = {2},
year = {2002},
date-added = {2010-01-13 13:56:54 +0100},
date-modified = {2010-07-29 19:53:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newson-2002-The%20Stata%20Joumal_Parameters%20behind%20%E2%80%9Cn.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2712},
rating = {0}
}
@article{Settles:2009p3555,
author = {B Settles},
title = {Active Learning Literature Survey},
abstract = {The key idea behind active learning is that a machine learning algorithm can achieve greater accuracy with fewer labeled training instances if it is allowed to choose the data from which is learns. An active learner may ask queries in the form of unlabeled instances to be labeled by an oracle (e.g., a human annotator). Active learning is well-motivated in many modern machine learning problems, where unlabeled data may be abundant but labels are difficult, time-consuming, or expensive to obtain.
This report provides a general introduction to active learning and a survey of the literature. This includes a discussion of the scenarios in which queries can be formulated, and an overview of the query strategy frameworks proposed in the literature to date. An analysis of the empirical and theoretical evidence for active learning, a summary of several problem setting variants, and a discussion of related topics in machine learning research are also presented.},
year = {2009},
date-added = {2010-01-15 21:09:25 +0100},
date-modified = {2010-01-15 21:09:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Settles-2009-_Active%20Learning%20Lite.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3555},
rating = {0}
}
@article{Petersen:2005p7338,
author = {Morten Aa Petersen and Mogens Groenvold and Neil K Aaronson and Elisabeth Brenne and Peter Fayers and Julie Damgaard Nielsen and Mirjam Sprangers and Jakob B Bjorner and for the European Organisation for Research and Treatment of Cancer Quality of Life Group},
journal = {Journal of Clinical Epidemiology},
title = {Scoring based on item response theory did not alter the measurement ability of EORTC QLQ-C30 scales},
abstract = {BACKGROUND AND OBJECTIVES: Most health-related quality-of-life questionnaires include multi-item scales. Scale scores are usually estimated as simple sums of the item scores. However, scoring procedures utilizing more information from the items might improve measurement abilities, and thereby reduce the needed sample sizes. We investigated whether item response theory (IRT)-based scoring improved the measurement abilities of the EORTC QLQ-C30 physical functioning, emotional functioning, and fatigue scales. METHODS: Using a database of 13,010 subjects we estimated the relative validities of IRT scoring compared to sum scoring of the scales. RESULTS: The mean relative validities were 1.04 (physical), 1.03 (emotional), and 0.97 (fatigue). None of these were significantly larger than 1. Thus, no gain in measurement abilities using IRT scoring was found for these scales. Possible explanations include that the items in the scales are not constructed for IRT scoring and that the scales are relatively short. CONCLUSION: IRT scoring of the three longest EORTC QLQ-C30 scales did not improve measurement abilities compared to the traditional sum scoring of the scales.},
affiliation = {The research unit, Department of Palliative Medicine, Bispebjerg Hospital, Bispebjerg bakke 23, 2400 Copenhagen, Denmark. map01@bbh.hosp.dk},
number = {9},
pages = {902--8},
volume = {58},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Models: Statistical, Emotions, Questionnaires, Databases: Factual, Quality of Life, Neoplasms, Health Status, Female, Reproducibility of Results, Adult, Humans, Male, Sample Size, Middle Aged, Neoplasm Staging, Fatigue},
date-added = {2010-03-10 20:23:18 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
doi = {10.1016/j.jclinepi.2005.02.008},
pii = {S0895-4356(05)00130-7},
pmid = {16085193},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petersen-2005-Journal%20of%20Clinical%20Epidemiology_Scoring%20based%20on%20ite.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7338},
rating = {0}
}
@article{Ma:2004p3621,
author = {D Ma},
title = {Small Sample Inference For The Two-Sample Design},
year = {2004},
date-added = {2010-01-16 18:41:48 +0100},
date-modified = {2010-01-16 18:42:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ma-2004-_Small%20Sample%20Inferen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3621},
rating = {0}
}
@article{Arya:2009p11369,
author = {Rector Arya and Elizabeth Hare and Inmaculada Del Rincon and Christopher P Jenkinson and Ravindranath Duggirala and Laura Almasy and Agustin Escalante},
journal = {BMC Proc},
title = {Effects of covariates and interactions on a genome-wide association analysis of rheumatoid arthritis},
abstract = {ABSTRACT : While genetic and environmental factors and their interactions influence susceptibility to rheumatoid arthritis (RA), causative genetic variants have not been identified. The purpose of the present study was to assess the effects of covariates and genotype x sex interactions on the genome-wide association analysis (GWAA) of RA using Genetic Analysis Workshop 16 Problem 1 data and a logistic regression approach as implemented in PLINK. After accounting for the effects of population stratification, effects of covariates and genotype x sex interactions on the GWAA of RA were assessed by conducting association and interaction analyses. We found significant allelic associations, covariate, and genotype x sex interaction effects on RA. Several top single-nucleotide polymorphisms (SNPs) (~22 SNPs) showed significant associations with strong p-values (p < 1 x 10-4 - p < 1 x 10-24). Only three SNPs on chromosomes 4, 13, and 20 were significant after Bonferroni correction, and none of these three SNPs showed significant genotype x sex interactions. Of the 30 top SNPs with significant (p < 1 x 10-4 - p < 1 x 10-6) interactions, ~23 SNPs showed additive interactions and ~5 SNPs showed only dominance interactions. Those SNPs showing significant associations in the regular logistic regression failed to show significant interactions. In contrast, the SNPs that showed significant interactions failed to show significant associations in models that did not incorporate interactions. It is important to consider interactions of genotype x sex in addition to associations in a GWAA of RA. Furthermore, the association between SNPs and RA susceptibility varies significantly between men and women.},
affiliation = {Division of Clinical Epidemiology, Department of Medicine, University of Texas Health Science Center, 7703 Floyd Curl Drive, San Antonio, Texas 78229, USA. arya@uthscsa.edu.},
pages = {S84},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-04-26 23:08:36 +0200},
date-modified = {2010-07-29 19:21:19 +0200},
pmid = {20018080},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arya-2009-BMC%20Proc_Effects%20of%20covariate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11369},
rating = {4}
}
@article{Stromberg:2009p1688,
author = {Ulf Str{\"o}mberg},
journal = {Eur J Epidemiol},
title = {Empirical Bayes and semi-Bayes adjustments for a vast number of estimations},
abstract = {Investigators in modern molecular/genetic epidemiology studies commonly analyze data on a vast number of candidate genetic markers. In such situations, rather than conventional estimation of effects (odds ratios), more accurate estimation methods are needed. The author proposes consideration of empirical Bayes and semi-Bayes methods, which yield 'adjustments for multiple estimations' by shrinking conventional effect estimates towards the overall average effect.},
affiliation = {Department of Occupational and Environmental Medicine, Lund University, Lund, Sweden, ulf.stromberg@med.lu.se.},
pages = {},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-01-09 18:33:21 +0100},
date-modified = {2010-01-09 18:33:21 +0100},
doi = {10.1007/s10654-009-9393-0},
pmid = {19813100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Str%C3%B6mberg-2009-Eur%20J%20Epidemiol_Empirical%20Bayes%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1688},
rating = {0}
}
@article{Uebersax:1990p6677,
author = {J S Uebersax and W M Grove},
journal = {Stat Med},
title = {Latent class analysis of diagnostic agreement},
abstract = {We describe methods based on latent class analysis for analysis and interpretation of agreement on dichotomous diagnostic ratings. This approach formulates agreement in terms of parameters directly related to diagnostic accuracy and leads to many practical applications, such as estimation of the accuracy of individual ratings and the extent to which accuracy may improve with multiple opinions. We describe refinements in the estimation of parameters for varying panel designs, and apply latent class methods successfully to examples of medical agreement data that include data previously found to be poorly fitted by two-class models. Latent class techniques provide a powerful and flexible set of tools to analyse diagnostic agreement and one should consider them routinely in the analysis of such data.},
affiliation = {Behavioral Sciences Department, RAND Corporation, Santa Monica, CA 90406.},
number = {5},
pages = {559--72},
volume = {9},
year = {1990},
month = {May},
language = {eng},
keywords = {Likelihood Functions, Epidemiology, Models: Statistical, Algorithms, Reproducibility of Results, Diagnosis, Humans, Decision Support Techniques, Chi-Square Distribution, Sensitivity and Specificity},
date-added = {2010-03-05 22:07:45 +0100},
date-modified = {2010-03-05 22:07:45 +0100},
pmid = {2190288},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Uebersax-1990-Stat%20Med_Latent%20class%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6677},
rating = {0}
}
@article{Shabalin:2009p2898,
author = {Andrey A Shabalin and Victor J Weigman and Charles M Perou and Andrew B Nobel},
journal = {arXiv},
title = {Finding large average submatrices in high dimensional data},
abstract = { The search for sample-variable associations is an important problem in the exploratory analysis of high dimensional data. Biclustering methods search for sample-variable associations in the form of distinguished submatrices of the data matrix. (The rows and columns of a submatrix need not be contiguous.) In this paper we propose and evaluate a statistically motivated biclustering procedure (LAS) that finds large average submatrices within a given real-valued data matrix. The procedure operates in an iterative-residual fashion, and is driven by a Bonferroni-based significance score that effectively trades off between submatrix size and average value. We examine the performance and potential utility of LAS, and compare it with a number of existing methods, through an extensive three-part validation study using two gene expression datasets. The validation study examines quantitative properties of biclusters, biological and clinical assessments using auxiliary information, and classification of disease subtypes using bicluster membership. In addition, we carry out a simulation study to assess the effectiveness and noise sensitivity of the LAS search procedure. These results suggest that LAS is an effective exploratory tool for the discovery of biologically relevant structures in high dimensional data. Software is available at https://genome.unc.edu/las/. },
annote = {Published in: Annals of Applied Statistics 2009, Vol. 3, No. 3, 985-1012
Published in at http://dx.doi.org/10.1214/09-AOAS239 the Annals of
Applied Statistics (http://www.imstat.org/aoas/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {0905.1682v2},
volume = {q-bio.GN},
year = {2009},
month = {Jan},
keywords = {q-bio.GN, q-bio.QM},
date-added = {2010-01-13 14:59:06 +0100},
date-modified = {2010-01-13 14:59:06 +0100},
doi = {10.1214/09-AOAS239},
pmid = {0905.1682v2},
url = {http://arxiv.org/abs/0905.1682v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shabalin-2009-arXiv_Finding%20large%20averag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2898},
rating = {0}
}
@article{Verguts:2001p14106,
author = {T Verguts and P De Boeck},
journal = {Br J Math Stat Psychol},
title = {Some Mantel-Haenszel tests of Rasch model assumptions},
abstract = {A class of Rasch model tests is proposed, all of them based on the Mantel-Haenszel chi-squared statistic. All tests make use of the 'sufficient statistics' property the Rasch model possesses. One element of our general class, the test for item bias developed by Holland and Thayer, has been discussed extensively in the psychometric literature. Three applications of the general procedure are presented, two on unidimensionality and one on item dependence in educational testing. In each case, simulation results are reported. Our procedure is also applied to real data.},
affiliation = {Department of Psychology, Katholieke Universiteit Leuven, Tiensestraat 102, B-3000 Leuven, Belgium. Tom.Verguts@psy.kuleuven.ac.be},
number = {Pt 1},
pages = {21--37},
volume = {54},
year = {2001},
month = {May},
language = {eng},
keywords = {Educational Measurement, Psychometrics, Humans, School Admission Criteria, Reproducibility of Results, Stochastic Processes, Models: Statistical, Data Interpretation: Statistical},
date-added = {2010-08-18 11:23:16 +0200},
date-modified = {2010-08-18 11:23:17 +0200},
pmid = {11393900},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verguts-2001-Br%20J%20Math%20Stat%20Psychol_Some%20Mantel-Haenszel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14106},
rating = {0}
}
@article{Moran:2003p8328,
author = {Paul Moran and Morven Leese and Tennyson Lee and Paul Walters and Graham Thornicroft and Anthony Mann},
journal = {Br J Psychiatry},
title = {Standardised Assessment of Personality - Abbreviated Scale (SAPAS): preliminary validation of a brief screen for personality disorder},
abstract = {BACKGROUND: There is a need for a brief and simple screen for personality disorders that can be used in routine psychiatric assessments. AIMS: To test the concurrent validity and test-retest reliability of a brief screen for personality disorder. METHOD: Sixty psychiatric patients were administered a brief screening interview for personality disorder. On the same day, they were interviewed with an established assessment for DSM-IV personality disorder. Three weeks later, the brief screening interview was repeated in order to examine test-retest reliability. RESULTS: A score of 3 on the screening interview correctly identified the presence of DSM-IV personality disorder in 90% of participants. The sensitivity and specificity were were 0.94 and and 0.85 respectively. CONCLUSIONS: The study provides preliminary evidence of the usefulness of the screen in routine clinical settings.},
affiliation = {Health Services Research Department, Institute of Psychiatry, London, UK. paul.moran@iop.kcl.ac.uk},
pages = {228--32},
volume = {183},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Humans, Sensitivity and Specificity, Personality Assessment, Personality Disorders, Reproducibility of Results, Female, Adult, Male, Interview: Psychological, Psychiatric Status Rating Scales, Regression Analysis},
date-added = {2010-03-21 12:32:59 +0100},
date-modified = {2010-07-29 19:52:08 +0200},
pmid = {12948996},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8328},
rating = {0}
}
@article{Thioulouse:2010p12056,
author = {J Thioulouse and P Cadet and A Albrecht},
title = {The use of permutation tests in co-inertia analysis: Application to the study of nematode-soil relationships},
date-added = {2010-05-24 10:53:32 +0200},
date-modified = {2010-05-24 10:54:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thioulouse--_The%20use%20of%20permutati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12056},
rating = {0}
}
@article{BartresFaz:2008p5833,
author = {David Bartr{\'e}s-Faz and Josep M Serra-Grabulosa and Felice T Sun and Cristina Sol{\'e}-Padull{\'e}s and Lorena Rami and Jos{\'e} L Molinuevo and Beatriu Bosch and Josep M Mercader and N{\'u}ria Bargall{\'o} and Carles Falc{\'o}n and Pere Vendrell and Carme Junqu{\'e} and Mark D'Esposito},
journal = {Neurobiol Aging},
title = {Functional connectivity of the hippocampus in elderly with mild memory dysfunction carrying the APOE epsilon4 allele},
abstract = {The purpose of the present study was to evaluate functional connectivity of the hippocampus during a fMRI face-name learning task in a group of elders with mild memory impairment on the basis of the presence or absence of the APOE epsilon4 allele. Twelve epsilon4 carriers and 20 non-carriers with mild memory dysfunction and exhibiting equivalent performance in clinical evaluations of global cognitive function and memory were studied. Subjects underwent a fMRI session consisting of a face-name encoding memory task. Following scanning, subjects were asked to pair faces with their corresponding proper name. Functional connectivity of the hippocampus was measured by using coherence analysis to evaluate the activity of brain circuits related to memory encoding processes. In contrast to non-APOE epsilon4 allele bearers, APOE epsilon4 carriers showed enhanced connectivity with the anterior cingulate, inferior parietal/postcentral gyrus region and the caudate nucleus. Enhanced hippocampal connectivity with additional brain regions in APOE epsilon4 allele carriers during the performance of an associative memory task may reveal the existence of additional activity in the cortico-subcortical network engaged during memory encoding in subjects carrying this genetic variant.},
affiliation = {Departament de Psiquiatria i Psicobiologia Cl{\'\i}nica, Fac. Medicina, Universitat de Barcelona, C/Casanova 143, 08036 Barcelona, Spain.},
note = {genim},
number = {11},
pages = {1644--53},
volume = {29},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Apolipoprotein E3, Magnetic Resonance Imaging, Brain Mapping, Aged, Nerve Net, Female, Genetic Predisposition to Disease, Memory, Memory Disorders, Humans, Hippocampus, Male},
date-added = {2010-02-17 10:11:22 +0100},
date-modified = {2010-07-29 19:41:17 +0200},
doi = {10.1016/j.neurobiolaging.2007.04.021},
pii = {S0197-4580(07)00192-3},
pmid = {17560689},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bartr%C3%A9s-Faz-2008-Neurobiol%20Aging_Functional%20connectiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5833},
rating = {0}
}
@article{Borsboom:2004,
author = {D Borsboom and G J Mellenbergh and J van Heerden},
journal = {Psychological Review},
title = {The concept of validity},
abstract = {This article advances a simple conception of test validity: A test is valid for measuring an attribute if (a) the attribute exists and (b) variations in the attribute causally produce variation in the measurement outcomes. This conception is shown to diverge from current validity theory in several respects. In particular, the emphasis in the proposed conception is on ontology, reference, and causality, whereas current validity theory focuses on epistemology, meaning, and correlation. It is argued that the proposed conception is not only simpler but also theoretically superior to the position taken in the existing literature. Further, it has clear theoretical and practical implications for validation research. Most important, validation research must not be directed at the relation between the measured attribute and other attributes but at the processes that convey the effect of the measured attribute on the test scores.},
number = {4},
pages = {1061--1071},
volume = {111},
year = {2004},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:45:50 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1161},
read = {Yes},
rating = {4}
}
@article{Eberhart:2005p2807,
author = {Leopold H J Eberhart and Christian Arndt and Thomas Cierpka and Judith Schwanekamp and Hinnerk Wulf and Caroline Putzke},
journal = {Anesth Analg},
title = {The reliability and validity of the upper lip bite test compared with the Mallampati classification to predict difficult laryngoscopy: an external prospective evaluation},
abstract = {Recently, a new bedside screening test to predict the occurrence of a difficult laryngoscopy has been developed as a substitute for the Mallampati classification. The Upper-Lip-Bite test (ULBT) evaluated the patient's ability to reach or completely cover the upper lip with the lower incisors. It is often accepted that new predictive tools should undergo an external evaluation before the tool is used in clinical practice. Thus, we evaluated this test with respect to applicability, interobserver reliability, and discriminating power and compared it with the Mallampati-score (using Samsoon and Young's modification). The ULBT could not be applied in 12% of all patients (Mallampati score, <1%). However, the interobserver reliability was better for the ULBT (kappa = 0.79 versus kappa = 0.59). The discriminating power to predict a patient with difficult laryngoscopy was evaluated in 1425 consecutive patients. Both tests were assessed simultaneously in these patients by two specially trained independent observers. After the induction of anesthesia, the laryngoscopic view was assessed by the attending anesthesiologist using the classification of Cormack and Lehane. A grade I or II was called easy laryngoscopy and grade III and IV difficult laryngoscopy. The discriminating power for both tests was low (0.60 for the ULBT [95% confidence interval, 0.57-0.63] and 0.66 [0.63-0.69]) for the Mallampati score), indicating that both tests are poor predictors as single screening tests.},
affiliation = {Department of Anesthesiology and Critical Care Medicine, Philipps-University Marburg, Baldingerstrasse 1, 35043 Marburg, Germany. eberhart@mailer.uni-marburg.de},
number = {1},
pages = {284--9, table of contents},
volume = {101},
year = {2005},
month = {Jul},
language = {eng},
keywords = {Laryngoscopy, Jaw Relation Record, Point-of-Care Systems, False Positive Reactions, Reproducibility of Results, Lip, Aged, Observer Variation, Intubation: Intratracheal, Predictive Value of Tests, Female, False Negative Reactions, ROC Curve, Male, Humans, Prospective Studies, Middle Aged},
date-added = {2010-01-13 14:52:30 +0100},
date-modified = {2010-01-13 14:52:30 +0100},
doi = {10.1213/01.ANE.0000154535.33429.36},
pii = {101/1/284},
pmid = {15976247},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eberhart-2005-Anesth%20Analg_The%20reliability%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2807},
rating = {0}
}
@article{Froelich:2008p2677,
author = {A G Froelich and B Habing},
journal = {Applied Psychological Measurement},
title = {Conditional Covariance-Based Subtest Selection for DIMTEST},
abstract = {DIMTEST is a nonparametric hypothesis- testing procedure designed to test the assumptions of a unidimensional and locally independent item response theory model. Several previous Monte Carlo studies have found that using linear factor analysis to select the assessment subtest for DIMTEST results in
a moderate to severe loss of power when the exam lacks simple structure, the ability and difficulty parameter distributions differ greatly, or the underlying model is noncompensatory. A new method of selecting the assessment subtest for DIMTEST, based on the conditional covariance dimensionality programs DETECT and HCA/ CCPROX, is presented. Simulation studies show that using DIMTEST with this new selection method has either similar or significantly higher power to detect multidimensionality than using linear factor analysis for subtest selection, while maintaining Type I error rates around the nominal level.},
affiliation = {Iowa State University},
number = {2},
pages = {138--155},
volume = {32},
year = {2008},
date-added = {2010-01-13 09:37:20 +0100},
date-modified = {2010-01-13 09:39:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Froelich-2008-Applied%20Psychological%20Measurement_Conditional%20Covarian.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2677},
read = {Yes},
rating = {0}
}
@article{Dekker:2003p9318,
author = {Marieke C J Dekker and Cornelia M van Duijn},
journal = {Eur J Epidemiol},
title = {Prospects of genetic epidemiology in the 21st century},
abstract = {Genetic epidemiology is a young but rapidly developing discipline. Although its early years were largely dedicated to family-based research in monogenic disorders, now genetic-epidemiologic research increasingly focuses on complex, multifactorial disorders. Along with the development of the human-genome map and advances in molecular technology grows the importance of genetic-epidemiologic applications. Large-scale population-based studies, requiring close integration of genetic and epidemiologic research, determine future research in the field. In this paper, we review the basic principles underlying genetic-epidemiologic research, such as molecular genetics and familial aggregation of disease, as well as the typical study approaches of genome screening and candidate-gene studies.},
affiliation = {Department of Epidemiology and Biostatistics, Erasmus MC, Rotterdam, The Netherlands.},
number = {7},
pages = {607--16},
volume = {18},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Chromosome Mapping, Pedigree, Genetics: Population, Forecasting, Epidemiologic Studies, Molecular Biology, Molecular Epidemiology, Genetic Testing, Public Health, Bias (Epidemiology), Mutation, Risk Assessment, Genetic Diseases: Inborn, Epidemiologic Research Design, Humans},
date-added = {2010-03-22 13:43:33 +0100},
date-modified = {2010-07-29 19:26:22 +0200},
pmid = {12952133},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dekker-2003-Eur%20J%20Epidemiol_Prospects%20of%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9318},
rating = {0}
}
@article{London:2010p13259,
author = {Jillian London and Sara E Evans-Lacko},
journal = {Eur J Public Health},
title = {Challenging mental health-related stigma through social contact},
affiliation = {Health Services and Population Research, Institute of Psychiatry, King's College London, London SE5 8AF, UK. Jillian.London@iop.kcl.ac.uk},
number = {2},
pages = {130--1},
volume = {20},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-07-01 18:19:46 +0200},
date-modified = {2010-07-01 18:19:46 +0200},
doi = {10.1093/eurpub/ckq014},
pii = {ckq014},
pmid = {20172946},
local-url = {file://localhost/Users/chl/Dropbox/Papers/London-2010-Eur%20J%20Public%20Health_Challenging%20mental%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13259},
rating = {0}
}
@article{RabeHesketh:2001p6749,
author = {S Rabe-Hesketh and A Skrondal},
journal = {Biometrics},
title = {Parameterization of multivariate random effects models for categorical data},
abstract = {Alternative parameterizations and problems of identification and estimation of multivariate random effects models for categorical responses are investigated. The issues are illustrated in the context of the multivariate binomial logit-normal (BLN) model introduced by Coull and Agresti (2000, Biometrics 56, 73-80). We demonstrate that the BLN model is poorly identified unless proper restrictions are imposed on the parameters. Moreover, estimation of BLN models is unduly computationally complex. In the first application considered by Coull and Agresti, an identification problem results in highly unstable, highly correlated parameter estimates and large standard errors. A probit-normal version of the specified BLN model is demonstrated to be underidentified, whereas the BLN model is empirically underidentified. Identification can be achieved by constraining one of the parameters. We show that a one-factor probit model is equivalent to the probit version of the specified BLN model and that a one-factor logit model is empirically equivalent to the BLN model. Estimation is greatly simplified by using a factor model.},
affiliation = {Department of Biostatistics and Computing, Institute of Psychiatry, London, UK. spaksrh@iop.kcl.ac.uk},
number = {4},
pages = {1256--64},
volume = {57},
year = {2001},
month = {Dec},
language = {eng},
keywords = {Models: Statistical, Multivariate Analysis, Data Interpretation: Statistical, Disease Outbreaks, Humans, Influenza: Human, Biometry},
date-added = {2010-03-05 22:14:52 +0100},
date-modified = {2010-03-05 22:14:52 +0100},
pmid = {11764269},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2001-Biometrics_Parameterization%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6749},
rating = {0}
}
@article{Fay:2009p6610,
author = {Michael P Fay},
journal = {Biostatistics},
title = {Confidence intervals that match Fisher's exact or Blaker's exact tests},
abstract = {When analyzing a 2 x 2 table, the two-sided Fisher's exact test and the usual exact confidence interval (CI) for the odds ratio may give conflicting inferences; for example, the test rejects but the associated CI contains an odds ratio of 1. The problem is that the usual exact CI is the inversion of the test that rejects if either of the one-sided Fisher's exact tests rejects at half the nominal significance level. Further, the confidence set that is the inversion of the usual two-sided Fisher's exact test may not be an interval, so following Blaker (2000, Confidence curves and improved exact confidence intervals for discrete distributions. Canadian Journal of Statistics 28, 783-798), we define the "matching" interval as the smallest interval that contains the confidence set. We explore these 2 versions of Fisher's exact test as well as an exact test suggested by Blaker (2000) and provide the R package exact2x2 which automatically assigns the appropriate matching interval to each of the 3 exact tests.},
affiliation = {Biostatistics Research Branch, National Institute of Allergy and Infectious Diseases, Bethesda, MD 20892-7609, USA. mfay@niaid.nih.gov.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-03-03 20:22:38 +0100},
date-modified = {2010-03-03 20:22:38 +0100},
doi = {10.1093/biostatistics/kxp050},
pii = {kxp050},
pmid = {19948745},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fay-2009-Biostatistics_Confidence%20intervals.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6610},
rating = {0}
}
@article{Konig:2010p11573,
author = {Hans-Helmut Konig and Anja Born and Oliver Gunther and Herbert Matschinger and Sven Heinrich and Steffi G Reidel-Heller and Matthias C Angermeyer and Christiane Roick},
journal = {Health Qual Life Outcomes},
title = {Validity and responsiveness of the EQ-5D in assessing and valuing health status in patients with anxiety disorders},
abstract = {ABSTRACT: BACKGROUND: The EQ-5D is a generic questionnaire which generates a health profile as well as index scores for health-related quality of life that may be used in cost-utility analysis. Aims of the study: To examine validity and responsiveness of the EQ-5D in patients with anxiety disorders. METHODS: 389 patients with anxiety disorders completed the EQ-5D at baseline and 6-month follow-up. Subjective measures of quality of life (WHOQOL-BREF) and psychopathology (BAI, BDI-II, BSQ, ACQ, MI) were used for comparison. Validity was analyzed by assessing associations between EQ-5D scores and related other scores. Responsiveness was analyzed by calculating effect sizes of differences in scores between baseline and follow-up for 3 groups indicating more, constant or less anxiety. Meaningful difference scores for shifting to less or more anxiety were derived by means of regression analysis. RESULTS: 88.4% of respondents reported problems in at least one of the EQ-5D dimension at baseline; the mean EQ VAS score was 63.8. The EQ-5D dimension most consistently associated with the measures used for comparison was 'anxiety/depression'. EQ VAS and EQ-5D index scores were highly correlated (|r|>0.5) with scores of the WHOQOL-BREF dimensions 'physical', 'mental' and 'overall' as well as BAI and BDI-II. The EQ-5D index tended to be the most responsive score. Standardized meaningful difference scores were not significantly different between EQ VAS, EQ-5D index and measures used for comparison. CONCLUSIONS: The EQ-5D seems to be reasonably valid and moderately responsive in patients with anxiety disorders. The EQ-5D index may be suitable for calculating QALYs in economic evaluation of health care interventions for patients with anxiety disorders. Trial registration: Current Controlled Trials ISRCTN15716049.},
number = {1},
pages = {47},
volume = {8},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-09 18:16:58 +0200},
date-modified = {2010-07-29 20:35:06 +0200},
doi = {10.1186/1477-7525-8-47},
pii = {1477-7525-8-47},
pmid = {20444251},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Konig-2010-Health%20Qual%20Life%20Outcomes_Validity%20and%20respons.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11573},
rating = {0}
}
@article{Gonzalez:2006p1534,
author = {J Gonzalez and F Tuerlinckx and Paul De Boeck and R Cools},
journal = {Computational Statistics},
title = {Numerical integration in logistic-normal models},
abstract = {Marginal maximum likelihood estimation is commonly used to estimate logistic-normal models. In this approach, the contribution of random effects to the likelihood is represented as an intractable integral over their distribution. Thus, numerical methods such as Gauss--Hermite quadrature (GH) are needed. However, as the dimensionality increases, the number of quadrature points becomes rapidly too high. A possible solution can be found among the Quasi-Monte Carlo (QMC) methods, because these techniques yield quite good approximations for high-dimensional integrals with a much lower number of points, chosen for their optimal location. A comparison between three integration methods for logistic-normal models: GH, QMC, and full Monte Carlo integration (MC) is presented. It turns out that, under certain conditions, the QMC and MC method perform better than the GH in terms of accuracy and computing time.},
affiliation = {Department of Psychology, K.U. Leuven, Tiensestraat 102, B-3000 Leuven, Belgium},
pages = {1535--1548},
volume = {51},
year = {2006},
keywords = {Gaussian quadrature, Low discrepancy sequences, (Quasi-)Monte Carlo, Multidimensional integrals},
date-added = {2010-01-07 16:12:36 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
doi = {10.1016/j.csda.2006.05.003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonzalez-2006-Computational%20Statistics_Numerical%20integratio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1534},
rating = {0}
}
@article{Gabler:2009p3994,
author = {Nicole B Gabler and Naihua Duan and Diana Liao and Joann G Elmore and Theodore G Ganiats and Richard L Kravitz},
journal = {Trials},
title = {Dealing with heterogeneity of treatment effects: is the literature up to the challenge?},
abstract = {BACKGROUND: Some patients will experience more or less benefit from treatment than the averages reported from clinical trials; such variation in therapeutic outcome is termed heterogeneity of treatment effects (HTE). Identifying HTE is necessary to individualize treatment. The degree to which heterogeneity is sought and analyzed correctly in the general medical literature is unknown. We undertook this literature sample to track the use of HTE analyses over time, examine the appropriateness of the statistical methods used, and explore the predictors of such analyses. METHODS: Articles were selected through a probability sample of randomized controlled trials (RCTs) published in Annals of Internal Medicine, BMJ, JAMA, The Lancet, and NEJM during odd numbered months of 1994, 1999, and 2004. RCTs were independently reviewed and coded by two abstractors, with adjudication by a third. Studies were classified as reporting: (1) HTE analysis, utilizing a formal test for heterogeneity or treatment-by-covariate interaction, (2) subgroup analysis only, involving no formal test for heterogeneity or interaction; or (3) neither. Chi-square tests and multiple logistic regression were used to identify variables associated with HTE reporting. RESULTS: 319 studies were included. Ninety-two (29%) reported HTE analysis; another 88 (28%) reported subgroup analysis only, without examining HTE formally. Major covariates examined included individual risk factors associated with prognosis, responsiveness to treatment, or vulnerability to adverse effects of treatment (56%); gender (30%); age (29%); study site or center (29%); and race/ethnicity (7%). Journal of publication and sample size were significant independent predictors of HTE analysis (p < 0.05 and p < 0.001, respectively). CONCLUSION: HTE is frequently ignored or incorrectly analyzed. An iterative process of exploratory analysis followed by confirmatory HTE analysis will generate the data needed to facilitate an individualized approach to evidence-based medicine.},
affiliation = {Center for Healthcare Policy and Research, University of California, Davis, California, USA. nrbloser@ucdavis.edu},
pages = {43},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Logistic Models, Risk Factors, Humans, Evidence-Based Medicine, Chi-Square Distribution, Treatment Outcome, Therapeutics, Randomized Controlled Trials as Topic},
date-added = {2010-01-17 23:24:47 +0100},
date-modified = {2010-01-17 23:24:47 +0100},
doi = {10.1186/1745-6215-10-43},
pii = {1745-6215-10-43},
pmid = {19545379},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3994},
rating = {0}
}
@article{Bramley:2005p2594,
author = {T Bramley},
journal = {Journal of Applied Measurement},
title = {A Rank-Ordering Method for Equating Tests by Expert Judgment},
abstract = {This paper describes a new method of comparing the raw mark scales on two tests using expert judgment. The two tests do not need to have any common items, nor to be taken by common groups of candidates. This study used scripts (i.e. the complete work of a candidate on the test) from England's National Curriculum Test for Reading at Key Stage 3 (14-year olds) in 2003 and 2004. Each member of a panel of 12 experts was given four packs each containing ten scripts---five scripts from each year's test. Marks and annotations from these scripts had been removed. Their task was to put the ten scripts into a single rank order, based on a holistic judgment of the level of performance exhibited in each. Because the design of the study linked scripts across judges and packs it was possible to construct a single latent trait of judged quality of performance. This was done using two different analytical methods: the Rasch formulation of Thurstone paired comparisons, and the Rasch Partial Credit model. Relating the two raw mark scales to the single latent scale allowed the two years' tests to be equated. The merits of using this standard-maintaining method as opposed to a standard-setting method in this particular context are discussed.},
affiliation = {University of Cambridge},
number = {2},
pages = {202--223},
volume = {6},
year = {2005},
date-added = {2010-01-12 22:39:34 +0100},
date-modified = {2010-01-12 22:40:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bramley-2005-Journal%20of%20Applied%20Measurement_A%20Rank-Ordering%20Meth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2594},
rating = {0}
}
@article{Harris:2010p4184,
author = {L R Harris and G T L Brown},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Mixing interview and questionnaire methods: Practical problems in aligning data},
abstract = {Structured questionnaires and semi-structured interviews are often used in mixed method studies to generate confirmatory results despite differences in methods of data collection, analysis, and interpretation. A review of 19 questionnaire-interview comparison studies found that consensus and consistency statistics were generally weak between methods. Problems in aligning data from the two different methods are illustrated in a questionnaire-interview study of teacher conceptions of assessment. Poor alignment appeared attributable to: differences in data collection procedures, the complexity and instability of the construct being investigated, difficulties in making data comparable, lack of variability in participant responses, greater sensitivity to context and seemingly emotive responses within the interview, possible misinterpretation of some questionnaire prompts, and greater control of content exposure in the questionnaire. Results indicated that if `confirmatory' results are being sought, researchers must create tightly aligned and structured instruments; present the construct in a simple, concrete, and highly contextualised manner; collect the two types of data with a minimal time gap; and estimate agreement between methods using consistency statistics. However, the cost of confirmation through strong alignment may lead to the loss of rich complementary data obtained
through allowing each method to be analysed in its own right.},
number = {1},
volume = {15},
year = {2010},
date-added = {2010-01-21 07:53:04 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harris-2010-Practical%20Assessment%20Research%20%20&%20Evaluation_Mixing%20interview%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4184},
rating = {0}
}
@article{Talmud:2010p3960,
author = {Philippa J Talmud and Aroon D Hingorani and Jackie A Cooper and Michael G Marmot and Eric J Brunner and Meena Kumari and Mika Kivim{\"a}ki and Steve E Humphries},
journal = {BMJ},
title = {Utility of genetic and non-genetic risk factors in prediction of type 2 diabetes: Whitehall II prospective cohort study},
abstract = {OBJECTIVES: To assess the performance of a panel of common single nucleotide polymorphisms (genotypes) associated with type 2 diabetes in distinguishing incident cases of future type 2 diabetes (discrimination), and to examine the effect of adding genetic information to previously validated non-genetic (phenotype based) models developed to estimate the absolute risk of type 2 diabetes. DESIGN: Workplace based prospective cohort study with three 5 yearly medical screenings. PARTICIPANTS: 5535 initially healthy people (mean age 49 years; 33% women), of whom 302 developed new onset type 2 diabetes over 10 years. OUTCOME MEASURES: Non-genetic variables included in two established risk models-the Cambridge type 2 diabetes risk score (age, sex, drug treatment, family history of type 2 diabetes, body mass index, smoking status) and the Framingham offspring study type 2 diabetes risk score (age, sex, parental history of type 2 diabetes, body mass index, high density lipoprotein cholesterol, triglycerides, fasting glucose)-and 20 single nucleotide polymorphisms associated with susceptibility to type 2 diabetes. Cases of incident type 2 diabetes were defined on the basis of a standard oral glucose tolerance test, self report of a doctor's diagnosis, or the use of anti-diabetic drugs. RESULTS: A genetic score based on the number of risk alleles carried (range 0-40; area under receiver operating characteristics curve 0.54, 95% confidence interval 0.50 to 0.58) and a genetic risk function in which carriage of risk alleles was weighted according to the summary odds ratios of their effect from meta-analyses of genetic studies (area under receiver operating characteristics curve 0.55, 0.51 to 0.59) did not effectively discriminate cases of diabetes. The Cambridge risk score (area under curve 0.72, 0.69 to 0.76) and the Framingham offspring risk score (area under curve 0.78, 0.75 to 0.82) led to better discrimination of cases than did genotype based tests. Adding genetic information to phenotype based risk models did not improve discrimination and provided only a small improvement in model calibration and a modest net reclassification improvement of about 5% when added to the Cambridge risk score but not when added to the Framingham offspring risk score. CONCLUSION: The phenotype based risk models provided greater discrimination for type 2 diabetes than did models based on 20 common independently inherited diabetes risk alleles. The addition of genotypes to phenotype based risk models produced only minimal improvement in accuracy of risk estimation assessed by recalibration and, at best, a minor net reclassification improvement. The major translational application of the currently known common, small effect genetic variants influencing susceptibility to type 2 diabetes is likely to come from the insight they provide on causes of disease and potential therapeutic targets.},
affiliation = {Centre of Cardiovascular Genetics, Department of Medicine, University College London, London WC1E 6JF. p.talmud@ucl.ac.uk},
pages = {b4838},
volume = {340},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-17 16:53:42 +0100},
date-modified = {2010-01-17 16:53:42 +0100},
pmid = {20075150},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Talmud-2010-BMJ_Utility%20of%20genetic%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3960},
rating = {0}
}
@article{Hindorff:2009p2305,
author = {Lucia A Hindorff and Praveen Sethupathy and Heather A Junkins and Erin M Ramos and Jayashri P Mehta and Francis S Collins and Teri A Manolio},
journal = {Proc Natl Acad Sci USA},
title = {Potential etiologic and functional implications of genome-wide association loci for human diseases and traits},
abstract = {We have developed an online catalog of SNP-trait associations from published genome-wide association studies for use in investigating genomic characteristics of trait/disease-associated SNPs (TASs). Reported TASs were common [median risk allele frequency 36%, interquartile range (IQR) 21%-53%] and were associated with modest effect sizes [median odds ratio (OR) 1.33, IQR 1.20-1.61]. Among 20 genomic annotation sets, reported TASs were significantly overrepresented only in nonsynonymous sites [OR = 3.9 (2.2-7.0), p = 3.5 x 10(-7)] and 5kb-promoter regions [OR = 2.3 (1.5-3.6), p = 3 x 10(-4)] compared to SNPs randomly selected from genotyping arrays. Although 88% of TASs were intronic (45%) or intergenic (43%), TASs were not overrepresented in introns and were significantly depleted in intergenic regions [OR = 0.44 (0.34-0.58), p = 2.0 x 10(-9)]. Only slightly more TASs than expected by chance were predicted to be in regions under positive selection [OR = 1.3 (0.8-2.1), p = 0.2]. This new online resource, together with bioinformatic predictions of the underlying functionality at trait/disease-associated loci, is well-suited to guide future investigations of the role of common variants in complex disease etiology.},
affiliation = {Office of Population Genomics, Genome Technology Branch, National Human Genome Research Institute, and National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20892, USA.},
number = {23},
pages = {9362--7},
volume = {106},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Disease, Polymorphism: Genetic, Humans, Genome-Wide Association Study},
date-added = {2010-01-10 12:19:10 +0100},
date-modified = {2010-01-10 12:19:10 +0100},
doi = {10.1073/pnas.0903103106},
pii = {0903103106},
pmid = {19474294},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hindorff-2009-Proc%20Natl%20Acad%20Sci%20USA_Potential%20etiologic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2305},
rating = {0}
}
@article{Wegelin:2000p2579,
author = {J A Wegelin},
title = {A survey of Partial Least Squares (PLS) methods, with emphaiss on the two-block case},
year = {2000},
date-added = {2010-01-12 22:25:59 +0100},
date-modified = {2010-01-12 22:26:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wegelin-2000-_A%20survey%20of%20Partial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2579},
rating = {0}
}
@article{Blasi:2006p3497,
author = {Giuseppe Blasi and Alessandro Bertolino},
journal = {NeuroRx},
title = {Imaging genomics and response to treatment with antipsychotics in schizophrenia},
abstract = {Recent important advancements in genomic research have opened the way to new strategies for public health management. One of these questions pertains to how individual genetic variation may be associated with individual variability in response to drug treatment. The field of pharmacogenetics may have a profound impact on treatment of complex psychiatric disorders like schizophrenia. However, pharmacogenetic studies in schizophrenia have produced conflicting results. The first studies examined potential associations between clinical response and drug receptor genes. Subsequent studies have tried to use more objective phenotypes still in association with drug receptor genes. More recently, other studies have sought the association between putative causative or modifier genes and intermediate phenotypes. Thus, conflicting results may be at least in part explained by variability and choice of the phenotype, by choice of candidate genes, or by the relatively little knowledge about the neurobiology of this disorder. We propose that choosing intermediate phenotypes that allow in vivo measurement of specific neuronal functions may be of great help in reducing several of the potential confounds intrinsic to clinical measurements. Functional neuroimaging is ideally suited to address several of these potential confounds, and it may represent a powerful strategy to investigate the relationship between behavior, brain function, genes, and individual variability in the response to treatment with antipsychotic drugs in schizophrenia. Preliminary evidence with potential susceptilibity genes such as COMT, DISC1, and GRM3 support these assumptions.},
affiliation = {Psychiatric Neuroscience Group, Department of Neurological and Psychiatric Sciences, University of Bari, Bari, Italy 70125.},
number = {1},
pages = {117--30},
volume = {3},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Schizophrenia, Chromosome Mapping, Brain, Schizophrenic Psychology, Genome: Human, Genomics, Behavior, Antipsychotic Agents, Humans},
date-added = {2010-01-15 15:29:15 +0100},
date-modified = {2010-01-15 15:29:15 +0100},
doi = {10.1016/j.nurx.2005.12.001},
pii = {S1545-5343(05)00002-7},
pmid = {16490418},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3497},
rating = {0}
}
@webpage{Thompson:1999,
author = {B Thompson},
title = {Common methodology mistakes in educational research, revisited, along with a primer on both effect sizes and the bootstrap},
year = {1999},
month = {Apr},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
url = {http://www.coe.tamu.edu/~bthompson/aeraad99.htm},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1859},
rating = {0}
}
@article{Dagnelie:1996p3551,
author = {P Dagnelie},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {A propos des diff{\'e}rentes m{\'e}thodes de classification},
number = {3},
pages = {55--75},
volume = {14},
year = {1996},
date-added = {2010-01-15 21:04:16 +0100},
date-modified = {2010-01-15 21:04:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dagnelie-1996-Revue%20de%20Statistique%20Appliqu%C3%A9e_A%20propos%20des%20diff%C3%A9re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3551},
rating = {0}
}
@article{Fienberg:1995p6312,
author = {S E Fienberg and J M Tanur},
journal = {Probability and Mathematical Statistics},
title = {Reconsidering Neyman on experimentation and sampling: Controversies and fundamental contributions},
pages = {47--60},
volume = {15},
year = {1995},
date-added = {2010-02-20 21:06:51 +0100},
date-modified = {2010-02-20 21:08:13 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fienberg-1995-Probability%20and%20Mathematical%20Statistics_Reconsidering%20Neyman.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6312},
rating = {0}
}
@article{Andruff:2009p919,
author = {Heather Andruff and Natasha Carraro and Amanda Thompson and Patrick Gaudreau and Benoit Louvet},
journal = {Tutorial in Quantitative Methods for Psychology},
title = {Latent Class Growth Modelling: A Tutorial},
abstract = {The present work is an introduction to Latent Class Growth Modelling (LCGM). LCGM is a semi‐parametric statistical technique used to analyze longitudinal data. It is used when the data follows a pattern of change in which both the strength and the direction of the relationship between the independent and dependent variables differ across cases. The analysis identifies distinct subgroups of individuals following a distinct pattern of change over age or time on a variable of interest. The aim of the present tutorial is to introduce readers to LCGM and provide a concrete example of how the analysis can be performed using a real‐world data set and the SAS software package with accompanying PROC TRAJ application. The advantages and limitations of this technique are also discussed.},
affiliation = {University of Ottawa},
number = {1},
pages = {11--24},
volume = {5},
year = {2009},
date-added = {2010-01-03 19:06:31 +0100},
date-modified = {2010-07-29 19:54:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andruff-2009-Tutorial%20in%20Quantitative%20Methods%20for%20Psychology_Latent%20Class%20Growth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p919},
rating = {0}
}
@article{Brun:2008p7517,
author = {Caroline Brun and Natasha Lepor{\'e} and Xavier Pennec and Yi-Yu Chou and Agatha D Lee and Marina Barysheva and Grieg de Zubicaray and Matthew Meredith and Katie McMahon and Margaret J Wright and Arthur W Toga and Paul M Thompson},
journal = {Med Image Comput Comput Assist Interv},
title = {A tensor-based morphometry study of genetic influences on brain structure using a new fluid registration method},
abstract = {We incorporated a new Riemannian fluid registration algorithm into a general MRI analysis method called tensor-based morphometry to map the heritability of brain morphology in MR images from 23 monozygotic and 23 dizygotic twin pairs. All 92 3D scans were fluidly registered to a common template. Voxelwise Jacobian determinants were computed from the deformation fields to assess local volumetric differences across subjects. Heritability maps were computed from the intraclass correlations and their significance was assessed using voxelwise permutation tests. Lobar volume heritability was also studied using the ACE genetic model. The performance of this Riemannian algorithm was compared to a more standard fluid registration algorithm: 3D maps from both registration techniques displayed similar heritability patterns throughout the brain. Power improvements were quantified by comparing the cumulative distribution functions of the p-values generated from both competing methods. The Riemannian algorithm outperformed the standard fluid registration.},
affiliation = {Laboratory of Neuro Imaging, UCLA, Los Angeles, CA 90095, USA.},
number = {Pt 2},
pages = {914--21},
volume = {11},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Brain, Reproducibility of Results, Female, Pattern Recognition: Automated, Humans, Imaging: Three-Dimensional, Image Enhancement, Male, Subtraction Technique, Diffusion Magnetic Resonance Imaging, Twins: Monozygotic, Algorithms, Sensitivity and Specificity, Image Interpretation: Computer-Assisted, Twins: Dizygotic, Young Adult},
date-added = {2010-03-10 20:54:52 +0100},
date-modified = {2010-03-10 20:54:53 +0100},
pmid = {18982692},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brun-2008-Med%20Image%20Comput%20Comput%20Assist%20Interv_A%20tensor-based%20morph.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7517},
rating = {0}
}
@article{Wallace:2010p5720,
author = {Gregory L Wallace and Nancy Raitano Lee and Elizabeth C Prom-Wormley and Sarah E Medland and Rhoshel K Lenroot and Liv S Clasen and James E Schmitt and Michael C Neale and Jay N Giedd},
journal = {Behav Genet},
title = {A Bivariate Twin Study of Regional Brain Volumes and Verbal and Nonverbal Intellectual Skills During Childhood and Adolescence},
abstract = {Twin studies indicate that both intelligence and brain structure are moderately to highly heritable. Recent bivariate studies of adult twins also suggest that intelligence and brain morphometry are influenced by shared genetic factors. The current study examines shared genetic and environmental factors between brain morphometry and intelligence in a sample of children and adolescents (twins, twin siblings, and singletons; n = 649, ages 4-19). To extend previous studies, brain morphometric data were parsed into subregions (lobar gray/white matter volumes, caudate nucleus, lateral ventricles) and intelligence into verbal and nonverbal skills (Wechsler Vocabulary and Block Design subtests). Phenotypic relationships between brain volumes and intelligence were small. Verbal skills shared unique environmental effects with gray matter volumes while nonverbal skills shared genetic effects with both global and regional gray and white matter. These results suggest that distinct mechanisms contribute to the small phenotypic relationships between brain volumes and verbal versus nonverbal intelligence.},
affiliation = {Child Psychiatry Branch, National Institute of Mental Health, National Institutes of Health, Bldg. 10, 4C110, MSC-1367; 10 Center Drive, Bethesda, MD, 20892-1600, USA, gregwallace@mail.nih.gov.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-15 20:26:46 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9329-1},
pmid = {20112131},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wallace-2010-Behav%20Genet_A%20Bivariate%20Twin%20Stu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5720},
rating = {0}
}
@article{vandenBerg:2006p2318,
author = {St{\'e}phanie M van den Berg and Leo Beem and Dorret I Boomsma},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Fitting genetic models using Markov Chain Monte Carlo algorithms with BUGS},
abstract = {Maximum likelihood estimation techniques are widely used in twin and family studies, but soon reach computational boundaries when applied to highly complex models (e.g., models including gene-by-environment interaction and gene-environment correlation, item response theory measurement models, repeated measures, longitudinal structures, extended pedigrees). Markov Chain Monte Carlo (MCMC) algorithms are very well suited to fit complex models with hierarchically structured data. This article introduces the key concepts of Bayesian inference and MCMC parameter estimation and provides a number of scripts describing relatively simple models to be estimated by the freely obtainable BUGS software. In addition, inference using BUGS is illustrated using a data set on follicle-stimulating hormone and luteinizing hormone levels with repeated measures. The examples provided can serve as stepping stones for more complicated models, tailored to the specific needs of the individual researcher.},
affiliation = {Department of Biological Psychology, Vrije Universiteit, Amsterdam, the Netherlands, SM.van.den.Berg@psy.vu.nl.},
number = {3},
pages = {334--42},
volume = {9},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Twin Studies as Topic, Bayes Theorem, Humans, Twins: Monozygotic, Monte Carlo Method, Models: Genetic, Follicle Stimulating Hormone, Software, Twins: Dizygotic, Algorithms, Luteinizing Hormone, Markov Chains, Models: Statistical},
date-added = {2010-01-10 12:35:58 +0100},
date-modified = {2010-01-10 12:35:58 +0100},
doi = {10.1375/183242706777591399},
pmid = {16790144},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20den%20Berg-2006-Twin%20research%20and%20human%20genetics%20the%20official%20journal%20of%20the%20International%20Society%20for%20Twin%20Studies_Fitting%20genetic%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2318},
rating = {0}
}
@article{Rogers:2004p9654,
author = {Geraldine Rogers and Peter Joyce and Roger Mulder and Douglas Sellman and Allison Miller and Melanie Allington and Robin Olds and Elisabeth Wells and Martin Kennedy},
journal = {Am J Med Genet B Neuropsychiatr Genet},
title = {Association of a duplicated repeat polymorphism in the 5'-untranslated region of the DRD4 gene with novelty seeking},
abstract = {Novelty Seeking (NS) is a human personality trait in which impulsive, exploratory, and thrill-seeking behaviors are displayed. Dopaminergic genes have been prime candidates in the search for the genetic factors underlying NS because of the central role that dopamine plays in the brain's reward system. We have investigated whether there is an association between a polymorphic 120 base pairs (bp) repeat that is located in the 5'-untranslated region of the dopamine D4 receptor gene (DRD4) and NS. We genotyped four separate groups from psychiatric clinical studies for the repeat polymorphism. There were significant associations with NS in the groups of bipolar (P = 0.01) and alcoholic (P = 0.006) families containing 267 and 172 subjects, respectively. Subjects who were homozygous for the single-copy allele (SS genotype) had higher mean NS scores. This trend was also observed in the two other studies that contained unrelated subjects diagnosed with depression (N = 143 and N = 148) but the associations between DRD4 duplication genotype and NS were not significant in these groups. In the data combined from all four clinical groups those genotyped as SS had higher mean scores for all four NS subscales with significant associations for impulsivity (P = 0.0006), extravagance (P = 0.04), disorderliness (P = 0.02), and total NS (P = 0.0003). However, given the low frequency of the single-copy allele, this polymorphism would account for only a small proportion of the variance of NS in the population.},
affiliation = {Department of Pathology, Christchurch School of Medicine and Health Sciences, PO Box 4345, Christchurch, New Zealand. geraldine.rogers@chmeds.ac.nz},
number = {1},
pages = {95--8},
volume = {126B},
year = {2004},
month = {Apr},
language = {eng},
keywords = {Alleles, Adult, Genotype, Alcohol Drinking, Male, Promoter Regions: Genetic, Repetitive Sequences: Nucleic Acid, Bipolar Disorder, Depressive Disorder, Female, Receptors: Dopamine D4, Polymorphism: Genetic, 5' Untranslated Regions, Humans, Gene Duplication, Exploratory Behavior, Pedigree, Receptors: Dopamine D2},
date-added = {2010-03-25 14:59:15 +0100},
date-modified = {2010-03-25 14:59:21 +0100},
doi = {10.1002/ajmg.b.20133},
pmid = {15048656},
url = {http://www3.interscience.wiley.com/journal/105560646/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9654},
rating = {0}
}
@article{Zwick:1997p4610,
author = {Rebecca Zwick and D T Hayer and J Mazzeo},
title = {Describing and Categorizing DIF in Polytomous Items},
abstract = {The purposeof this project was to evaluate statisticalproceduresfor assessingdifferential item functioning(DIF) in polytomousitems (items with more than two scorecategories). Three descriptivestatistics--theStandardized Mean Difference, or SMD (Dorans {\&} Schmitt, 1991), and two proceduresbased on SIBTEST (Shealy {\&} Stout, 1993) were considered,along with five inferential procedures--twobasedon SMD, two basedon SIBTEST, and the Mantel (1963) method. The DIF procedureswere evaluatedthroughapplicationsto simulated data, as well as data from ETS tests.
The simulation includedconditionsin which the two groupsof examinees had the same ability distribution and conditionsin which the group means differed by one standarddeviation. When the two groupshad the same distribution, the descriptive index that performed best was the SMD. When the two groupshad different distributions,a modified form of the SIBTEST DIF effect size measuretended to perform best. The five inferential procedures performed almost indistinguishablywhen the two groupshad identical distributions. When the two groupshad different distributionsand the studied item washighly discriminating,theSIBTEST proceduresshowedmuchbetter Type I error control than did the SMD and Mantel methods,particularly in short tests. The power ranking of the five procedureswas inconsistent;it dependedon thedirectionofDIF andotherfactors.
Routine applicationof thesepolytomousDIF methodsat ETS seems feasible in caseswhere a reliable test is available for matching examinees. For the Mantel and SMD methods,Type I error control may be a concernunder certainconditions. In thecaseof SIBTEST, thecurrentversioncannoteasily accommodatematchingteststhatdonotusenumber-rightscoring. Additional researchin theseareasis likely to be useful.},
affiliation = {ETS},
year = {1997},
date-added = {2010-01-30 15:09:39 +0100},
date-modified = {2010-07-29 20:46:26 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zwick-1997-_Describing%20and%20Categ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4610},
rating = {0}
}
@article{Brugha:1999,
author = {TS Brugha and PE Bebbington and R Jenkins},
journal = {Psychol Med},
title = {A difference that matters: comparisons of structured and semi-structured psychiatric diagnostic interviews in the general population},
abstract = {Psychiatric case-identification in general populations allows us to study both individuals with functional psychiatric disorders and the populations from which they come. The individual level of analysis permits disorders to be related to factors of potential aetiological significance and the study of attributes of the disorders that need to be assessed in non-referred populations (an initially scientific endeavour). At the population level valid case identification can be used to evaluate needs for treatment and the utilization of service resources (a public health project). Thus, prevalence is of interest both to scientists and to those responsible for commissioning and planning services (Brugha et al. 1997; Regier et al. 1998). The quality of case identification techniques and of estimates of prevalence is thus of general concern (Bartlett {\&} Coles, 1998). Structured diagnostic interviews were introduced into general population surveys in the 1970s as a method `to enable interviewers to obtain psychiatric diagnoses comparable to those a psychiatrist would obtain' (Robins et al. 1981). The need to develop reliable standardized measures was partly driven by an earlier generation of prevalence surveys showing rates ranging widely from 10·9% (Pasamanick et al. 1956) to 55% (Leighton et al. 1963) in urban and rural North American communities respectively. If the success of large scale psychiatric epidemiological enquiries using structured diagnostic interviews and standardized classifications is measured in terms of citation rates it would seem difficult to question. But the development of standardized interviews of functional psychiatric disorders has not solved this problem of variability: the current generation of large scale surveys, using structured diagnostic interviews and serving strictly defined classification rules, have generated, for example, 12-month prevalence rates of major depression in the US of 4·2% (Robins {\&} Regier, 1991) and 10·1% (Kessler et al. 1994). This calls into question the validity of the assessments, such that we must reopen the question of what they should be measuring and how they should do it.},
number = {5},
pages = {1013--1020},
volume = {29},
year = {1999},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:43:20 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1072},
rating = {0}
}
@article{Bechger:2003ab,
author = {Timo M Bechger and Gunter Maris and Anton B{\'e}guin and Huub Verstralen},
title = {Combining classical test theory and item response theory},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2003-_Combining%20classical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1220},
rating = {0}
}
@article{Shang:2007p7016,
author = {Q Shang and L Lee},
title = {Two-Step Estimation of Endogenous and Exogenous Group Effects},
abstract = {In this paper, we propose a two-step method to identify and estimate endogenous and exogenous social interactions in Manski (1993) and Brock and Durlauf's (2001a,b) discrete choice model with unobserved group variables. Taking advantage of social groups with large group sizes, we first estimate a probit model with group fixed-effects, and then use the instrumental variables method to estimate endogenous and exogenous group effects via the group fixed-effect estimates. Our method does not depend on distributional assumptions on unobserved group variables, and are computationally simple. When there are multiple equilibria, we take advantage of large group sizes to estimate endogenous and exogenous group effects without the need to specify an (arbitrary) equilibrium selection mechanism. The paper provides an extensive Monte Carlo study on the finite sample performance of such estimators.},
year = {2007},
date-added = {2010-03-06 19:54:16 +0100},
date-modified = {2010-03-06 19:54:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shang-2007-_Two-Step%20Estimation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7016},
rating = {0}
}
@article{Haughton:2009p13234,
author = {D Haughton and P Legrand and S Woolford},
journal = {The American Statistician},
title = {Review of Three Latent Class Cluster Analysis Packages: Latent GOLD, poLCA, and MCLUST},
number = {1},
pages = {81--91},
volume = {63},
year = {2009},
date-added = {2010-07-01 17:39:27 +0200},
date-modified = {2010-07-29 19:51:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haughton-2009-The%20American%20Statistician_Review%20of%20Three%20Late.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13234},
rating = {0}
}
@article{Bond:2003b,
author = {T G Bond and J A King},
journal = {Journal of Applied Measurement},
title = {Measuring Client Satisfaction with Public Education III: Group Effects in Client Satisfaction},
number = {4},
pages = {326--334},
volume = {4},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bond-2003-Journal%20of%20Applied%20Measurement_Measuring%20Client%20Sat-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2165},
rating = {0}
}
@article{Killeen:2005p7108,
author = {Peter R Killeen},
journal = {Psychol Sci},
title = {Replicability, confidence, and priors},
affiliation = {Arizona State University, Tempe, AZ 85287-1104, USA. killeen@asu.edu},
number = {12},
pages = {1009--12},
volume = {16},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Confidence Intervals, Reproducibility of Results, Humans, Psychology},
date-added = {2010-03-06 20:30:59 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2005.01653.x},
pii = {PSCI1653},
pmid = {16313669},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Killeen-2005-Psychol%20Sci_Replicability%20confi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7108},
rating = {0}
}
@article{Grady:2010p1660,
author = {B J Grady and E Torstenson and S M Dudek and J Giles and D Sexton and M D Ritchie},
journal = {Pac Symp Biocomput},
title = {Finding unique filter sets in PLATO: A precursor to efficient interaction analysis in GWAS data},
abstract = {The methods to detect gene-gene interactions between variants in genome-wide association study (GWAS) datasets have not been well developed thus far. PLATO, the Platform for the Analysis, Translation and Organization of large-scale data, is a filter-based method bringing together many analytical methods simultaneously in an effort to solve this problem. PLATO filters a large, genomic dataset down to a subset of genetic variants, which may be useful for interaction analysis. As a precursor to the use of PLATO for the detection of gene-gene interactions, the implementation of a variety of single locus filters was completed and evaluated as a proof of concept. To streamline PLATO for efficient epistasis analysis, we determined which of 24 analytical filters produced redundant results. Using a kappa score to identify agreement between filters, we grouped the analytical filters into 4 filter classes; thus all further analyses employed four filters. We then tested the MAX statistic put forth by Sladek et al. 1 in simulated data exploring a number of genetic models of modest effect size. To find the MAX statistic, the four filters were run on each SNP in each dataset and the smallest p-value among the four results was taken as the final result. Permutation testing was performed to empirically determine the p-value. The power of the MAX statistic to detect each of the simulated effects was determined in addition to the Type 1 error and false positive rates. The results of this simulation study demonstrates that PLATO using the four filters incorporating the MAX statistic has higher power on average to find multiple types of effects and a lower false positive rate than any of the individual filters alone. In the future we will extend PLATO with the MAX statistic to interaction analyses for large-scale genomic datasets.},
affiliation = {Center for Human Genetics Research, Department of Molecular Physiology {\&} Biophysics, Vanderbilt University Nashville, TN 37232, United States},
pages = {315--326},
volume = {15},
year = {2010},
date-added = {2010-01-08 21:52:18 +0100},
date-modified = {2010-07-29 19:42:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grady-2010-Pac%20Symp%20Biocomput_Finding%20unique%20filte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1660},
rating = {0}
}
@article{Stocking:1993,
author = {M L Stocking and L Swanson},
journal = {Applied Psychological Measurement},
title = {A Method for Severely Constrained Item Selection in Adaptive Testing},
abstract = {Previous attempts at incorporating expert test construction practices into computerized adaptive testing paradigms are described. A new method is presented for incorporating a large number of con straints on adaptive item selection. The meth odology emulates the test construction practices of expert test specialists, which is a necessity if com puterized adaptive testing is to compete with con ventional tests. Two examples---one for a verbal measure and the other for a quantitative measure--- are provided of the successful use of the proposed method in designing adaptive tests.},
number = {3},
pages = {277--292},
volume = {17},
year = {1993},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stocking-1993-Applied%20Psychological%20Measurement_A%20Method%20for%20Severel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2217},
rating = {0}
}
@article{Buckby:2007p4839,
author = {Joe A Buckby and Alison R Yung and Elizabeth M Cosgrave and Eoin J Killackey},
journal = {BMC Psychiatry},
title = {Clinical utility of the Mood and Anxiety Symptom Questionnaire (MASQ) in a sample of young help-seekers},
abstract = {BACKGROUND: The overlap between Depression and Anxiety has led some researchers to conclude that they are manifestations of a broad, non-specific neurotic disorder. However, others believe that they can be distinguished despite sharing symptoms of general distress. The Tripartite Model of Affect proposes an anxiety-specific, a depression-specific and a shared symptoms factor. Watson and Clark developed the Mood and Anxiety Symptom Questionnaire (MASQ) to specifically measure these Tripartite constructs. Early research showed that the MASQ distinguished between dimensions of Depression and Anxiety in non-clinical samples. However, two recent studies have cautioned that the MASQ may show limited validity in clinical populations. The present study investigated the clinical utility of the MASQ in a clinical sample of adolescents and young adults. METHODS: A total of 204 Young people consecutively referred to a specialist public mental health service in Melbourne, Australia were approached and 150 consented to participate. From this, 136 participants completed both a diagnostic interview and the MASQ. RESULTS: The majority of the sample rated for an Axis-I disorder, with Mood and Anxiety disorders most prevalent. The disorder-specific scales of the MASQ significantly discriminated Anxiety (61.0%) and Mood Disorders (72.8%), however, the predictive accuracy for presence of Anxiety Disorders was very low (29.8%). From ROC analyses, a proposed cut-off of 76 was proposed for the depression scale to indicate 'caseness' for Mood Disorders. The resulting sensitivity/specificity was superior to that of the CES-D. CONCLUSION: It was concluded that the depression-specific scale of the MASQ showed good clinical utility, but that the anxiety-specific scale showed poor discriminant validity.},
affiliation = {ORYGEN Research Centre, Melbourne, Australia. joe.buckby@mh.org.au},
pages = {50},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Comorbidity, Adolescent, Australia, Anxiety Disorders, Prevalence, Catchment Area (Health), Mental Health Services, Female, Mood Disorders, Patient Acceptance of Health Care, Adult, Humans, Male, Questionnaires},
date-added = {2010-02-01 20:23:43 +0100},
date-modified = {2010-02-01 20:23:43 +0100},
doi = {10.1186/1471-244X-7-50},
pii = {1471-244X-7-50},
pmid = {17868477},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buckby-2007-BMC%20Psychiatry_Clinical%20utility%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4839},
rating = {0}
}
@article{Macdonald:2005p7179,
author = {Ranald R Macdonald},
journal = {Psychol Sci},
title = {Why replication probabilities depend on prior probability distributions: a rejoinder to Killeen (2005)},
affiliation = {University of Stirling, Stirling, Scotland, United Kingdom. r.r.macdonald@stir.ac.uk},
number = {12},
pages = {1007--8},
volume = {16},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Humans, Models: Statistical, Psychology},
date-added = {2010-03-06 20:32:19 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2005.01652.x},
pii = {PSCI1652},
pmid = {16313668},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Macdonald-2005-Psychol%20Sci_Why%20replication%20prob.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7179},
rating = {0}
}
@article{Kuntsi:2005p6896,
author = {Jonna Kuntsi and Fr{\"u}hling Rijsdijk and Angelica Ronald and Philip Asherson and Robert Plomin},
journal = {Biol Psychiatry},
title = {Genetic influences on the stability of attention-deficit/hyperactivity disorder symptoms from early to middle childhood},
abstract = {BACKGROUND: The high heritability of the core symptoms of attention-deficit/hyperactivity disorder (ADHD) has been repeatedly demonstrated, but few studies to date have investigated the extent to which the same genetic influences operate across development or new genes emerge at different developmental periods. METHODS: We report data from a large, population-based study of approximately 4,000 twin pairs, who have been followed up from early to middle childhood. RESULTS: Parents' ratings of ADHD symptoms showed moderate stability across the ages, which was mainly due to shared genetic influences. There was also evidence of additional genetic influences, which were not shared with those acting earlier on, emerging at later age periods. The contribution of environmental influences to the stability of the ADHD symptoms over time was small. Parents' ratings on the Conners' DSM-IV ADHD subscale at the last assessment point, at an average age of 8 years, did not show the rater contrast effects that were observed in the parents' ratings at earlier ages with briefer measures. Similar estimates of genetic and environmental influences were obtained for girls and boys. CONCLUSIONS: We discuss the implications of the findings for molecular genetic studies on ADHD symptomatology.},
affiliation = {MRC Social, Genetic and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, London, United Kingdom. j.kuntsi@iop.kcl.ac.uk},
number = {6},
pages = {647--54},
volume = {57},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Male, Retrospective Studies, Age Factors, Diseases in Twins, Longitudinal Studies, Humans, Psychiatric Status Rating Scales, Models: Genetic, Genetic Predisposition to Disease, Cross-Sectional Studies, Personality Assessment, Social Environment, Sex Factors, Regression Analysis, Child, Child Behavior Disorders, Attention Deficit and Disruptive Behavior Disorders, Female, Twin Studies as Topic, Observer Variation},
date-added = {2010-03-06 10:58:04 +0100},
date-modified = {2010-03-06 10:58:04 +0100},
doi = {10.1016/j.biopsych.2004.12.032},
pii = {S0006-3223(04)01375-7},
pmid = {15780852},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6896},
rating = {0}
}
@article{Hicks:2004p9124,
author = {Brian M Hicks and Robert F Krueger and William G Iacono and Matt McGue and Christopher J Patrick},
journal = {Arch Gen Psychiatry},
title = {Family transmission and heritability of externalizing disorders: a twin-family study},
abstract = {BACKGROUND: Antisocial behavior and substance dependence disorders exact a heavy financial and human cost on society. A better understanding of the mechanisms of familial transmission for these "externalizing" disorders is necessary to better understand their etiology and to help develop intervention strategies. OBJECTIVES: To determine the extent to which the family transmission of externalizing disorders is due to a general vs a disorder-specific vulnerability and, owing to the genetically informative nature of our data, to estimate the heritable vs environmental nature of these transmission effects. DESIGN: We used structural equation modeling to simultaneously estimate the general and specific transmission effects of 4 externalizing disorders: conduct disorder, adult antisocial behavior, alcohol dependence, and drug dependence. SETTING: Participants were recruited from the community and were interviewed in a university laboratory. PARTICIPANTS: The sample consisted of 542 families participating in the Minnesota Twin Family Study. All families included 17-year-old twins and their biological mother and father. MAIN OUTCOME MEASURES: Symptom counts of conduct disorder, the adult criteria for antisocial personality disorder, alcohol dependence, and drug dependence. RESULTS: Transmission of a general vulnerability to all the externalizing disorders accounted for most familial resemblance. This general vulnerability was highly heritable (h2 = 0.80). Disorder-specific vulnerabilities were also detected for conduct disorder, alcohol dependence, and drug dependence. CONCLUSIONS: The mechanism underlying the familial transmission of externalizing disorders is primarily a highly heritable general vulnerability. This general vulnerability or common risk factor should be the focus of research regarding the etiology and treatment of externalizing disorders.},
affiliation = {Department of Psychology, University of Minnesota, Minneapolis 55455, USA. hicks013@umn.edu},
number = {9},
pages = {922--8},
volume = {61},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Phenotype, Models: Genetic, Substance-Related Disorders, Twins: Monozygotic, Adult, Risk Factors, Minnesota, Twins: Dizygotic, Antisocial Personality Disorder, Family, Adolescent, Humans, Age Factors, Psychiatric Status Rating Scales, Genetic Predisposition to Disease, Comorbidity, Conduct Disorder, Alcoholism, Diagnosis: Dual (Psychiatry), Diseases in Twins},
date-added = {2010-03-22 13:26:58 +0100},
date-modified = {2010-03-22 13:26:58 +0100},
doi = {10.1001/archpsyc.61.9.922},
pii = {61/9/922},
pmid = {15351771},
url = {http://archpsyc.ama-assn.org/cgi/content/full/61/9/922},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hicks-2004-Arch%20Gen%20Psychiatry_Family%20transmission.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9124},
rating = {0}
}
@article{BrettevilleJensen:1999p9767,
author = {A L Bretteville-Jensen},
journal = {J Health Econ},
title = {Addiction and discounting},
abstract = {In 1988, Becker and Murphy [Becker, G.S., Murphy, K.M., 1988. A theory of rational addiction. Journal of Political Economy, 96, 675-700.] launched a theory in which they proposed that the perspective of rational decision-making could be applied also to cases of addictive behaviour. This paper discusses the theory's assumptions of interpersonal variation and stability in time preferences on the basis of estimates derived from three groups of people with different consumption levels of illegal intoxicants. We find that active injectors of heroin and amphetamine have a higher discount rate than a group reporting that they have never used the substances. Of greater interest, though not in accordance with Becker and Murphy's assumption of stability, we also find that the discount rate among active and former users differs significantly. These findings raise the question of whether a high time-preference rate leads to addiction or whether the onset of an addiction itself alters people's inter-temporal equilibrium.},
affiliation = {National Institute for Alcohol and Drug Research, Oslo, Norway. alb@sifa.no},
number = {4},
pages = {393--407},
volume = {18},
year = {1999},
month = {Aug},
language = {eng},
keywords = {Mental Disorders, Questionnaires, Research Design, Models: Econometric, Norway, Health Behavior, Income, Budgets, Interviews as Topic, Time Factors, Humans, Choice Behavior, Substance-Related Disorders},
date-added = {2010-03-25 15:18:49 +0100},
date-modified = {2010-07-29 19:34:20 +0200},
pii = {S0167-6296(98)00057-5},
pmid = {10539613},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bretteville-Jensen-1999-J%20Health%20Econ_Addiction%20and%20discou.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9767},
rating = {0}
}
@article{Nichols:2003p3617,
author = {Thomas Nichols and Satoru Hayasaka},
journal = {Stat Methods Med Res},
title = {Controlling the familywise error rate in functional neuroimaging: a comparative review},
abstract = {Functional neuroimaging data embodies a massive multiple testing problem, where 100,000 correlated test statistics must be assessed. The familywise error rate, the chance of any false positives is the standard measure of Type I errors in multiple testing. In this paper we review and evaluate three approaches to thresholding images of test statistics: Bonferroni, random field and the permutation test. Owing to recent developments, improved Bonferroni procedures, such as Hochberg's methods, are now applicable to dependent data. Continuous random field methods use the smoothness of the image to adapt to the severity of the multiple testing problem. Also, increased computing power has made both permutation and bootstrap methods applicable to functional neuroimaging. We evaluate these approaches on t images using simulations and a collection of real datasets. We find that Bonferroni-related tests offer little improvement over Bonferroni, while the permutation method offers substantial improvement over the random field method for low smoothness and low degrees of freedom. We also show the limitations of trying to find an equivalent number of independent tests for an image of correlated test statistics.},
affiliation = {Department of Biostatistics, University of Michigan, Ann Arbor, MI 48109, USA. nichols@umich.edu},
number = {5},
pages = {419--46},
volume = {12},
year = {2003},
month = {Oct},
language = {eng},
keywords = {Data Interpretation: Statistical, Brain, Sensitivity and Specificity, Humans, Magnetic Resonance Imaging, Models: Statistical, Stochastic Processes},
date-added = {2010-01-16 18:35:15 +0100},
date-modified = {2010-01-16 18:35:15 +0100},
pmid = {14599004},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nichols-2003-Stat%20Methods%20Med%20Res_Controlling%20the%20fami.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3617},
rating = {0}
}
@article{Arlot:2010p7235,
author = {S Arlot and A Celisse},
journal = {Statistics Surveys},
title = {A survey of cross-validation procedures for model selection},
abstract = {Used to estimate the risk of an estimator or to perform model selection, cross-validation is a widespread strategy because of its simplic- ity and its (apparent) universality. Many results exist on model selection performances of cross-validation procedures. This survey intends to relate these results to the most recent advances of model selection theory, with a particular emphasis on distinguishing empirical statements from rigorous theoretical results. As a conclusion, guidelines are provided for choosing the best cross-validation procedure according to the particular features of the problem in hand.},
pages = {40--79},
volume = {4},
year = {2010},
date-added = {2010-03-08 19:33:55 +0100},
date-modified = {2010-03-08 19:34:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arlot-2010-Statistics%20Surveys_A%20survey%20of%20cross-va.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7235},
rating = {4}
}
@article{Chen:2003p12570,
author = {Xun Chen and Lynn Wei},
journal = {Stat Med},
title = {A comparison of recent methods for the analysis of small-sample cross-over studies},
abstract = {The standard analysis of variance (ANOVA) method is usually applied to analyse continuous data from cross-over studies. The method, however, has been known to be not robust for general variance-covariance structure. The simple empirical generalized least squares (EGLS) method, proposed in an attempt to improve the precision of the standard ANOVA method for general variance-covariance structure, is usually insufficient for small-sample cross-over trials. In this paper we compare the following commonly used or recent approaches: standard ANOVA; simple EGLS; modified ANOVA method derived from a modified approximate F-distribution; and a modified EGLS method adjusted by the Kenward and Roger procedure in terms of robustness and power while applying to small-sample cross-over studies (say, the sample size is less than 40) over a variety of variance-covariance structures by simulation. We find that the unconditional modified ANOVA method has robust performance for all of the simulated small-sample cross-over studies over the various variance-covariance structures, and has comparable power with the standard ANOVA method whenever they are comparable in type I error rate. The EGLS method (simple or modified) is not reliable when the sample size of a cross-over study is too small, say, less than 24 in the simulation, unless a simple covariance structure is correctly assumed. Given a relatively larger sample size, the modified EGLS method, assuming an unstructured covariance matrix, demonstrates robust performance over the various variance-covariance structures in the simulation and provides more powerful tests than those of the modified (or standard) ANOVA method.},
affiliation = {Clinical Biostatistics, Merck Research Laboratories, RY34-A316, Rahway, NJ 07065, USA. Xun_Chen@Merck.com},
number = {18},
pages = {2821--33},
volume = {22},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Least-Squares Analysis, Humans, Monte Carlo Method, Analysis of Variance, Models: Statistical, Sample Size, Cross-Over Studies},
date-added = {2010-06-15 22:22:52 +0200},
date-modified = {2010-06-15 22:22:52 +0200},
doi = {10.1002/sim.1537},
pmid = {12953282},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2003-Stat%20Med_A%20comparison%20of%20rece.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12570},
rating = {0}
}
@article{Brown:2008p12847,
author = {Ted Brown and Sylvia Rodger},
journal = {Percept Mot Skills},
title = {Validity of the Developmental Test of Visual-Motor Integration Supplemental Developmental Test of Visual Perception},
abstract = {Visual perceptual skills of school-age children are often assessed using the Supplemental Developmental Test of Visual Perception of the Developmental Test of Visual-Motor Integration. The study purpose was to consider the construct validity of this test by evaluating its scalability (interval level measurement), unidimensionality, differential item functioning, and hierarchical ordering of its items. Visual perceptual performance scores from a sample of 356 typically developing children (171 boys and 185 girls ages 5 to 11 years) were used to complete a Rasch analysis of the test. Seven items were discarded for poor fit, while none of the items exhibited differential item functioning by sex. The construct validity, scalability, hierarchical ordering, and lack of differential item functioning requirements were met by the final test version. Since 7 test items did not fit the Rasch analysis specifications, the clinical value of the test is questionable and limited.},
affiliation = {Department of Occupational Therapy, School of Primary Health Care, Faculty of Medicine, Nursing and Health Sciences, Monash University-Peninsula Campus, Building G, 4th floor, McMahons Road, Frankston, Victoria 3163, Australia. ted.brown@med.monash.edu.au},
number = {3},
pages = {659--78},
volume = {106},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Psychometrics, Reproducibility of Results, Factor Analysis: Statistical, Psychological Tests, Male, Child, Models: Statistical, Psychomotor Performance, Female, Child Development, Prospective Studies, Cross-Sectional Studies, Vision Screening, Visual Perception, Humans},
date-added = {2010-06-21 20:11:41 +0200},
date-modified = {2010-06-21 20:11:41 +0200},
pmid = {18712186},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brown-2008-Percept%20Mot%20Skills_Validity%20of%20the%20Deve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12847},
rating = {0}
}
@article{Johnson:1998,
author = {TP Johnson},
journal = {ZUMA-Nachrichten Spezial},
title = {Approaches to equivalence in cross-cultural and cross-national survey research},
pages = {1--40},
volume = {3},
year = {1998},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p940},
rating = {0}
}
@article{Watson:2006,
author = {J Watson and B Kelly},
journal = {Mathematics Education Research Journal},
title = {A Longitudinal Study of Student Understanding of Chance and Data},
number = {2},
pages = {40--55},
volume = {18},
year = {2006},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 19:39:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Watson-2006-Mathematics%20Education%20Research%20Journal_A%20Longitudinal%20Study.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2062},
rating = {0}
}
@article{Martinez:2007p12925,
author = {Luc Martinez and Silla M Consoli and Louis Monnier and Dominique Simon and Olivier Wong and Bernard Yomtov and B{\'e}atrice Gu{\'e}ron and Khadra Benmedjahed and Isabelle Guillemin and Benoit Arnould},
journal = {Health Qual Life Outcomes},
title = {Studying the Hurdles of Insulin Prescription (SHIP): development, scoring and initial validation of a new self-administered questionnaire},
abstract = {BACKGROUND: Although insulin therapy is well-accepted by symptomatic diabetic patients, it is still often delayed in less severe patients, in whom injectable insulin remains under-used. A better understanding of patients' perception of insulin would eventually help physicians to adopt the most appropriate dialogue when having to motivate patients to initiate or to intensify insulin injection. METHODS: The 'Studying the Hurdles of Insulin Prescription' (SHIP) questionnaire was developed based on a list of concepts derived from three diabetic patients' focus groups, and was included into two cross-sectional studies with similar design: SHIP Oral study and SHIP Premix study. Diabetic patients treated with oral hypoglycaemic agents (OHA; n = 1,494) and patients already treated with insulin (n = 1,150) completed the questionnaire at baseline, 6- and 12 months. Psychometric properties were assessed: 1) structure analysis by Principal Component Analysis (PCA) with Varimax rotation, 2) internal consistency reliability (Cronbach's alpha), and 3) concurrent validity (Spearman correlation coefficients with the Fear of Self-Injecting (FSI) score of the Diabetes Fear of Injecting and Self-testing Questionnaire. Reluctance/motivation towards insulin was assessed. Scores' ability to predict patients' insulin injection reluctance/motivation and initiation/intensification was evaluated with the Area Under the Receiver Operating Characteristic (ROC) Curve (AUC). RESULTS: PCA analysis confirmed the structure of the 14 items grouped into 3 dimensions: 'acceptance and motivation', 'fear and constraints', and 'restraints and barriers' towards insulin injection. Internal consistency reliability was excellent (Cronbach's alpha > 0.70); concurrent validity was good. The three scores were significantly predictive of patients' reluctance/motivation towards insulin injection initiation, as they were of patients' actual switch, except for the 'restraints and barriers' dimension. 'Acceptance and motivation' and 'fears and constraints' dimensions were also significantly predictive of patients' reluctance/motivation towards insulin intensification. By the end of the 12-month study, 179 of the initially OHA-treated patients had started insulin injections; 186 of the patients already treated with insulin had increased their injections. CONCLUSION: The SHIP questionnaire provides reliable and valid assessment of diabetic patients' attitude towards insulin and injections. The predictive power of scores for patients' reluctance/motivation and actual treatment decisions demonstrates encouraging potential for further application in clinical practice.},
affiliation = {French Society of General Medicine, Issy les Moulineaux, France. uc.martinez@wanadoo.fr},
pages = {53},
volume = {5},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Injections: Subcutaneous, Focus Groups, Diabetes Mellitus: Type 2, Patient Compliance, Insulin, Psychometrics, Diabetes Mellitus: Type 1, Adult, Self Administration, Aged, Middle Aged, Hypoglycemic Agents, Humans, Cross-Sectional Studies, Principal Component Analysis, France, Questionnaires, Administration: Oral},
date-added = {2010-06-25 21:43:22 +0200},
date-modified = {2010-06-25 21:43:31 +0200},
doi = {10.1186/1477-7525-5-53},
pii = {1477-7525-5-53},
pmid = {17727695},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martinez-2007-Health%20and%20Quality%20of%20Life%20Outcomes_Studying%20the%20Hurdles.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12925},
rating = {4}
}
@article{Gierl:1999p11172,
author = {M Gierl and S N Khaliq and K Boughton},
journal = {Annual Meeting of the Canadian Society for the Study of Education},
title = {Gender Differential Item Functioning in Mathematics and Science: Prevalence and Policy Implications},
year = {1999},
date-added = {2010-04-25 21:19:18 +0200},
date-modified = {2010-04-25 21:19:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gierl-1999-Annual%20Meeting%20of%20the%20Canadian%20Society%20for%20the%20Study%20of%20Education_Gender%20Differential.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11172},
rating = {0}
}
@article{Williams:2008p8601,
author = {Nia Williams and Sabena Mughal and Mitch Blair},
journal = {Dev Med Child Neurol},
title = {'Is my child developing normally?': a critical review of web-based resources for parents},
abstract = {Early detection of developmental problems improves outcomes for parents and children. Parents want to be involved in assessment and need high-quality, accurate, and reliable data on child development to help monitor progress and inform decisions on referral. The aim of this paper is to review which websites are readily accessible to parents on child development and to assess their quality. An internet search (on Google and Yahoo) was conducted using the search terms 'child development', 'parenting', and 'developmental milestones'. Criteria were agreed for evaluating web-based resources, adapted from and based on previously reported methods. Data were collected on site content, diagrams and layout, readability (Flesch Reading Ease Scale), design, navigability, overall design, and interactive features. Forty-four relevant websites were identified for further analysis: six government, three university, 15 health-care professional, four American Academy of Pediatrics, 10 by journalists, and six undisclosed. The best websites are presented, with justification for their choice. Overall, information available for parents about child development is accurate but much of it is incomplete, unclear, or difficult to access. There is a need to develop an easily accessible, clear, and authoritative resource for parents with illustrations. Focus groups are being held to inform this research further.},
affiliation = {Department of Paediatrics, Faculty of Medicine, Imperial College, London, UK. nia.williams00@ic.ac.uk},
number = {12},
pages = {893--7},
volume = {50},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Internet, Humans, Developmental Disabilities, Child, Early Diagnosis, Infant, Parents, Child: Preschool, Information Services},
date-added = {2010-03-22 00:24:59 +0100},
date-modified = {2010-03-22 00:24:59 +0100},
pmid = {19160461},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-2008-Developmental%20medicine%20and%20child%20neurology_'Is%20my%20child%20develop.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8601},
rating = {0}
}
@article{Lu:2006p1814,
author = {Y Lu and X Wang},
title = {A Hierarchical Bayesian Framework for Item Response Theory Models with Applications in Ideal Point Estimation},
abstract = {Ideal point estimation, a variation of item response theory models, has been widely used by political scientists to analyze legislative behaviors. However, many existing ideal point estimation research is based on unrealistic assumptions of independence of different individuals' decisions towards all cases/bills and the independence of one's decisions towards different cases/bills. The violation of such assumptions leads to bias and inefficiency in parameter estimation. More im- portantly, failing to address these assumptions has hampered the ideal point estimation research from offering intuitive and concise explanations on complex legislative behaviors such as multidi- mensionality, strategic voting, temporary coalitions. In this paper, we extend one testlet response theory model by Bradlow, Wainer and Wang(1999) to a comprehensive hierarchical Bayesian statistical framework that allows researchers to model inter-individual and intra-individual cor- relations through random effects and/or fixed effects. Through simulations and an analysis of the US Supreme Court vote cast data, we show that the proposed framework holds good promise for tackling many unsettled issues in ideal point estimations. As a companion to this paper, we also offer an easy-to-use R package with C code that implements the methods discussed herein.},
year = {2006},
date-added = {2010-01-09 22:43:34 +0100},
date-modified = {2010-01-09 22:44:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lu-2006-_A%20Hierarchical%20Bayes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1814},
rating = {0}
}
@article{Wyrwich:2009p5421,
author = {Kathleen Wyrwich and Neesha Harnam and Dennis A Revicki and Julie C Locklear and Henrik Sveds{\"a}ter and Jean Endicott},
journal = {Int Clin Psychopharmacol},
title = {Assessing health-related quality of life in generalized anxiety disorder using the Quality Of Life Enjoyment and Satisfaction Questionnaire},
abstract = {Generalized anxiety disorder (GAD) is a chronic illness that leads to substantial impairments in quality of life. This post-hoc analysis used combined data from three 8-week quetiapine extended-release trials to investigate the reliability, validity, and responsiveness of the Short Form of the Quality of Life Enjoyment and Satisfaction Questionnaire [Q-LES-Q (SF)] in 2588 patients with GAD. The baseline Q-LES-Q (SF) score showed a Cronbach's alpha value of 0.86, indicative of reliability. Validity analyses for Q-LES-Q (SF) identified significant correlations with clinical efficacy measures (r>0.34 at week 8; P<0.001) and significant discrimination between patient groups categorized by symptom severity (P<0.001). Responsiveness was shown by significant differences in mean changes in Q-LES-Q (SF) scores at week 8 between patients defined according to the Hamilton Rating Scale for Anxiety response or remission criteria (P<0.001). The minimum clinically important Q-LES-Q (SF) score change was identified to be 6.80 points. Using this definition, response rates were significantly greater with quetiapine extended-release 150 mg versus placebo in individual trials and the combined population (P < or = 0.02). This analysis shows the overall reliability, validity, and responsiveness of the Q-LES-Q (SF) as a measure of overall quality of life and satisfaction in patients with GAD.},
affiliation = {United BioSource Corporation, Bethesda, Maryland 20814, USA. kathy.wyrwich@unitedbiosource.com},
number = {6},
pages = {289--95},
volume = {24},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Adult, Adolescent, Quality of Life, Randomized Controlled Trials as Topic, Humans, Questionnaires, Anxiety Disorders, Delayed-Action Preparations, Reproducibility of Results, Male, Dibenzothiazepines, Aged, Middle Aged, Female},
date-added = {2010-02-11 10:37:46 +0100},
date-modified = {2010-02-11 10:37:46 +0100},
doi = {10.1097/YIC.0b013e32832d6bf4},
pmid = {19707153},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5421},
rating = {0}
}
@article{Nieuwkerk:2001p9551,
author = {P T Nieuwkerk and E H Gisolf and M H Reijers and J M Lange and S A Danner and M A Sprangers and NATIVE Study Group and PROMETHEUS Study Group and ADAM Study Group},
journal = {AIDS},
title = {Long-term quality of life outcomes in three antiretroviral treatment strategies for HIV-1 infection},
abstract = {OBJECTIVE: To compare changes in quality of life (QoL) over 96 weeks in patients enrolled in a triple-therapy protocol, a treatment-intensification protocol, or an induction-maintenance therapy protocol, and to compare QoL between patients who continued and discontinued their antiretroviral regimen. PATIENTS: Naive patients enrolled in a triple-therapy protocol (zidovudine/lamivudine or stavudine/didanosine or stavudine/lamivudine supplemented with protease inhibitor therapy of choice) (n = 35), a protocol of treatment intensification (ritonavir/saquinavir or ritonavir/saquinavir/stavudine) (n = 74) in which therapy was intensified with nucleoside analogue(s) in cases of insufficient viral suppression, and a protocol of induction (saquinavir/nelfinavir/lamivudine/ stavudine) maintenance (saquinavir/nelfinavir or stavudine/nelfinavir) therapy (n = 50). MAIN OUTCOME MEASURE: Changes from baseline in QoL assessed by the Medical Outcomes Study HIV Health Survey at weeks 0, 12, 24, 36, 48, 72 and 96. RESULTS: Patients in the triple-therapy and treatment-intensification protocols showed more favourable changes in physical function, social function, mental health, energy/fatigue, health distress and overall QoL compared to patients in the induction-maintenance protocol, with patients in the first two protocols showing improvements in QoL and those in the induction-maintenance protocol showing declining or unchanged QoL. Patients who discontinued study medication due to insufficient efficacy, toxicities or at their own request showed less favourable changes in QoL compared with patients who continued their regimen. The highest proportion of discontinuations was within the induction-maintenance protocol. CONCLUSION: Antiretroviral treatment strategies that are effective and tolerable have the potential to improve patients' QoL over 96 weeks.},
affiliation = {Department of Medical Psychology, Academic Medical Center, Amsterdam, The Netherlands. p.t.nieuwkerk@amc.uva.nl},
number = {15},
pages = {1985--91},
volume = {15},
year = {2001},
month = {Oct},
language = {eng},
keywords = {Antiretroviral Therapy: Highly Active, Time Factors, Viral Load, Drug Therapy: Combination, Quality of Life, Reverse Transcriptase Inhibitors, Adult, RNA: Viral, HIV Infections, Treatment Outcome, Humans, Anti-HIV Agents, Female, Drug Administration Schedule, Middle Aged, HIV-1, Male, CD4 Lymphocyte Count},
date-added = {2010-03-23 20:49:58 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {11600827},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nieuwkerk-2001-AIDS_Long-term%20quality%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9551},
rating = {0}
}
@article{Reif:2007p9058,
author = {Andreas Reif and Michael R{\"o}sler and Christine M Freitag and Marc Schneider and Andrea Eujen and Christian Kissling and Denise Wenzler and Christian P Jacob and Petra Retz-Junginger and Johannes Thome and Klaus-Peter Lesch and Wolfgang Retz},
journal = {Neuropsychopharmacology},
title = {Nature and nurture predispose to violent behavior: serotonergic genes and adverse childhood environment},
abstract = {Aggressive behavior is influenced by variation in genes of the serotonergic circuitry and early-life experience alike. The present study aimed at investigating the contribution of polymorphisms shown to moderate transcription of two genes involved in serotonergic neurotransmission (serotonin transporter, 5HTT, and monoamine oxidase A, MAOA) to the development of violence and to test for gene-environment interactions relating to adverse childhood environment. A cohort of 184 adult male volunteers referred for forensic assessment participated in the study. Each individual was assigned to either a violent or a nonviolent group. Logistic regression was performed and the best-fitting model, with a predictive power of 74%, revealed independent effects of adverse childhood environment and MAOA genotype. High environmental adversity during childhood was associated significantly with violent behavior. Forty-five percent of violent, but only 30% of nonviolent individuals carried the low-activity, short MAOA allele. Most interestingly, an interaction effect between childhood environment and 5HTT genotype on violent behavior was found in that high adversity during childhood impacted only the later-life violence if the short promoter alleles were present. These findings indicate complex interactions between genetic variation of the serotonergic circuitry and environmental factors arguing against simplistic, mono-causal explanations of violent behavior.},
affiliation = {Clinical and Molecular Psychobiology, Department of Psychiatry and Psychotherapy, University of W{\"u}rzburg, W{\"u}rzburg, Germany. a.reif@gmx.net},
number = {11},
pages = {2375--83},
volume = {32},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Antisocial Personality Disorder, Statistics: Nonparametric, Violence, Serotonin Plasma Membrane Transport Proteins, Adult, Regression Analysis, Male, Polymorphism: Genetic, Child, Cohort Studies, Child Abuse, Risk Factors, Monoamine Oxidase, Predictive Value of Tests, Middle Aged, Genetic Predisposition to Disease, Humans, Environment},
date-added = {2010-03-22 13:19:41 +0100},
date-modified = {2010-03-22 13:19:41 +0100},
doi = {10.1038/sj.npp.1301359},
pii = {1301359},
pmid = {17342170},
url = {http://www.nature.com/npp/journal/v32/n11/abs/1301359a.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reif-2007-Neuropsychopharmacology_Nature%20and%20nurture%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9058},
rating = {0}
}
@article{McDonald:2000p11748,
author = {R P McDonald},
journal = {Applied Psychological Measurement},
title = {A Basis for Multidimensional Item Response Theory},
abstract = {Independent clusters, as treated in classical linear factor analysis, provide a desirable basis for multidimensional item response models, yielding interpretable and useful results. The independent- clusters basis serves to determine dimensionality, while establishing a pattern for the item parameter matrix that provides identifiability conditions and facilitates interpretation of the traits. It also provides a natural extension of known results on convergent/discriminant ``construct'' validity to binary items, allowing the quantification of the validity of test and subtest scores. The independent-clusters basis simplifies item/test response and information hypersurfaces, which cannot otherwise be easily studied except in the trivial case of two dimensions, and provides estimates of latent traits with uncorrelated measurement errors. In addition, the affine transformation needed for the informative analysis of the causes of differential item functioning is simplified using the independent-clusters basis. These classically based procedures are already well-established in the context of the linear common- factor model and, accordingly, they set a standard against which more recently developed procedures for the same purposes need to be judged.},
number = {2},
pages = {99--114},
volume = {24},
year = {2000},
date-added = {2010-05-14 21:48:02 +0200},
date-modified = {2010-05-14 21:49:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McDonald-2000-Applied%20Psychological%20Measurement_A%20Basis%20for%20Multidim.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11748},
rating = {0}
}
@article{Peirson:1999p12237,
author = {A R Peirson and J W Heuchert and L Thomala and M Berk and H Plein and C R Cloninger},
journal = {Psychiatry Res},
title = {Relationship between serotonin and the temperament and character inventory},
abstract = {The unified biosocial theory of personality, proposed by Cloninger, conceptualises personality as a combination of heritable, neurobiologically based traits (temperament dimensions), and traits reflecting sociocultural learning (character dimensions). The temperament dimensions are thought to be related to activity in specific central neurotransmitter systems. The relationship of the dimensions of the Temperament and Character Inventory, particularly harm avoidance (HA), and platelet 5-HT2 receptor sensitivity was investigated in a sample of undergraduate student volunteers (N = 49). Serotonin-receptor binding results in Ca2+ release from intracellular stores. The concentration of serotonin required to produce half maximal Ca2+ response (EC50) is indicative of 5-HT2 receptor sensitivity such that the lower the EC50 serotonin concentration, the greater the 5-HT2 receptor sensitivity. A significant inverse correlation was found between HA and EC50 (r = -0.644, P < 0.001). Self-directedness was also significantly correlated with EC50 (r = 0.391, P = 0.005). Novelty seeking, a personality trait similar to sensation seeking, was not significantly correlated with serotonin.},
affiliation = {Department of Psychology, University of the Witwatersrand, South Africa.},
number = {1},
pages = {29--37},
volume = {89},
year = {1999},
month = {Dec},
language = {eng},
keywords = {Serotonin, Male, Humans, Blood Platelets, Character, Arousal, Receptors: Serotonin, Adult, Defense Mechanisms, Personality Inventory, Temperament, Reference Values, Female},
date-added = {2010-05-30 10:48:54 +0200},
date-modified = {2010-05-30 10:48:54 +0200},
pii = {S0165-1781(99)00079-7},
pmid = {10643875},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Peirson-1999-Psychiatry%20Res_Relationship%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12237},
rating = {0}
}
@article{Huet:2005p4643,
author = {S Huet},
title = {Mod{\'e}lisation et exploration de mod{\`e}les : mod{\`e}le individus-centr{\'e} versus mod{\`e}le agr{\'e}g{\'e}},
year = {2005},
date-added = {2010-01-30 15:54:01 +0100},
date-modified = {2010-01-30 15:54:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huet-2005-_Mode%CC%81lisation%20et%20exp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4643},
rating = {0}
}
@article{Mills:2010p8722,
author = {Roger J Mills and Carolyn A Young and Julie F Pallant and Alan Tennant},
journal = {Health Qual Life Outcomes},
title = {Development of a patient reported outcome scale for fatigue in multiple sclerosis: The Neurological Fatigue Index (NFI-MS)},
abstract = {BACKGROUND: Fatigue is a common and debilitating symptom in multiple sclerosis (MS). Best-practice guidelines suggest that health services should repeatedly assess fatigue in persons with MS. Several fatigue scales are available but concern has been expressed about their validity. The objective of this study was to examine the reliability and validity of a new scale for MS fatigue, the Neurological Fatigue Index (NFI-MS). METHODS: Qualitative analysis of 40 MS patient interviews had previously contributed to a coherent definition of fatigue, and a potential 52 item set representing the salient themes. A draft questionnaire was mailed out to 1223 people with MS, and the resulting data subjected to both factor and Rasch analysis. RESULTS: Data from 635 (51.9% response) respondents were split randomly into an 'evaluation' and 'validation' sample. Exploratory factor analysis identified four potential subscales: 'physical', 'cognitive', 'relief by diurnal sleep or rest' and 'abnormal nocturnal sleep and sleepiness'. Rasch analysis led to further item reduction and the generation of a Summary scale comprising items from the Physical and Cognitive subscales. The scales were shown to fit Rasch model expectations, across both the evaluation and validation samples. CONCLUSION: A simple 10-item Summary scale, together with scales measuring the physical and cognitive components of fatigue, were validated for MS fatigue.},
affiliation = {The Walton Centre for Neurology and Neurosurgery, Liverpool, L9 7LJ, UK. rjm@crazydiamond.co.uk},
pages = {22},
volume = {8},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-22 12:01:45 +0100},
date-modified = {2010-03-22 12:01:45 +0100},
doi = {10.1186/1477-7525-8-22},
pii = {1477-7525-8-22},
pmid = {20152031},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mills-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Development%20of%20a%20pat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8722},
rating = {0}
}
@article{Hankins:2008p12048,
author = {Matthew Hankins},
journal = {Clin Pract Epidemiol Ment Health},
title = {The factor structure of the twelve item General Health Questionnaire (GHQ-12): the result of negative phrasing?},
abstract = {ABSTRACT: BACKGROUND: The 12-item General Health Questionnaire (GHQ-12) is used routinely as a unidimensional measure of psychological morbidity. Many factor-analytic studies have reported that the GHQ-12 has two or three dimensions, threatening its validity. It is possible that these 'dimensions' are the result of the wording of the GHQ-12, namely its division into positively phrased (PP) and negatively phrased (NP) statements about mood states. Such 'method effects' introduce response bias which should be taken into account when deriving and interpreting factors. METHODS: GHQ-12 data were obtained from the 2004 cohort of the Health Survey for England (N = 3705). Following exploratory factor analysis (EFA), the goodness of fit indices of one, two and three factor models were compared with those of a unidimensional model specifying response bias on the NP items, using structural equation modelling (SEM). The hypotheses were (1) the variance of the responses would be significantly higher for NP items than for PP items because of response bias, and (2) that the modelling of response bias would provide the best fit for the data. RESULTS: Consistent with previous reports, EFA suggested a two-factor solution dividing the items into NP and PP items. The variance of responses to the NP items was substantially and significantly higher than for the PP items. The model incorporating response bias was the best fit for the data on all indices (RMSEA = 0.068, 90%CL = 0.064, 0.073). Analysis of the frequency of responses suggests that the response bias derives from the ambiguity of the response options for the absence of negative mood states. CONCLUSION: The data are consistent with the GHQ-12 being a unidimensional scale with a substantial degree of response bias for the negatively phrased items. Studies that report the GHQ-12 as multidimensional without taking this response bias into account risk interpreting the artefactual factor structure as denoting 'real' constructs, committing the methodological error of reification. Although the GHQ-12 seems unidimensional as intended, the presence of such a large response bias should be taken into account in the analysis of GHQ-12 data.},
affiliation = {King's College London, Department of Psychology (at Guy's), Institute of Psychiatry, London, UK. m.c.hankins@bsms.ac.uk.},
pages = {10},
volume = {4},
year = {2008},
month = {Jan},
language = {eng},
date-added = {2010-05-24 10:31:33 +0200},
date-modified = {2010-05-24 10:31:38 +0200},
doi = {10.1186/1745-0179-4-10},
pii = {1745-0179-4-10},
pmid = {18435842},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hankins-2008-Clin%20Pract%20Epidemiol%20Ment%20Health_The%20factor%20structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12048},
rating = {4}
}
@inproceedings{Chen:2006,
author = {Y-H Chen and J Gorin and M Thompson},
journal = {Proceedings},
title = {Verification of Cognitive Attributes Required to Solve the TIMSS-1999 Mathematics Items for Taiwanese Students},
year = {2006},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2006-Proceedings_Verification%20of%20Cogn.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2169},
rating = {0}
}
@article{Martin:2007p1830,
author = {Marie Martin and Mark Kosinski and Jakob B Bjorner and John E Ware and Ross Maclean and Tracy Li},
journal = {Qual Life Res},
title = {Item response theory methods can improve the measurement of physical function by combining the modified health assessment questionnaire and the SF-36 physical function scale},
abstract = {OBJECTIVE: To compare the measurement properties of the Modified Health Assessment Questionnaire [MHAQ], the SF-36((R)) Health Survey 10 item Physical Functioning scale [PF10], and scores from an item response theory (IRT) based scale combining the two measures. STUDY DESIGN: Rheumatoid arthritis (RA) patients (n = 339) enrolled in a multi-center, randomized, double-blind, placebo-controlled trial completed the MHAQ and the SF-36 pre- and post-treatment. Psychometric analyses used confirmatory factor analysis and IRT models. Analyses of variance were used to assess sensitivity to changes in disease severity (defined by the American College of Rheumatism (ACR)) using change scores in MHAQ, PF10, and IRT scales. Analyses of covariance were used to assess treatment responsiveness. RESULTS: For the entire score range, the 95% confidence interval around individual patient scores was smaller for the combined (total) IRT based scale than for other measures. The MHAQ and PF10 were about 70% and 50% as efficient as the total IRT score of physical functioning in discriminating among ACR groups, respectively. The MHAQ and PF10 were also less efficient than the total IRT score in discriminating among treatment groups. CONCLUSIONS: Combining scales from the two short forms yields a more powerful tool with greater sensitivity to treatment response.},
affiliation = {QualityMetric Incorporated, 640 George Washington Highway, Suite 201, Lincoln, 02865, RI, USA.},
number = {4},
pages = {647--60},
volume = {16},
year = {2007},
month = {May},
language = {eng},
keywords = {Quality of Life, Middle Aged, Adolescent, Adult, Psychometrics, Sickness Impact Profile, Female, Aged: 80 and over, Activities of Daily Living, Male, Antirheumatic Agents, Aged, Double-Blind Method, Humans, Immunoconjugates, Questionnaires, Arthritis: Rheumatoid},
date-added = {2010-01-09 23:00:24 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
doi = {10.1007/s11136-007-9193-5},
pmid = {17334829},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1830},
rating = {0}
}
@article{Marshall:2001p12532,
author = {R J Marshall},
journal = {Stat Med},
title = {Displaying clinical data relationships using scaled rectangle diagrams},
abstract = {A method is presented to draw rectangles to represent categorical data relationships. The idea is an adaptation of a scaled Venn diagram. Rectangles are drawn with area proportional to the frequency of categories and the rectangles are positioned to overlap each other so that the areas of overlap are in proportion to the joint frequencies of the characteristics. The diagrams are especially useful to illustrate symptom co-occurrence.},
affiliation = {Department of Community Health, University of Auckland, New Zealand.},
number = {7},
pages = {1077--88},
volume = {20},
year = {2001},
month = {Apr},
language = {eng},
keywords = {Data Interpretation: Statistical, Arthritis: Rheumatoid, Glucose Tolerance Test, Humans, Rheumatic Heart Disease, Chorea, Diagnosis: Differential, Comorbidity, Rheumatic Fever, Probability, Models: Statistical},
date-added = {2010-06-15 17:42:31 +0200},
date-modified = {2010-06-15 17:42:31 +0200},
doi = {10.1002/sim.747},
pmid = {11276037},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marshall-2001-Stat%20Med_Displaying%20clinical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12532},
rating = {0}
}
@article{Ashton:2007p13921,
author = {M C Ashton and K Lee and L R Goldberg},
journal = {Personality and Individual Differences},
title = {The IPIP--HEXACO scales: An alternative, public-domain measure of the personality constructs in the HEXACO model},
abstract = {Recently, Lee and Ashton (2004) described the HEXACO Personality Inventory (HEXACO-PI), a new instrument designed to assess the six dimensions observed in lexical studies of personality structure of var- ious languages. Here, we describe the development of an alternative measure of the HEXACO factors and their facets, using the items of the International Personality Item Pool (IPIP). The scales of the resulting IPIP--HEXACO inventory showed satisfactory psychometric properties, as assessed by internal-consistency reliability, convergent and discriminant correlations with the original HEXACO-PI scales, and factor struc- ture. We discuss the potential usefulness of the new IPIP--HEXACO inventory and its strengths and limitations.},
pages = {1515--1526},
volume = {42},
year = {2007},
date-added = {2010-07-29 18:44:41 +0200},
date-modified = {2010-07-29 18:45:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ashton-2007-Personality%20and%20Individual%20Differences_The%20IPIP%E2%80%93HEXACO%20scal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13921},
rating = {0}
}
@article{Devlin:2007p5604,
author = {Shane M Devlin and Huiying Yang and Andrew Ippoliti and Kent D Taylor and Carol J Landers and Xiaowen Su and Maria T Abreu and Konstantinos A Papadakis and Eric A Vasiliauskas and Gil Y Melmed and Phillip R Fleshner and Ling Mei and Jerome I Rotter and Stephan R Targan},
journal = {Gastroenterology},
title = {NOD2 variants and antibody response to microbial antigens in Crohn's disease patients and their unaffected relatives},
abstract = {BACKGROUND {\&} AIMS: The Cdcs1 locus of the C3Bir mouse confers severe colitis associated with a decrease in innate immune function and an increase in adaptive T-cell responses to commensal bacterial products. The aim of our study was to determine if defects in innate immunity are similarly associated with increased adaptive immune responses to microbial antigens in Crohn's disease patients. METHODS: Sera from 732 patients, 220 unaffected relatives, and 200 healthy controls were tested for antibodies to oligomannan, the Pseudomonas fluorescens-related protein, Escherichia coli outer membrane porin C, CBir1 flagellin, and DNA from the same subjects was tested for 3 Crohn's disease-associated variants of the NOD2 gene, and 5 toll-like receptor (TLR) 2, 2 TLR4, and 2 TLR9 variants. The magnitude of responses to microbial antigens was examined according to variant status. RESULTS: NOD2 variant carriage increased in frequency with increasing number of positive antibodies and increasing cumulative quantitative response as measured by quartile sum (P for trend, .0008 and .0003, respectively). Mean antibody and quartile sums were higher for patients carrying any NOD2 variant versus those carrying none (2.24 vs 1.92 and 10.60 vs 9.72; P = .0008 and P = 0.0003, respectively). The mean quartile sum was higher for unaffected relatives carrying any NOD2 variant versus those carrying none (10.67 vs 9.75, respectively; P = .02). No association was found between any TLR variant and the magnitude of response. CONCLUSIONS: Patients with Crohn's disease and unaffected relatives carrying variants of the NOD2 gene have increased adaptive immune responses to microbial antigens.},
affiliation = {Inflammatory Bowel Disease Center, Cedars-Sinai Medical Center, Los Angeles, California 90048, USA.},
number = {2},
pages = {576--86},
volume = {132},
year = {2007},
month = {Feb},
language = {eng},
keywords = {California, Flagellin, Pseudomonas fluorescens, Crohn Disease, Bacterial Proteins, Humans, Toll-Like Receptors, Antigens: Bacterial, Immunity: Innate, Case-Control Studies, Escherichia coli Proteins, Nod2 Signaling Adaptor Protein, Genetic Predisposition to Disease, Genotype, Cohort Studies},
date-added = {2010-02-12 15:44:57 +0100},
date-modified = {2010-02-12 15:44:58 +0100},
doi = {10.1053/j.gastro.2006.11.013},
pii = {S0016-5085(06)02468-1},
pmid = {17258734},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Devlin-2007-Gastroenterology_NOD2%20variants%20and%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5604},
rating = {0}
}
@article{Munzel:2009p6463,
author = {Ullrich Munzel},
journal = {Stat Med},
title = {Nonparametric non-inferiority analyses in the three-arm design with active control and placebo},
abstract = {The three-arm design with test treatment, reference treatment and placebo offers internal assay sensitivity for a proof of non-inferiority. In this design the relative effects known from nonparametric theory are robust tools allowing the assessment of non-inferiority in a range of situations. An asymptotic nonparametric theory is established in the three-arm design based on the asymptotic distribution of rank means under alternative. A rank test for non-inferiority is derived. Fieller's formula is used to calculate a respective confidence interval. The approach is expanded to multicentre studies. The simulation studies are conducted demonstrating the accuracy of the methods and an example is discussed.},
affiliation = {MEDA Pharma GmbH {\&} Co KG, Benzstr. 1, 61352 Bad Homburg, Germany. ullrich.munzel@medapharma.de},
number = {29},
pages = {3643--56},
volume = {28},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Humans, Diabetic Neuropathies, Multicenter Studies as Topic, Pain, Clinical Trials as Topic, Computer Simulation, Statistics: Nonparametric, Thioctic Acid, Therapeutic Equivalency},
date-added = {2010-02-23 08:32:55 +0100},
date-modified = {2010-02-23 08:32:55 +0100},
doi = {10.1002/sim.3727},
pmid = {19768691},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Munzel-2009-Stat%20Med_Nonparametric%20non-in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6463},
rating = {0}
}
@article{Santamaria:2008p12885,
author = {Rodrigo Santamar{\'\i}a and Roberto Ther{\'o}n and Luis Quintales},
journal = {Bioinformatics},
title = {BicOverlapper: a tool for bicluster visualization},
abstract = {BicOverlapper is a tool to visualize biclusters from gene-expression matrices in a way that helps to compare biclustering methods, to unravel trends and to highlight relevant genes and conditions. A visual approach can complement biological and statistical analysis and reduce the time spent by specialists interpreting the results of biclustering algorithms. The technique is based on a force-directed graph where biclusters are represented as flexible overlapped groups of genes and conditions. AVAILABILITY: The BicOverlapper software and supplementary material are available at http://vis.usal.es/bicoverlapper},
affiliation = {Departamento de Inform{\'a}tica y Autom{\'a}tica, Pz. de Los Ca{\'\i}dos S/N, 37008 Salamanca, Spain. rodri@usal.es},
number = {9},
pages = {1212--3},
volume = {24},
year = {2008},
month = {May},
language = {eng},
keywords = {cluster analysis, Data Display, Computer Graphics, Software, Computer Simulation, User-Computer Interface, Multigene Family, Models: Biological},
date-added = {2010-06-24 13:13:51 +0200},
date-modified = {2010-06-24 13:13:51 +0200},
doi = {10.1093/bioinformatics/btn076},
pii = {btn076},
pmid = {18321885},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Santamar%C3%ADa-2008-Bioinformatics_BicOverlapper%20a%20too.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12885},
rating = {0}
}
@article{Tannenbaum:2005p3687,
author = {R J Tannenbaum and E C Wylie},
title = {Mapping English Language Proficiency Test Scores Onto the Common European Framework},
year = {2005},
date-added = {2010-01-16 20:27:11 +0100},
date-modified = {2010-01-16 20:27:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tannenbaum-2005-_Mapping%20English%20Lang.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3687},
rating = {0}
}
@article{Ott:2004p5222,
author = {Jurg Ott},
journal = {Hum Hered},
title = {Issues in association analysis: error control in case-control association studies for disease gene discovery},
abstract = {Several sources of errors are discussed. While genotyping errors have little effect on power in case-control association studies, they tend to strongly increase false positive results in TDT type tests unless occurrence of errors is allowed for in the analysis (e.g., TDTae test). Disregarding non-genetic risk factors is shown to lead to a form of hidden heterogeneity, which can strongly reduce power. Stratification of data into more homogeneous subgroups is advocated as a simple solution to allowing for non-genetic risk factors such as socio-economic status and food preferences.},
affiliation = {Rockefeller University, New York, NY 10021-6399, USA. ott@rockefeller.edu},
number = {3-4},
pages = {171--4},
volume = {58},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Case-Control Studies, Genetic Diseases: Inborn, Risk Factors, Software, Linkage (Genetics), Models: Genetic, Databases as Topic, Phenotype, Humans, Genotype, Statistics as Topic, Reproducibility of Results, Linkage Disequilibrium},
date-added = {2010-02-08 19:29:58 +0100},
date-modified = {2010-02-08 19:29:58 +0100},
doi = {10.1159/000083544},
pii = {HHE20040583_4171},
pmid = {15812174},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5222},
rating = {0}
}
@article{Misajon:2008,
author = {RoseAnne Misajon and Julie F Pallant and Lenore Manderson and Siriporn Chirawatkul},
journal = {Health Qual Life Outcomes},
title = {Measuring the impact of health problems among adults with limited mobility in Thailand: further validation of the Perceived Impact of Problem Profile.},
abstract = {BACKGROUND: The Perceived Impact of Problem Profile (PIPP) was developed to provide a tool for measuring the impact of a health condition from the individual's perspective, using the ICF model as a framework. One of the aims of the ICF is to enable the comparison of data across countries, however, relatively little is known about the subjective experience of disability in middle and low-income countries. The aim of this study was to assess the validity of the Perceived Impact of Problem Profile (PIPP) for use among adults with a disability in Thailand using Rasch analysis. METHODS: A total of 210 adults with mobility impairment from the urban, rural and remote areas of northeast Thailand completed the PIPP, which contains 23 items assessing both impact and distress across five key domains (Self-care, Mobility, Participation, Relationships, and Psychological Well-being). Rasch analysis, using RUMM2020, was conducted to assess the internal validity and psychometric properties of the PIPP Impact subscales. Validation of the PIPP Impact scales was conducted by comparing scores across the different response levels of the EQ5D items. RESULTS: Rasch analysis indicated that participants did not clearly differentiate between 'impact' and 'distress,' the two aspects assessed by the PIPP. Further analyses were therefore limited to the PIPP Impact subscales. These showed adequate psychometric properties, demonstrating fit to the Rasch model and good person separation reliability. Preliminary validity testing using the EQ5D items provided support for the PIPP Impact subscales. CONCLUSION: The results provide further support for the psychometric properties of the PIPP Impact scales and indicate that it is a suitable tool for use among adults with a locomotor disability in Thailand. Further research is needed to validate the PIPP across different cultural contexts and health conditions and to assess the usefulness of separate Impact and Distress subscales.},
affiliation = {School of Rural Health, University of Melbourne, 49 Graham Street, Shepparton, 3630, Victoria, Australia. roseanne.misajon@med.monash.edu.au},
pages = {6},
volume = {6},
year = {2008},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:58:39 +0200},
doi = {10.1186/1477-7525-6-6},
pii = {1477-7525-6-6},
pmid = {18208616},
url = {http://dx.doi.org/10.1186/1477-7525-6-6},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1185},
rating = {0}
}
@article{Shalizi:2010p14296,
author = {C Shalizi},
journal = {American Scientist},
title = {The Bootstrap},
pages = {186--190},
volume = {98},
year = {2010},
date-added = {2010-08-24 14:14:26 +0200},
date-modified = {2010-08-24 14:15:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shalizi-2010-American%20Scientist_The%20Bootstrap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14296},
rating = {0}
}
@article{Der:2003p526,
author = {Geoff Der and Ian J Deary},
journal = {Intelligence},
title = {IQ, reaction time and the differentiation hypothesis},
abstract = {Associations between reaction times and mental ability test scores have been widely reported in the literature on the information processing theories of psychometric intelligence. There have been varying estimates of the strength of these associations, which are typically reported in terms of correlation coefficients. In a previous article, we reported correlations between scores on Part 1 of the Alice Heim 4 and simple and four-choice reaction time of -.31 and -.49, respectively, derived from a population based sample of 900 residents of the West of Scotland aged 56. The use of the Pearson, or product moment, correlation coefficient to summarise the association between reaction time and mental test ability assumes that they jointly have a bivariate normal distribution and that the relationship between them is linear. The differentiation hypothesis can be construed as implying that the relationship should be nonlinear with a stronger relationship at lower levels of mental ability. We examined in detail the relationships underlying these correlations to assess whether they adequately represented the strength of the association and to test for any departure from linearity. For four-choice reaction time, the correlation is a good summary of the relation to AH4 score. However, the relation of AH4 and simple reaction time is more complex and nonlinear.},
affiliation = {MRC Social and Public Health Sciences Unit, Glasgow, UK},
pages = {491--503},
volume = {31},
year = {2003},
month = {Apr},
date-added = {2010-01-03 13:38:42 +0100},
date-modified = {2010-01-03 13:42:22 +0100},
doi = {10.1016/S0160-2896(02)00189-7},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Der-2003-Intelligence_IQ%20reaction%20time%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p526},
read = {Yes},
rating = {0}
}
@article{Jette:2009p7275,
author = {Alan M Jette and Christine M McDonough and Stephen M Haley and Pengsheng Ni and Sippy Olarsch and Nancy Latham and Ronald K Hambleton and David Felson and Young-Jo Kim and David Hunter},
journal = {Journal of Clinical Epidemiology},
title = {A computer-adaptive disability instrument for lower extremity osteoarthritis research demonstrated promising breadth, precision, and reliability},
abstract = {OBJECTIVE: To develop and evaluate a prototype measure (OA-DISABILITY-CAT) for osteoarthritis research using item response theory (IRT) and computer-adaptive test (CAT) methodologies. STUDY DESIGN AND SETTING: We constructed an item bank consisting of 33 activities commonly affected by lower extremity (LE) osteoarthritis. A sample of 323 adults with LE osteoarthritis reported their degree of limitation in performing everyday activities, and completed the Health Assessment Questionnaire-II (HAQ-II). We used confirmatory factor analyses to assess scale unidimensionality and IRT methods to calibrate the items and examine the fit of the data. Using CAT simulation analyses, we examined the performance of OA-DISABILITY-CATs of different lengths compared with the full-item bank and the HAQ-II. RESULTS: One distinct disability domain was identified. The 10-item OA-DISABILITY-CAT demonstrated a high degree of accuracy compared with the full-item bank (r=0.99). The item bank and the HAQ-II scales covered a similar estimated scoring range. In terms of reliability, 95% of OA-DISABILITY reliability estimates were over 0.83 vs. 0.60 for the HAQ-II. Except at the highest scores, the 10-item OA-DISABILITY-CAT demonstrated superior precision to the HAQ-II. CONCLUSION: The prototype OA-DISABILITY-CAT demonstrated promising measurement properties compared with the HAQ-II, and is recommended for use in LE osteoarthritis research.},
affiliation = {Health {\&} Disability Research Institute, Boston University School of Public Health, Boston, MA 02118, USA. ajette@bu.edu},
number = {8},
pages = {807--15},
volume = {62},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Aged, Psychometrics, Outcome Assessment (Health Care), Reproducibility of Results, Activities of Daily Living, Female, Adult, Osteoarthritis: Knee, Humans, Attitude to Health, Male, Neuropsychological Tests, Focus Groups, Software Design, Middle Aged, Osteoarthritis: Hip, Disability Evaluation, Diagnosis: Computer-Assisted},
date-added = {2010-03-10 20:13:37 +0100},
date-modified = {2010-03-10 20:13:37 +0100},
doi = {10.1016/j.jclinepi.2008.10.004},
pii = {S0895-4356(08)00294-1},
pmid = {19216052},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jette-2009-Journal%20of%20Clinical%20Epidemiology_A%20computer-adaptive.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7275},
rating = {0}
}
@article{Badia:1999p8430,
author = {X Badia and E Baro},
journal = {AIDS Review},
title = {The Measurement of Health-Related Quality of Life in Prospective Drug Therapy Studies in HIV-Infected Patients},
abstract = {The measurement of health-related quality of life (HRQOL) in patients infected with the HIV virus is becoming increasingly important in clinical trials of antiretroviral drugs, principally for two reasons: (1) the disease is becoming a chronic illness, in which the measurement of `quality of survival' is gaining relevance as an outcome measure; and (2) the antiretroviral drugs used to treat the disease may have severe side effects which, in turn, affect the HRQOL of patients and threaten compliance with treatment.
A bibliographic review was conducted to locate currently existing HRQOL instruments developed specifically for HIV patients, with demonstrated sensitivity to change, and which may be used as a measure of clinical outcomes. The review also aimed to determine the frequency and adequacy of incorporation of HRQOL as an outcome variable in clinical trials and other prospective drug trials completed between 1990 and 1998 in this group of patients. Although 7 HIV-specific HRQOL instruments with demonstrated sensitivity to change were located (MOS-HIV, MQOL-HIV, HIV-PARSE, HOPES, EORTC-QLQ-HIV, FAHI and AIDS-HAQ), only 2.35% of publications were found to incorporate HRQOL as an outcomes variable. In addition, fewer than 40% of the instruments used to measure HRQOL in the publications reviewed were specific to HIV patients and had demonstrated sensitivity to change. This may be due to: (1) the lack, until relatively recently, of adequate instruments for measuring of HRQOL and changes in HRQOL in HIV patients; (2) the difficulty of measuring HRQOL in HIV patients and; (3) the low importance given to this aspect of the disease to date.},
pages = {213--220},
volume = {1},
year = {1999},
date-added = {2010-03-21 17:49:54 +0100},
date-modified = {2010-03-21 17:50:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Badia-1999-AIDS%20Review_The%20Measurement%20of%20H.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8430},
rating = {4}
}
@article{Button:2007p9449,
author = {Tanya M M Button and Soo Hyun Rhee and John K Hewitt and Susan E Young and Robin P Corley and Michael C Stallings},
journal = {Drug Alcohol Depend},
title = {The role of conduct disorder in explaining the comorbidity between alcohol and illicit drug dependence in adolescence},
abstract = {BACKGROUND: Conduct disorder (CD), alcohol dependence (AD), and illicit drug dependence (IDD) frequently co-occur. This paper describes the result of an investigation of the extent to which comorbid alcohol and illicit drug dependence in adolescents are explained by etiological factors in common with conduct disorder. METHODS: Participants were 645 MZ twin pairs, 702 DZ twin pairs, 429 biological sibling pairs, and 96 adoptive sibling pairs, aged 12-18 years, from a community based sample. Conduct disorder was measured using the Diagnostic Interview Schedule for Children-IV. Alcohol and illicit drug dependence were assessed using the Composite International Diagnostic Interview-Substance Abuse Module (CIDI-SAM). For each outcome, subjects were categorized into those with no symptoms, those with one or more symptoms but no diagnosis, and those with a diagnosis. RESULTS: The heritability estimates for CD, AD, and IDD were 58, 66, and 36%, respectively. The genetic correlation between AD and IDD was partially explained by the genetic risk they both share with conduct disorder. CONCLUSIONS: We conclude that conduct disorder in adolescents explains, in part, the co-occurrence of alcohol and illicit drug dependence. Specifically, the genetic contribution to their covariation is explained partially by the genetic contribution in common with conduct disorder.},
affiliation = {Institute for Behavioral Genetics, Campus Box 447, University of Colorado, Boulder, CO 80309, USA. tanya.button@colorado.edu},
number = {1},
pages = {46--53},
volume = {87},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Female, Street Drugs, Opioid-Related Disorders, Comorbidity, Alcoholism, Humans, Child, Questionnaires, Male, Twins, Adolescent, Conduct Disorder},
date-added = {2010-03-23 19:40:46 +0100},
date-modified = {2010-03-23 19:40:46 +0100},
doi = {10.1016/j.drugalcdep.2006.07.012},
pii = {S0376-8716(06)00294-8},
pmid = {16956733},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Button-2007-Drug%20Alcohol%20Depend_The%20role%20of%20conduct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9449},
rating = {0}
}
@article{Hickendorff:2005aa,
author = {Marian Hickendorff},
title = {Clustering Nominal Data with Equivalent Categories: a Simulation Study Comparing Restricted GROUPALS and Restricted Latent Class Analysis},
year = {2005},
month = {Jun},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hickendorff-2005-_Clustering%20Nominal%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1209},
rating = {0}
}
@article{Nickerson:2000p7069,
author = {R S Nickerson},
journal = {Psychological Methods},
title = {Null Hypothesis Significance Testing: A Review of an Old and Continuing Controversy},
number = {2},
pages = {241--301},
volume = {5},
year = {2000},
date-added = {2010-03-06 20:12:14 +0100},
date-modified = {2010-03-06 20:12:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nickerson-2000-Psychological%20Methods_Null%20Hypothesis%20Sign.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7069},
rating = {3}
}
@article{Scheeringa:2010p7899,
author = {Michael S Scheeringa and Nancy Haslett},
journal = {Child Psychiatry Hum Dev},
title = {The reliability and criterion validity of the Diagnostic Infant and Preschool Assessment: a new diagnostic instrument for young children},
abstract = {The need to assess Diagnostic and Statistical Manual, Fourth Edition (DSM-IV) disorders in children younger than 7 years of age has intensified as clinical efforts to diagnose and treat this population have increased, and clinical research on psychopathology has advanced. A new diagnostic instrument for young children was created, the Diagnostic Infant Preschool Assessment (DIPA), and was tested for test-retest reliability and concurrent criterion validity. The caregivers of 50 outpatients aged 1-6 years were interviewed twice by trained interviewers, once by a clinician and once by a research assistant, about eight disorders. The median test-retest intraclass correlation was 0.69, mean 0.61, and values ranged from 0.24 to 0.87. The median test-retest kappa was 0.53, mean 0.52, and values ranged from 0.38 to 0.66. There were no differences by duration between interviews. Concurrent criterion validity show good agreement between the instrument and DSM-based Child Behavior Checklist scales when the DSM-based scales were matched well to the disorder (attention-deficit/hyperactivity inattentive and hyperactive and oppositional disorders). Preliminary data support the DIPA as a reliable and valid measure of symptoms in research and clinical work with very young children. This measure adds a tool that is flexible in covering both DSM-IV syndromes and empirically-validated developmental modifications that can help increase confidence in assessing young children, ensuring coverage of symptoms, and improve access to care.},
affiliation = {Department of Psychiatry {\&} Behavioral Sciences, Institute of Infant and Early Childhood Mental Health, Tulane University Health Sciences Center, 1440 Canal St., New Orleans, LA 70112, USA. mscheer@tulane.edu},
number = {3},
pages = {299--312},
volume = {41},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-03-20 19:22:25 +0100},
date-modified = {2010-03-20 19:22:25 +0100},
doi = {10.1007/s10578-009-0169-2},
pmid = {20052532},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7899},
rating = {0}
}
@article{Hessen:2006p11422,
author = {D J Hessen and C V Dolan and J M Wicherts},
journal = {Applied Psychological Measurement},
title = {The Multigroup Common Factor Model With Minimal Uniqueness Constraints and the Power to Detect Uniform Bias},
abstract = {An alternative formulation of the multigroup common factor model with minimal uniqueness constraints is considered. This alternative formulation is based on a simple identification constraint that is related to the standard maximum likelihood constraint used in single-group common factor analysis. It is argued that the alternative formulation leads to less technical difficulties in applications than earlier formulations of this multigroup common factor model. Furthermore, associated tests for various measurement invariance constraints across groups are proposed, such as an omnibus test for the absence of uniform bias. By means of an empirical example, the fitting of several multigroup common factor models with
minimal uniqueness constraints and the testing for measurement invariance over groups are demonstrated. The nesting of multigroup confirmatory factor models under the multigroup common factor model with minimal uniqueness constraints is also discussed. Finally, a small study is performed to investigate the drop in power to detect uniform bias in using the multigroup common factor model with minimal uniqueness constrains instead of a confirmatory special case. The results of the study show a small drop in power under all research conditions.},
number = {3},
pages = {233--246},
volume = {30},
year = {2006},
date-added = {2010-05-01 16:50:59 +0200},
date-modified = {2010-05-01 16:52:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hessen-2006-Applied%20Psychological%20Measurement_The%20Multigroup%20Commo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11422},
rating = {0}
}
@article{Waller:2000p10568,
author = {N G Waller and J S Thompson and E Wenk},
journal = {Psychological Methods},
title = {Using IRT to separate measurement bias from true group differences on homogeneous and heterogeneous scales: an illustration with the MMPI},
abstract = {The authors present a didactic illustration of how item response theory (IRT) can be used to separate measurement bias from true group differences on homogeneous and heterogeneous scales. Several bias detection methods are illustrated with 12 unidimensional Minnesota Multiphasic Personality Inventory (MMPI) factor scales (Waller, 1999) and the 13 multidimensional MMPI validity and clinical scales. The article begins with a brief review of MMPI bias research and nontechnical reviews of the 2-parameter logistic model (2-PLM) and several IRT-based methods for bias detection. A goal of this article is to demonstrate that homogeneous and heterogeneous scales that are composed of biased items do not necessarily yield biased test scores. To that end, the authors perform differential item- and test-functioning analyses on the MMPI factor, validity, and clinical scales using data from 511 Blacks and 1,277 Whites from the California Youth Authority.},
affiliation = {Department of Psychology and Human Development, Vanderbilt University, Nashville, Tennessee 37203, USA. Niels.Waller@Vanderbilt.edu},
number = {1},
pages = {125--46},
volume = {5},
year = {2000},
month = {Mar},
language = {eng},
keywords = {MMPI, Reproducibility of Results, Psychometrics, Adult, California, Models: Statistical, Adolescent, Male, Prisoners, Humans, Bias (Epidemiology)},
date-added = {2010-04-07 11:38:53 +0200},
date-modified = {2010-04-07 11:38:53 +0200},
pmid = {10937326},
url = {http://psycnet.apa.org/index.cfm?fa=search.displayRecord&uid=2000-03131-007},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Waller-2000-Psychological%20Methods_Using%20IRT%20to%20separat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10568},
rating = {0}
}
@article{Marvelde:2006,
author = {J M Te Marvelde and C A W Glas and G Van Landeghem and J Van Damme},
journal = {Educational and Psychological Measurement},
title = {Application of multidimensional item response theory models to longitudinal data},
pages = {5--34},
volume = {66},
year = {2006},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marvelde-2006-Educational%20and%20Psychological%20Measurement_Application%20of%20multi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2053},
rating = {0}
}
@article{Molsted:2007p3575,
author = {Stig Molsted and Lotte Prescott and James Heaf and Inge Eidemak},
journal = {Nephron Clin Pract},
title = {Assessment and clinical aspects of health-related quality of life in dialysis patients and patients with chronic kidney disease},
abstract = {BACKGROUND/AIMS: It is relevant to investigate health-related quality of life (HRQOL) in dialysis and chronic kidney disease (CKD) patients in order to optimise treatment. The aim of this study was to investigate HRQOL in dialysis and CKD patients, to compare results from patients treated with hemodialysis (HD) and peritoneal dialysis (PD) and to investigate the prediction of dialysis quality control parameters (blood hemoglobin, plasma albumin, and Kt/V) and tobacco smoking in disease-specific HRQOL. METHODS: Seventy-one HD, 59 PD, and 63 CKD patients participated in the study. Dialysis quality control parameters were measured and the patients completed the questionnaire Kidney Disease Quality Of Life. RESULTS: PD patients rated Dialysis Staff Encouragement and Patient Satisfaction better than HD patients (p< or = 0.05). Dialysis patients scored significant lower than the general population in all generic HRQOL scales (p < or = 0.01), whereas CKD patients scored lower than the general population in 5 of 8 scales (p < or = 0.05). The dialysis quality parameters did not predict dialysis patients' disease specific HRQOL, but tobacco consumption was independently associated with low scores on a number of HRQOL scales. Conclusion: Based on the results, it is suggested to include elements of HRQOL as a supplement to standard quality control parameters. It is also suggested routinely to include information of the beneficial effects of physical activity already in the predialysis program, and to focus on smoking as a very important risk factor.},
affiliation = {Department of Nephrology, Hilleroed Hospital, Hilleroed, Denmark. stimo@noh.regionh.dk},
number = {1},
pages = {c24--33},
volume = {106},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Kidney Failure: Chronic, Renal Dialysis, Aged, Male, Denmark, Middle Aged, Female, Quality of Life, Peritoneal Dialysis, Humans, Patient Satisfaction, Sickness Impact Profile},
date-added = {2010-01-15 21:13:31 +0100},
date-modified = {2010-01-15 21:13:31 +0100},
doi = {10.1159/000101481},
pii = {000101481},
pmid = {17409766},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3575},
rating = {0}
}
@article{Wirth:2007p6522,
author = {R J Wirth and Michael C Edwards},
journal = {Psychological Methods},
title = {Item factor analysis: current approaches and future directions},
abstract = {The rationale underlying factor analysis applies to continuous and categorical variables alike; however, the models and estimation methods for continuous (i.e., interval or ratio scale) data are not appropriate for item-level data that are categorical in nature. The authors provide a targeted review and synthesis of the item factor analysis (IFA) estimation literature for ordered-categorical data (e.g., Likert-type response scales) with specific attention paid to the problems of estimating models with many items and many factors. Popular IFA models and estimation methods found in the structural equation modeling and item response theory literatures are presented. Following this presentation, recent developments in the estimation of IFA parameters (e.g., Markov chain Monte Carlo) are discussed. The authors conclude with considerations for future research on IFA, simulated examples, and advice for applied researchers.},
affiliation = {L. L. Thurstone Psychometric Laboratory, Department of Psychology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599-3270, USA. rjwirth@unc.edu},
number = {1},
pages = {58--79},
volume = {12},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Humans, Models: Psychological, Forecasting, Factor Analysis: Statistical, Psychology},
date-added = {2010-02-23 08:44:36 +0100},
date-modified = {2010-02-23 08:44:40 +0100},
doi = {10.1037/1082-989X.12.1.58},
pii = {2007-03329-004},
pmid = {17402812},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wirth-2007-Psychological%20Methods_Item%20factor%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6522},
rating = {4}
}
@article{Boks:2010p12577,
author = {M P M Boks and E M Derks and C V Dolan and R S Kahn and R A Ophoff},
journal = {Behav Genet},
title = {"Forward Genetics" as a Method to Maximize Power and Cost-Efficiency in Studies of Human Complex Traits},
abstract = {There is increasing interest in methods to disentangle the relationship between genotype and (endo)phenotypes in human complex traits. We present a population-based method of increasing the power and cost-efficiency of studies by selecting random individuals with a particular genotype and then assessing the accompanying quantitative phenotypes. Using statistical derivations, power- and cost graphs we show that such a "forward genetics" approach can lead to a marked reduction in sample size and costs. This approach is particularly apt for implementing in epidemiological studies for which DNA is already available but the phenotyping costs are high.},
affiliation = {Rudolf Magnus Institute of Neuroscience, Department of Psychiatry, B01.206, University Medical Centre Utrecht, PO Box 85500, 3508 GA, Utrecht, The Netherlands, mboks@umcutrecht.nl.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-06-15 22:29:26 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9348-y},
pmid = {20232132},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boks-2010-Behav%20Genet_%22Forward%20Genetics%22%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12577},
rating = {0}
}
@article{Thompson:1994,
author = {B Thompson},
journal = {Measurement Update},
title = {The Concept of Statistical Hypothesis Testing},
number = {1},
pages = {5--6},
volume = {4},
year = {1994},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
url = {http://www.coe.tamu.edu/~bthompson/hyptest1.htm},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1965},
rating = {0}
}
@article{Kim:2005p3300,
author = {S Y Kim and J W Lee and J S Bae},
journal = {Proceedings of World Academy of Science, Engineering and Technology},
title = {Iterative Clustering Algorithm for Analyzing Temporal Patterns of Gene Expression},
abstract = {Microarray experiments are information rich; however, extensive data mining is required to identify the patterns that characterize the underlying mechanisms of action. For biologists, a key aim when analyzing microarray data is to group genes based on the temporal patterns of their expression levels. In this paper, we used an iterative clustering method to find temporal patterns of gene expression. We evaluated the performance of this method by applying it to real sporulation data and simulated data. The patterns obtained using the iterative clustering were found to be superior to those obtained using existing clustering algorithms.},
pages = {8--11},
volume = {4},
year = {2005},
date-added = {2010-01-14 21:29:17 +0100},
date-modified = {2010-01-14 21:30:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kim-2005-Proceedings%20of%20World%20Academy%20of%20Science%20Engineering%20and%20Technology_Iterative%20Clustering.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3300},
rating = {0}
}
@article{Osgood:2002p266,
author = {D Wayne Osgood and Laura L Finken and Barbara J McMorris},
journal = {Journal of Quantitative Criminology},
title = {Analyzing Multiple-Item Measures of Crime and Deviance II: Tobit Regression Analysis of Transformed Scores},
abstract = {The purpose of this article is to inform criminological researchers about tobit regression, an alternative regression model that deserves more attention in this field. Tobit regression is intended for continuous data that are censored, or bounded at a limiting value. The tobit model may be a particularly good match to measures of self-reported offending, provided they have been transformed to reduce skewness. We present empirical analyses that evaluate the match of self-report measures to the assumptions of ordinary least square (OLS) and tobit regression models and that assess the consequences of any violations of assumptions. The analyses use a fourteen-item, self-report measure of delinquency from the Monitoring the Future study, a national survey of high school seniors. These analyses provide clear evidence that (1) transformations to reduce skewness improve the match of OLS to the data but still leave considerable discrepancies, and (2) the tobit model is well suited to the transformed measure. We conclude by assessing the purposes for which tobit offers greater and smaller advantages over OLS regression.},
affiliation = {Crime, Law, and Justice Program, Pennsylvania State University, University Park, PA, 16802},
number = {4},
pages = {319--347},
volume = {18},
year = {2002},
keywords = {tobit regression, self-report measures, Regression Analysis, limited dependent variables},
date-added = {2010-01-03 11:17:06 +0100},
date-modified = {2010-01-03 11:19:38 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p266},
rating = {0}
}
@article{Longford:1992p12121,
author = {N T Longford and B O Muth{\'e}n},
journal = {Psychometrika},
title = {Factor analysis for clustered observations},
pages = {581--597},
year = {1992},
date-added = {2010-05-30 10:03:46 +0200},
date-modified = {2010-05-30 10:05:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Longford-1992-Psychometrika_Factor%20analysis%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12121},
rating = {0}
}
@article{Tutz:2005p1560,
author = {G Tutz and H Binder},
title = {Boosting Ridge Regression},
abstract = {Ridge regression is a well established method to shrink regression parameters towards zero, thereby securing existence of estimates. The present paper investigates several approaches to combining ridge regression with boosting techniques. In the direct approach the ridge estimator is used to fit iteratively the current residuals yielding an alternative to the usual ridge estimator. In partial boosting only part of the regression parameters are reestimated within one step of the iterative procedure. The technique allows to distinguish between variables that are always included in the analysis and variables that are chosen only if relevant. The resulting procedure selects variables in a similar way as the Lasso, yielding a reduced set of influential variables. The suggested procedures are investigated within the classical framework of continuous response variables as well as in the case of generalized linear models. In a simulation study boosting procedures for different stopping criteria are investigated and the performance in terms of prediction and the identification of relevant variables is compared to several competitors as the Lasso and the more recently proposed elastic net. For the evaluation of the identification of relevant variables pseudo ROC curves are introduced.},
affiliation = {Ludwig-Maximilians-Universit ̈at Mu ̈nchen, Germany},
year = {2005},
date-added = {2010-01-07 16:46:51 +0100},
date-modified = {2010-01-07 16:53:37 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tutz-2005-_Boosting%20Ridge%20Regre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1560},
read = {Yes},
rating = {0}
}
@article{Eisenberger:2005p12290,
author = {Naomi I Eisenberger and Matthew D Lieberman and Ajay B Satpute},
journal = {Cogn Affect Behav Neurosci},
title = {Personality from a controlled processing perspective: an fMRI study of neuroticism, extraversion, and self-consciousness},
abstract = {Although neuroticism has been central to most theories of personality, self-reported neuroticism has had limited success in predicting expected behavioral outcomes. The reason for this may be due, in part, to the imprecision of self-reports. The purpose of this study was to examine the relationship between neural correlates of control systems and neuroticism, extraversion, and self-consciousness. In response to an oddball task, neuroticism was associated with increased dorsal anterior cingulate cortex (dACC) reactivity, typically associated with discrepancy detection, whereas extraversion and self-consciousness were associated with lateral and medial frontoparietal networks, respectively, typically associated with task-focused (lateral) or self-focused (medial) controlled processes. We also examined whether the neural measure of neuroticism would predict a relevant behavioral outcome better than self-reports would. Interoceptive accuracy, an outcome associated with neuroticism, was better accounted for by dACC reactivity (r2 = .74) than by self-reported neuroticism (r2 = .16), suggesting that neural reactivities may provide a more direct measure of personality than self-reports do.},
affiliation = {Department of Psychology, University of California, Los Angeles, California 90095-1563, USA. neisenbe@ucla.edu},
number = {2},
pages = {169--81},
volume = {5},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Adult, Humans, Male, Oxygen, Magnetic Resonance Imaging, Personality Inventory, Self Assessment (Psychology), Brain, Self Concept, Brain Mapping, Personality, Neurotic Disorders, Extraversion (Psychology), Female, Image Processing: Computer-Assisted},
date-added = {2010-06-09 20:14:05 +0200},
date-modified = {2010-06-09 20:14:09 +0200},
pmid = {16180623},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eisenberger-2005-Cogn%20Affect%20Behav%20Neurosci_Personality%20from%20a%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12290},
rating = {4}
}
@article{DeLaVega:2007p5718,
author = {Francisco M De La Vega},
journal = {Methods Mol Biol},
title = {Selecting single-nucleotide polymorphisms for association studies with SNPbrowser software},
abstract = {The design of genetic association studies using single-nucleotide polymorphisms (SNPs) requires the selection of subsets of the variants providing high statistical power at a reasonable cost. SNPs must be selected to maximize the probability that a causative mutation is in linkage disequilibrium (LD) with at least one marker genotyped in the study. The HapMap Project performed a genome-wide survey of genetic variation with over 3 million SNPs typed in four populations, providing a rich resource to inform the design of association studies. A number of strategies have been proposed for the selection of SNPs based on observed LD, including construction of metric LD maps and the selection of haplotype-tagging SNPs. Power calculations are important at the study design stage to ensure successful results. Integrating these methods and annotations can be challenging: the algorithms required to implement these methods are complex to deploy, and all the necessary data and annotations are deposited in disparate databases. Here, we review the typical workflows for the selection of markers for association studies utilizing the SNPbrowser software, a freely available, stand-alone application that incorporates the HapMap database together with gene and SNP annotations. Selected SNPs are screened for their conversion potential to genotyping platforms, expediting the set up of genetic studies with an increased probability of success.},
affiliation = {Applied Biosystems, Foster City, CA, USA.},
pages = {177--93},
volume = {376},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Case-Control Studies, Software, Genetic Predisposition to Disease, Genotype, Databases: Genetic, Computational Biology, Linkage Disequilibrium, Polymorphism: Single Nucleotide, Genetic Markers, Humans},
date-added = {2010-02-15 20:26:29 +0100},
date-modified = {2010-02-15 20:26:29 +0100},
pii = {1-59745-389-7:177},
pmid = {17984546},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5718},
rating = {0}
}
@article{Hoetker:2003p4091,
author = {G Hoetker},
title = {Confounded coefficients: Accurately comparing logit and probit coefficients across groups},
abstract = {The logit and probit models are critical parts of the sociologist's analytical arsenal. We often want to know if a covariate has the same effect for different groups, e.g., men and women. Unfortunately, many attempts to compare the effect of covariates across groups make the unwarranted assumption that each group has the same residual variation. If this assumption is false, comparisons of coefficients can reveal differences where none exist and conceal differences that do exist. Recent work has emphasized the theoretical potential for this problem and proposed a test of whether the effect of covariates differs across groups that is accurate, if limited, despite differences in residual variation. This paper extends these advances in three ways. First, it uses simulations to show that this theoretical problem is substantively significant under a wide range of common conditions, meaning that traditionally executed comparisons of logit coefficients should be viewed skeptically. Second, it uses simulations to assess the power of the test recently proposed to overcome the problem, finding that they are an improvement over na{\"\i}ve comparisons of coefficients, but have significant limitations. Third, it proposes and tests two alternative means of comparing coefficients across groups that avoid the assumption of equal residual variation entirely. The article closes with implications for the practice of research.},
year = {2003},
date-added = {2010-01-19 23:18:29 +0100},
date-modified = {2010-01-19 23:20:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoetker-2003-_Confounded%20coefficie.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4091},
rating = {0}
}
@article{Algina:2003,
author = {J Algina and H J Keselman},
journal = {Educational and Psychological Measurement},
title = {Approximate confidence intervals for effect sizes},
pages = {537--553},
volume = {63},
year = {2003},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-07-29 20:18:44 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1913},
rating = {0}
}
@article{Reise:2007p10571,
author = {Steven P Reise and Julien Morizot and Ron D Hays},
journal = {Qual Life Res},
title = {The role of the bifactor model in resolving dimensionality issues in health outcomes measures},
abstract = {OBJECTIVES: We propose the application of a bifactor model for exploring the dimensional structure of an item response matrix, and for handling multidimensionality. BACKGROUND: We argue that a bifactor analysis can complement traditional dimensionality investigations by: (a) providing an evaluation of the distortion that may occur when unidimensional models are fit to multidimensional data, (b) allowing researchers to examine the utility of forming subscales, and, (c) providing an alternative to non-hierarchical multidimensional models for scaling individual differences. METHOD: To demonstrate our arguments, we use responses (N = 1,000 Medicaid recipients) to 16 items in the Consumer Assessment of Healthcare Providers and Systems (CAHPS2.0) survey. ANALYSES: Exploratory and confirmatory factor analytic and item response theory models (unidimensional, multidimensional, and bifactor) were estimated. RESULTS: CAHPS items are consistent with both unidimensional and multidimensional solutions. However, the bifactor model revealed that the overwhelming majority of common variance was due to a general factor. After controlling for the general factor, subscales provided little measurement precision. CONCLUSION: The bifactor model provides a valuable tool for exploring dimensionality related questions. In the Discussion, we describe contexts where a bifactor analysis is most productively used, and we contrast bifactor with multidimensional IRT models (MIRT). We also describe implications of bifactor models for IRT applications, and raise some limitations.},
affiliation = {Department of Psychology, University of California, Franz Hall, Los Angeles, CA 90095-1563, USA. reise@psych.ucla.edu},
pages = {19--31},
volume = {16 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Health Status, Questionnaires, Models: Statistical, Research, Outcome Assessment (Health Care), Models: Theoretical, Humans, Factor Analysis: Statistical, Pilot Projects},
date-added = {2010-04-07 11:37:58 +0200},
date-modified = {2010-07-29 19:48:30 +0200},
doi = {10.1007/s11136-007-9183-7},
pmid = {17479357},
url = {http://www.springerlink.com/content/jh561175967n4503/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reise-2007-Qual%20Life%20Res_The%20role%20of%20the%20bifa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10571},
rating = {0}
}
@article{Schmidt:2002p11425,
author = {S Schmidt and M Power and M Bullinger},
title = {Cross-cultural analysis of relationships of health indicators across europe: first results based on the eurohis project},
abstract = {Empirical studies have suggested that two components of health -- physical health and mental health -- account for the great majority of the variance in health surveys. It has also been suggested that a variety of other indicators can be meaningfully aggregated in order to estimate scores for each of these two health components. Data from the EUROHIS project, the objective of which was to develop common survey instruments for European health surveys, provide an opportunity to further investigate these relationships. The EUROHIS project was led by the WHO Regional Office for Europe and co-sponsored by the BIOMED2 programme of the European Commission.
The focus of the current analysis was to study the relationship between the different EUROHIS health indicators and to assess the impact of specific health determinants on physical and mental health outcomes at a cross-cultural level. EUROHIS field-test data for ten countries were used, with a total number of 4849 respondents. Selected variables were tested for their contribution to physical and mental health using multiple hierarchical regression analysis, which took into account the effect of sociodemographic and culture-specific aspects. Modelling was also used to investigate the pathways between the variables.
Both the regression and the path analyses revealed conceptually meaningful and statistically powerful explanatory models for the EUROHIS data, in spite of the fact that different sampling frames were used in different countries. Overall, it was not possible to use a combined (single) model that predicted both mental and physical health. These constructs appeared to have different meanings and, furthermore, the interrelationship between mental and physical health appeared to differ in different countries. While the current data need to be carefully interpreted, not least because the EUROHIS field-testing countries used different data collection methods, they offer a rich database for further investigation into cultural aspects that may account for cross-national health differences.},
number = {E77964},
year = {2002},
date-added = {2010-05-01 17:04:14 +0200},
date-modified = {2010-05-01 17:06:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmidt-2002-_Cross-cultural%20analy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11425},
rating = {0}
}
@article{deGeus:2008p12620,
author = {Eco de Geus and Terry Goldberg and Dorret I Boomsma and Danielle Posthuma},
journal = {Biol Psychol},
title = {Imaging the genetics of brain structure and function},
abstract = {Imaging genetics combines brain imaging and genetics to detect genetic variation in brain structure and function related to behavioral traits, including psychiatric endpoints, cognition, and affective regulation. This special issue features extensive reviews of the current state-of-the-art of the field and adds new findings from twin and candidate gene studies on functional MRI. Here we present a brief overview and discuss a number of desirable future developments which include more specific a priori hypotheses, more standardization of MRI measurements within and across laboratories, and larger sample sizes that allows testing of multiple genes and their interactions up to a scale that allows genetic whole genome association studies. Based on the overall tenet of the contributions to this special issue we predict that imaging genetics will increasingly impact on the classification systems for psychiatric disorders and the early detection and treatment of vulnerable individuals.},
number = {1},
pages = {1--8},
volume = {79},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Twin Studies as Topic, Humans, Animals, Molecular Biology, Brain Chemistry, Behavior, Brain},
date-added = {2010-06-15 22:37:49 +0200},
date-modified = {2010-06-15 22:37:50 +0200},
doi = {10.1016/j.biopsycho.2008.04.002},
pii = {S0301-0511(08)00091-4},
pmid = {18487006},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12620},
rating = {0}
}
@article{Masthoff:2007p13044,
author = {Erik D Masthoff and Fons J Trompenaars and Guus L Van Heck and Paul P Hodiamont and Jolanda De Vries},
journal = {Psychiatry Res},
title = {The relationship between dimensional personality models and quality of life in psychiatric outpatients},
abstract = {This study examines the relationship between personality and quality of life (QOL) in psychiatric outpatients (N=495). Personality was conceptualized using two-dimensional models, respectively, the five-factor model (FFM) and Cloninger's seven-factor model. The WHOQOL-100 was used for assessing QOL. Neuroticism and Harm Avoidance had negative correlations with QOL, whereas Extraversion, Conscientiousness and Self-Directedness correlated positively with QOL. A considerable part of the QOL variance was explained by personality; Cloninger's character factors were superior to the FFM domains. Although not fully comparable, in general our findings are in accordance with earlier studies. Therefore, paying attention to personality and temperament is recommended in future diagnostic procedures, treatment policies, and program evaluations.},
affiliation = {Forensisch Psychiatrische Dienst, Ministerie van Justitie, Leeghwaterlaan 14, 5223 BA 's-Hertogenbosch, The Netherlands.},
number = {1-3},
pages = {81--8},
volume = {149},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Personality Disorders, Male, Diagnostic and Statistical Manual of Mental Disorders, Adult, Mental Disorders, Female, Ambulatory Care, Middle Aged, Quality of Life, Factor Analysis: Statistical, Personality Inventory, Humans, Cross-Sectional Studies, Questionnaires},
date-added = {2010-06-26 09:36:35 +0200},
date-modified = {2010-06-26 09:36:35 +0200},
doi = {10.1016/j.psychres.2006.01.004},
pii = {S0165-1781(06)00009-6},
pmid = {17150257},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Masthoff-2007-Psychiatry%20Res_The%20relationship%20bet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13044},
rating = {0}
}
@article{Stryke:2003p2309,
author = {D Stryke and C C Huang and M Kawamoto and S J Johns and E J Carlson and J A Deyoung and M K Leabman and I Herskowitz and K M Giacomini and T E Ferrin},
journal = {Pac Symp Biocomput},
title = {SNP Analysis and Presentation in the Pharmacogenetics of Membrane Transporters Project},
abstract = {The multidisciplinary UCSF Pharmacogenetics of Membrane Transporters project seeks to systematically identify sequence variants in transporters and to determine the functional significance of these variants through evaluation of relevant cellular and clinical phenotypes. The project is structured around four interacting cores: genomics, cellular phenotyping, clinical phenotyping, and bioinformatics. The bioinformatics core is responsible for collecting, storing, and analyzing the information obtained by the other cores and for presenting the results, in particular, for the genomic data. Most of this process is automated using locally developed software written in Python, an open source language well suited for rapid, modular development that meets requirements that are themselves constantly evolving. Here we present the details of transforming ABI trace file data into useful information for project investigators and a description of the types of data analysis and display that we have developed.},
pages = {535--547},
volume = {8},
year = {2003},
date-added = {2010-01-10 12:23:59 +0100},
date-modified = {2010-07-29 19:42:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stryke-2003-Pac%20Symp%20Biocomput_SNP%20Analysis%20and%20Pre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2309},
rating = {0}
}
@article{Wang:2007p6508,
author = {Sijia Wang and Cecil M Lewis and Mattias Jakobsson and Sohini Ramachandran and Nicolas Ray and Gabriel Bedoya and Winston Rojas and Maria V Parra and Julio A Molina and Carla Gallo and Guido Mazzotti and Giovanni Poletti and Kim Hill and Ana M Hurtado and Damian Labuda and William Klitz and Ramiro Barrantes and Maria C{\'a}tira Bortolini and Francisco M Salzano and Maria Luiza Petzl-Erler and Luiza T Tsuneto and Elena Llop and Francisco Rothhammer and Laurent Excoffier and Marcus W Feldman and Noah A Rosenberg and Andr{\'e}s Ruiz-Linares},
journal = {PLoS Genet},
title = {Genetic variation and population structure in native Americans},
abstract = {We examined genetic diversity and population structure in the American landmass using 678 autosomal microsatellite markers genotyped in 422 individuals representing 24 Native American populations sampled from North, Central, and South America. These data were analyzed jointly with similar data available in 54 other indigenous populations worldwide, including an additional five Native American groups. The Native American populations have lower genetic diversity and greater differentiation than populations from other continental regions. We observe gradients both of decreasing genetic diversity as a function of geographic distance from the Bering Strait and of decreasing genetic similarity to Siberians--signals of the southward dispersal of human populations from the northwestern tip of the Americas. We also observe evidence of: (1) a higher level of diversity and lower level of population structure in western South America compared to eastern South America, (2) a relative lack of differentiation between Mesoamerican and Andean populations, (3) a scenario in which coastal routes were easier for migrating peoples to traverse in comparison with inland routes, and (4) a partial agreement on a local scale between genetic similarity and the linguistic classification of populations. These findings offer new insights into the process of population dispersal and differentiation during the peopling of the Americas.},
affiliation = {The Galton Laboratory, Department of Biology, University College London, London, United Kingdom.},
number = {11},
pages = {e185},
volume = {3},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Chromosomes: Human, Linguistics, Heterozygote, Humans, Databases: Genetic, Genetic Variation, Indians: North American, Population Dynamics, Language, Gene Frequency, Emigration and Immigration, Alleles, Geography, Phylogeny},
date-added = {2010-02-23 08:37:37 +0100},
date-modified = {2010-02-23 08:37:37 +0100},
doi = {10.1371/journal.pgen.0030185},
pii = {07-PLGE-RA-0192},
pmid = {18039031},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6508},
rating = {0}
}
@article{Ongena:2007,
author = {YP Ongena and W Dijkstra},
journal = {Applied Cognitive Psychology},
title = {A model of cognitive processes and conversational principles in survey interview interaction},
abstract = {In this paper we provide a model of interviewer-respondent interaction in survey interviews. Our model is primarily focused on the occurrence of problems within this interaction that seem likely to affect data quality. Both conversational principles and cognitive processes, especially where they do not match the requirements of the respondent's task, are assumed to affect the course of interactions. The cognitive processes involved in answering a survey question are usually described by means of four steps: interpretation, retrieval, judgement and formatting. Each of these steps may be responsible for different overt problems, such as requests for clarification or inadequate answers. Such problems are likely to affect the course of the interaction through conversational principles which may cause, for example, suggestive behaviour on the part of the interviewer, which may in turn yield new problematic behaviours. However, the respondent may not be the only one who experiences cognitive problems; the interviewer may also have such problems, for example with respect to explaining question meaning to the respondent. Thus the model proposed here, unlike most of the other models which concentrate on the respondent, tries to incorporate cognitive processes and conversational principles with respect to both interviewer and respondent. In particular, the model looks at how cognitive processes and conversational principles affect both the interaction between interview participants and the quality of the eventual answers.},
number = {2},
pages = {145--163},
volume = {21},
year = {2007},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:15:39 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p937},
rating = {0}
}
@article{Wong:2003p13477,
author = {W Wong and C C Ho},
title = {Comparing Scoring Systems From Cluster Analysis and Discriminant Analysis Using Random Samples},
year = {2003},
date-added = {2010-07-01 20:40:06 +0200},
date-modified = {2010-07-01 20:40:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wong-2003-_Comparing%20Scoring%20Sy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13477},
rating = {0}
}
@article{MeyerLindenberg:2006p3499,
author = {A Meyer-Lindenberg and T Nichols and J H Callicott and J Ding and B Kolachana and J Buckholtz and V S Mattay and M Egan and D R Weinberger},
journal = {Mol Psychiatry},
title = {Impact of complex genetic variation in COMT on human brain function},
abstract = {Catechol-O-methyltransferase (COMT) has been shown to be critical for prefrontal dopamine flux, prefrontal cortex-dependent cognition and activation. Several potentially functional variants in the gene have been identified, but considerable controversy exists regarding the contribution of individual alleles and haplotypes to risk for schizophrenia, partly because clinical phenotypes are ill-defined and preclinical studies are limited by lack of adequate models. Here, we propose a neuroimaging approach to overcome these limitations by characterizing the functional impact of ambiguous haplotypes on a neural system-level intermediate phenotype in humans. Studying 126 healthy control subjects during a working-memory paradigm, we find that a previously described risk variant in a functional Val158Met (rs4680) polymorphism interacts with a P2 promoter region SNP (rs2097603) and an SNP in the 3' region (rs165599) in predicting inefficient prefrontal working memory response. We report evidence that the nonlinear response of prefrontal neurons to dopaminergic stimulation is a neural mechanism underlying these nonadditive genetic effects. This work provides an in vivo approach to functional validation in brain of the biological impact of complex genetic variations within a gene that may be critical for its clinical association.},
affiliation = {Unit for Systems Neuroscience in Psychiatry, National Institute of Mental Health, NIH, DHHS, Bethesda, MD 20892-1257, USA. andreasml@nih.gov},
number = {9},
pages = {867--77, 797},
volume = {11},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Brain, Polymorphism: Genetic, Reaction Time, Catechol O-Methyltransferase, Adult, Polymorphism: Single Nucleotide, Male, Prefrontal Cortex, Memory, Female, Dopamine, Introns, Base Sequence, Amino Acid Substitution, Humans, Genetic Variation},
date-added = {2010-01-15 15:29:10 +0100},
date-modified = {2010-01-15 15:29:10 +0100},
doi = {10.1038/sj.mp.4001860},
pii = {4001860},
pmid = {16786032},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meyer-Lindenberg-2006-Mol%20Psychiatry_Impact%20of%20complex%20ge.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3499},
read = {Yes},
rating = {0}
}
@article{Widaman:1989p13817,
author = {K F Widaman and D C Geary and P Cormier and T D Little},
journal = {J Exp Psychol Learn Mem Cogn},
title = {A componential model for mental addition},
abstract = {A componential model capable of representing simple and complex forms of mental addition was proposed and then tested by using chronometric techniques. A sample of 23 undergraduate students responded to 800 addition problems in a true-false reaction time paradigm. The 800 problems comprised 200 problems of each of four types: two single-digit addends, one single- and one double-digit addend, two double-digit addends, and three single-digit addends. The results revealed that the columnwise product of addends, a structural variable consistent with a memory network retrieval process, was the best predictor of mental addition for each of the four types of problem. Importantly, the componential model allowed estimation of effects of several other structural variables, e.g., carrying to the next column and speed of encoding of digits. High levels of explained variance verified the power of the model to represent the reaction time data, and the stability of estimates across types of problem implied consistent component use by subjects. Implications for research on mental addition are discussed.},
affiliation = {Department of Psychology, University of California, Riverside 92521.},
number = {5},
pages = {898--919},
volume = {15},
year = {1989},
month = {Sep},
language = {eng},
keywords = {Models: Psychological, Male, Imagination, Adult, Decision Making, Problem Solving, Humans, Concept Formation, Adolescent, Female},
date-added = {2010-07-29 12:42:35 +0200},
date-modified = {2010-07-29 19:34:10 +0200},
pmid = {2528607},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Widaman-1989-J%20Exp%20Psychol%20Learn%20Mem%20Cogn_A%20componential%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13817},
rating = {0}
}
@article{Handl:2007p12240,
author = {Julia Handl and Douglas B Kell and Joshua Knowles},
journal = {IEEE/ACM Trans Comput Biol Bioinform},
title = {Multiobjective optimization in bioinformatics and computational biology},
abstract = {This paper reviews the application of multiobjective optimization in the fields of bioinformatics and computational biology. A survey of existing work, organized by application area, forms the main body of the review, following an introduction to the key concepts in multiobjective optimization. An original contribution of the review is the identification of five distinct "contexts," giving rise to multiple objectives: These are used to explain the reasons behind the use of multiobjective optimization in each application area and also to point the way to potential future uses of the technique.},
affiliation = {School of Chemistry, The University of Manchester, Manchester, UK.},
number = {2},
pages = {279--92},
volume = {4},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Pattern Recognition: Automated, Computational Biology, Gene Expression Profiling, Sequence Analysis, Models: Biological, Artificial Intelligence, Algorithms},
date-added = {2010-06-09 20:07:13 +0200},
date-modified = {2010-07-29 19:29:06 +0200},
doi = {10.1109/TCBB.2007.070203},
pmid = {17473320},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Handl-2007-IEEEACM%20Trans%20Comput%20Biol%20Bioinform_Multiobjective%20optim.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12240},
rating = {0}
}
@article{RabeHesketh:2004p7014,
author = {S Rabe-Hesketh and A Skrondal and A Pickles},
journal = {Psychometrika},
title = {GENERALIZED MULTILEVEL STRUCTURAL EQUATION MODELING},
abstract = {A unifying framework for generalized multilevel structural equation modeling is introduced. The models in the framework, called generalized linear latent and mixed models (GLLAMM), combine fea- tures of generalized linear mixed models (GLMM) and structural equation models (SEM) and consist of a response model and a structural model for the latent variables. The response model generalizes GLMMs to incorporate factor structures in addition to random intercepts and coefficients. As in GLMMs, the data can have an arbitrary number of levels and can be highly unbalanced with different numbers of lower-level units in the higher-level units and missing data. A wide range of response processes can be modeled in- cluding ordered and unordered categorical responses, counts, and responses of mixed types. The structural model is similar to the structural part of a SEM except that it may include latent and observed variables varying at different levels. For example, unit-level latent variables (factors or random coefficients) can be regressed on cluster-level latent variables. Special cases of this framework are explored and data from the British Social Attitudes Survey are used for illustration. Maximum likelihood estimation and empirical Bayes latent score prediction within the GLLAMM framework can be performed using adaptive quadra- ture in gllamm, a freely available program running in Stata.},
number = {2},
pages = {167--190},
volume = {69},
year = {2004},
date-added = {2010-03-06 19:51:58 +0100},
date-modified = {2010-03-06 19:52:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2004-Psychometrika_GENERALIZED%20MULTILEV-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7014},
rating = {0}
}
@article{Xu:2007p4216,
author = {Xiaohui Xu and Keeley Brookes and Chih-Ken Chen and Yu-Shu Huang and Yu-Yu Wu and Philip Asherson},
journal = {BMC Psychiatry},
title = {Association study between the monoamine oxidase A gene and attention deficit hyperactivity disorder in Taiwanese samples},
abstract = {BACKGROUND: Attention deficit hyperactivity disorder (ADHD) is a common and highly heritable disorder of childhood characterized by inattention, hyperactivity and impulsivity. Molecular genetic and pharmacological studies suggest the involvement of the dopaminergic, serotonergic and noradrenergic neurotransmitter systems in the pathogenesis of ADHD. Monoamine oxidase A (MAO-A) encodes an enzyme that degrades biogenic amines, including neurotransmitters such as norepinephrine, dopamine and serotonin. In this study we examined a 30 bp promoter variable number tandem repeat (VNTR) and a functional G/T single nucleotide polymorphism (SNP) at position 941 in exon 8 (941G/T) of MAO-A for association with ADHD in a Taiwanese sample of 212 ADHD probands. METHODS: Within-family transmission disequilibrium test (TDT) was used to analyse association of MAO-A polymorphisms with ADHD in a Taiwanese population. RESULTS: A nominally significant association was found between the G-allele of 941G/T in MAO-A and ADHD (TDT: P = 0.034. OR = 1.57). Haplotype analysis identified increased transmission of a haplotype consisting of the 3-repeat allele of the promoter VNTR and the G-allele of the 941G/T SNP (P = 0.045) to ADHD cases which the strong association with the G-allele drove. CONCLUSION: These findings suggest the importance of the 941G/T MAO-A polymorphism in the development of ADHD in the Taiwanese population. These results replicate previously published findings in a Caucasian sample.},
affiliation = {MRC Social, Genetic and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, London, UK. x.xu@iop.kcl.ac.uk},
pages = {10},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Monoamine Oxidase, Polymorphism: Single Nucleotide, Male, Tandem Repeat Sequences, Child: Preschool, Female, Promoter Regions: Genetic, Attention Deficit Disorder with Hyperactivity, Humans, Taiwan, Adolescent, Child},
date-added = {2010-01-21 08:01:59 +0100},
date-modified = {2010-01-21 08:02:00 +0100},
doi = {10.1186/1471-244X-7-10},
pii = {1471-244X-7-10},
pmid = {17328795},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4216},
rating = {0}
}
@article{Reitz:2009p5753,
author = {C Reitz and R Mayeux},
journal = {Neuroscience},
title = {Endophenotypes in normal brain morphology and Alzheimer's disease: a review},
abstract = {Late-onset Alzheimer's disease is a common complex disorder of old age. Though these types of disorders can be highly heritable, they differ from single-gene (Mendelian) diseases in that their causes are often multifactorial with both genetic and environmental components. Genetic risk factors that have been firmly implicated in the cause are mutations in the amyloid precursor protein (APP), presenilin 1 (PSEN1) and presenilin 2 (PSEN2) genes, which are found in large multi-generational families with an autosomal dominant pattern of disease inheritance, the apolipoprotein E (APOE)epsilon4 allele and the sortilin-related receptor (SORL1) gene. Environmental factors that have been associated with late-onset Alzheimer's disease include depressive illness, various vascular risk factors, level of education, head trauma and estrogen replacement therapy. This complexity may help explain their high prevalence from an evolutionary perspective, but the etiologic complexity makes identification of disease-related genes much more difficult. The "endophenotype" approach is an alternative method for measuring phenotypic variation that may facilitate the identification of susceptibility genes for complexly inherited traits. The usefulness of endophenotypes in genetic analyses of normal brain morphology and, in particular for Alzheimer's disease will be reviewed as will the implications of these findings for models of disease causation. Given that the pathways from genotypes to end-stage phenotypes are circuitous at best, identifying endophenotypes more proximal to the effects of genetic variation may expedite the attempts to link genetic variants to disorders.},
affiliation = {Taub Institute for Research on Alzheimer's Disease and the Aging Brain, College of Physicians and Surgeons, Columbia University, New York, NY, USA.},
number = {1},
pages = {174--90},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Apolipoproteins E, Animals, Humans, Age of Onset, LDL-Receptor Related Proteins, Phenotype, Alzheimer Disease, Membrane Transport Proteins, Brain, Dementia, Cognition Disorders},
date-added = {2010-02-15 20:29:00 +0100},
date-modified = {2010-02-15 20:29:00 +0100},
doi = {10.1016/j.neuroscience.2009.04.006},
pii = {S0306-4522(09)00584-3},
pmid = {19362127},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5753},
rating = {0}
}
@article{Fried:2006p3305,
author = {C Fried and P F Stadler and P Ahnert},
title = {Genome-Wide Analysis of Single Nucleotide Polymorphisms in and near Genes and Evolutionary Conserved DNA},
abstract = {Variation databases promise to enable the assessment of recent selec- tion pressure on genomic sequence elements. Evidence of recent selection would suggest recent functional relevance of elements potentially impor- tant for understanding the organization of the human genome and result- ing complex phenotypes and diseases. In contrast, comparative sequence analysis can be employed to focus on those regions that have have been under long-term stabilizing selection. Previously observed biases in vari- ation databases appear to have been reduced to the point that their data can now be used to for investigate the relationships of long-term sequence preservation and recent selective pressures.
In a genome-wide study, we identified phylogenetic footprints (PFs) in the vicinity of human genes. In agreement with the distribution of known regulatory sites, the density of these PFs was highest within two thousand base pairs upstream and downstream of genes. Stabilizing selection acting on these PFs was most strongly indicated by significantly reduced single nucleotide polymorphism (SNP) density. Weak correlation between SNP densities of PFs and coding sequences suggests that gene regulation and function often evolve independently. Decreasing diversity in human genes with increasing time of conservation suggests that most old genes have not ceased to be functionally important today. On average, intergenic sequences are under the least selection pressure in the vicinity of genes and may serve as a preferred model for estimating neutral evolution. Intriguingly, we observed increased SNP densities in coding sequences and introns as compared to non-coding sequences of genes conserved only among primates. These genes appear to be mainly involved in the reg- ulation of gene expression and raise the question about mechanisms for adaptive evolution and their role in primate development.},
affiliation = {Bioinformatics Group, Department of Computer Science, University of Leipzig,
Ha ̈rtelstr. 16-18, D-04107 Leipzig, Germany},
year = {2006},
date-added = {2010-01-15 12:05:34 +0100},
date-modified = {2010-01-15 12:06:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fried-2006-_Genome-Wide%20Analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3305},
rating = {0}
}
@article{Zuo:2006p3910,
author = {Yijun Zuo and Guohua Zou and Hongyu Zhao},
journal = {Genetics},
title = {Two-stage designs in case-control association analysis},
abstract = {DNA pooling is a cost-effective approach for collecting information on marker allele frequency in genetic studies. It is often suggested as a screening tool to identify a subset of candidate markers from a very large number of markers to be followed up by more accurate and informative individual genotyping. In this article, we investigate several statistical properties and design issues related to this two-stage design, including the selection of the candidate markers for second-stage analysis, statistical power of this design, and the probability that truly disease-associated markers are ranked among the top after second-stage analysis. We have derived analytical results on the proportion of markers to be selected for second-stage analysis. For example, to detect disease-associated markers with an allele frequency difference of 0.05 between the cases and controls through an initial sample of 1000 cases and 1000 controls, our results suggest that when the measurement errors are small (0.005), approximately 3% of the markers should be selected. For the statistical power to identify disease-associated markers, we find that the measurement errors associated with DNA pooling have little effect on its power. This is in contrast to the one-stage pooling scheme where measurement errors may have large effect on statistical power. As for the probability that the disease-associated markers are ranked among the top in the second stage, we show that there is a high probability that at least one disease-associated marker is ranked among the top when the allele frequency differences between the cases and controls are not <0.05 for reasonably large sample sizes, even though the errors associated with DNA pooling in the first stage are not small. Therefore, the two-stage design with DNA pooling as a screening tool offers an efficient strategy in genomewide association studies, even when the measurement errors associated with DNA pooling are nonnegligible. For any disease model, we find that all the statistical results essentially depend on the population allele frequency and the allele frequency differences between the cases and controls at the disease-associated markers. The general conclusions hold whether the second stage uses an entirely independent sample or includes both the samples used in the first stage and an independent set of samples.},
affiliation = {Department of Statistics and Probability, Michigan State University, Michigan 48824, USA.},
number = {3},
pages = {1747--60},
volume = {173},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Genetic Markers, Gene Pool, Algorithms, Case-Control Studies, Humans, Models: Genetic, Gene Frequency, DNA, Data Interpretation: Statistical},
date-added = {2010-01-16 21:04:56 +0100},
date-modified = {2010-01-16 21:04:57 +0100},
doi = {10.1534/genetics.105.042648},
pii = {genetics.105.042648},
pmid = {16624925},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3910},
rating = {0}
}
@article{Zhu:2008p1661,
author = {J Zhu and T Cayton and L Weiss and A Gabel},
title = {WISC--IV Extended Norms},
year = {2008},
date-added = {2010-01-08 21:55:04 +0100},
date-modified = {2010-01-08 21:55:43 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhu-2008-_WISC%E2%80%93IV%20Extended%20Nor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1661},
rating = {0}
}
@article{Glas:2003b,
author = {C A W Glas and W J van der Linden},
journal = {Applied Psychological Measurement},
title = {Computerized adaptive testing with item cloning},
pages = {249--263},
volume = {27},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2003-Applied%20Psychological%20Measurement_Computerized%20adaptiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1863},
rating = {0}
}
@article{Zech:1999p14058,
author = {Emmanuelle Zech and Olivier Luminet and Bernard Rim{\'e} and Hugh Wagner},
journal = {European Journal of Personality},
title = {Alexithymia and its Measurement: Confirmatory Factor Analyses of the Twenty-Item Toronto Alexithymia Scale and the Bermond-Vorst Alexithymia Questionnaire},
abstract = {Alexithymia refers to the difficulties an individual has in experiencing and expressing feelings. The twenty-item Toronto Alexithymia Scale (TAS-20) and the Bermond-Vorst Alexithymia Questionnaire (BVAQ) with two parallel versions of 20 items have been constructed to measure it. The present study compared the psychometric properties of these two self-report questionnaires in English (N = 290) and French (N = 322) language versions. Confirmatory factor analysis was used to examine the fit between the hypothesised factors and the data. Results revealed a better fit to the data for the second version of the BVAQ (BVAQ-20 B) for both language versions as compared to the TAS-20, the whole BVAQ, or the first version of the BVAQ (BVAQ-20 A). Additionally, the factor comparison of both language versions indicated that only the factorial structure of the BVAQ-20 B was replicable across languages. Concurrent validity of the questionnaires is discussed.},
pages = {511--532},
volume = {13},
year = {1999},
date-added = {2010-08-18 10:06:15 +0200},
date-modified = {2010-08-18 10:07:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zech-1999-European%20Journal%20of%20Personality_Alexithymia%20and%20its.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14058},
rating = {0}
}
@article{Tugwell:2010p7371,
author = {Peter Tugwell and J Andre Knottnerus},
journal = {Journal of Clinical Epidemiology},
title = {Advantages of individual patient data analysis in systematic reviews},
number = {3},
pages = {233--4},
volume = {63},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-10 20:34:24 +0100},
date-modified = {2010-03-10 20:34:24 +0100},
doi = {10.1016/j.jclinepi.2009.12.005},
pii = {S0895-4356(09)00390-4},
pmid = {20152706},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tugwell-2010-Journal%20of%20Clinical%20Epidemiology_Advantages%20of%20indivi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7371},
rating = {0}
}
@article{Keller:2008p5529,
author = {Mark P Keller and YounJeong Choi and Ping Wang and Dawn Belt Davis and Mary E Rabaglia and Angie T Oler and Donald S Stapleton and Carmen Argmann and Kathy L Schueler and Steve Edwards and H Adam Steinberg and Elias Chaibub Neto and Robert Kleinhanz and Scott Turner and Marc K Hellerstein and Eric E Schadt and Brian S Yandell and Christina Kendziorski and Alan D Attie},
journal = {Genome Res},
title = {A gene expression network model of type 2 diabetes links cell cycle regulation in islets with diabetes susceptibility},
abstract = {Insulin resistance is necessary but not sufficient for the development of type 2 diabetes. Diabetes results when pancreatic beta-cells fail to compensate for insulin resistance by increasing insulin production through an expansion of beta-cell mass or increased insulin secretion. Communication between insulin target tissues and beta-cells may initiate this compensatory response. Correlated changes in gene expression between tissues can provide evidence for such intercellular communication. We profiled gene expression in six tissues of mice from an obesity-induced diabetes-resistant and a diabetes-susceptible strain before and after the onset of diabetes. We studied the correlation structure of mRNA abundance and identified 105 co-expression gene modules. We provide an interactive gene network model showing the correlation structure between the expression modules within and among the six tissues. This resource also provides a searchable database of gene expression profiles for all genes in six tissues in lean and obese diabetes-resistant and diabetes-susceptible mice, at 4 and 10 wk of age. A cell cycle regulatory module in islets predicts diabetes susceptibility. The module predicts islet replication; we found a strong correlation between (2)H(2)O incorporation into islet DNA in vivo and the expression pattern of the cell cycle module. This pattern is highly correlated with that of several individual genes in insulin target tissues, including Igf2, which has been shown to promote beta-cell proliferation, suggesting that these genes may provide a link between insulin resistance and beta-cell proliferation.},
affiliation = {Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53076, USA.},
number = {5},
pages = {706--16},
volume = {18},
year = {2008},
month = {May},
language = {eng},
keywords = {Glucose, Genetic Predisposition to Disease, Male, Islets of Langerhans, Insulin, Obesity, Mice, Adipose Tissue, Aging, Cell Proliferation, Transcription: Genetic, Models: Genetic, Cell Cycle, Diabetes Mellitus: Type 2, RNA: Messenger, Gene Expression Regulation, Animals, Insulin-Secreting Cells},
date-added = {2010-02-12 15:29:01 +0100},
date-modified = {2010-02-12 15:29:01 +0100},
doi = {10.1101/gr.074914.107},
pii = {gr.074914.107},
pmid = {18347327},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keller-2008-Genome%20Res_A%20gene%20expression%20ne.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5529},
rating = {0}
}
@article{Faul:2007p4293,
author = {F Faul and E Erdfelder and A G Lang and A Buchner},
journal = {Behavior research methods},
title = {G*Power 3: A flexible statistical power analysis program for the social, behavioral, and biomedical sciences},
abstract = {G*Power (Erdfelder, Faul, {\&} Buchner, 1996) was designed as a general stand-alone power analysis program for statistical tests commonly used in social and behavioral research. G*Power 3 is a major extension of, and improvement over, the previous versions. It runs on widely used computer platforms (i.e., Windows XP, Win- dows Vista, and Mac OS X 10.4) and covers many different statistical tests of the t, F, and ␣2 test families. In addition, it includes power analyses for z tests and some exact tests. G*Power 3 provides improved effect size calculators and graphic options, supports both distribution-based and design-based input modes, and offers all types of power analyses in which users might be interested. Like its predecessors, G*Power 3 is free.},
number = {2},
pages = {175--191},
volume = {39},
year = {2007},
date-added = {2010-01-26 09:25:15 +0100},
date-modified = {2010-07-29 19:18:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Faul-2007-Behavior%20research%20methods_G*Power%203%20A%20flexibl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4293},
read = {Yes},
rating = {0}
}
@article{DeBoeck:2008p5952,
author = {Paul De Boeck},
journal = {Psychometrika},
title = {Random item IRT models},
abstract = {It is common practice in IRT to consider items as fixed and persons as random. Both, continuous and categorical person parameters are most often random variables, whereas for items only continuous parameters are used and they are commonly of the fixed type, although exceptions occur. It is shown in the present article that random item parameters make sense theoretically, and that in practice the random item approach is promising to handle several issues, such as the measurement of persons, the explanation of item difficulties, and trouble shooting with respect to DIF. In correspondence with these issues, three parts are included. All three rely on the Rasch model as the simplest model to study, and the same data set is used for all applications. First, it is shown that the Rasch model with fixed persons and random items is an interesting measurement model, both, in theory, and for its goodness of fit. Second, the linear logistic test model with an error term is introduced, so that the explanation of the item difficulties based on the item properties does not need to be perfect. Finally, two more models are presented: the random item profile model (RIP) and the random item mixture model (RIM). In the RIP, DIF is not considered a discrete phenomenon, and when a robust regression approach based on the RIP difficulties is applied, quite good DIF identification results are obtained. In the RIM, no prior anchor sets are defined, but instead a latent DIF class of items is used, so that posterior anchoring is realized (anchoring based on the item mixture). It is shown that both approaches are promising for the identification of DIF.},
number = {4},
pages = {533--559},
volume = {73},
year = {2008},
date-added = {2010-02-18 23:22:25 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20Boeck-2008-Psychometrika_Random%20item%20IRT%20mode-2.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5952},
rating = {5}
}
@article{Ng:2007p3507,
author = {Lydia Ng and Sayan D Pathak and Chihchau Kuan and Chris Lau and Hongwei Dong and Andrew Sodt and Chinh Dang and Brian Avants and Paul Yushkevich and James C Gee and David Haynor and Ed Lein and Allan Jones and Mike Hawrylycz},
journal = {IEEE/ACM Trans Comput Biol Bioinform},
title = {Neuroinformatics for genome-wide 3D gene expression mapping in the mouse brain},
abstract = {Large scale gene expression studies in the mammalian brain offer the promise of understanding the topology, networks and ultimately the function of its complex anatomy, opening previously unexplored avenues in neuroscience. High-throughput methods permit genome-wide searches to discover genes that are uniquely expressed in brain circuits and regions that control behavior. Previous gene expression mapping studies in model organisms have employed situ hybridization (ISH), a technique that uses labeled nucleic acid probes to bind to specific mRNA transcripts in tissue sections. A key requirement for this effort is the development of fast and robust algorithms for anatomically mapping and quantifying gene expression for ISH. We describe a neuroinformatics pipeline for automatically mapping expression profiles of ISH data and its use to produce the first genomic scale 3-D mapping of gene expression in a mammalian brain. The pipeline is fully automated and adaptable to other organisms and tissues. Our automated study of over 20,000 genes indicates that at least 78.8 percent are expressed at some level in the adult C56BL/6J mouse brain. In addition to providing a platform for genomic scale search, high-resolution images and visualization tools for expression analysis are available at the Allen Brain Atlas web site (http://www.brain-map.org).},
affiliation = {Allen Institute for Brain Science, Seattle, WA 98103, USA. lydian@alleninstitute.org},
number = {3},
pages = {382--93},
volume = {4},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Brain, Nerve Tissue Proteins, Gene Expression Profiling, Neurosciences, Animals, Imaging: Three-Dimensional, Chromosome Mapping, Computational Biology, Microscopy: Fluorescence, Male, Mice, Mice: Inbred C57BL, Algorithms, In Situ Hybridization: Fluorescence},
date-added = {2010-01-15 15:45:37 +0100},
date-modified = {2010-01-15 15:45:37 +0100},
doi = {10.1109/tcbb.2007.1035},
pmid = {17666758},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3507},
rating = {0}
}
@article{Lercher:2003p9576,
author = {P Lercher},
journal = {Landscape and Urban Planning},
title = {Which health outcomes should be measured in health related environmental quality of life studies?},
abstract = {Although both research fields share the term quality of life (QOL), the research on environmental quality of life (EQOL) and health related quality of life (HRQOL) has been completely separated from each other and use the term in a different way. Thus, the choice of instruments used in HRQOL may not easily fit in a project that requires the integration of instruments targeting a common construct of QOL.
Necessarily, the conceptual basis of the available instruments has to be evaluated beforehand. This paper discusses the problems surrounding conceptual issues in the selection and use of indicators to measure QOL in environmental and health related studies. Possible means to resolve these conceptual difficulties are outlined. The QOL models of Sen and Lindstr{\"o}m are identified as possible sources for that purpose. The conceptual basis of the SF-36 and the WHOQOL are described and checked for their suitability. One practical example of both integrated use of model and instruments in environmental health is presented. Finally, some minimal content requirements are derived. Instruments should cover: main domains and facets of health, contain a broad range of health expressions including positive health, be sensitive enough for the research question and indicators measured subjectively and objectively.},
pages = {63--72},
volume = {65},
year = {2003},
date-added = {2010-03-23 20:56:10 +0100},
date-modified = {2010-03-23 20:57:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lercher-2003-Landscape%20and%20Urban%20Planning_Which%20health%20outcome.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9576},
rating = {0}
}
@article{Harris:2009p10036,
author = {Laura W Harris and Helen E Lockstone and Phillipp Khaitovich and Cynthia Shannon Weickert and Maree J Webster and Sabine Bahn},
journal = {BMC medical genomics},
title = {Gene expression in the prefrontal cortex during adolescence: implications for the onset of schizophrenia},
abstract = {BACKGROUND: Many critical maturational processes take place in the human brain during postnatal development. In particular, the prefrontal cortex does not reach maturation until late adolescence and this stage is associated with substantial white matter volume increases. Patients with schizophrenia and other major psychiatric disorders tend to first present with overt symptoms during late adolescence/early adulthood and it has been proposed that this developmental stage represents a "window of vulnerability". METHODS: In this study we used whole genome microarrays to measure gene expression in post mortem prefrontal cortex tissue from human individuals ranging in age from 0 to 49 years. To identify genes specifically altered in the late adolescent period, we applied a template matching procedure. Genes were identified which showed a significant correlation to a template showing a peak of expression between ages 15 and 25. RESULTS: Approximately 2000 genes displayed an expression pattern that was significantly correlated (positively or negatively) with the template. In the majority of cases, these genes in fact reached a plateau during adolescence with only subtle changes thereafter. These include a number of genes previously associated with schizophrenia including the susceptibility gene neuregulin 1 (NRG1). Functional profiling revealed peak expression in late adolescence for genes associated with energy metabolism and protein and lipid synthesis, together with decreases for genes involved in glutamate and neuropeptide signalling and neuronal development/plasticity. Strikingly, eight myelin-related genes previously found decreased in schizophrenia brain tissue showed a peak in their expression levels in late adolescence, while the single myelin gene reported increased in patients with schizophrenia was decreased in late adolescence. CONCLUSION: The observed changes imply that molecular mechanisms critical for adolescent brain development are disturbed in schizophrenia patients.},
affiliation = {Institute of Biotechnology, University of Cambridge, Cambridge, UK. ljwh2@cam.ac.uk},
pages = {28},
volume = {2},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-31 20:05:44 +0200},
date-modified = {2010-03-31 20:05:44 +0200},
doi = {10.1186/1755-8794-2-28},
pii = {1755-8794-2-28},
pmid = {19457239},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harris-2009-BMC%20medical%20genomics_Gene%20expression%20in%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10036},
rating = {0}
}
@article{Cohen:2007p1520,
author = {Y Cohen and N Gafni and P Hanani},
title = {Translating and Adapting a Test, yet another Source of Variance; the Standard Error of Translation},
affiliation = {National Institute for Testing {\&} Evaluation (NITE), Jerusalem, Israel},
year = {2007},
date-added = {2010-01-07 15:49:36 +0100},
date-modified = {2010-01-07 15:50:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-2007-_Translating%20and%20Adap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1520},
rating = {0}
}
@article{Bouchard:2004p11475,
author = {T J Bouchard},
journal = {Current Directions in Psychological Science},
title = {Genetic Influence on Human
Psychological Traits. A survey},
abstract = {There is now a large body of evidence that supports the conclusion that individual differences in most, if not all, reliably measured psychological traits, normal and abnormal, are substantively influenced by genetic factors. This fact has important implications for research and theory building in psychology, as evidence of genetic influence unleashes a cascade of questions regarding the sources of variance in such traits. A brief list of those questions is provided, and representative findings regarding genetic and environmental influences are presented for the domains of personality, intelligence, psycho- logical interests, psychiatric illnesses, and social attitudes. These findings are consistent with those reported for the traits of other species and for many human physical traits, suggesting that they may represent a general biological phenomenon.},
number = {4},
pages = {148--151},
volume = {13},
year = {2004},
date-added = {2010-05-01 17:25:00 +0200},
date-modified = {2010-07-29 19:24:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bouchard-2004-Current%20Directions%20in%20Psychological%20Science_Genetic%20Influence%20on-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11475},
rating = {0}
}
@article{Cawley:2006p2304,
author = {G C Cawley and N L C Talbot and M Girolami},
journal = {NIPS},
title = {Sparse Multinomial Logistic Regression via Bayesian L1 Regularisation},
abstract = {Multinomial logistic regression provides the standard penalised maximum- likelihood solution to multi-class pattern recognition problems. More recently, the development of sparse multinomial logistic regression models has found ap- plication in text processing and microarray classification, where explicit identifi- cation of the most informative features is of value. In this paper, we propose a sparse multinomial logistic regression method, in which the sparsity arises from the use of a Laplace prior, but where the usual regularisation parameter is inte- grated out analytically. Evaluation over a range of benchmark datasets reveals this approach results in similar generalisation performance to that obtained using cross-validation, but at greatly reduced computational expense.},
year = {2006},
date-added = {2010-01-10 12:17:37 +0100},
date-modified = {2010-01-10 12:18:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cawley-2006-NIPS_Sparse%20Multinomial%20L.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2304},
rating = {0}
}
@article{Schaid:1998p1409,
author = {D J Schaid and C Rowland},
journal = {Am J Hum Genet},
title = {Use of parents, sibs, and unrelated controls for detection of associations between genetic markers and disease},
abstract = {Detecting the association between genetic markers and complex diseases can be a critical first step toward identification of the genetic basis of disease. Misleading associations can be avoided by choosing as controls the parents of diseased cases, but the availability of parents often limits this design to early-onset disease. Alternatively, sib controls offer a valid design. A general multivariate score statistic is presented, to detect the association between a multiallelic genetic marker locus and affection status; this general approach is applicable to designs that use parents as controls, sibs as controls, or even unrelated controls whose genotypes do not fit Hardy-Weinberg proportions or that pool any combination of these different designs. The benefit of this multivariate score statistic is that it will tend to be the most powerful method when multiple marker alleles are associated with affection status. To plan these types of studies, we present methods to compute sample size and power, allowing for varying sibship sizes, ascertainment criteria, and genetic models of risk. The results indicate that sib controls have less power than parental controls and that the power of sib controls can be increased by increasing either the number of affected sibs per sibship or the number of unaffected control sibs. The sample-size results indicate that the use of sib controls to test for associations, by use of either a single-marker locus or a genomewide screen, will be feasible for markers that have a dominant effect and for common alleles having a recessive effect. The results presented will be useful for investigators planning studies using sibs as controls.},
affiliation = {Departments of Health Sciences Research and Medical Genetics, Mayo Clinic/Mayo Foundation, Rochester, MN 55905, USA. schaid@mayo.edu},
number = {5},
pages = {1492--506},
volume = {63},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Gene Frequency, Models: Genetic, Nuclear Family, Male, Parents, Models: Statistical, Genotype, Humans, Genetic Markers, Female, Genetic Diseases: Inborn},
date-added = {2010-01-07 12:18:35 +0100},
date-modified = {2010-07-29 19:13:31 +0200},
doi = {10.1086/302094},
pii = {S0002-9297(07)61581-X},
pmid = {9792877},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1409},
rating = {0}
}
@article{Chang:2007p6382,
author = {Chih-Hung Chang and Benjamin D Wright and David Cella and Ron D Hays},
journal = {Journal of Clinical Epidemiology},
title = {The SF-36 physical and mental health factors were confirmed in cancer and HIV/AIDS patients},
abstract = {BACKGROUND AND OBJECTIVE: This study assesses the extent to which the RAND-36/SF-36 items measure physical and mental health (PH and MH), as implied by existing summary scoring systems. METHODS: A total of 1,714 heterogeneous cancer and HIV/AIDS patients were recruited from five institutions. Of these, 56% were women; 81% Caucasians; and about 10% were from each of the major cancer types and HIV/AIDS. RESULTS: Analyses of the SF-36 confirmed the two dimensions of health namely physical and mental. However, item fit statistics and residual factor analysis revealed that some items intended to represent the PH dimension fit better with the MH dimension. CONCLUSION: This paper demonstrated the value of Rasch residual factor analysis for understanding and enhancing interpretation of health.},
affiliation = {Buehler Center on Aging, Institute for Healthcare Studies, Division of General Internal Medicine, and Department of Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA. chchang@northwestern.edu},
number = {1},
pages = {68--72},
volume = {60},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Adult, Attitude to Health, Humans, Factor Analysis: Statistical, Aged, Quality of Life, HIV Infections, Psychometrics, Mental Health, Female, Health Status Indicators, Male, Activities of Daily Living, Neoplasms, Middle Aged},
date-added = {2010-02-23 08:23:09 +0100},
date-modified = {2010-02-23 08:23:13 +0100},
doi = {10.1016/j.jclinepi.2006.07.001},
pii = {S0895-4356(06)00262-9},
pmid = {17161756},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chang-2007-Journal%20of%20Clinical%20Epidemiology_The%20SF-36%20physical%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6382},
rating = {4}
}
@article{Krzanowski:2006,
author = {W J Krzanowski},
journal = {Biometrics},
title = {Sensitivity in metric scaling and analysis of distance},
pages = {239--244},
volume = {62},
year = {2006},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Krzanowski-2006-Biometrics_Sensitivity%20in%20metri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2057},
rating = {0}
}
@article{Lecoutre:2005p11762,
author = {B Lecoutre},
journal = {Modulad},
title = {Et si vous {\'e}tiez un bay{\'e}sien qui s'ignore?},
number = {32},
pages = {92--105},
year = {2005},
date-added = {2010-05-23 10:09:59 +0200},
date-modified = {2010-07-29 19:40:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lecoutre-2005-Modulad_Et%20si%20vous%20%C3%A9tiez%20un.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11762},
rating = {0}
}
@article{vanderLaan:2006p4682,
author = {Mark J van der Laan and Alan E Hubbard},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Quantile-function based null distribution in resampling based multiple testing},
abstract = {Simultaneously testing a collection of null hypotheses about a data generating distribution based on a sample of independent and identically distributed observations is a fundamental and important statistical problem involving many applications. Methods based on marginal null distributions (i.e., marginal p-values) are attractive since the marginal p-values can be based on a user supplied choice of marginal null distributions and they are computationally trivial, but they, by necessity, are known to either be conservative or to rely on assumptions about the dependence structure between the test-statistics. Re-sampling based multiple testing (Westfall and Young, 1993) involves sampling from a joint null distribution of the test-statistics, and controlling (possibly in a, for example, step-down fashion) the user supplied type-I error rate under this joint null distribution for the test-statistics. A generally asymptotically valid null distribution avoiding the need for the subset pivotality condition for the vector of test-statistics was proposed in Pollard, van der Laan (2003) for null hypotheses about general real valued parameters. This null distribution was generalized in Dudoit, vanderLaan, Pollard (2004) to general null hypotheses and test-statistics. In ongoing recent work van der Laan, Hubbard (2005), we propose a new generally asymptotically valid null distribution for the test-statistics and a corresponding bootstrap estimate, whose marginal distributions are user supplied, and can thus be set equal to the (most powerful) marginal null distributions one would use in univariate testing to obtain a p-value. Previous proposed null distributions either relied on a restrictive subset pivotality condition (Westfall and Young) or did not guarantee this latter property (Dudoit, vanderLaan, Pollard, 2004). It is argued and illustrated that the resulting new re-sampling based multiple testing methods provide more accurate control of the wished Type-I error in finite samples and are more powerful. We establish formal results and investigate the practical performance of this methodology in a simulation and data analysis.},
affiliation = {Division of Biostatistics, School of Public Health, University of California, Berkeley, CA, USA. laan@stat.berkeley.edu},
pages = {Article14},
volume = {5},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Epidemiologic Research Design, Computer Simulation, Sampling Studies, Statistical Distributions, Probability, Chi-Square Distribution, Selection Bias, Data Interpretation: Statistical, Models: Statistical, Genomics, Proteomics},
date-added = {2010-01-30 16:12:43 +0100},
date-modified = {2010-01-30 16:12:53 +0100},
doi = {10.2202/1544-6115.1199},
pmid = {17049025},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4682},
rating = {4}
}
@article{Murray:2010p4607,
author = {C J L Murray and A Tandon and J A Salomon and C D Mathers and R Sadana},
title = {New approaches to enhance cross-population comparability of survey results},
date-added = {2010-01-29 22:56:22 +0100},
date-modified = {2010-01-29 22:57:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Murray--_New%20approaches%20to%20en.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4607},
rating = {0}
}
@article{Robinson:2008p5887,
author = {Peter N Robinson and Sebastian K{\"o}hler and Sebastian Bauer and Dominik Seelow and Denise Horn and Stefan Mundlos},
journal = {Am J Hum Genet},
title = {The Human Phenotype Ontology: a tool for annotating and analyzing human hereditary disease},
abstract = {There are many thousands of hereditary diseases in humans, each of which has a specific combination of phenotypic features, but computational analysis of phenotypic data has been hampered by lack of adequate computational data structures. Therefore, we have developed a Human Phenotype Ontology (HPO) with over 8000 terms representing individual phenotypic anomalies and have annotated all clinical entries in Online Mendelian Inheritance in Man with the terms of the HPO. We show that the HPO is able to capture phenotypic similarities between diseases in a useful and highly significant fashion.},
affiliation = {Institute for Medical Genetics, Charit{\'e}-Universit{\"a}tsmedizin Berlin, 13353 Berlin, Germany. peter.robinson@charite.de},
number = {5},
pages = {610--5},
volume = {83},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Software, Humans, Databases: Genetic, Computational Biology, Genetic Diseases: Inborn, Phenotype},
date-added = {2010-02-17 15:25:05 +0100},
date-modified = {2010-02-17 15:25:05 +0100},
doi = {10.1016/j.ajhg.2008.09.017},
pii = {S0002-9297(08)00535-1},
pmid = {18950739},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robinson-2008-Am%20J%20Hum%20Genet_The%20Human%20Phenotype.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5887},
rating = {0}
}
@article{Baiocchi:2004p4644,
author = {G Baiocchi},
journal = {Journal of Statistical Software},
title = {Using Perl for Statistics: Data Processing and Statistical Computing},
abstract = {In this paper we show how Perl, an expressive and extensible high-level programming language, with network and object-oriented programming support, can be used in process- ing data for statistics and statistical computing. The paper is organized in two parts. In Part I, we introduce the Perl programming language, with particular emphasis on the fea- tures that distinguish it from conventional languages. Then, using practical examples, we demonstrate how Perl's distinguishing features make it particularly well suited to perform labor intensive and sophisticated tasks ranging from the preparation of data to the writing of statistical reports. In Part II we show how Perl can be extended to perform statistical computations using modules and by ``embedding'' specialized statistical applications. We provide example on how Perl can be used to do simple statistical analyses, perform com- plex statistical computations involving matrix algebra and numerical optimization, and make statistical computations more easily reproducible. We also investigate the numerical and statistical reliability of various Perl statistical modules. Important computing issues such as ease of use, speed of calculation, and efficient memory usage, are also considered.},
number = {1},
volume = {11},
year = {2004},
date-added = {2010-01-30 15:55:03 +0100},
date-modified = {2010-01-30 15:55:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baiocchi-2004-Journal%20of%20Statistical%20Software_Using%20Perl%20for%20Stati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4644},
rating = {0}
}
@article{Herold:2009p377,
author = {Christine Herold and Tim Becker},
journal = {Bioinformatics},
title = {Genetic association analysis with FAMHAP: a major program update},
abstract = {FAMHAP is an established software for haplotype association analysis of nuclear families. We have released a major update that comprises various new features for case-control data. Furthermore, weprovide an additional program runFamhap that allows users to start the same method repeatedly for varying sets of genetic markers. In addition, a platform-independent graphical user interface (GUI) was developed to simplify the usage of both FAMHAP and runFamhap. The runFamhap program greatly facilitates the application of FAMHAP to genome-wide association studies (GWAS) and supports flexible genome-wide haplotype analysis. As an example, we describe application to HapMap data. AVAILABILITY: The software is available at http://famhap.meb.uni-bonn.de},
affiliation = {Institute for Medical Biometry, Informatics and Epidemiology, University of Bonn, Sigmund-Freud-Str. 25, D-53105 Bonn, Germany. herold@imbie.meb.uni-bonn.de},
number = {1},
pages = {134--6},
volume = {25},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Software, Humans, Computational Biology, Haplotypes, Genome-Wide Association Study},
date-added = {2010-01-03 11:49:04 +0100},
date-modified = {2010-01-03 11:49:04 +0100},
doi = {10.1093/bioinformatics/btn581},
pii = {btn581},
pmid = {19015131},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Herold-2009-Bioinformatics_Genetic%20association.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p377},
rating = {0}
}
@article{Myaskovsky:2006p13148,
author = {L Myaskovsky and M A Dew and M L McNulty and G E Switzer and A F DiMartini and R L Kormos and K R McCurry},
journal = {Am J Transplant},
title = {Trajectories of change in quality of life in 12-month survivors of lung or heart transplant},
abstract = {Survival and functional outcomes for lung transplant recipients continue to lag behind those for heart recipients. Whether these poorer physical outcomes translate into poorer quality of life (QOL) for lung recipients relative to heart recipients is unknown. Lung versus heart transplant recipients' perceptions of QOL were longitudinally compared at three time-points across the first year posttransplant. Additionally, potentially important predictors of patient QOL were examined. Adult transplant recipients (N = 199) participated in semi-structured interviews that included measures of QOL, optimism, mastery, social support, religiosity and coping. Temporal patterns of QOL change were compared between lung and heart recipients who survived until 1 year posttransplant using mixed-model, hierarchical analysis of variance (ANOVA). Demographic and psychosocial predictors were examined with multiple regression analysis to identify the unique effects of each variable on QOL 1 year posttransplant. While heart recipients' QOL across several domains was higher shortly after transplant, lung patients' QOL improved and was equivalent to that of heart recipients by 1 year posttransplant. Greater optimism and support from friends predicted better QOL in physical, psychological and social domains. Conversely, avoidant coping strategies predicted poorer physical functioning. Thus, while clinical interventions designed to improve QOL posttransplant should be tailored to transplant recipients' initial psychosocial assets and liabilities, they need not be distinguished by transplant type.},
affiliation = {V.A. Center for Health Equity Research and Promotion, University of Pittsburgh, Pennsylvania, USA. myaskovskyl@upmc.edu},
number = {8},
pages = {1939--47},
volume = {6},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Follow-Up Studies, Male, Heart Transplantation, Time Factors, Health, Treatment Outcome, Graft Survival, Female, Middle Aged, Quality of Life, Humans, Questionnaires, Lung Transplantation},
date-added = {2010-06-26 11:07:27 +0200},
date-modified = {2010-06-26 11:07:28 +0200},
doi = {10.1111/j.1600-6143.2006.01395.x},
pii = {AJT1395},
pmid = {16889548},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13148},
rating = {0}
}
@article{Revuelta:2004,
author = {Javier Revuelta},
journal = {Psychometrika},
title = {Analysis of distractor difficulty in Multiple-Choice items},
abstract = {Two psychometric models are presented for evaluating the difficulty of the distractors in multiple-choice items. They are based on the criterion of rising distractor selection ratios, which facilitates interpretation of the subject and item parameters. Statistical inferential tools are developed in a Bayesian framework: modal a posteriori estimation by application of an EM algorithm and model evaluation by monitoring posterior predictive replications of the data matrix. An educational example with real data is included to exemplify the application of the models and compare them with the nominal categories model.},
number = {2},
pages = {217--234},
volume = {69},
year = {2004},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2067},
rating = {0}
}
@article{Zoanetti:2006p2385,
author = {N Zoanetti and P Griffin and R J Adams},
title = {Applications of Item Response Theory to identify and account for suspect rater data},
year = {2006},
date-added = {2010-01-10 19:33:47 +0100},
date-modified = {2010-07-29 20:16:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zoanetti-2006-_Applications%20of%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2385},
rating = {0}
}
@article{Lennox:1996p6829,
author = {R D Lennox and G A Zarkin and J W Bray},
journal = {J Subst Abuse},
title = {Latent variable models of alcohol-related constructs},
abstract = {This study examines the improvement in validity coefficients and structural relationships derived from formally modeling latent variables of adverse alcohol-related constructs. Results of a confirmatory factor analysis of responses from 8,755 participants in the 1988 National Household Survey of Drug Abuse support a three-factor model of alcohol abuse, dependence, and adverse consequences. A comparison of construct intercorrelations shows latent variables to be superior to measurement approaches using unweighted sums, quantity x frequency calculation, and single-item measurement.},
affiliation = {Applied Psychometrics Laboratory, Research Triangle Institute, Research Triangle Park, NC 27709-2194, USA.},
number = {2},
pages = {241--50},
volume = {8},
year = {1996},
month = {Jan},
language = {eng},
keywords = {Psychometrics, Female, Male, Adult, Humans, Adolescent, Alcoholism, Middle Aged, Internal-External Control, Reproducibility of Results, Health Knowledge: Attitudes: Practice, Alcohol Drinking, Personality Assessment},
date-added = {2010-03-06 09:31:33 +0100},
date-modified = {2010-03-06 09:31:39 +0100},
pii = {S0899-3289(96)90282-5},
pmid = {8880663},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lennox-1996-J%20Subst%20Abuse_Latent%20variable%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6829},
rating = {3}
}
@article{Molko:2003p4970,
author = {Nicolas Molko and Arnaud Cachia and Denis Rivi{\`e}re and Jean Fran{\c c}ois Mangin and Marie Bruandet and Denis Le Bihan and Laurent Cohen and Stanislas Dehaene},
journal = {Neuron},
title = {Functional and structural alterations of the intraparietal sulcus in a developmental dyscalculia of genetic origin},
abstract = {Cognitive theories of numerical representation suggest that understanding of numerical quantities is driven by a magnitude representation associated with the intraparietal sulcus and possibly under genetic control. The aim of this study was to investigate, using fMRI and structural imaging, the interaction between the abnormal development of numerical representation in an X-linked condition, Turner syndrome (TS), and the development of the intraparietal sulcus. fMRI during exact and approximate calculation in TS showed an abnormal modulation of intraparietal activations as a function of number size. Morphological analysis revealed an abnormal length, depth, and sulcal geometry of the right intraparietal sulcus, suggesting an important disorganization of this region in TS. Thus, a genetic form of developmental dyscalculia can be related to both functional and structural anomalies of the right intraparietal sulcus, suggesting a crucial role of this region in the development of arithmetic abilities.},
affiliation = {INSERM U 562, Cognitive Neuroimaging, Service Hospitalier Fr{\'e}d{\'e}ric Joliot, CEA/DSV, IFR 49 Orsay, France. molko@wanadoo.fr},
number = {4},
pages = {847--58},
volume = {40},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Parietal Lobe, Brain Mapping, Mathematics, Magnetic Resonance Imaging, Functional Laterality, Nervous System Malformations, Genetic Variation, Chromosomes: Human: X, Male, Adult, Female, Turner Syndrome, Learning Disorders, Humans, Nerve Net, Neuropsychological Tests, Neural Pathways},
date-added = {2010-02-05 00:05:31 +0100},
date-modified = {2010-02-05 00:05:31 +0100},
pii = {S0896627303006706},
pmid = {14622587},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Molko-2003-Neuron_Functional%20and%20struc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4970},
rating = {0}
}
@article{Howard:2009p8355,
author = {Matthew O Howard and Brian E Perron},
journal = {BMC Psychiatry},
title = {A survey of inhalant use disorders among delinquent youth: prevalence, clinical features, and latent structure of DSM-IV diagnostic criteria},
abstract = {BACKGROUND: Inhalant use is among the most pernicious and poorly understood forms of adolescent substance use. Many youth in the juvenile justice system have used inhalants, but little is known about inhalant use disorders (IUDs) in antisocial youth populations. The purpose of this study was to examine the prevalence, clinical features, and latent structure of DSM-IV IUDs in a state population of antisocial youth. METHODS: Cross-sectional survey conducted in 2003. Of 740 youth residing in Missouri State Division of Youth Services' (MDYS) residential treatment facilities at the time the study was conducted, 723 (97.7%) completed interviews. Eighty-seven percent were male, with a mean age of 15.5 (SD = 1.2). Nearly 4 in 10 youth (38.5%; n = 279) reported lifetime inhalant use. Youth ranged from very mildly to severely antisocial. RESULTS: Of 279 inhalant users, 52 (18.6%) met DSM-IV inhalant abuse criteria and 79 (28.3%) met inhalant dependence criteria. Five of 10 IUD criteria were met by > 10% of the total sample. Latent class analyses demonstrated a substantial concordance between DSM-IV-defined IUDs and an empirically-derived classification based on responses to DSM-IV IUD diagnostic criteria. CONCLUSION: IUDs and constituent criteria were prevalent among youth in the juvenile justice system. Two groups of problem inhalant users were identified, symptomatic users-DSM-IV inhalant abuse and highly symptomatic users-DSM-IV inhalant dependence, which differed primarily in severity of inhalant-related problems. Inhalant screening, prevention and treatment efforts in juvenile justice settings are rarely delivered, but critically needed.},
affiliation = {University of North Carolina at Chapel Hill, Tate-Turner-Kuralt Building, Campus Box 3550, 325 Pittsboro Street, Chapel Hill, NC 27599-3550, USA. mohoward@email.unc.edu},
pages = {8},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Male, Young Adult, Administration: Inhalation, Female, Humans, Adolescent, Prevalence, Child, Juvenile Delinquency, Substance-Related Disorders, Psychiatric Status Rating Scales, Cross-Sectional Studies, Residential Facilities, Diagnostic and Statistical Manual of Mental Disorders},
date-added = {2010-03-21 12:59:08 +0100},
date-modified = {2010-03-21 12:59:08 +0100},
doi = {10.1186/1471-244X-9-8},
pii = {1471-244X-9-8},
pmid = {19267939},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Howard-2009-BMC%20Psychiatry_A%20survey%20of%20inhalant.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8355},
rating = {0}
}
@article{Baser:2009p11801,
author = {Onur Baser},
journal = {Value Health},
title = {Too Much Ado about Instrumental Variable Approach: Is the Cure Worse than the Disease?},
abstract = {ABSTRACT Objective: To review the efficacy of instrumental variable (IV) models in addressing a variety of assumption violations to ensure standard ordinary least squares (OLS) estimates are consistent. IV models gained popularity in outcomes research because of their ability to consistently estimate the average causal effects even in the presence of unmeasured confounding. However, in order for this consistent estimation to be achieved, several conditions must hold. In this article, we provide an overview of the IV approach, examine possible tests to check the prerequisite conditions, and illustrate how weak instruments may produce inconsistent and inefficient results. Methods: We use two IVs and apply Shea's partial R-square method, the Anderson canonical correlation, and Cragg-Donald tests to check for weak instruments. Hall-Peixe tests are applied to see if any of these instruments are redundant in the analysis. Results: A total of 14,952 asthma patients from the MarketScan Commercial Claims and Encounters Database were examined in this study. Patient health care was provided under a variety of fee-for-service, fully capitated, and partially capitated health plans, including preferred provider organizations, point of service plans, indemnity plans, and health maintenance organizations. We used controller-reliever copay ratio and physician practice/prescribing patterns as an instrument. We demonstrated that the former was a weak and redundant instrument producing inconsistent and inefficient estimates of the effect of treatment. The results were worse than the results from standard regression analysis. Conclusion: Despite the obvious benefit of IV models, the method should not be used blindly. Several strong conditions are required for these models to work, and each of them should be tested. Otherwise, bias and precision of the results will be statistically worse than the results achieved by simply using standard OLS.},
affiliation = {STATinMED Research, LLC, and Department of Surgery, University of Michigan, Ann Arbor, MI, USA.},
pages = {},
year = {2009},
month = {May},
language = {ENG},
date-added = {2010-05-23 10:40:49 +0200},
date-modified = {2010-05-23 10:40:49 +0200},
doi = {10.1111/j.1524-4733.2009.00567.x},
pii = {VHE567},
pmid = {19497084},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baser-2009-Value%20Health_Too%20Much%20Ado%20about%20I.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11801},
rating = {0}
}
@article{Newell:2010p4740,
author = {A Newell and H A Simon},
title = {Computer science as empirical inquiry: Symbols and search},
date-added = {2010-01-30 16:26:38 +0100},
date-modified = {2010-01-30 16:27:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newell--_Computer%20science%20as.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4740},
rating = {0}
}
@article{Carey:2005p10330,
author = {Gregory Carey},
journal = {Behav Genet},
title = {The intraclass covariance matrix},
abstract = {Introduced by C.R. Rao in 1945, the intraclass covariance matrix has seen little use in behavioral genetic research, despite the fact that it was developed to deal with family data. Here, I reintroduce this matrix, and outline its estimation and basic properties for data sets on pairs of relatives. The intraclass covariance matrix is appropriate whenever the research design or mathematical model treats the ordering of the members of a pair as random. Because the matrix has only one estimate of a population variance and covariance, both the observed matrix and the residual matrix from a fitted model are easy to inspect visually; there is no need to mentally average homologous statistics. Fitting a model to the intraclass matrix also gives the same log likelihood, likelihood-ratio (LR) chi2, and parameter estimates as fitting that model to the raw data. A major advantage of the intraclass matrix is that only two factors influence the LR chi2--the sampling error in estimating population parameters and the discrepancy between the model and the observed statistics. The more frequently used interclass covariance matrix adds a third factor to the chi2--sampling error of homologous statistics. Because of this, the degrees of freedom for fitting models to an intraclass matrix differ from fitting that model to an interclass matrix. Future research is needed to establish differences in power-if any--between the interclass and the intraclass matrix.},
affiliation = {Department of Psychology and Institute for Behavioral Genetics, University of Colorado, Boulder, CO 80309-0345, USA. gregory.carey@colorado.edu},
number = {5},
pages = {667--70},
volume = {35},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Twins, Humans, Animals, Models: Genetic, Genetic Variation, Algorithms, Linear Models, Models: Statistical, Chi-Square Distribution, Twin Studies as Topic, Likelihood Functions, Genetics: Behavioral},
date-added = {2010-04-02 18:14:09 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-005-5877-1},
pmid = {16184492},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carey-2005-Behav%20Genet_The%20intraclass%20covar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10330},
rating = {0}
}
@article{Fox:2005p12801,
author = {J-P Fox and C A W Glas},
journal = {Statistica Neerlandica},
title = {Bayesian modification indices for IRT models},
abstract = {Bayesian modification indices are presented that provide information for the process of model evaluation and model modification. These indices can be used to investigate the improvement in a model if fixed parameters are re-specified as free parameters. The indices can be seen as a Bayesian analogue to the modification indices commonly used in a frequentist framework. The aim is to provide diagnostic information for multi-parameter models where the number of possible model violations and the related number of alternative models is too large to render estimation of each alternative practical. As an example, the method is applied to an item response theory (IRT) model, that is, to the two-parameter model. The method is used to investigate differential item functioning and violations of the assump- tion of local independence.},
number = {1},
pages = {95--106},
volume = {59},
year = {2005},
date-added = {2010-06-18 22:41:07 +0200},
date-modified = {2010-06-18 22:46:58 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2005-Statistica%20Neerlandica_Bayesian%20modificatio-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12801},
rating = {0}
}
@article{Romano:2006p4358,
author = {Joseph P Romano and Azeem M Shaikh},
journal = {arXiv},
title = {Stepup procedures for control of generalizations of the familywise error rate},
abstract = { Consider the multiple testing problem of testing null hypotheses {\$}H_1,...,H_s{\$}. A classical approach to dealing with the multiplicity problem is to restrict attention to procedures that control the familywise error rate ({\$}\mathit{FWER}{\$}), the probability of even one false rejection. But if {\$}s{\$} is large, control of the {\$}\mathit{FWER}{\$} is so stringent that the ability of a procedure that controls the {\$}\mathit{FWER}{\$} to detect false null hypotheses is limited. It is therefore desirable to consider other measures of error control. This article considers two generalizations of the {\$}\mathit{FWER}{\$}. The first is the {\$}k-\mathit{FWER}{\$}, in which one is willing to tolerate {\$}k{\$} or more false rejections for some fixed {\$}k\geq 1{\$}. The second is based on the false discovery proportion ({\$}\mathit{FDP}{\$}), defined to be the number of false rejections divided by the total number of rejections (and defined to be 0 if there are no rejections). Benjamini and Hochberg [J. Roy. Statist. Soc. Ser. B 57 (1995) 289-300] proposed control of the false discovery rate ({\$}\mathit{FDR}{\$}), by which they meant that, for fixed {\$}\alpha{\$}, {\$}E(\mathit{FDP})\leq\alpha{\$}. Here, we consider control of the {\$}\mathit{FDP}{\$} in the sense that, for fixed {\$}\gamma{\$} and {\$}\alpha{\$}, {\$}P\{\mathit{FDP}>\gamma\}\leq \alpha{\$}. Beginning with any nondecreasing sequence of constants and {\$}p{\$}-values for the individual tests, we derive stepup procedures that control each of these two measures of error control without imposing any assumptions on the dependence structure of the {\$}p{\$}-values. We use our results to point out a few interesting connections with some closely related stepdown procedures. We then compare and contrast two {\$}\mathit{FDP}{\$}-controlling procedures obtained using our results with the stepup procedure for control of the {\$}\mathit{FDR}{\$} of Benjamini and Yekutieli [Ann. Statist. 29 (2001) 1165-1188]. },
annote = {Published in: Annals of Statistics 2006, Vol. 34, No. 4, 1850-1873
Published at http://dx.doi.org/10.1214/009053606000000461 in the
Annals of Statistics (http://www.imstat.org/aos/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {math/0611266v1},
volume = {math.ST},
year = {2006},
month = {Jan},
keywords = {62J15 (Primary), stat.TH, math.ST},
date-added = {2010-01-27 18:30:00 +0100},
date-modified = {2010-01-27 18:30:00 +0100},
doi = {10.1214/009053606000000461},
pmid = {math/0611266v1},
url = {http://arxiv.org/abs/math/0611266v1},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4358},
rating = {0}
}
@article{Johansson:2003p8013,
author = {Carolina Johansson and Matth{\"a}eus Willeit and Christina Smedh and Jenny Ekholm and Tiina Paunio and Tuula Kiesepp{\"a} and Dirk Lichtermann and Nicole Praschak-Rieder and Alexander Neumeister and Lars-G{\"o}ran Nilsson and Siegfried Kasper and Leena Peltonen and Rolf Adolfsson and Martin Schalling and Timo Partonen},
journal = {Neuropsychopharmacology},
title = {Circadian clock-related polymorphisms in seasonal affective disorder and their relevance to diurnal preference},
abstract = {Disturbed circadian rhythms have been observed in seasonal affective disorder (SAD). The aim of this study was to further investigate this connection, and to test for potential association between polymorphisms in circadian clock-related genes and SAD, seasonality (seasonal variations in mood and behavior), or diurnal preference (morningness-eveningness tendencies). A total of 159 European SAD patients and 159 matched controls were included in the genetic analysis, and subsets were screened for seasonality (n=177) and diurnal preference (n=92). We found that diurnal preference was associated with both SAD and seasonality, supporting the hypothesis of a link between circadian rhythms and seasonal depression. The complete case-control material was genotyped for polymorphisms in the CLOCK, Period2, Period3, and NPAS2 genes. A significant difference between patients and controls was found for NPAS2 471 Leu/Ser (chi(2)=9.90, Bonferroni corrected P=0.035), indicating a recessive effect of the leucine allele on disease susceptibility (chi(2)=6.61, Bonferroni corrected P=0.050). Period3 647 Val/Gly was associated with self-reported morningness-eveningness scores (n=92, one-way ANOVA: F=4.99, Bonferroni corrected P=0.044), with higher scores found in individuals with at least one glycine allele (t=3.1, Bonferroni corrected P=0.013). A second, population-based sample of individuals selected for high (n=127) or low (n=98) degrees of seasonality, was also genotyped for NPAS2 471 Leu/Ser. There was no significant difference between these seasonality extreme groups, and none of the polymorphisms studied were associated with seasonality in the SAD case-control material (n=177). In conclusion, our results suggest involvement of circadian clock-related polymorphisms both in susceptibility to SAD and diurnal preference.},
affiliation = {Neurogenetics Unit, Department of Molecular Medicine, Karolinska Institutet, Stockholm, Sweden. carolina.johansson@cmm.ki.se},
number = {4},
pages = {734--9},
volume = {28},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Basic Helix-Loop-Helix Transcription Factors, Proteins, Trans-Activators, Nerve Tissue Proteins, Case-Control Studies, Statistics: Nonparametric, CLOCK Proteins, Period Circadian Proteins, Polymorphism: Genetic, Circadian Rhythm, Genotype, Analysis of Variance, Male, Humans, Transcription Factors, Seasonal Affective Disorder, Chi-Square Distribution, Female, Nuclear Proteins},
date-added = {2010-03-20 19:35:27 +0100},
date-modified = {2010-03-20 19:35:27 +0100},
doi = {10.1038/sj.npp.1300121},
pii = {1300121},
pmid = {12655319},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johansson-2003-Neuropsychopharmacology_Circadian%20clock-rela.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8013},
rating = {0}
}
@article{Haley:1994p5964,
author = {S M Haley and C A McHorney and J E Ware},
journal = {Journal of Clinical Epidemiology},
title = {Evaluation of the MOS SF-36 physical functioning scale (PF-10): I. Unidimensionality and reproducibility of the Rasch item scale},
abstract = {Indexes developed to measure physical functioning as an essential component of general health status are often based on sets of hierarchically-structured items intended to represent a broad underlying concept. Rasch Item Response Theory (IRT) provides a methodology to examine the hierarchical structure, unidimensionality, and reproducibility of item positions (calibrations) along a scale. Data gathered on the 10-item Physical Functioning Scale (PF-10) from a large sample of Medical Outcomes Study patients (N = 3445) were used to examine the hierarchical order, unidimensionality, and reproducibility of item calibrations. Rasch-IRT analyses generated an empirical item hierarchy, confirmed the unidimensionality of the PF-10 for most patients, and established the reproducibility of item calibrations across patient populations and repeated tests. These findings support the content validity of the PF-10 as a measure of physical functioning and suggest that valid Rasch-IRT summary scores could be generated as an alternative to the current Likert summative scores. Unidimensionality and reproducibility of the item scale are essential prerequisites for the development of Rasch-based person measures of physical functioning that can be used across populations and over repeated tests.},
affiliation = {Health Institute, New England Medical Center Hospitals, Boston, MA 02111, USA.},
number = {6},
pages = {671--84},
volume = {47},
year = {1994},
month = {Jun},
language = {eng},
keywords = {Aged, Reproducibility of Results, Health Status Indicators, Activities of Daily Living, Chronic Disease, Middle Aged, Humans},
date-added = {2010-02-18 23:29:00 +0100},
date-modified = {2010-02-18 23:29:00 +0100},
pii = {0895-4356(94)90215-1},
pmid = {7722580},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5964},
rating = {0}
}
@article{Wang:2007p4000,
author = {Rui Wang and Stephen W Lagakos and James H Ware and David J Hunter and Jeffrey M Drazen},
journal = {N Engl J Med},
title = {Statistics in medicine--reporting of subgroup analyses in clinical trials},
number = {21},
pages = {2189--94},
volume = {357},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Quality Control, Data Interpretation: Statistical, Statistics as Topic, Clinical Trials as Topic},
date-added = {2010-01-17 23:24:15 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
doi = {10.1056/NEJMsr077003},
pii = {357/21/2189},
pmid = {18032770},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2007-N%20Engl%20J%20Med_Statistics%20in%20medici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4000},
rating = {0}
}
@article{Matsuo:2009p9683,
author = {Koji Matsuo and Mark Nicoletti and Kiyotaka Nemoto and John P Hatch and Marco A M Peluso and Fabiano G Nery and Jair C Soares},
journal = {Hum Brain Mapp},
title = {A voxel-based morphometry study of frontal gray matter correlates of impulsivity},
abstract = {Impulsivity is a personality trait exhibited by healthy individuals, but excessive impulsivity is associated with some mental disorders. Lesion and functional neuroimaging studies indicate that the ventromedial prefrontal region (VMPFC), including the orbitofrontal cortex (OFC), anterior cingulate cortex (ACC) and medial prefrontal cortex, and the amygdala may modulate impulsivity and aggression. However, no morphometric study has examined the association between VMPFC and impulsivity. We hypothesized that healthy subjects with high impulsivity would have smaller volumes in these brain regions compared with those with low impulsivity. Sixty-two healthy subjects were studied (age 35.4 +/- 12.1 years) using a 1.5-T MRI system. The Barratt impulsiveness scale (BIS) was used to assess impulsivity. Images were processed using an optimized voxel-based morphometry (VBM) protocol. We calculated the correlations between BIS scale scores and the gray matter (GM) and white matter (WM) volumes of VMPFC and amygdala. GM volumes of the left and right OFC were inversely correlated with the BIS total score (P = 0.04 and 0.02, respectively). Left ACC GM volumes had a tendency to be inversely correlated with the BIS total score (P = 0.05). Right OFC GM volumes were inversely correlated with BIS nonplanning impulsivity, and left OFC GM volumes were inversely correlated with motor impulsivity. There were no significant WM volume correlations with impulsivity. The results of this morphometry study indicate that small OFC volume relate to high impulsivity and extend the prior finding that the VMPFC is involved in the circuit modulating impulsivity.},
affiliation = {Department of Psychiatry, University of Texas Health Science Center at San Antonio, Texas, USA.},
note = {genim},
number = {4},
pages = {1188--95},
volume = {30},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Functional Laterality, Aged, Psychiatric Status Rating Scales, Frontal Lobe, Middle Aged, Adult, Male, Brain Mapping, Female, Magnetic Resonance Imaging, Humans, Impulsive Behavior, Young Adult, Statistics as Topic, Image Processing: Computer-Assisted},
date-added = {2010-03-25 15:10:28 +0100},
date-modified = {2010-03-25 18:18:53 +0100},
doi = {10.1002/hbm.20588},
pmid = {18465751},
url = {http://www3.interscience.wiley.com/journal/119054049/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Matsuo-2009-Hum%20Brain%20Mapp_A%20voxel-based%20morpho.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9683},
rating = {0}
}
@article{Graham:2003p7446,
author = {Brent Graham and Glenn Regehr and James G Wright},
journal = {Journal of Clinical Epidemiology},
title = {Delphi as a method to establish consensus for diagnostic criteria},
abstract = {BACKGROUND/OBJECTIVES: To achieve a consensus, among a panel of experts, on the best clinical criteria for the clinical diagnosis of carpal tunnel syndrome (CTS). METHODS: Experts rated the diagnostic importance of items from the clinical history and physical examination for CTS. The ratings were expressed on a 10-cm visual analog scale. The average and standard deviation of the scores for each item were returned to the panelists. The panel members evaluated the items a second time with knowledge of the group responses from the first round. The scores were standardized to minimize scaling variations and, after the second round, the items were ranked in order of importance assigned by the group. Cronbach's alpha was used as a measure of homogeneity for the rankings. Increasing homogeneity was considered to be an indication of consensus among the panelists. RESULTS: Cronbach's alpha increased from 0.86 after the first round to 0.91 after the second iteration. Panelists who were relative outliers on the first round demonstrated a much higher correlation with the entire group after the second round. CONCLUSIONS: Delphi is an effective method of establishing consensus for certain clinical questions. Cronbach's alpha was a useful statistic for measuring the extent of consensus among the panel members. Delphi was chosen from the possible methods of group process because of its inherent feasibility. The absence of a need by the panelists to meet in person removed any constraint on the geographic location of the panel members. In addition, the anonymous nature of Delphi was thought to be a key factor in avoiding a result that might be skewed by one or more persuasive panelists. Both of these characteristics were felt to be particularly important to the topic on which consensus was sought, the clinical diagnostic criteria for CTS. This movement in the opinions of some of the panelists appeared to result from the feedback of information describing the group opinion.},
affiliation = {Toronto Western Hospital, 399 Bathurst Street, FP-174 M5T 2S8, Toronto, ON, Canada. brent.graham@utoronto.ca},
number = {12},
pages = {1150--6},
volume = {56},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Diagnosis, Consensus, Practice Guidelines as Topic, Delphi Technique, Humans, Carpal Tunnel Syndrome},
date-added = {2010-03-10 20:40:42 +0100},
date-modified = {2010-03-10 20:40:42 +0100},
pii = {S0895435603002117},
pmid = {14680664},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Graham-2003-Journal%20of%20Clinical%20Epidemiology_Delphi%20as%20a%20method%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7446},
rating = {0}
}
@article{Cazier:2010p4224,
author = {Jean-Baptiste Cazier and Ian Tomlinson},
journal = {J Pathol},
title = {General lessons from large-scale studies to identify human cancer predisposition genes},
abstract = {There are now about 100 genes known to cause Mendelian inherited cancer syndromes, but these only explain a minor part of the familial clustering of the common cancers. The increased familial relative risk of cancer in the general population must largely involve genes of low- or moderate-penetrance. Until recently, attempts to identify cancer predisposition genes with low penetrance had proved similarly unrewarding. However, in the past 2 years, developments in this area have been rapid. In particular, the 'common disease-common variant' model of predisposition has come to the fore. In this model, alleles of high frequency (typically > 10%) and low penetrance (typically < two-fold increased lifetime risk) contribute substantially to susceptibility to the common human diseases, including cancers. Many common risk alleles for cancer have been found by genome-wide association studies (GWASs) in the form of tagging SNPs, although identification of the disease-causing variants generally remains a difficult problem. The 'common disease-common variant' model has recently been criticized by proponents of a 'common disease-rare variant' model. In fact, the conflict between the models is false and a more continuous approach, bounded only by technical limitations and sample sizes, appears to be more appropriate. In this review, we summarize the general findings from cancer GWASs and their problems, and discuss the issues of finding rarer variants and other forms of cancer-predisposing variation, such as copy number polymorphisms.},
affiliation = {Molecular and Population Genetics Laboratory, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK.},
number = {2},
pages = {255--62},
volume = {220},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-21 10:58:58 +0100},
date-modified = {2010-01-21 10:58:58 +0100},
doi = {10.1002/path.2650},
pmid = {19927315},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4224},
rating = {0}
}
@article{Xu:2009p12825,
author = {Zhenzhen Xu and John D Kalbfleisch},
journal = {Biometrics},
title = {Propensity Score Matching in Randomized Clinical Trials},
abstract = {Summary. Cluster randomization trials with relatively few clusters have been widely used in recent years for evaluation of health-care strategies. On average, randomized treatment assignment achieves balance in both known and unknown confounding factors between treatment groups, however, in practice investigators can only introduce a small amount of stratification and cannot balance on all the important variables simultaneously. The limitation arises especially when there are many confounding variables in small studies. Such is the case in the INSTINCT trial designed to investigate the effectiveness of an education program in enhancing the tPA use in stroke patients. In this article, we introduce a new randomization design, the balance match weighted (BMW) design, which applies the optimal matching with constraints technique to a prospective randomized design and aims to minimize the mean squared error (MSE) of the treatment effect estimator. A simulation study shows that, under various confounding scenarios, the BMW design can yield substantial reductions in the MSE for the treatment effect estimator compared to a completely randomized or matched-pair design. The BMW design is also compared with a model-based approach adjusting for the estimated propensity score and Robins-Mark-Newey E-estimation procedure in terms of efficiency and robustness of the treatment effect estimator. These investigations suggest that the BMW design is more robust and usually, although not always, more efficient than either of the approaches. The design is also seen to be robust against heterogeneous error. We illustrate these methods in proposing a design for the INSTINCT trial.},
affiliation = {Department of Biostatistics, University of Michigan, Ann Arbor, Michighan 48109, U.S.A.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-06-21 19:59:31 +0200},
date-modified = {2010-06-21 19:59:32 +0200},
doi = {10.1111/j.1541-0420.2009.01364.x},
pii = {BIOM1364},
pmid = {19995353},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12825},
rating = {0}
}
@article{Grant:2007p6778,
author = {Bridget F Grant and Thomas C Harford and Bengt O Muth{\'e}n and Hsiao-ye Yi and Deborah S Hasin and Frederick S Stinson},
journal = {Drug Alcohol Depend},
title = {DSM-IV alcohol dependence and abuse: further evidence of validity in the general population},
abstract = {BACKGROUND: In order to understand the validity of the Diagnostic and Statistical Manual of Mental Disorders, 4th ed. (DSM-IV) alcohol abuse and dependence diagnoses, studies are needed in both clinical and general population samples. The purpose of this study was to examine the construct and criterion-oriented validity of DSM-IV alcohol dependence and abuse in the general population with respect to factor structure and their relationship to family history of alcoholism, treatment utilization, and psychiatric comorbidity. METHODS: This analysis is based on data from the 2001-2002 National Epidemiologic Survey on Alcohol and Related Conditions (NESARC), in which nationally representative data were collected in personal interviews conducted with one randomly selected adult in each sample household or group quarters. A subset (n=26,946) of the NESARC sample (total n=43,093) who reported drinking one or more drinks during the year preceding the interview formed the basis of analyses. Latent variable modeling was used to assess the concurrent validity of DSM-IV alcohol abuse and dependence symptom items. RESULTS: The latent variable modeling yielded one major factor related to alcohol dependence, a second factor related to alcohol abuse and a third smaller factor defined by tolerance. The validity of alcohol dependence in general population samples was further supported by statistically significant associations with family history of alcoholism, treatment utilization, and psychiatric and medical comorbidities. CONCLUSIONS: The factor structure and relationship to external criterion variables observed in the study provide support for the further validity of DSM-IV alcohol dependence in the general population, whereas support for the validity of DSM-IV abuse was equivocal.},
affiliation = {Laboratory of Epidemiology and Biometry, Division of Intramural Clinical and Biological Research, National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Bethesda, MD 20892-9304, USA. bgrant@willco.niaaa.nih.gov},
number = {2-3},
pages = {154--66},
volume = {86},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Female, Male, Adult, Humans, Adolescent, United States, Middle Aged, Aged, Models: Statistical, Epidemiologic Studies, Reproducibility of Results, Alcohol-Related Disorders, Health Surveys, Diagnostic and Statistical Manual of Mental Disorders},
date-added = {2010-03-05 22:19:39 +0100},
date-modified = {2010-03-05 22:19:40 +0100},
doi = {10.1016/j.drugalcdep.2006.05.019},
pii = {S0376-8716(06)00203-1},
pmid = {16814489},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6778},
rating = {0}
}
@inproceedings{Gower:1998,
author = {AR Gower and B Belanger and MJ Williams},
journal = {Proceedings},
title = {Using focus groups with respondents and interviewers to evaluate the questionnaire and interviewing procedures after the survey has taken place},
pages = {404--409},
year = {1998},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1011},
rating = {0}
}
@article{deVet:2003p6834,
author = {H C W de Vet and C B Terwee and L M Bouter},
journal = {Journal of Clinical Epidemiology},
title = {Clinimetrics and psychometrics: two sides of the same coin},
pages = {1146--1147},
volume = {56},
year = {2003},
date-added = {2010-03-06 10:29:51 +0100},
date-modified = {2010-03-06 10:30:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Vet-2003-Journal%20of%20Clinical%20Epidemiology_Clinimetrics%20and%20psy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6834},
rating = {0}
}
@article{Beral:1979,
author = {V Beral and C Chilvers and P Fraser},
journal = {J Epidemiol Community Health},
title = {On the estimation of relative risk from vital statistical data},
abstract = {A method is described for the determination of a measure of relative risk from vital statistical data. If the frequency of disease in a population is linearly related to the level of exposure to a given factor, then a measure of the relative risk can be estimated from the slope and intercept of the regression line. For example, when the exposure is measured in terms of the proportion of the population exposed to the factor, then the relative risk is equal to [Formula: see text] This offers an indirect but simple and inexpensive method for estimating relative risk. It should be used with caution, particularly where confounding factors may be responsible for the apparent association between disease and factor. Applications of the method to estimate the relative risk of (a) circulatory diseases in women using oral contraceptives and (b) ovarian cancer in women with different average family sizes, both yielded relative risk estimates comparable with those obtained from case-control and prospective studies.},
pages = {159--162},
volume = {33},
year = {1979},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:33:58 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1077},
rating = {0}
}
@article{Sepulveda:2008p1690,
author = {R Sep{\'u}lveda and J L Vicente-Villard{\'o}n and M P Galindo},
journal = {Stat Med},
title = {The Biplot as a diagnostic tool of local dependence in latent class models. A medical application},
abstract = {Latent class models (LCMs) can be used to assess diagnostic test performance when no reference test (a gold standard) is available, considering two latent classes representing disease or non-disease status. One of the basic assumptions in such models is that of local or conditional independence: all indicator variables (tests) are statistically independent within each latent class. However, in practice this assumption is often violated; hence, the two-LCM fits the data poorly. In this paper, we propose the use of Biplot methods to identify the conditional dependence between pairs of manifest variables within each latent class. Additionally, we propose incorporating such dependence in the corresponding latent class using the log-linear formulation of the model.},
affiliation = {Department of Statistics, University of Salamanca, Salamanca, Spain. rsepulve2001@yahoo.es},
number = {11},
pages = {1855--69},
volume = {27},
year = {2008},
month = {May},
language = {eng},
keywords = {Data Interpretation: Statistical, Diagnostic Tests: Routine, Forecasting, Models: Statistical},
date-added = {2010-01-09 18:34:05 +0100},
date-modified = {2010-01-09 18:34:05 +0100},
doi = {10.1002/sim.3194},
pmid = {18265437},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sep%C3%BAlveda-2008-Stat%20Med_The%20Biplot%20as%20a%20diag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1690},
rating = {0}
}
@article{Indurkhya:2010p13824,
author = {A Indurkhya and A von Eye},
title = {The Power of Tests in Configural Frequency Analysis},
abstract = {Specification of a null hypothesis is central to the interpretation of types and an- titypes in Configural Frequency Analysis (CFA). When the observed frequency of a variable category exceeds (or is less than) its corresponding expected frequency, the variable category is considered a type (or antitype). This article attempts to help the researcher to determine whether types or antitypes can be expected to emerge based on power and sample size considerations. Results are presented for the special cases of 2x2 and 2x2x2 tables respectively for First Order CFA.},
date-added = {2010-07-29 12:55:48 +0200},
date-modified = {2010-07-29 12:57:00 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Indurkhya--_The%20Power%20of%20Tests%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13824},
rating = {0}
}
@article{Schmitt:2007p11169,
author = {D P Schmitt and J Allik and R R Mccrae and V Benet-Martinez},
journal = {Journal of Cross-Cultural Psychology},
title = {THE GEOGRAPHIC DISTRIBUTION OF BIG FIVE PERSONALITY TRAITS. Patterns and Profiles of Human Self-Description Across 56 Nations},
abstract = {The Big Five Inventory (BFI) is a self-report measure designed to assess the high-order personality traits of Extraversion, Agreeableness, Conscientiousness, Neuroticism, and Openness. As part of the International Sexuality Description Project, the BFI was translated from English into 28 languages and administered to 17,837 individuals from 56 nations. The resulting cross-cultural data set was used to address three main questions: Does the factor structure of the English BFI fully replicate across cultures? How valid are the BFI trait profiles of individual nations? And how are personality traits distributed throughout the world? The five-dimensional structure was robust across major regions of the world. Trait levels were related in predictable ways to self-esteem, sociosexuality, and national personality profiles. People from the geographic regions of South America and East Asia were significantly different in open- ness from those inhabiting other world regions. The discussion focuses on limitations of the current data set and important directions for future research.},
year = {2007},
date-added = {2010-04-25 21:14:36 +0200},
date-modified = {2010-07-29 20:44:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmitt-2007-Journal%20of%20Cross-Cultural%20Psychology_THE%20GEOGRAPHIC%20DISTR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11169},
rating = {4}
}
@article{Tan:2009p8860,
author = {Hao Yang Tan},
journal = {Ann Acad Med Singap},
title = {Cognitive dysfunction in schizophrenia: a perspective from the clinic to genetic brain mechanisms},
abstract = {Schizophrenia is a brain disease with differing symptomatic presentations, outcomes, and complex genetic mechanisms. A selection of recent work integrating clinical observations, human brain imaging and genetics will be reviewed. While the mechanics of brain dysfunction in schizophrenia remains to be well understood, the emerging evidence suggests that a number of interacting genetic mechanisms in dopaminergic and glutamatergic systems affect fundamental disease-related cognitive brain processes and may do so early in disease neurodevelopment. The availability of new imaging and genetic technologies, and institutional support for research in the translational neurosciences, extends the hope that increased understanding of these brain processes could yield meaningful clinical applications.},
affiliation = {Genes, Cognition and Psychosis Program, National Institute of Mental Health, National Institutes of Health, 10 Center Drive, Bethesda, MD 20892-1364, USA. tanh@mail.nih.gov},
number = {5},
pages = {420--5},
volume = {38},
year = {2009},
month = {May},
language = {eng},
keywords = {Schizophrenia, Cognition Disorders, Dopamine, Glutamic Acid, Magnetic Resonance Imaging, Humans, Neurosciences},
date-added = {2010-03-22 12:39:07 +0100},
date-modified = {2010-03-22 12:39:07 +0100},
pmid = {19521642},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tan-2009-Ann%20Acad%20Med%20Singap_Cognitive%20dysfunctio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8860},
rating = {0}
}
@article{Bedo:2009p4929,
author = {J Bedo and G Macintyre and I Haviv and A Kowalczyk},
journal = {Nature Precedings},
title = {SIMPLE SVM BASED WHOLE-GENOME SEGMENTATION},
abstract = {We present a support vector machine (SVM) based framework for DNA segmen- tation into binary classes. Two applications are explored: transcription start site prediction and transcription factor binding prediction. Experiments demonstrate our approach has sig- nificantly better performance than other methods on both tasks.},
number = {3811.1},
year = {2009},
date-added = {2010-02-02 11:49:30 +0100},
date-modified = {2010-02-02 11:50:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bedo-2009-Nature%20Precedings_SIMPLE%20SVM%20BASED%20WHO.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4929},
rating = {0}
}
@article{Foundation:2008p2440,
author = {R Foundation},
title = {R: Regulatory Compliance and Validation Issues A Guidance Document for the Use of R in Regulated Clinical
Trial Environments},
year = {2008},
date-added = {2010-01-11 23:50:02 +0100},
date-modified = {2010-01-11 23:50:33 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Foundation-2008-_R%20Regulatory%20Compli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2440},
rating = {0}
}
@article{Slavkovic:2010p12849,
author = {A B Slavkovic and J Lee},
journal = {Statistical Methodology},
title = {Synthetic two-way contingency tables that preserve conditional frequencies},
abstract = {In the area of statistical limitation, releasing synthetic data sets has become a popular method for limiting the risks of disclosure of sensitive information and at the same time maintaining analytic utility of data. However, less work has been done on how to create synthetic contingency tables that preserve some summary statistics of the original table. Studies in this area have primarily focused on generating replacement tables that preserve the margins of the original table since the latter support statistical inferences for a large set of parametric tests and models. Yet, not all synthetic tables that preserve a set of margins yield consistent results. In this paper, we propose alternative synthetic table releases. We describe how to generate complete two-way contingency tables that have the same set of observed conditional frequencies by using tools from computational algebra. We study both the disclosure risk and the data utility associated with such synthetic tabular data releases, and compare them to the traditionally released synthetic tables.},
pages = {225--239},
volume = {7},
year = {2010},
date-added = {2010-06-21 20:13:46 +0200},
date-modified = {2010-07-29 20:06:22 +0200},
doi = {10.1016/j.stamet.2009.11.002},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Slavkovic-2010-Statistical%20Methodology_Synthetic%20two-way%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12849},
rating = {0}
}
@article{Yang:2006p1532,
author = {C-C Yang},
journal = {Computational Statistics},
title = {Evaluating latent class analysis models in qualitative phenotype identification},
abstract = {The paper is aimed to investigate the performance of information criteria in selecting latent class analysis models which are often used in research of phenotype identification. Six information criteria and a sample size adjustment (Psychometrika 52 (1987) 333) are compared under various sample sizes and model dimensionalities. The simulation design is particularly meaningful for phenotypic research in practice. Results show that improvements by the sample size adjustment are considerable. In addition, the sample size and model dimensionality effects are found to be influential in the simulation study.},
affiliation = {Graduate School of Educational Measurement {\&} Statistics, National Taichung Teachers College,
140 MinSheng Road, Taichung 403, Taiwan},
pages = {1090--1104},
volume = {50},
year = {2006},
keywords = {Latent class analysis, Model selections, Information criteria, E-M algorithm, Phenotype identifications},
date-added = {2010-01-07 16:08:42 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
doi = {10.1016/j.csda.2004.11.004},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yang-2006-Computational%20Statistics_Evaluating%20latent%20cl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1532},
rating = {0}
}
@article{Cook:2005p7861,
author = {Karon F Cook and Kimberly J O'Malley and Toni S Roddey},
journal = {Health Serv Res},
title = {Dynamic assessment of health outcomes: time to let the CAT out of the bag?},
abstract = {BACKGROUND: The use of item response theory (IRT) to measure self-reported outcomes has burgeoned in recent years. Perhaps the most important application of IRT is computer-adaptive testing (CAT), a measurement approach in which the selection of items is tailored for each respondent. OBJECTIVE. To provide an introduction to the use of CAT in the measurement of health outcomes, describe several IRT models that can be used as the basis of CAT, and discuss practical issues associated with the use of adaptive scaling in research settings. PRINCIPAL POINTS: The development of a CAT requires several steps that are not required in the development of a traditional measure including identification of "starting" and "stopping" rules. CAT's most attractive advantage is its efficiency. Greater measurement precision can be achieved with fewer items. Disadvantages of CAT include the high cost and level of technical expertise required to develop a CAT. CONCLUSIONS: Researchers, clinicians, and patients benefit from the availability of psychometrically rigorous measures that are not burdensome. CAT outcome measures hold substantial promise in this regard, but their development is not without challenges.},
affiliation = {Veterans Affairs Measurement of Excellence Training Resource Information Center, Houston Center of Quality Care and Utilization Studies, Houston, TX 77007, USA.},
number = {5 Pt 2},
pages = {1694--711},
volume = {40},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Psychometrics, Outcome Assessment (Health Care), Technology Assessment: Biomedical, Quality of Life, Health Services Research, Software, Models: Theoretical, Reproducibility of Results, Humans},
date-added = {2010-03-20 19:00:47 +0100},
date-modified = {2010-03-20 19:00:47 +0100},
doi = {10.1111/j.1475-6773.2005.00446.x},
pii = {HESR446},
pmid = {16179003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cook-2005-Health%20Serv%20Res_Dynamic%20assessment%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7861},
rating = {0}
}
@article{Feveile:2007p8393,
author = {Helene Feveile and Ole Olsen and Annie Hogh},
journal = {BMC Med Res Methodol},
title = {A randomized trial of mailed questionnaires versus telephone interviews: response patterns in a survey},
abstract = {BACKGROUND: Data for health surveys are often collected using either mailed questionnaires, telephone interviews or a combination. Mode of data collection can affect the propensity to refuse to respond and result in different patterns of responses. The objective of this paper is to examine and quantify effects of mode of data collection in health surveys. METHODS: A stratified sample of 4,000 adults residing in Denmark was randomised to mailed questionnaires or computer-assisted telephone interviews. 45 health-related items were analyzed; four concerning behaviour and 41 concerning self assessment. Odds ratios for more positive answers and more frequent use of extreme response categories (both positive and negative) among telephone respondents compared to questionnaire respondents were estimated. Tests were Bonferroni corrected. RESULTS: For the four health behaviour items there were no significant differences in the response patterns. For 32 of the 41 health self assessment items the response pattern was statistically significantly different and extreme response categories were used more frequently among telephone respondents (Median estimated odds ratio: 1.67). For a majority of these mode sensitive items (26/32), a more positive reporting was observed among telephone respondents (Median estimated odds ratio: 1.73). The overall response rate was similar among persons randomly assigned to questionnaires (58.1%) and to telephone interviews (56.2%). A differential nonresponse bias for age and gender was observed. The rate of missing responses was higher for questionnaires (0.73-6.00%) than for telephone interviews (0-0.51%). The "don't know" option was used more often by mail respondents (10-24%) than by telephone respondents (2-4%). CONCLUSION: The mode of data collection affects the reporting of self assessed health items substantially. In epidemiological studies, the method effect may be as large as the effects under investigation. Caution is needed when comparing prevalences across surveys or when studying time trends.},
affiliation = {National Research Centre for the Working Environment, Copenhagen, Denmark. hfe@nrcwe.dk},
pages = {27},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Male, Consumer Participation, Interviews as Topic, Research Design, Self Assessment (Psychology), Postal Service, Female, Odds Ratio, Questionnaires, Health Surveys, Humans, Health Behavior, Denmark, Telephone, Attitude to Health, Adult},
date-added = {2010-03-21 13:09:32 +0100},
date-modified = {2010-03-21 13:09:32 +0100},
doi = {10.1186/1471-2288-7-27},
pii = {1471-2288-7-27},
pmid = {17592653},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Feveile-2007-BMC%20Med%20Res%20Methodol_A%20randomized%20trial%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8393},
rating = {0}
}
@article{Edwards:2008p3189,
author = {M C Edwards},
journal = {IMPS},
title = {Item factor analysis: Where we've been and where we might be going},
year = {2008},
date-added = {2010-01-14 20:48:27 +0100},
date-modified = {2010-01-14 20:48:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Edwards-2008-IMPS_Item%20factor%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3189},
rating = {0}
}
@article{Lockwood:2007,
author = {J R Lockwood and D F McCaffrey and L S Hamilton and B Stecher and V-N Le and J F Martinez},
journal = {Journal of Educational Measurement},
title = {The Sensitivity of Value-Added Teacher Effect Estimates to Different Mathematics Achievement Measures},
number = {1},
pages = {47--67},
volume = {44},
year = {2007},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lockwood-2007-Journal%20of%20Educational%20Measurement_The%20Sensitivity%20of%20V.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1985},
rating = {0}
}
@article{MeyerLindenberg:2008p3513,
author = {Andreas Meyer-Lindenberg and Kristin K Nicodemus and Michael F Egan and Joseph H Callicott and Venkata Mattay and Daniel R Weinberger},
journal = {Neuroimage},
title = {False positives in imaging genetics},
abstract = {Imaging genetics provides an enormous amount of functional-structural data on gene effects in living brain, but the sheer quantity of potential phenotypes raises concerns about false discovery. Here, we provide the first empirical results on false positive rates in imaging genetics. We analyzed 720 frequent coding SNPs without significant association with schizophrenia and a subset of 492 of these without association with cognitive function. Effects on brain structure (using voxel-based morphometry, VBM) and brain function, using two archival imaging tasks, the n-back working memory task and an emotional face matching task, were studied in whole brain and regions of interest and corrected for multiple comparisons using standard neuroimaging procedures. Since these variants are unlikely to impact relevant brain function, positives obtained provide an upper empirical estimate of the false positive association rate. In a separate analysis, we randomly permuted genotype labels across subjects, removing any true genotype-phenotype association in the data, to derive a lower empirical estimate. At a set correction level of 0.05, in each region of interest and data set used, the rate of positive findings was well below 5% (0.2-4.1%). There was no relationship between the region of interest and the false positive rate. Permutation results were in the same range as empirically derived rates. The observed low rates of positives provide empirical evidence that the type I error rate is well controlled by current commonly used correction procedures in imaging genetics, at least in the context of the imaging paradigms we have used. In fact, our observations indicate that these statistical thresholds are conservative.},
affiliation = {Unit for Systems Neuroscience in Psychiatry, National Institute for Mental Health, NIH, DHHS, 9000 Rockville Pike, Bethesda, MD 20892-1365, USA. a.meyer-lindenberg@zi-mannheim.de},
number = {2},
pages = {655--61},
volume = {40},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Adult, Schizophrenia, False Positive Reactions, Female, Male, Magnetic Resonance Imaging, Humans},
date-added = {2010-01-15 15:46:48 +0100},
date-modified = {2010-03-07 11:08:14 +0100},
doi = {10.1016/j.neuroimage.2007.11.058},
pii = {S1053-8119(07)01080-4},
pmid = {18201908},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meyer-Lindenberg-2008-Neuroimage_False%20positives%20in%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3513},
read = {Yes},
rating = {4}
}
@article{Ericson:1969p6318,
author = {W A Ericson},
journal = {Journal of the Royal Society, Serie B},
title = {Subjective Bayesian Models in Sampling Finite Populations},
number = {2},
pages = {195--233},
volume = {31},
year = {1969},
date-added = {2010-02-20 21:13:16 +0100},
date-modified = {2010-07-29 19:38:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ericson-1969-Journal%20of%20the%20Royal%20Society%20Serie%20B_Subjective%20Bayesian.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6318},
rating = {0}
}
@article{Tarca:2007p1604,
author = {Adi L Tarca and Vincent J Carey and Xue-wen Chen and Roberto Romero and Sorin Dr{\u a}ghici},
journal = {PLoS Comput Biol},
title = {Machine learning and its applications to biology},
number = {6},
pages = {e116},
volume = {3},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Pattern Recognition: Automated, Cluster Analysis, Models: Biological, Algorithms, Artificial Intelligence, Computer Simulation, Biology},
date-added = {2010-01-07 17:00:09 +0100},
date-modified = {2010-01-07 17:00:09 +0100},
doi = {10.1371/journal.pcbi.0030116},
pii = {1553-734X-3-6-e116},
pmid = {17604446},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tarca-2007-PLoS%20Comput%20Biol_Machine%20learning%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1604},
rating = {0}
}
@article{Saunders:2005p4522,
author = {Jana C Saunders and Craig A Cookman},
journal = {Gastroenterol Nurs},
title = {A clarified conceptual meaning of hepatitis C-related depression},
abstract = {A clarified conceptual meaning of depression in individuals with hepatitis C virus infection is proposed based on a critical review of literature. Moving beyond an exclusively biomedical perspective, depression in hepatitis C is explained by a cluster of factors that incorporate physiological, psychological, and social dimensions. Symptom experience, stigma, and uncertainty are factors that span the complex nature of depression in individuals with hepatitis C. This broadened perspective incorporates individual and societal values and beliefs regarding hepatitis C and encompasses the multidimensional complexity of depression in hepatitis C. Hepatitis C-related depression presents an enormous challenge for nurses because of its interference with treatment adherence and significant negative impact on the individual's quality of life. Nursing theorists, researchers, and clinicians may benefit from a clear conceptual understanding of the unique nature of depression in this growing segment of the U.S. population. This clarified conceptual meaning needs to be validated through qualitative, quantitative, and longitudinal studies with this population. It is hoped that future theorists, researchers, and practitioners will contribute to our conceptual understanding, resulting in improved quality of life for this special population.},
affiliation = {Texas Tech University Health Sciences Center, Lubbock, USA. jana.saunders@ttuhsc.edu},
number = {2},
pages = {123-9; quiz 130--1},
volume = {28},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Stereotyping, Models: Nursing, Nursing Research, Depressive Disorder, Activities of Daily Living, Hepatitis C, Quality of Life, United States, Self Concept, Adaptation: Psychological, Nursing Theory, Nurse's Role, Attitude to Health, Life Change Events, Humans, Uncertainty, Risk Factors, Models: Psychological, Affect, Internal-External Control},
date-added = {2010-01-29 22:11:18 +0100},
date-modified = {2010-01-29 22:11:18 +0100},
pii = {00001610-200503000-00006},
pmid = {15832112},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4522},
rating = {0}
}
@article{Kintner:2008p6600,
author = {Eileen K Kintner and Alla Sikorskii},
journal = {Health Qual Life Outcomes},
title = {Reliability and construct validity of the Participation in Life Activities Scale for children and adolescents with asthma: an instrument evaluation study},
abstract = {BACKGROUND: The purpose of this study was to evaluate the reliability and construct validity of the Participation in Life Activities Scale, an instrument designed to measure older school-age child and early adolescent level of involvement in chosen pursuits. METHODS: A cross-sectional design was used. The convenience sample consisted of 313 school-age children and early adolescents with asthma, ages 9-15 years. The self-report summative scale of interest is a 3-indicator survey. Higher scores are reflective of higher levels of participation. Internal consistency reliability and construct validity for the entire sample and sub groups of the sample were evaluated. RESULTS: The instrument was deemed sound for the entire sample as well as sub groups based on sex, race, age, socioeconomic status, and severity of illness. Cronbach's alpha coefficient for internal consistency reliability for the entire sample was .74. Exploratory factor analysis indicated a single component solution (loadings .79-.85) accounting for 66% of the explained variance. Construct validity was established by testing the posed relationship between participation in life activities scores and severity of illness. Confirmatory factor analysis revealed a good fit between the data and specified model, chi2(10, n = 302) = 8.074, p = .62. CONCLUSION: This instrument could be used (a) in clinical settings to diagnose restricted participation in desired activities, guide decision-making about treatment plans to increase participation, and motivate behavioral change in the management of asthma; and (b) in research settings to explore factors influencing and consequences of restricted and unrestricted participation, and as an outcome measure to evaluate the effectiveness of programs designed to foster child and early adolescent management of asthma.},
affiliation = {Michigan State University College of Nursing, East Lansing, MI, USA. kintner@msu.edu},
pages = {43},
volume = {6},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Factor Analysis: Statistical, Female, Activities of Daily Living, Health Status Indicators, Adolescent, Asthma, Male, Reproducibility of Results, Psychometrics, Humans, Child, Cross-Sectional Studies},
date-added = {2010-03-03 19:40:55 +0100},
date-modified = {2010-03-03 19:40:56 +0100},
doi = {10.1186/1477-7525-6-43},
pii = {1477-7525-6-43},
pmid = {18533017},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kintner-2008-Health%20and%20Quality%20of%20Life%20Outcomes_Reliability%20and%20cons.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6600},
rating = {0}
}
@article{Roche:2010p12124,
author = {A Roche},
title = {EM algorithm and variants: an informal tutorial},
date-added = {2010-05-30 10:08:04 +0200},
date-modified = {2010-05-30 10:08:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roche--_EM%20algorithm%20and%20var.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12124},
rating = {0}
}
@article{Turner:2010p6527,
author = {Dan Turner and Holger J Sch{\"u}nemann and Lauren E Griffith and Dorcas E Beaton and Anne M Griffiths and Jeffrey N Critch and Gordon H Guyatt},
journal = {Journal of Clinical Epidemiology},
title = {The minimal detectable change cannot reliably replace the minimal important difference},
abstract = {OBJECTIVE: We compared the minimal important difference (MID) with the minimal detectable change (MDC) generated by distribution-based methods. STUDY DESIGN: Studies of two quality-of-life instruments (Chronic Respiratory Questionnaire [CRQ] and Rhinoconjunctivitis Quality of Life Questionnaire [RQLQ]) and two physician-rated disease-activity indices (Pediatric Ulcerative Colitis Activity Index [PUCAI] and Pediatric Crohn's Disease Activity Index [PCDAI]) provided longitudinal data. The MID values were calculated from global ratings of change (small change for CRQ and RQLQ; moderate for PUCAI and PCDAI) using receiver-operating characteristic (ROC) curve and mean change. Results were compared with five distribution-based strategies. RESULTS: Of the methods used to calculate the MDC, the 95% limits of agreement and the reliable change index yielded the largest estimates. In the patient-rated psychometric instruments, 0.5 SD was always greater than 1 standard error of measurements (SEM), and both fell between the mean change and the ROC estimates, on two of four occasions. The reliable change index came closest to MID of moderate change. CONCLUSION: For patient-rated psychometric instruments, 0.5 SD and 1 SEM provide values closest to the anchor-based estimates of MID derived from small change, and the reliable change index for physician-rated clinimetric indices based on moderate change. Lack of consistency across measures suggests that distribution-based approaches should act only as temporary substitutes, pending availability of empirically established anchor-based MID values.},
affiliation = {Pediatric Gastroenterology Unit, Shaare Zedek Medical Center, Jerusalem 91031, Israel. turnerjd2001@walla.com},
number = {1},
pages = {28--36},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:35:49 +0100},
date-modified = {2010-02-24 20:35:49 +0100},
doi = {10.1016/j.jclinepi.2009.01.024},
pii = {S0895-4356(09)00190-5},
pmid = {19800198},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Turner-2010-Journal%20of%20Clinical%20Epidemiology_The%20minimal%20detectab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6527},
rating = {0}
}
@article{Zhang:2004,
author = {N L Zhang},
journal = {Journal of Machine Learning},
title = {Hierarchical Latent Class Models for Cluster Analysis},
pages = {697--723},
volume = {5},
year = {2004},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:34:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2004-Journal%20of%20Machine%20Learning_Hierarchical%20Latent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1113},
rating = {0}
}
@article{Poon:2010p12862,
author = {L K M Poon and N L Zhang and T Chen and Y Wang},
journal = {ICML},
title = {Variable Selection in Model-Based Clustering: To Do or To Facilitate},
abstract = {Variable selection for cluster analysis is a dif- ficult problem. The difficulty originates not only from the lack of class information but also the fact that high-dimensional data are often multifaceted and can be meaningfully clustered in multiple ways. In such a case the effort to find one subset of attributes that presumably gives the ``best'' clustering may be misguided. It makes more sense to facilitate variable selection by domain ex- perts, that is, to systematically identify var- ious facets of a data set (each being based on a subset of attributes), cluster the data along each one, and present the results to the domain experts for appraisal and selection. In this paper, we propose a generalization of the Gaussian mixture model, show its abil- ity to cluster data along multiple facets, and demonstrate it is often more reasonable to fa- cilitate variable selection than to perform it.},
year = {2010},
date-added = {2010-06-24 12:39:45 +0200},
date-modified = {2010-06-24 12:40:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Poon-2010-ICML_Variable%20Selection%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12862},
rating = {0}
}
@article{Eckert:2007p3594,
author = {L Eckert},
title = {LA META-REGRESSION COMME METHODOLOGIE DE COMPARAISONS INDIRECTES :
Une r{\'e}ponse aux exigences contemporaines de l'{\'e}valuation du m{\'e}dicament},
year = {2007},
date-added = {2010-01-15 21:22:55 +0100},
date-modified = {2010-01-15 21:23:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eckert-2007-_LA%20META-REGRESSION%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3594},
rating = {0}
}
@article{Goldstein:2009p1406,
author = {David B Goldstein},
journal = {N Engl J Med},
title = {Common genetic variation and human traits},
affiliation = {Center for Human Genome Variation, Institute for Genome Sciences and Policy, Duke University, Durham, NC, USA.},
number = {17},
pages = {1696--8},
volume = {360},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Genomics, Genome-Wide Association Study, Diabetes Mellitus: Type 2, Drug Design, Body Height, Disease, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide, Risk, Humans, Genetic Variation},
date-added = {2010-01-07 12:17:13 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
doi = {10.1056/NEJMp0806284},
pii = {NEJMp0806284},
pmid = {19369660},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldstein-2009-N%20Engl%20J%20Med_Common%20genetic%20varia.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1406},
rating = {0}
}
@article{Nolin:1999p3600,
author = {P Nolin},
journal = {Revue Qu{\'e}b{\'e}coise de Psychologie},
title = {ANALYSES PSYCHOM{\'E}TRIQUES DE L'ADAPTATION FRAN{\c C}AISE DU CALIFORNIA VERBAL LEARNING TEST (CVLT)},
abstract = {Le California Verbal Learning Test (CVLT) est un instrument neuropsychologique issu des mod{\`e}les de la psychologie cognitive qui produit un portrait dynamique de l'apprentissage verbal. Le but de la pr{\'e}sente recherche est d'{\'e}tudier la valeur psychom{\'e}trique de l'adaptation fran{\c c}aise du CVLT. Les donn{\'e}es recueillies aupr{\`e}s de 309 sujets normaux {\^a}g{\'e}s de 17 {\`a} 90 ans, de 25 patients ayant subi un traumatisme cranio-enc{\'e}phalique (TCE) et de 22 sujets bilingues ont permis d'apporter un soutien {\`a} cette forme du CVLT. La fid{\'e}lit{\'e} de la version fran{\c c}aise est d{\'e}montr{\'e}e {\`a} l'aide de trois analyses de consistance interne. Les indices de fid{\'e}lit{\'e} sont 0,93, 0,82 et 0,83. La validit{\'e} de la version fran{\c c}aise est support{\'e}e par une analyse factorielle d{\'e}montrant qu'il s'agit d'un outil qui couvre six construits th{\'e}oriques de l'apprentissage, tel que souhait{\'e} lors de sa construction. La validit{\'e} concomitante est appuy{\'e}e par de fortes corr{\'e}lations entre les r{\'e}sultats du CVLT fran{\c c}ais et ceux du WMS-R. Par ailleurs, les r{\'e}sultats d{\'e}montrent {\'e}galement la capacit{\'e} de cet instrument de d{\'e}tecter de fa{\c c}on significative les d{\'e}ficits de la m{\'e}moire chez une population de sujets TCE. Enfin, des corr{\'e}lations significatives et une absence de diff{\'e}rences sont obtenues entre les rendements donn{\'e}s dans la majorit{\'e} des variables des versions anglaise et fran{\c c}aise du CVLT. Toutefois, le nombre total de mots, le score de progression et le score de regroupements s{\'e}mantiques soulignent des diff{\'e}rences entre les deux formes. Il semble donc pr{\'e}matur{\'e} de conclure en leur {\'e}quivalence. L'utilisation de l'adaptation du CVLT est n{\'e}anmoins propos{\'e}e aux chercheurs et aux cliniciens qui travaillent en langue fran{\c c}aise en raison du support psychom{\'e}trique apport{\'e} par la pr{\'e}sente {\'e}tude et des biais possibles li{\'e}s {\`a} la langue avec une simple traduction mot {\`a} mot de la version anglaise.},
number = {1},
volume = {20},
year = {1999},
date-added = {2010-01-15 21:40:18 +0100},
date-modified = {2010-01-15 21:40:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nolin-1999-Revue%20Que%CC%81be%CC%81coise%20de%20Psychologie_ANALYSES%20PSYCHOME%CC%81TR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3600},
rating = {0}
}
@article{Elias:1998p5161,
author = {S Elias and J Hattie and G Douglas},
title = {An Assessment of Various Item Response Model and Structural Equation Model Fit Indices To Detect Unidimensionality},
abstract = {A fundamental problem in structural modeling and item response modeling is to determine whether a set items is unidimensional. Both models have a plethora of fit indicators, and the aim of this study is to compare the Stout T-statistic derived within item response modeling with many competing indices used in structural equation modeling to assess unidimensionality. Given that it is rare to find a ``perfectly'' unidimensional test, a further aim is to ascertain how many items from a second dimension are necessary before the various indices indicate that the item set is no longer ``essentially'' unidimensional.},
year = {1998},
date-added = {2010-02-07 12:23:14 +0100},
date-modified = {2010-02-07 12:23:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Elias-1998-_An%20Assessment%20of%20Var-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5161},
rating = {0}
}
@misc{Blais:2003,
author = {Jean-Guy Blais and Nathalie Loye},
journal = {Miscellaneous},
title = {Une {\'e}tude de l'accord et de la fid{\'e}lit{\'e} inter juges comparant un mod{\`e}le de la th{\'e}orie de la g{\'e}n{\'e}ralisabilit{\'e} et un mod{\`e}le de la famille de Rasch},
year = {2003},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blais-2003-Miscellaneous_Une%20%C3%A9tude%20de%20l'accor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2220},
rating = {0}
}
@article{Revelle:1979,
author = {W Revelle and T Rocklin},
journal = {Multivariate Behavioral Research},
title = {Very Simple Structure: An alternative procedure for estimating the optimal number of interpretable factors},
pages = {403--414},
volume = {14},
year = {1979},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revelle-1979-Multivariate%20Behavioral%20Research_Very%20Simple%20Structur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2158},
rating = {0}
}
@article{terBraak:2004p12007,
author = {C J F ter Braak and A P Schaffers},
journal = {Ecology},
title = {Co-Correspondence Analysis: a new ordination method to relate two community compositions},
abstract = {A new ordination method, called co-correspondence analysis, is developed to relate two types of communities (e.g., a plant community and an animal community) sampled at a common set of sites in a direct way. The method improves the simple, indirect approach of applying correspondence analysis (reciprocal averaging) to the separate species data sets and correlating the resulting ordination axes. Co-correspondence analysis maxi- mizes the weighted covariance between weighted averaged species scores of one community and weighted averaged species scores of the other community. It thus attempts to identify the patterns that are common to both communities. Both a symmetric descriptive and an asymmetric predictive form are developed. The symmetric form relates to co-inertia analysis and the asymmetric, predictive form to partial least-squares regression. In two examples the predictive power of co-correspondence analysis is compared with that of canonical correspondence analyses on syntaxonomic and environmental data. In the first example, carabid beetles in roadside verges are shown to be more closely related to plant species composition than to vegetation structure (biomass, height, roughness, among others), and, in the second example, bryophytes in spring meadows are shown to be more closely related to the species composition of the vascular plants than to the measured water chemistry.},
number = {3},
pages = {834--846},
volume = {85},
year = {2004},
date-added = {2010-05-23 17:35:33 +0200},
date-modified = {2010-05-23 17:36:40 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/ter%20Braak-2004-Ecology_Co-Correspondence%20An.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12007},
rating = {0}
}
@article{Bartolucci:2010p7573,
author = {Francesco Bartolucci},
journal = {Stat Med},
title = {On the conditional logistic estimator in two-arm experimental studies with non-compliance and before-after binary outcomes},
abstract = {The behavior of the conditional logistic estimator is analyzed under a causal model for two-arm experimental studies with possible non-compliance in which the effect of the treatment is measured by a binary response variable. We show that, when non-compliance may only be observed in the treatment arm, the effect (measured on the logit scale) of the treatment on compliers and that of the control on non-compliers can be identified and consistently estimated under mild conditions. The same does not happen for the effect of the control on compliers. A simple correction of the conditional logistic estimator is then proposed, which allows us to considerably reduce the bias in estimating this quantity and the causal effect of the treatment over control on compliers. A two-step estimator results on the basis of which we can also set up a Wald test for the hypothesis of absence of a causal effect of the treatment. The asymptotic properties of the estimator are studied by exploiting the general theory on maximum likelihood estimation of misspecified models. Finite-sample properties of the estimator and of the related Wald test are studied by simulation. The extension of the approach to the case of missing responses is also outlined. The approach is illustrated by an application to a dataset deriving from a study on the efficacy of a training course on the breast self examination practice. Copyright (c) 2010 John Wiley {\&} Sons, Ltd.},
affiliation = {Department of Economics, Finance and Statistics, University of Perugia, 06123 Perugia, Italy.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-14 11:02:14 +0100},
date-modified = {2010-03-14 11:02:15 +0100},
doi = {10.1002/sim.3860},
pmid = {20209479},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bartolucci-2010-Stat%20Med_On%20the%20conditional%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7573},
rating = {0}
}
@article{Hopper:2005p9290,
author = {John L Hopper and D Timothy Bishop and Douglas F Easton},
journal = {Lancet},
title = {Population-based family studies in genetic epidemiology},
abstract = {Designs that involve families (the traditional strength of genetic epidemiology) and population-based sampling (the traditional strength of environmental epidemiology) allow investigation of both genes and environment, separately or together, and allow valid inference to the population. These case-control-family designs (including those involving twin pairs), can be regarded as retrospective cohort studies of relatives, and can be used for: determining familial risks and genetic models; estimating risk (penetrance) for measured genotypes; genetic association studies; stratifying risks by family history and known mutation status; and studying modifiers of risk in genetically susceptible individuals. Follow-up of families allows genetic and environmental risks to be studied prospectively. We discuss statistical methods, theoretical and practical strengths, limitations, and other issues. Given their versatility, population-based family studies could become a principal framework in epidemiology, and move genetics from its traditional focus on high-risk families to give it a wider clinical and population health relevance.},
affiliation = {University of Melbourne, Centre for Molecular, Environmental, Genetic and Analytic Epidemiology, 723 Swanston Street, Carlton, Victoria 3053, Australia. j.hopper@unimelb.edu.au},
number = {9494},
pages = {1397--406},
volume = {366},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Humans, Case-Control Studies, Research Design, Genetic Predisposition to Disease, Penetrance, Genetics: Population, Diseases in Twins, Family},
date-added = {2010-03-22 13:40:35 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
doi = {10.1016/S0140-6736(05)67570-8},
pii = {S0140-6736(05)67570-8},
pmid = {16226618},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hopper-2005-Lancet_Population-based%20fam.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9290},
read = {Yes},
rating = {0}
}
@article{Teo:2009p3387,
author = {Yik Y Teo and Andrew E Fry and Kanishka Bhattacharya and Kerrin S Small and Dominic P Kwiatkowski and Taane G Clark},
journal = {Genome Res},
title = {Genome-wide comparisons of variation in linkage disequilibrium},
abstract = {Current genome-wide surveys of common diseases and complex traits fundamentally aim to detect indirect associations where the single nucleotide polymorphisms (SNPs) carrying the association signals are not biologically active but are in linkage disequilibrium (LD) with some unknown functional polymorphisms. Reproducing any novel discoveries from these genome-wide scans in independent studies is now a prerequisite for the putative findings to be accepted. Significant differences in patterns of LD between populations can affect the portability of phenotypic associations when the replication effort or meta-analyses are attempted in populations that are distinct from the original population in which the genome-wide study is performed. Here, we introduce a novel method for genome-wide analyses of LD variations between populations that allow the identification of candidate regions with different patterns of LD. The evidence of LD variation provided by the introduced method correlated with the degree of differences in the frequencies of the most common haplotype across the populations. Identified regions also resulted in greater variation in the success of replication attempts compared with random regions in the genome. A separate permutation strategy introduced for assessing LD variation in the absence of genome-wide data also correctly identified the expected variation in LD patterns in two well-established regions undergoing strong population-specific evolutionary pressure. Importantly, this method addresses whether a failure to reproduce a disease association in a disparate population is due to underlying differences in LD structure with an unknown functional polymorphism, which is vital in the current climate of replicating and fine-mapping established findings from genome-wide association studies.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, United Kingdom. teo@well.ox.ac.uk},
number = {10},
pages = {1849--60},
volume = {19},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Case-Control Studies, Haplotypes, Gambia, Gene Frequency, Linkage Disequilibrium, Computer Simulation, Polymorphism: Single Nucleotide, Great Britain, Genetics: Population, Humans, Cohort Studies, Genome-Wide Association Study, Observer Variation},
date-added = {2010-01-15 14:39:59 +0100},
date-modified = {2010-01-15 14:39:59 +0100},
doi = {10.1101/gr.092189.109},
pii = {gr.092189.109},
pmid = {19541915},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3387},
rating = {0}
}
@article{Glas:1988,
author = {C A W Glas},
journal = {Psychometrika},
title = {The derivation of some tests for the Rasch model from the multinomial distribution},
pages = {525--546},
volume = {53},
year = {1988},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-1988-Psychometrika_The%20derivation%20of%20so.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2181},
rating = {0}
}
@article{Mackay:2004p11229,
author = {Trudy F C Mackay},
journal = {Curr Opin Genet Dev},
title = {The genetic architecture of quantitative traits: lessons from Drosophila},
abstract = {Understanding the genetic architecture of quantitative traits begins with identifying the genes regulating these traits, mapping the subset of genetically varying quantitative trait loci (QTLs) in natural populations, and pinpointing the molecular polymorphisms defining QTL alleles. Studies in Drosophila have revealed large numbers of pleiotropic genes that interact epistatically to regulate quantitative traits, and large numbers of QTLs with sex-, environment- and genotype-specific effects. Multiple molecular polymorphisms in regulatory regions of candidate genes are often associated with variation for complex traits. These observations offer valuable lessons for understanding the genetic basis of variation for complex traits in other organisms, including humans.},
affiliation = {Department of Genetics, Campus Box 7614, North Carolina State University, Raleigh, North Carolina 27695-7614, USA. trudy_mackay@ncsu.edu},
number = {3},
pages = {253--7},
volume = {14},
year = {2004},
month = {Jun},
language = {eng},
keywords = {Drosophila, DNA Transposable Elements, Mutagenesis, Linkage Disequilibrium, Animals, Quantitative Trait Loci, Genetic Complementation Test, Chromosome Mapping},
date-added = {2010-04-25 21:30:38 +0200},
date-modified = {2010-04-25 21:30:38 +0200},
doi = {10.1016/j.gde.2004.04.003},
pii = {S0959437X04000498},
pmid = {15172667},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mackay-2004-Curr%20Opin%20Genet%20Dev_The%20genetic%20architec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11229},
rating = {0}
}
@article{Crane:2007p5961,
author = {Paul K Crane and Laura E Gibbons and Katja Ocepek-Welikson and Karon Cook and David Cella and Kaavya Narasimhalu and Ron D Hays and Jeanne A Teresi},
journal = {Qual Life Res},
title = {A comparison of three sets of criteria for determining the presence of differential item functioning using ordinal logistic regression},
abstract = {BACKGROUND: Several techniques have been developed to detect differential item functioning (DIF), including ordinal logistic regression (OLR). This study compared different criteria for determining whether items have DIF using OLR. OBJECTIVES: To compare and contrast findings from three different sets of criteria for detecting DIF using OLR. General distress and physical functioning items were evaluated for DIF related to five covariates: age, marital status, gender, race, and Hispanic origin. RESEARCH DESIGN: Cross-sectional study. SUBJECTS: 1,714 patients with cancer or HIV/AIDS. MEASURES: A total of 23 items addressing physical functioning and 15 items addressing general distress were selected from a pool of 154 items from four different health-related quality of life questionnaires. RESULTS: The three sets of criteria produced qualitatively and quantitatively different results. Criteria based on statistical significance alone detected DIF in almost all the items, while alternative criteria based on magnitude detected DIF in far fewer items. Accounting for DIF by using demographic-group specific item parameters had negligible effects on individual scores, except for race. CONCLUSIONS: Specific criteria chosen to determine whether items have DIF have an impact on the findings. Criteria based entirely on statistical significance may detect small differences that are clinically negligible.},
affiliation = {Department of Internal Medicine, Harborview Medical Center, University of Washington, 325 Ninth Avenue, Box 359780, Seattle, WA 98104, USA. pcrane@u.washington.edu},
pages = {69--84},
volume = {16 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Logistic Models, Neoplasms, Male, Models: Statistical, Cross-Sectional Studies, Outcome Assessment (Health Care), Health Surveys, Middle Aged, HIV Infections, Questionnaires, Humans, Female, Psychometrics},
date-added = {2010-02-18 23:27:57 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
doi = {10.1007/s11136-007-9185-5},
pmid = {17554640},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crane-2007-Qual%20Life%20Res_A%20comparison%20of%20thre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5961},
rating = {5}
}
@article{deVet:2003p7509,
author = {Henrica C W de Vet and Caroline B Terwee and Lex M Bouter},
journal = {Journal of Clinical Epidemiology},
title = {Current challenges in clinimetrics},
abstract = {Clinimetrics is a methodologic discipline that focuses on the quality of clinical measurements, for example, diagnostic characteristics and disease outcomes. Different clinimetric properties, such as reproducibility and responsiveness, are important in both the development and the evaluation of measurement instruments. This article presents a number of the current challenges in clinimetrics: there is much confusion with regard to terminology, clinimetric properties are population and situation-dependent, and the abundance of different measurement instruments in specific fields hampers the comparison of study results. Further challenges lie in the improvement of the quality of both the measurement instruments and the performance of the actual measurements, and the assessment of the suitability for use in clinical practice. From the perspective of evidence-based medicine, it is essential to have measurement instruments that make it possible to detect clinically relevant improvements that are due to diagnostic and therapeutic interventions. Close collaboration between clinicians, statisticians, epidemiologists, and psychologists is necessary to guarantee healthy future developments in clinimetrics, serving the needs of both clinical research and clinical practice.},
affiliation = {Institute for Research in Extramural Medicine, VU University Medical Center, Van der Boechorststraat 7 1081 BT, Amsterdam, The Netherlands. HCW.de.Vet@vumc.nl},
number = {12},
pages = {1137--41},
volume = {56},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Medical Informatics, Sensitivity and Specificity, Health Status, Terminology as Topic, Humans, Psychometrics},
date-added = {2010-03-10 20:49:18 +0100},
date-modified = {2010-03-10 20:49:18 +0100},
pii = {S0895435603003573},
pmid = {14680660},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Vet-2003-Journal%20of%20Clinical%20Epidemiology_Current%20challenges%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7509},
rating = {0}
}
@article{Savia:2005p12882,
author = {E Savia and K Puolam{\"a}ki and J Sinkkonen and S Kaski},
journal = {UAI},
title = {Two-Way Latent Grouping Model for User Preference Prediction},
abstract = {We introduce a novel latent grouping model for predicting the relevance of a new docu- ment to a user. The model assumes a la- tent group structure for both users and doc- uments. We compared the model against a state-of-the-art method, the User Rating Profile model, where only users have a latent group structure. We estimate both models by Gibbs sampling. The new method pre- dicts relevance more accurately for new doc- uments that have few known ratings. The reason is that generalization over documents then becomes necessary and hence the two- way grouping is profitable.},
year = {2005},
date-added = {2010-06-24 13:08:52 +0200},
date-modified = {2010-06-24 13:10:23 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Savia-2005-UAI_Two-Way%20Latent%20Group.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12882},
rating = {0}
}
@article{Dudbridge:2008p3356,
author = {Frank Dudbridge and Arief Gusnanto},
journal = {Genet Epidemiol},
title = {Estimation of significance thresholds for genomewide association scans},
abstract = {The question of what significance threshold is appropriate for genomewide association studies is somewhat unresolved. Previous theoretical suggestions have yet to be validated in practice, whereas permutation testing does not resolve a discrepancy between the genomewide multiplicity of the experiment and the subset of markers actually tested. We used genotypes from the Wellcome Trust Case-Control Consortium to estimate a genomewide significance threshold for the UK Caucasian population. We subsampled the genotypes at increasing densities, using permutation to estimate the nominal P-value for 5% family-wise error. By extrapolating to infinite density, we estimated the genomewide significance threshold to be about 7.2 x 10(-8). To reduce the computation time, we considered Patterson's eigenvalue estimator of the effective number of tests, but found it to be an order of magnitude too low for multiplicity correction. However, by fitting a Beta distribution to the minimum P-value from permutation replicates, we showed that the effective number is a useful heuristic and suggest that its estimation in this context is an open problem. We conclude that permutation is still needed to obtain genomewide significance thresholds, but with subsampling, extrapolation and estimation of an effective number of tests, the threshold can be standardized for all studies of the same population.},
affiliation = {MRC Biostatistics Unit, Institute for Public Health, Cambridge, United Kingdom. frank.dudbridge@mrc-bsu.cam.ac.uk},
number = {3},
pages = {227--34},
volume = {32},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Genetic Markers, European Continental Ancestry Group, Genetic Predisposition to Disease, Great Britain, Genotype, Case-Control Studies, Genome: Human, Humans},
date-added = {2010-01-15 14:38:01 +0100},
date-modified = {2010-01-15 14:38:01 +0100},
doi = {10.1002/gepi.20297},
pmid = {18300295},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3356},
rating = {4}
}
@article{Suhara:2001p12155,
author = {T Suhara and F Yasuno and Y Sudo and M Yamamoto and M Inoue and Y Okubo and K Suzuki},
journal = {Neuroimage},
title = {Dopamine D2 receptors in the insular cortex and the personality trait of novelty seeking},
abstract = {Human personality has been considered to have a neurochemical background. We examined the relation between extrastriatal dopamine D2 receptor binding in living human brain and the personality trait of novelty seeking that has been proposed to be related to dopaminergic function in the brain. We measured extrastriatal dopamine D2 receptors of 24 healthy young male subjects using [(11)C]FLB 457 positron emission tomography. The personality trait of each subject was assessed by the Temperament and Character Inventory (TCI). Correlation of dopamine D2 receptor binding with novelty seeking was calculated using region-of-interest analysis and statistical parametric mapping based on the binding potential images generated using a reference tissue model. A significant negative correlation was observed between binding potential values and the novelty seeking scores on TCI in the right insular cortex. No significant correlation was observed in any other region. Our result indicates that there is a significant association between dopamine D2 receptor binding and the human novelty seeking trait in the right insular cortex.},
affiliation = {Division of Advanced Technology for Medical Imaging, National Institute of Radiological Sciences, 9-1, Anagawa 4-Chome, Inage-ku, Chiba, 263-8555, Japan.},
number = {5},
pages = {891--5},
volume = {13},
year = {2001},
month = {May},
language = {eng},
keywords = {Tomography: Emission-Computed, Cerebral Cortex, Brain Mapping, Male, Regional Blood Flow, Humans, Exploratory Behavior, Arousal, Dominance: Cerebral, Image Processing: Computer-Assisted, Adult, Personality, Receptors: Dopamine D2},
date-added = {2010-05-30 10:36:48 +0200},
date-modified = {2010-05-30 10:36:51 +0200},
doi = {10.1006/nimg.2001.0761},
pii = {S1053-8119(01)90761-X},
pmid = {11304084},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Suhara-2001-Neuroimage_Dopamine%20D2%20receptor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12155},
rating = {4}
}
@article{Luaces:2009p1529,
author = {Oscar Luaces and Francisco Taboada and Guillermo M Albaiceta and Luis A Dom{\'\i}nguez and Pedro Enr{\'\i}quez and Antonio Bahamonde and GRECIA Group},
journal = {Artif Intell Med},
title = {Predicting the probability of survival in intensive care unit patients from a small number of variables and training examples},
abstract = {OBJECTIVE: Survival probability predictions in critically ill patients are mainly used to measure the efficacy of intensive care unit (ICU) treatment. The available models are functions induced from data on thousands of patients. Eventually, some of the variables used for these purposes are not part of the clinical routine, and may not be registered in some patients. In this paper, we propose a new method to build scoring functions able to make reliable predictions, though functions whose induction only requires records from a small set of patients described by a few variables. METHODS: We present a learning method based on the use of support vector machines (SVM), and a detailed study of its prediction performance, in different contexts, of groups of variables defined according to the source of information: monitoring devices, laboratory findings, and demographic and diagnostic features. RESULTS: We employed a data set collected in general ICUs at 10 units of hospitals in Spain, 6 of which include coronary patients, while the other 4 do not treat coronary diseases. The total number of patients considered in our study was 2501, 19.83% of whom did not survive. Using these data, we report a comparison between the SVM method proposed here with other approaches based on logistic regression (LR), including a second-level recalibration of release III of the acute physiology and chronic health evaluation (APACHE, a scoring system commonly used in ICUs) induced from the available data. The SVM method significantly outperforms them all from a statistical point of view. Comparison with the commercial version of APACHE III shows that the SVM scores are slightly better when working with data sets of more than 500 patients. CONCLUSIONS: From a practical point of view, the implications of the research reported here may be helpful to address the construction of cheap and reliable prediction systems in accordance with the peculiarities of ICUs and kinds of patients.},
affiliation = {Artificial Intelligence Center, Universidad de Oviedo at Gij{\'o}n, Gij{\'o}n, Asturias, Spain. oluaces@aic.uniovi.es},
number = {1},
pages = {63--76},
volume = {45},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Survival, Models: Theoretical, Learning, Humans, Intensive Care Units, Probability},
date-added = {2010-01-07 16:05:50 +0100},
date-modified = {2010-07-29 19:17:26 +0200},
doi = {10.1016/j.artmed.2008.11.005},
pii = {S0933-3657(08)00176-0},
pmid = {19185475},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luaces-2009-Artif%20Intell%20Med_Predicting%20the%20proba.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1529},
rating = {0}
}
@article{Zhang:2008p6635,
author = {Zhaogong Zhang and Shuanglin Zhang and Man-Yu Wong and Nicholas J Wareham and Qiuying Sha},
journal = {Genet Epidemiol},
title = {An ensemble learning approach jointly modeling main and interaction effects in genetic association studies},
abstract = {Complex diseases are presumed to be the results of interactions of several genes and environmental factors, with each gene only having a small effect on the disease. Thus, the methods that can account for gene-gene interactions to search for a set of marker loci in different genes or across genome and to analyze these loci jointly are critical. In this article, we propose an ensemble learning approach (ELA) to detect a set of loci whose main and interaction effects jointly have a significant association with the trait. In the ELA, we first search for "base learners" and then combine the effects of the base learners by a linear model. Each base learner represents a main effect or an interaction effect. The result of the ELA is easy to interpret. When the ELA is applied to analyze a data set, we can get a final model, an overall P-value of the association test between the set of loci involved in the final model and the trait, and an importance measure for each base learner and each marker involved in the final model. The final model is a linear combination of some base learners. We know which base learner represents a main effect and which one represents an interaction effect. The importance measure of each base learner or marker can tell us the relative importance of the base learner or marker in the final model. We used intensive simulation studies as well as a real data set to evaluate the performance of the ELA. Our simulation studies demonstrated that the ELA is more powerful than the single-marker test in all the simulation scenarios. The ELA also outperformed the other three existing multi-locus methods in almost all cases. In an application to a large-scale case-control study for Type 2 diabetes, the ELA identified 11 single nucleotide polymorphisms that have a significant multi-locus effect (P-value=0.01), while none of the single nucleotide polymorphisms showed significant marginal effects and none of the two-locus combinations showed significant two-locus interaction effects.},
affiliation = {Department of Mathematical Sciences, Michigan Technological University, Houghton, Michigan 49931, USA.},
number = {4},
pages = {285--300},
volume = {32},
year = {2008},
month = {May},
language = {eng},
keywords = {Epidemiologic Methods, Algorithms, Artificial Intelligence, Logistic Models, Biometry, Regression Analysis, Humans, Epistasis: Genetic, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide, Diabetes Mellitus: Type 2, Models: Genetic},
date-added = {2010-03-03 20:35:06 +0100},
date-modified = {2010-03-03 20:35:06 +0100},
doi = {10.1002/gepi.20304},
pmid = {18205210},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6635},
rating = {0}
}
@article{Zhang:2009p1516,
author = {Z Zhang and M I Jordan},
title = {Latent Variable Models for Dimensionality Reduction},
abstract = {Principal coordinate analysis (PCO), a dual of principal component analysis (PCA), is a classical method for exploratory data analysis. In this paper we provide a probabilistic interpretation of PCO. We show that this interpretation yields a maximum likelihood procedure for estimating the PCO parameters and we also present an iterative expectation-maximization algorithm for obtaining maximum likelihood estimates. Finally, we show that our framework yields a probabilistic formulation of kernel PCA.},
year = {2009},
date-added = {2010-01-07 13:10:48 +0100},
date-modified = {2010-01-07 13:12:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2009-_Latent%20Variable%20Mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1516},
rating = {0}
}
@article{Hauser:2004p4535,
author = {Winfried H{\"a}user and Christoph Zimmer and Peter Schiedermaier and Daniel Grandt},
journal = {Psychosom Med},
title = {Biopsychosocial predictors of health-related quality of life in patients with chronic hepatitis C},
abstract = {OBJECTIVES: To assess biopsychosocial predictors of health-related quality of life (HRQOL) in patients with chronic hepatitis C. METHODS: In 94 consecutive patients with chronic hepatitis C attending a liver center, HRQOL was assessed by the Medical Outcome Study Short Form Health Survey 36 (SF-36) and by the German version of the Chronic Liver Disease Questionnaire. The predictive effect on HRQOL of disease-related worries measured by the worry subscale of the Chronic Liver Disease Questionnaire, psychiatric comorbidity (defined by at least one Hospital Anxiety and Depression Scale German Version Score > or =11), the Child-Pugh score in case of cirrhosis, interferon therapy, and active medical comorbidities was assessed by a multiple regression analysis. RESULTS: From 88 patients (age, 48.6 +/- 14.6 years; 50% female), 62 (70%) had no cirrhosis, 15 (17%) Child A, 5 (6%) Child B, and 6 patients (7%) Child C cirrhosis. The mental summary score of SF-36 was predicted by the amount of disease-related worries (corrected R2 = 0.33; beta = 3.2; p < .001) and psychiatric comorbidity (corrected R2 = 0.42; beta = -9.0; p < .001), by the physical summary score of SF-36 by the amount of disease related worries (corrected R2 = 0.33; beta = 4.0; p < .001), and by the number of active medical comorbidities (corrected R2 = 0.39; beta = -2.0; p = .006). CONCLUSIONS: The HRQOL in chronic hepatitis C is not determined by the severity of the liver disease but by psychiatric and medical comorbidities and disease-related worries.},
affiliation = {Department of Internal Medicine I, Klinikum Saarbr{\"u}cken gGmbH, Winterberg 1,D-66119 Saarbruecken, Germany. whaeuser@klinikum-saarbruecken.de},
number = {6},
pages = {954--8},
volume = {66},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Hepatitis C: Chronic, Depressive Disorder, Male, Female, Attitude to Health, Health Surveys, Questionnaires, Predictive Value of Tests, Health Status, Severity of Illness Index, Humans, Psychiatric Status Rating Scales, Anxiety Disorders, Middle Aged, Quality of Life, Adult, Comorbidity},
date-added = {2010-01-29 22:24:18 +0100},
date-modified = {2010-01-29 22:24:18 +0100},
doi = {10.1097/01.psy.0000145824.82125.a8},
pii = {66/6/954},
pmid = {15564364},
local-url = {file://localhost/Users/chl/Dropbox/Papers/H%C3%A4user-2004-Psychosom%20Med_Biopsychosocial%20pred.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4535},
rating = {0}
}
@article{Grove:2000p13765,
author = {W M Grove and D H Zald and B S Lebow and B E Snitz and C Nelson},
journal = {Psychol Assess},
title = {Clinical versus mechanical prediction: a meta-analysis},
abstract = {The process of making judgments and decisions requires a method for combining data. To compare the accuracy of clinical and mechanical (formal, statistical) data-combination techniques, we performed a meta-analysis on studies of human health and behavior. On average, mechanical-prediction techniques were about 10% more accurate than clinical predictions. Depending on the specific analysis, mechanical prediction substantially outperformed clinical prediction in 33%-47% of studies examined. Although clinical predictions were often as accurate as mechanical predictions, in only a few studies (6%-16%) were they substantially more accurate. Superiority for mechanical-prediction techniques was consistent, regardless of the judgment task, type of judges, judges' amounts of experience, or the types of data being combined. Clinical predictions performed relatively less well when predictors included clinical interview data. These data indicate that mechanical predictions of human behaviors are equal or superior to clinical prediction methods for a wide range of circumstances.},
affiliation = {Department of Psychology, University of Minnesota, Minneapolis 55455-0344, USA. william.m.grove-1@tc.umn.edu},
number = {1},
pages = {19--30},
volume = {12},
year = {2000},
month = {Mar},
language = {eng},
keywords = {Humans, Mathematical Computing, Reproducibility of Results, Diagnosis: Computer-Assisted, Decision Making: Computer-Assisted},
date-added = {2010-07-28 23:07:46 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
pmid = {10752360},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grove-2000-Psychol%20Assess_Clinical%20versus%20mech.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13765},
rating = {0}
}
@misc{Junker:2000a,
author = {Brian W Junker and Klaas Sijtsma},
journal = {Miscellaneous},
title = {Nonparametric IRT in Action: An overview of the special issue},
year = {2000},
month = {Dec},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Junker-2000-Miscellaneous_Nonparametric%20IRT%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1908},
rating = {0}
}
@article{Rizopoulos:2010p10897,
author = {D Rizopoulos},
journal = {Journal of Statistical Software},
title = {JM: An R Package for the Joint Modelling of Longitudinal and Time-to-Event Data},
abstract = {In longitudinal studies measurements are often collected on different types of outcomes for each subject. These may include several longitudinally measured responses (such as blood values relevant to the medical condition under study) and the time at which an event of particular interest occurs (e.g., death, development of a disease or dropout from the study). These outcomes are often separately analyzed; however, in many instances, a joint modeling approach is either required or may produce a better insight into the mechanisms that underlie the phenomenon under study. In this paper we present the R package JM that fits joint models for longitudinal and time-to-event data.},
date-added = {2010-04-11 13:44:30 +0200},
date-modified = {2010-04-11 13:45:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rizopoulos--Journal%20of%20Statistical%20Software_JM%20An%20R%20Package%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10897},
rating = {0}
}
@article{Naughton:1993p10691,
author = {M J Naughton and I Wiklund},
journal = {Qual Life Res},
title = {A critical review of dimension-specific measures of health-related quality of life in cross-cultural research},
abstract = {This article reviews six dimension-specific health-related quality of life (HRQL) measures which have been used cross-culturally. The instruments reviewed are: the Beck Depression Inventory (BDI); the McGill Pain Questionnaire (MPQ); the Center for Epidemiologic Studies--Depression (CES-D); the Zung Self-Rating Depression Scale (SDS); the General Health Questionnaire (GHQ); and the Psychological General Well-Being Index (PGWB). These instruments primarily represent the psychological or emotional dimension of HRQL, and are scales that were developed and validated in the USA, Canada or the UK. The review of specific studies for each of the six instruments was not meant to be exhaustive, but rather to give an indication of the ways in which the instruments have been assessed or used in various countries. The focus throughout this article is on the psychometric properties (reliability, validity and responsiveness) of these scales in different cultures, as well as the processes used to translate the instruments from English into another language. Implications of the results of this review for cross-cultural use of dimension-specific HRQL instruments are drawn.},
affiliation = {Department of Public Health Sciences, Bowman Gray School of Medicine, Wake Forest University, Winston-Salem, NC 27157.},
number = {6},
pages = {397--432},
volume = {2},
year = {1993},
month = {Dec},
language = {eng},
keywords = {Quality of Life, Health Surveys, Reproducibility of Results, Cross-Cultural Comparison, Questionnaires, Evaluation Studies as Topic, Research, Translating, Language, Humans, Psychometrics},
date-added = {2010-04-07 11:57:41 +0200},
date-modified = {2010-07-29 19:48:29 +0200},
pmid = {8161976},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Naughton-1993-Qual%20Life%20Res_A%20critical%20review%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10691},
rating = {0}
}
@article{Alonso:2010p6906,
author = {Ariel Alonso and Annouschka Laenen and Geert Molenberghs and Helena Geys and Tony Vangeneugden},
journal = {Biometrics},
title = {A Unified Approach to Multi-item Reliability},
abstract = {Summary. The reliability of multi-item scales has received a lot of attention in the psychometric literature, where a myriad of measures like the Cronbach's alpha or the Spearman-Brown formula have been proposed. Most of these measures, however, are based on very restrictive models that apply only to unidimensional instruments. In this article, we introduce two measures to quantify the reliability of multi-item scales based on a more general model. We show that they capture two different aspects of the reliability problem and satisfy a minimum set of intuitive properties. The relevance and complementary value of the measures is studied and earlier approaches are placed in a broader theoretical framework. Finally, we apply them to investigate the reliability of the Positive and Negative Syndrome Scale, a rating scale for the assessment of the severity of schizophrenia.},
affiliation = {Center for Statistics, Hasselt University, Agoralaan 1, B3590 Diepenbeek, Belgium.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-03-06 12:22:08 +0100},
date-modified = {2010-03-06 12:22:10 +0100},
doi = {10.1111/j.1541-0420.2009.01373.x},
pii = {BIOM1373},
pmid = {20070298},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Alonso-2010-Biometrics_A%20Unified%20Approach%20t-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6906},
rating = {3}
}
@inproceedings{Mojduszka:2000,
author = {E M Mojduszka and J A Caswell and J M Harris},
journal = {Proceedings},
title = {Consumer Choice of Food Products and the Implications for Price Competition and Government Labeling Policy},
year = {2000},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mojduszka-2000-Proceedings_Consumer%20Choice%20of%20F.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1864},
rating = {0}
}
@article{Devlin:1999p11223,
author = {B Devlin and K Roeder},
journal = {Biometrics},
title = {Genomic control for association studies},
abstract = {A dense set of single nucleotide polymorphisms (SNP) covering the genome and an efficient method to assess SNP genotypes are expected to be available in the near future. An outstanding question is how to use these technologies efficiently to identify genes affecting liability to complex disorders. To achieve this goal, we propose a statistical method that has several optimal properties: It can be used with case control data and yet, like family-based designs, controls for population heterogeneity; it is insensitive to the usual violations of model assumptions, such as cases failing to be strictly independent; and, by using Bayesian outlier methods, it circumvents the need for Bonferroni correction for multiple tests, leading to better performance in many settings while still constraining risk for false positives. The performance of our genomic control method is quite good for plausible effects of liability genes, which bodes well for future genetic analyses of complex disorders.},
affiliation = {Department of Psychiatry, University of Pittsburgh, Pennsylvania 15213, USA. devlinbj@msx.upmc.edu},
number = {4},
pages = {997--1004},
volume = {55},
year = {1999},
month = {Dec},
language = {eng},
keywords = {Models: Statistical, Case-Control Studies, Bayes Theorem, Models: Genetic, Humans, Genome: Human, Biometry, Genetic Techniques},
date-added = {2010-04-25 21:28:03 +0200},
date-modified = {2010-04-25 21:28:03 +0200},
pmid = {11315092},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Devlin-1999-Biometrics_Genomic%20control%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11223},
read = {Yes},
rating = {0}
}
@article{Costenbader:2007p4553,
author = {Elizabeth C Costenbader and William A Zule and Curtis M Coomes},
journal = {Drug Alcohol Depend},
title = {The impact of illicit drug use and harmful drinking on quality of life among injection drug users at high risk for hepatitis C infection},
abstract = {BACKGROUND: Heavy alcohol use, hepatitis C and illicit drug use each have been shown to have negative impacts on health-related quality of life (HRQL). To date, considerations of HRQL have not played a prominent role in the design and measurement of intervention strategies for out-of-treatment at-risk populations. METHODS: Data were collected from out-of-treatment IDUs recruited through street outreach in North Carolina. Multiple linear regression analyses were used to examine the independent effects of HCV status, harmful drinking (AUDIT), and illicit drug use on HRQL (SF-36). RESULTS: Fifty-one percent of 619 study participants tested HCV-positive; 57% met criteria for harmful or hazardous drinking and 63% reported daily use of hard drugs. HRQL scores for this population were significantly lower than those of the general population. Multiple linear regression analyses demonstrated that harmful levels of alcohol consumption and use of methamphetamine in the past month had the strongest associations with reduced HRQL. CONCLUSIONS: Given the high rates of HCV in most IDU communities, new harm reduction approaches are needed for these populations which focus beyond prevention to the functioning and well being of those already infected. In particular, reducing heavy alcohol use in addition to slowing HCV progression shows promise for improving HRQL.},
affiliation = {Substance Abuse Treatment, Evaluations and Interventions (SATEI), RTI International, Research Triangle Park, NC 27709, USA. ecostenbader@rti.org},
number = {2-3},
pages = {251--8},
volume = {89},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Adult, Male, Female, Risk-Taking, Community-Institutional Relations, Health Surveys, Street Drugs, Methamphetamine, Hepatitis C, Amphetamine-Related Disorders, Humans, North Carolina, Substance-Related Disorders, Middle Aged, Substance Abuse: Intravenous, Quality of Life, Alcoholism},
date-added = {2010-01-29 22:32:18 +0100},
date-modified = {2010-01-29 22:32:18 +0100},
doi = {10.1016/j.drugalcdep.2007.01.006},
pii = {S0376-8716(07)00028-2},
pmid = {17320314},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Costenbader-2007-Drug%20Alcohol%20Depend_The%20impact%20of%20illici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4553},
rating = {0}
}
@article{Havas:2010p13260,
author = {Jano Havas and Hans Bosma and Cor Spreeuwenberg and Frans J Feron},
journal = {Eur J Public Health},
title = {Mental health problems of Dutch adolescents: the association with adolescents' and their parents' educational level},
abstract = {BACKGROUND: We studied the hypothesis of socioeconomic equalization regarding adolescents' mental health problems by examining whether a low educational level of adolescents and their parents shows independent (cumulative) or dependent (including interactive) associations with adolescents' mental health problems, or whether equalization occurred. METHODS: Cross-sectional data were obtained from the preventive Youth Health Care Centre in a relatively deprived Dutch former mining area. Participants were 1861 adolescents aged 13 or 14 years (response rate 71.7%). The self-administered Dutch version of the Strengths and Difficulties Questionnaire (SDQ) was used to identify adolescents' mental health problems. Multiple logistic regression analyses were used to examine the associations, and linear regression models to check the robustness of the findings. RESULTS: A low educational level of adolescents was strongly related to their mental health problems (OR = 5.37; 95% CI: 3.31-8.70). The initially high odds ratios for adolescents with low-educated parents (OR = 1.72; 95% CI: 1.14-2.59) disappeared after controlling for the adolescents' own educational level (OR = 1.12; 95% CI: 0.73-1.74). In terms of interactions, no specifically increased odds were found, e.g. for low-educated adolescents with high-educated parents. CONCLUSION: There was no evidence for socioeconomic equalization regarding adolescents' mental health problems. Lower educated adolescents had substantially higher odds of having mental health problems, regardless of their parents' education. The odds may be affected by differences in intelligence and life events. Youth healthcare workers should collaborate closely with schools to intervene in time, particularly among low-educated adolescents. More interventions are probably needed to reduce these major inequities.},
affiliation = {Department of Social Medicine, School for Public Health and Primary Care (CAPHRI), Faculty of Health, Medicine and Life Sciences, Maastricht University, Maastricht, The Netherlands. jano.havas@socmed.unimaas.nl},
number = {3},
pages = {258--64},
volume = {20},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-01 18:20:04 +0200},
date-modified = {2010-07-01 18:20:07 +0200},
doi = {10.1093/eurpub/ckp172},
pii = {ckp172},
pmid = {19887517},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Havas-2010-Eur%20J%20Public%20Health_Mental%20health%20proble.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13260},
rating = {3}
}
@article{Blakemore:2008p4829,
author = {Sarah-Jayne Blakemore},
journal = {Q J Exp Psychol (Colchester)},
title = {Development of the social brain during adolescence},
abstract = {Adolescence is usually defined as the period of psychological and social transition between childhood and adulthood. The beginning of adolescence, around the onset of puberty, is characterized by large hormonal and physical changes. The transition from childhood to adulthood is also characterized by psychological changes in terms of identity, self-consciousness, and cognitive flexibility. In the past decade, it has been demonstrated that various regions of the human brain undergo development during adolescence and beyond. Some of the brain regions that undergo particularly protracted development are involved in social cognitive function in adults. In the first section of this paper, I briefly describe evidence for a circumscribed network of brain regions involved in understanding other people. Next, I describe evidence that some of these brain regions undergo structural development during adolescence. Finally, I discuss recent studies that have investigated social cognitive development during adolescence.},
affiliation = {Institute of Cognitive Neuroscience, University College London, London, UK. s.blakemore@ucl.ac.uk},
number = {1},
pages = {40--9},
volume = {61},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Cognition, Adolescent, Social Behavior, Adolescent Behavior, Humans, Social Perception, Magnetic Resonance Imaging, Human Development, Brain},
date-added = {2010-02-01 20:21:57 +0100},
date-modified = {2010-02-01 20:21:57 +0100},
doi = {10.1080/17470210701508715},
pii = {787077281},
pmid = {18038337},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4829},
rating = {0}
}
@article{Cooper:2009p9594,
author = {Jeffrey C Cooper and Nick G Hollon and G Elliott Wimmer and Brian Knutson},
journal = {Soc Cogn Affect Neurosci},
title = {Available alternative incentives modulate anticipatory nucleus accumbens activation},
abstract = {A reward or punishment can seem better or worse depending on what else might have happened. Little is known, however, about how neural representations of an anticipated incentive might be influenced by the available alternatives. We used event-related FMRI to investigate the activation in the nucleus accumbens (NAcc), while we varied the available alternative incentives in a monetary incentive delay task. Some task blocks included only uncertain gains and losses; others included the same uncertain gains and losses intermixed with certain gains and losses. The availability of certain gains and losses increased NAcc activation for uncertain losses and decreased the difference between uncertain gains and losses. We suggest that this pattern of activation can result from reference point changes across blocks, and that the worst available loss may serve as an important anchor for NAcc activation. These findings imply that NAcc activation represents anticipated incentive value relative to the current context of available alternative gains and losses.},
affiliation = {Department of Psychology, Stanford University, Jordan Hall, 450 Serra Mall, Stanford, CA 94305, USA. jcooper@stanford.edu},
note = {genim},
number = {4},
pages = {409--16},
volume = {4},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Reinforcement Schedule, Adult, Reaction Time, Male, Adolescent, Oxygen, Brain Mapping, Female, Decision Making, Nucleus Accumbens, Reward, Time Factors, Humans, Cues, Young Adult, Analysis of Variance, Motivation, Image Processing: Computer-Assisted, Magnetic Resonance Imaging},
date-added = {2010-03-25 14:38:05 +0100},
date-modified = {2010-07-29 19:50:15 +0200},
doi = {10.1093/scan/nsp031},
pii = {nsp031},
pmid = {19843618},
url = {http://scan.oxfordjournals.org/content/4/4/409.long},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cooper-2009-Soc%20Cogn%20Affect%20Neurosci_Available%20alternativ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9594},
rating = {0}
}
@article{Kato:2009p5044,
author = {Mamoru Kato and Takahisa Kawaguchi and Shumpei Ishikawa and Takayoshi Umeda and Reiichiro Nakamichi and Michael H Shapero and Keith W Jones and Yusuke Nakamura and Hiroyuki Aburatani and Tatsuhiko Tsunoda},
journal = {Hum Mol Genet},
title = {Population-genetic nature of copy number variations in the human genome},
abstract = {Copy number variations (CNVs) are universal genetic variations, and their association with disease has been increasingly recognized. We designed high-density microarrays for CNVs, and detected 3000-4000 CNVs (4-6% of the genomic sequence) per population that included CNVs previously missed because of smaller sizes and residing in segmental duplications. The patterns of CNVs across individuals were surprisingly simple at the kilo-base scale, suggesting the applicability of a simple genetic analysis for these genetic loci. We utilized the probabilistic theory to determine integer copy numbers of CNVs and employed a recently developed phasing tool to estimate the population frequencies of integer copy number alleles and CNV-SNP haplotypes. The results showed a tendency toward a lower frequency of CNV alleles and that most of our CNVs were explained only by zero-, one- and two-copy alleles. Using the estimated population frequencies, we found several CNV regions with exceptionally high population differentiation. Investigation of CNV-SNP linkage disequilibrium (LD) for 500-900 bi- and multi-allelic CNVs per population revealed that previous conflicting reports on bi-allelic LD were unexpectedly consistent and explained by an LD increase correlated with deletion-allele frequencies. Typically, the bi-allelic LD was lower than SNP-SNP LD, whereas the multi-allelic LD was somewhat stronger than the bi-allelic LD. After further investigation of tag SNPs for CNVs, we conclude that the customary tagging strategy for disease association studies can be applicable for common deletion CNVs, but direct interrogation is needed for other types of CNVs.},
affiliation = {Center for Genomic Medicine, RIKEN, 1-7-22 Suehiro, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-02-05 20:00:04 +0100},
date-modified = {2010-07-29 19:28:52 +0200},
doi = {10.1093/hmg/ddp541},
pii = {ddp541},
pmid = {19966329},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kato-2009-Hum%20Mol%20Genet_Population-genetic%20n.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5044},
rating = {0}
}
@article{Nepveu:1980p7756,
author = {G Nepveu},
journal = {Ann Sci forest},
title = {Seuils de signification des coefficients de corr{\'e}lation g{\'e}notypique, ph{\'e}notypique et environnementale. Etude du cas d'un test clonal},
abstract = {Cet article est une application tr{\`e}s simple de recherches d{\'e}velopp{\'e}es par Tallis et Scheinberg. Il rappelle l'expression de la variance d'{\'e}chantillonnage de l'estimation de coefficients de corr{\'e}-
lation (g{\'e}n{\'e}tique,g{\'e}notypique,due{\`a}l'environnement,ph{\'e}notypique)obtenusen analysede variance- covariance.
Il particularise au cas d'un test clonal et montre que l'on commet une erreur parfois importante en
jugeant la signification des corr{\'e}lations g{\'e}notypique et ph{\'e}notypique uniquement {\`a} l'aide des caract{\'e}- ristiques du dispositif : nombre de clones, nombre d'individus par clone.},
number = {1},
pages = {1--18},
volume = {37},
year = {1980},
date-added = {2010-03-17 20:52:00 +0100},
date-modified = {2010-03-17 20:52:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nepveu-1980-Ann%20Sci%20forest_Seuils%20de%20significat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7756},
rating = {0}
}
@book{Thomas2004,
author = {D C Thomas},
journal = {Book},
title = {Statistical Methods in Genetic Epidemiology},
year = {2004},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2533},
rating = {0}
}
@article{Bevilacqua:2009p3094,
author = {L Bevilacqua and D Goldman},
journal = {Clin Pharmacol Ther},
title = {Genes and addictions},
affiliation = {Laboratory of Neurogenetics, National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Rockville, Maryland, USA.},
number = {4},
pages = {359--61},
volume = {85},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Humans, Diseases in Twins, Behavior: Addictive, Quantitative Trait: Heritable, Animals},
date-added = {2010-01-14 19:56:24 +0100},
date-modified = {2010-01-14 19:56:24 +0100},
doi = {10.1038/clpt.2009.6},
pii = {clpt20096},
pmid = {19295534},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3094},
rating = {3}
}
@article{Ariagno:1997p7929,
author = {R L Ariagno and E B Thoman and M A Boeddiker and B Kugener and J C Constantinou and M Mirmiran and R B Baldwin},
journal = {Pediatrics},
title = {Developmental care does not alter sleep and development of premature infants},
abstract = {OBJECTIVE: The Neonatal Individualized Developmental Care Program (NIDCAP) for very low birth weight (VLBW) preterm infants has been suggested by Als et al to improve several medical outcome variables such as time on ventilator, time to nipple feed, the duration of hospital stay, better behavioral performance on Assessment of Preterm Infants' Behavior (APIB), and improved neurodevelopmental outcomes. We have tested the hypothesis of whether the infants who had received NIDCAP would show advanced sleep-wake pattern, behavioral, and neurodevelopmental outcome. METHODS: Thirty-five VLBW infants were randomly assigned to receive NIDCAP or routine infant care. The goals for NIDCAP intervention were to enhance comfort and stability and to reduce stress and agitation for the preterm infants by: a) altering the environment by decreasing excess light and noise in the neonatal intensive care unit (NICU) and by using covers over the incubators and cribs; b) use of positioning aids such as boundary supports, nests, and buntings to promote a balance of flexion and extension postures; c) modification of direct hands-on caregiving to maximize preparation of infants for, tolerance of, and facilitation of recovery from interventions; d) promotion of self-regulatory behaviors such as holding on, grasping, and sucking; e) attention to the readiness for and the ability to take oral feedings; and f) involving parents in the care of their infants as much as possible. The infants' sleep was recorded at 36 weeks postconceptional age (PCA) and at 3 months corrected age (CA) using the Motility Monitoring System (MMS), an automated, nonintrusive procedure for determining sleep state from movement and respiration patterns. Behavioral and developmental outcome was assessed by the Neurobehavioral Assessment of the Preterm Infant (NAPI) at 36 weeks PCA, the APIB at 42 weeks PCA, and by the Bayley Scales of Infant Development (BSID) at 4, 12, and 24 months CA. RESULTS: Sleep developmental measures at 3 months CA showed a clear developmental change compared with 36 weeks PCA. These include: increased amount of quiet sleep, reduced active sleep and indeterminate sleep, decreased arousal, and transitions during sleep. Longest sleep period at night showed a clear developmental effect (increased) when comparing nighttime sleep pattern of infants at 3 months with those at 36 weeks of age. Day-night rhythm of sleep-wake increased significantly from 36 weeks PCA to 3 months CA. However, neither of these sleep developmental changes showed any significant effects of NIDCAP intervention. Although all APIB measures showed better organized behavior in NIDCAP patients, neither NAPI nor Bayley showed any developmental advantages for the intervention group. The neurodevelopmental outcome measured by the Bayley at 4, 12, and 24 months CA showed 64% of the NIDCAP intervention group at the lowest possible score compared with 33% of the control group. These findings could not be explained by the occurrence of intraventricular hemorrhage or the socioeconomic status of the parents, which showed no significant group effect. CONCLUSION: The results of this study, including measures of sleep maturation and neurodevelopmental outcome up to 2 years of age did not demonstrate that the NIDCAP intervention results in increased maturity or development. Buehler et al (Pediatrics. 1995;96:923-932) have reported that premature infants (N = 12; mean gestational age 32 weeks, mean birth weight 1700 g) who received developmental care compared with a similar group of infants who received routine care showed better organized behavioral performance on an APIB assessment at 42 weeks PCA. None of the medical outcome measures were significantly different in this study. Although our APIB results are in agreement, the results of the NAPI, the Bayley and sleep measures do not show an increase in neurodevelopmental maturation. In the earlier report by Als et al (Journal of the American Medical Associatio},
affiliation = {Department of Pediatrics, Stanford University School of Medicine, Stanford, California 94305-5119, USA.},
number = {6},
pages = {E9},
volume = {100},
year = {1997},
month = {Dec},
language = {eng},
keywords = {Child Development, Monitoring: Physiologic, Adult, Intensive Care Units: Neonatal, Sleep, Maternal Age, Infant: Newborn, Infant Care, Infant: Very Low Birth Weight, Infant Behavior, Humans, Infant: Premature, Female},
date-added = {2010-03-20 19:22:38 +0100},
date-modified = {2010-03-20 19:22:38 +0100},
pmid = {9382910},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ariagno-1997-Pediatrics_Developmental%20care%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7929},
rating = {0}
}
@article{Spradling:2006p2910,
author = {Allan Spradling and Barry Ganetsky and Phil Hieter and Mark Johnston and Maynard Olson and Terry Orr-Weaver and Janet Rossant and Alejandro Sanchez and Robert Waterston},
journal = {Genetics},
title = {New roles for model genetic organisms in understanding and treating human disease: report from the 2006 Genetics Society of America meeting},
abstract = {Fundamental biological knowledge and the technology to acquire it have been immeasurably advanced by past efforts to understand and manipulate the genomes of model organisms. Has the utility of bacteria, yeast, worms, flies, mice, plants, and other models now peaked and are humans poised to become the model organism of the future? The Genetics Society of America recently convened its 2006 meeting entitled "Genetic Analysis: Model Organisms to Human Biology" to examine the future role of genetic research. (Because of time limitations, the meeting was unable to cover the substantial contributions and future potential of research on model prokaryotic organisms.) In fact, the potential of model-organism-based studies has grown substantially in recent years. The genomics revolution has revealed an underlying unity between the cells and tissues of eukaryotic organisms from yeast to humans. No uniquely human biological mechanisms have yet come to light. This common evolutionary heritage makes it possible to use genetically tractable organisms to model important aspects of human medical disorders such as cancer, birth defects, neurological dysfunction, reproductive failure, malnutrition, and aging in systems amenable to rapid and powerful experimentation. Applying model systems in this way will allow us to identify common genes, proteins, and processes that underlie human medical conditions. It will allow us to systematically decipher the gene-gene and gene-environment interactions that influence complex multigenic disorders. Above all, disease models have the potential to address a growing gap between our ability to collect human genetic data and to productively interpret and apply it. If model organism research is supported with these goals in mind, we can look forward to diagnosing and treating human disease using information from multiple systems and to a medical science built on the unified history of life on earth.},
affiliation = {Department of Embryology/HHMI, Carnegie Institution of Washington, Baltimore, MD 21218, USA. spradling@ciwemb.edu},
number = {4},
pages = {2025--32},
volume = {172},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Genetic Variation, Saccharomyces cerevisiae, Stem Cells, Schizosaccharomyces, Epigenesis: Genetic, Humans, Animals, Models: Animal, Genetics, Models: Genetic},
date-added = {2010-01-13 15:02:58 +0100},
date-modified = {2010-07-29 19:27:13 +0200},
pii = {172/4/2025},
pmid = {16636111},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spradling-2006-Genetics_New%20roles%20for%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2910},
rating = {0}
}
@article{Henkel:2001p12854,
author = {V Henkel and R Mergl and G Juckel and D Rujescu and P Mavrogiorgou and I Giegling and H M{\"o}ller and U Hegerl},
journal = {Neuropsychologia},
title = {Assessment of handedness using a digitizing tablet: a new method},
abstract = {The assessment of handedness is of interest in some psychiatric populations, above all in schizophrenic patients, because there may be a relationship between neurodevelopmental, hemispheric damage and psychiatric disease processes (Crow TJ. Schizophrenia Bulletin 1990;16:433-443; Tyler M, Diamond J, Lewis S. Schizophrenia Research 1995;18:37-41). Various methods to assess handedness have been proposed. In order to detect the most precise instrument for the assessment of handedness, two different measures, a questionnaire and a computational procedure for movement analysis, were compared in a group of healthy subjects. The ability of the methods to discriminate not only between the groups of right-handers (n=12) and left-handers (n=23), but also between left-handers trained in school to use the non-dominant right hand ('inconsistent' left-handers; n=11) and those allowed to use their left hand for writing ('consistent' left-handers; n=12) was investigated. For future investigations, our main concern was to determine if one method had superiority over the other. The results revealed that the Edinburgh Handedness Inventory (EHI) distinguishes just as well as the computational method between right-handers and non-right-handers. However, more precise discrimination between the subgroups of 'consistent' and 'inconsistent' left-handers is possible using digitized analysis of hand-motor performance. According to our results handedness should be assessed not only with the EHI, but also with the computer-aided analysis of hand-movements.},
affiliation = {Department of Psychiatry, Ludwig-Maximilians-University Munich, Section of Clinical Neurophysiology, Nussbaumstr. 7, 80336, Munich, Germany. vhenkel@psy.med.uni-muenchen.de},
number = {11},
pages = {1158--66},
volume = {39},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Brain, Sensitivity and Specificity, Male, Humans, Schizophrenic Psychology, Psychomotor Performance, Adult, Neuropsychological Tests, Functional Laterality, Schizophrenia, Female},
date-added = {2010-06-21 20:20:00 +0200},
date-modified = {2010-06-21 20:20:00 +0200},
pii = {S0028393201000434},
pmid = {11527553},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Henkel-2001-Neuropsychologia_Assessment%20of%20handed.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12854},
rating = {0}
}
@article{Cieza:2009p6370,
author = {Alarcos Cieza and Roger Hilfiker and Somnath Chatterji and Nenad Kostanjsek and Bedirhan T Ust{\"u}n and Gerold Stucki},
journal = {Journal of Clinical Epidemiology},
title = {The International Classification of Functioning, Disability, and Health could be used to measure functioning},
abstract = {OBJECTIVE: To explore whether it is possible to construct clinical measures of functioning by integrating information obtained across the categories of the International Classification of Functioning, Disability, and Health (ICF) using the ICF Core Set of osteoarthritis (OA) as a case in point. STUDY DESIGN AND SETTING: Psychometric study using data from 437 patients with OA from Germany, Italy, Hungary, Serbia, and Singapore. The analyses were performed with the ICF categories of the comprehensive ICF Core Set for OA addressing functioning and using the Rasch model for ordered response options. RESULTS: A clinical measure with 74 country-specific and seven common ICF categories was created with the pooled data of all countries but Hungary. The overall fit statistic according to the chi(2) was chi(df=405)(2)=451.73, P=0.054, and the Z-fit statistic was Z(mean)=-0.041 (Z(standard deviation [SD])=1.01) for items and Z(mean)=-0.15 (Z(SD)=1.19) for persons. The Person Separation Index r(beta) was 0.92. CONCLUSION: For the first time, a cross-cultural clinical measure of functioning was constructed which integrates ICF categories. The results of this investigation are promising and can contribute to the acceptance and usefulness of the ICF in clinical practice.},
affiliation = {ICF Research Branch, WHO Collaborating Center for the Family of International Classifications, German Institute of Medical Documentation and Information, IHRS, Ludwig-Maximilian University, Munich, Germany.},
number = {9},
pages = {899--911},
volume = {62},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Aged: 80 and over, Adult, Osteoarthritis, Aged, Severity of Illness Index, Humans, Range of Motion: Articular, Psychometrics, Cross-Cultural Comparison, Female, Disability Evaluation, Male, Cross-Sectional Studies, Outcome Assessment (Health Care), Activities of Daily Living, Middle Aged},
date-added = {2010-02-23 08:22:16 +0100},
date-modified = {2010-02-23 08:22:16 +0100},
doi = {10.1016/j.jclinepi.2009.01.019},
pii = {S0895-4356(09)00087-0},
pmid = {19540718},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cieza-2009-Journal%20of%20Clinical%20Epidemiology_The%20International%20Cl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6370},
rating = {0}
}
@article{Mohamed:2010p14307,
author = {Thahir P Mohamed and Jaime G Carbonell and Madhavi K Ganapathiraju},
journal = {BMC Bioinformatics},
title = {Active learning for human protein-protein interaction prediction},
abstract = {BACKGROUND: Biological processes in cells are carried out by means of protein-protein interactions. Determining whether a pair of proteins interacts by wet-lab experiments is resource-intensive; only about 38,000 interactions, out of a few hundred thousand expected interactions, are known today. Active machine learning can guide the selection of pairs of proteins for future experimental characterization in order to accelerate accurate prediction of the human protein interactome. RESULTS: Random forest (RF) has previously been shown to be effective for predicting protein-protein interactions. Here, four different active learning algorithms have been devised for selection of protein pairs to be used to train the RF. With labels of as few as 500 protein-pairs selected using any of the four active learning methods described here, the classifier achieved a higher F-score (harmonic mean of Precision and Recall) than with 3000 randomly chosen protein-pairs. F-score of predicted interactions is shown to increase by about 15% with active learning in comparison to that with random selection of data. CONCLUSION: Active learning algorithms enable learning more accurate classifiers with much lesser labelled data and prove to be useful in applications where manual annotation of data is formidable. Active learning techniques demonstrated here can also be applied to other proteomics applications such as protein structure prediction and classification.},
affiliation = {Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA, USA. mop13+bmc@pitt.edu},
pages = {S57},
volume = {11 Suppl 1},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Proteins, Humans, Algorithms, Protein Conformation, Databases: Protein, Proteomics},
date-added = {2010-08-24 14:27:46 +0200},
date-modified = {2010-08-24 14:27:46 +0200},
doi = {10.1186/1471-2105-11-S1-S57},
pii = {1471-2105-11-S1-S57},
pmid = {20122232},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mohamed-2010-BMC%20Bioinformatics_Active%20learning%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14307},
rating = {0}
}
@article{McCulloch:2001,
author = {A McCulloch},
journal = {British Medical Journal},
title = {Social environments and health: cross-sectional national survey},
abstract = {Researchers are increasingly interested in studying the effects of the social environment on health.1 The concept of social capital has been put forward as one explanation for why some communities work better than others, with benefits for the whole of the local population.2 Social capital is applied to those features of a community that promote cohesion and a sense of belonging and that enable its members to cooperate. Similarly, criminologists have argued that the level of social organisation in a neighbourhood, or the degree to which residents are able to realise common goals and exercise social control, links the social composition of a neighbourhood and rates of deviant behaviour.3 We investigated how individual's reports of social capital and social disorganisation are associated with health outcomes among men and women aged 16 to 54 from a representative cross section of British households.},
pages = {208--209},
volume = {323},
year = {2001},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1069},
rating = {0}
}
@article{Halverson:2003p4617,
author = {R Halverson and M Clifford},
title = {Evaluation in the Wild: A Distributed Cognition Perspective on Teacher Assessment},
abstract = {A distributed cognition perspective on teacher evaluation demonstrates how context and cognition interact to form systems of knowing and action. In this paper, we discuss how a middle school principal used a standards-based teacher evaluation system with her teachers. The task of teacher evaluation was distributed through several artifacts designed to structure the evaluation process. The central, district-designed artifact included features to support both formative and summative aspects of evaluation. In practice, the principal as evaluator used her discretion to determine which features of the program to implement when. Implementing the evaluation system required the principal to assess the place of evaluation among the existing features of the local school system to develop a process that made teacher evaluation a tool for meaningful communication about instruction, improvement, and status within the school.},
year = {2003},
date-added = {2010-01-30 15:23:15 +0100},
date-modified = {2010-01-30 15:23:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Halverson-2003-_Evaluation%20in%20the%20Wi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4617},
rating = {0}
}
@article{Raffaelli:2005p10005,
author = {Marcela Raffaelli and Lisa J Crockett and Yuh-Ling Shen},
journal = {J Genet Psychol},
title = {Developmental stability and change in self-regulation from childhood to adolescence},
abstract = {The authors examined the developmental course of self-regulation in a cohort of children from the National Longitudinal Survey of Youth. The longitudinal sample included 646 children (48% girls; 52% boys; 36.2% Black, 23.4% Hispanic, 40.4% White) who were 4 to 5 years old in 1986 and who were followed up at ages 8 to 9 and ages 12 to 13. Levels of self-regulation (assessed with 12 maternal-report items that measured regulation of affect, behavior, attention) increased from early childhood (when sample children were 4 or 5 years old) to middle childhood (ages 8 or 9), but not from middle childhood to early adolescence (ages 12 or 13). Girls exhibited significantly higher levels of self-regulation than did boys at all 3 time points. Individual differences in self-regulation were fairly stable across the 8-year span (rs = .47 to .50). Comparisons of 1-, 2-, and 3-factor models suggested that the different aspects of self-regulation are highly interrelated, and support adoption of a single-factor model for both genders. The authors discuss implications of these findings for theory and intervention.},
affiliation = {Department of Psychology and Institute for Ethnic Studies, University of Nebraska-Lincoln, 68588-0308, USA. mraffaelli1@unl.edu},
number = {1},
pages = {54--75},
volume = {166},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Follow-Up Studies, Social Control: Informal, Adolescent, Adolescent Behavior, Child, Child: Preschool, Child Development, Female, Male, Humans},
date-added = {2010-03-31 19:48:03 +0200},
date-modified = {2010-03-31 19:48:03 +0200},
pmid = {15782678},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raffaelli-2005-J%20Genet%20Psychol_Developmental%20stabil.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10005},
rating = {0}
}
@article{Takane:2008p2718,
author = {Y Takane and S Jung},
journal = {Computational Statistics},
title = {Regularized Nonsymmetric Correspondence Analysis},
abstract = {Nonsymmetric correspondence analysis (NSCA) is designed to analyze two-way con- tingency tables in which rows and columns assume an asymmetric role, e.g., columns depend on rows, but not vice versa. A ridge type of regularization was incorporated into a variety of NSCA: Ordinary NSCA, and Partial and/or Constrained NSCA. The regularization has proven useful in obtaining estimates of parameters, which are on average closer to the true population values. An optimal value of the reg- ularization parameter is found by a G-fold cross validation method, and the best dimensionality of the solution space is determined by permutation tests. A bootstrap method is used to evaluate the stability of the solution. A small Monte Carlo study and an illustrative example demonstrate the usefulness of the proposed procedures.},
year = {2008},
date-added = {2010-01-13 14:05:08 +0100},
date-modified = {2010-07-29 19:24:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-2008-Computational%20Statistics_Regularized%20Nonsymme.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2718},
rating = {4}
}
@article{Congdon:2008p9448,
author = {Eliza Congdon and Klaus Peter Lesch and Turhan Canli},
journal = {Am J Med Genet B Neuropsychiatr Genet},
title = {Analysis of DRD4 and DAT polymorphisms and behavioral inhibition in healthy adults: implications for impulsivity},
abstract = {Impulsivity, a highly prevalent symptom in multiple psychiatric disorders, is a partially heritable trait influenced by specific biological mechanisms. In particular, dopamine is proposed to play a role in impulsive behaviors and recent studies have implicated functional polymorphisms of dopamine-related genes in impulsive behaviors across different clinical and behavioral classifications. However, most have not isolated the impulsivity construct per se as a biologically based and measurable endophenotype. The present study was therefore undertaken in a sample of healthy adults to investigate the influence of two candidate dopaminergic gene polymorphisms (DRD4 and DAT) on the endophenotype of impulsivity, which we operationalized as behavioral inhibition during the Stop-signal task. We recruited an ethnically diverse sample of 119 healthy adults to complete a self-report questionnaire of impulsivity and to perform a Stop-signal task. We report significant differences in inhibitory control between individuals with at least one 7-repeat allele of the DRD4 polymorphism, as well as an interaction between DRD4 and DAT genotypes, on inhibitory control. Results of the present study support the influence of dopaminergic variation on impulsive-related measures, as well as the advantage of using measures which are likely more sensitive to the effects of such genetic variation.},
affiliation = {Department of Psychology, Stony Brook University, Stony Brook, New York 11794-2500, USA. econgdon@ic.sunysb.edu},
number = {1},
pages = {27--32},
volume = {147B},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Alleles, Female, Receptors: Dopamine D4, Polymorphism: Genetic, Adult, Humans, Inhibition (Psychology), Dopamine Plasma Membrane Transport Proteins, Male, Genotype, Adolescent, Genetic Variation, Impulsive Behavior},
date-added = {2010-03-23 19:38:20 +0100},
date-modified = {2010-05-23 11:46:09 +0200},
doi = {10.1002/ajmg.b.30557},
pmid = {17525955},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Congdon-2008-Am%20J%20Med%20Genet%20B%20Neuropsychiatr%20Genet_Analysis%20of%20DRD4%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9448},
rating = {4}
}
@article{vanderZanden:2006p7871,
author = {Bart P van der Zanden and Marcel G W Dijkgraaf and Peter Blanken and Corianne A J M de Borgie and Jan M van Ree and Wim van den Brink},
journal = {Drug Alcohol Depend},
title = {Validity of the EQ-5D as a generic health outcome instrument in a heroin-dependent population},
abstract = {OBJECTIVE: To evaluate the validity of the EuroQol (EQ-5D) in a population of chronic, treatment-resistant heroin-dependent patients. METHODS: The EQ-5D is studied relative to the Maudsley Addiction Profile (MAP), the Symptom Checklist (SCL-90) and the European Addiction Severity Index (EuropASI) which were used to assess the participant's physical functioning, mental health and social integration, respectively. Data were gathered from 430 patients participating in the Dutch heroin trials with an intended 12-month treatment period. The EQ-5D was used as a separate health outcome measure. Statistical analyses were conducted using Spearman's and Pearson's correlations. RESULTS: The EQ-5D dimensions mobility, self-care and usual activities generally showed low correlations with relevant parameters of the MAP-HSS, SCL-90 and EuropASI (r=0.132-0.369). The EQ-5D dimension pain/discomfort showed low to moderate hypothesized correlations with all disease-specific measures (r=0.153-0.496). The EQ-5D dimension anxiety/depression showed moderate to high correlations with the SCL-90 (including the sum score) and some of the EuropASI parameters (r=0.133-0.615). The EQ-5D utility scores were moderately correlated with the MAP-HSS (r=-0.468) and the SCL-90 (r=-0.491) total score and with response to treatment at month 12. CONCLUSION: The majority of hypothesized associations between the EQ-5D and the disease or domain-specific measures could be confirmed. The validity of the EQ-5D-based utility score appears to be suitable in the evaluation of chronic, heroin-dependent populations.},
affiliation = {Department of Clinical Epidemiology and Biostatistics, Academic Medical Center, University of Amsterdam, Meibergdreef 15, Room J1B-226, 1105 AZ Amsterdam, The Netherlands. b.vanderzanden@amc.uva.nl},
number = {2},
pages = {111--8},
volume = {82},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Multicenter Studies as Topic, Socioeconomic Factors, Treatment Outcome, Adult, Heroin Dependence, Self Care, Cross-Sectional Studies, Netherlands, Humans, Male, Reproducibility of Results, Health Status, Female},
date-added = {2010-03-20 19:13:09 +0100},
date-modified = {2010-03-20 19:13:09 +0100},
doi = {10.1016/j.drugalcdep.2005.08.012},
pii = {S0376-8716(05)00260-7},
pmid = {16168573},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20der%20Zanden-2006-Drug%20Alcohol%20Depend_Validity%20of%20the%20EQ-5.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7871},
rating = {0}
}
@article{Mehta:2005p3197,
author = {P D Mehta and M C Neale},
journal = {Psychological Methods},
title = {People Are Variables Too: Multilevel Structural Equations Modeling},
abstract = {The article uses confirmatory factor analysis (CFA) as a template to explain didactically multilevel structural equation models (ML-SEM) and to demonstrate the equivalence of general mixed-effects models and ML-SEM. An intuitively appealing graphical representa- tion of complex ML-SEMs is introduced that succinctly describes the underlying model and its assumptions. The use of definition variables (i.e., observed variables used to fix model parameters to individual specific data values) is extended to the case of ML-SEMs for clustered data with random slopes. Empirical examples of multilevel CFA and ML-SEM with random slopes are provided along with scripts for fitting such models in SAS Proc Mixed, Mplus, and Mx. Methodological issues regarding estimation of complex ML-SEMs and the evaluation of model fit are discussed. Further potential applications of ML-SEMs are explored.},
number = {3},
pages = {259--284},
volume = {10},
year = {2005},
date-added = {2010-01-14 20:56:12 +0100},
date-modified = {2010-01-14 20:56:59 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mehta-2005-Psychological%20Methods_People%20Are%20Variables.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3197},
rating = {0}
}
@article{MacCallum:2000p1226,
author = {R C MacCallum and J T Austin},
journal = {Annual Review of Psychology},
title = {Application of structural equation modeling in psychological research},
abstract = {This chapter presents a review of applications of structural equation modeling (SEM) published in psychological research journals in recent years. We focus first on the variety of research designs and substantive issues to which SEM can be applied productively. We then discuss a number of methodological problems and issues of concern that characterize some of this literature. Although it is clear that SEM is a powerful tool that is being used to great benefit in psychological research, it is also clear that the applied SEM literature is characterized by some chronic prob- lems and that this literature can be considerably improved by greater attention to these issues.},
affiliation = {The Ohio State University, Department of Psychology, 142 Townshend Hall, Columbus, Ohio 43210--1222},
pages = {201--226},
volume = {51},
year = {2000},
keywords = {covariance structures, structural equation models, LISREL},
date-added = {2010-01-03 19:41:24 +0100},
date-modified = {2010-01-03 19:43:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/MacCallum-2000-Annual%20Review%20of%20Psychology_Application%20of%20struc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1226},
rating = {0}
}
@article{Zhu:2009p11576,
author = {X Zhu},
title = {Assessing fit of item response models for performance assessments using bayesian analysis},
year = {2009},
date-added = {2010-05-09 18:19:09 +0200},
date-modified = {2010-05-09 18:19:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhu-2009-_Assessing%20fit%20of%20ite.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11576},
rating = {0}
}
@article{Raymond:2006,
author = {PD Raymond and AD Hinton-Bayre and M Radel and MJ Ray and NA Marsh},
journal = {Eur J European Journal of Cardiothoracic Surgery},
title = {Assessment of statistical change criteria used to define significant change in neuropsychological test performance following cardiac surgery},
abstract = {Objective: This paper compares four techniques used to assess change in neuropsychological test scores before and after coronary artery bypass graft surgery (CABG), and includes a rationale for the classification of a patient as overall impaired. Methods: A total of 55 patients were tested before and after surgery on the MicroCog neuropsychological test battery. A matched control group underwent the same testing regime to generate test--retest reliabilities and practice effects. Two techniques designed to assess statistical change were used: the Reliable Change Index (RCI), modified for practice, and the Standardised Regression-based (SRB) technique. These were compared against two fixed cutoff techniques (standard deviation and 20% change methods). Results: The incidence of decline across test scores varied markedly depending on which technique was used to describe change. The SRB method identified more patients as declined on most measures. In comparison, the two fixed cutoff techniques displayed relatively reduced sensitivity in the detection of change. Conclusions: Overall change in an individual can be described provided the investigators choose a rational cutoff based on likely spread of scores due to chance. A cutoff value of 20% of test scores used provided acceptable probability based on the number of tests commonly encountered. Investigators must also choose a test battery that minimises shared variance among test scores.},
pages = {82--88},
volume = {29},
year = {2006},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-01-03 19:35:29 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1025},
rating = {0}
}
@article{McGue:2010p12470,
author = {Matt McGue},
journal = {Behav Genet},
title = {The end of behavioral genetics? 2008},
number = {3},
pages = {284--96},
volume = {40},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-06-15 17:38:38 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9354-0},
pmid = {20358397},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McGue-2010-Behav%20Genet_The%20end%20of%20behaviora.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12470},
rating = {0}
}
@article{Isohanni:2001,
author = {M Isohanni and PB Jones and K Moilanen and P Rantakallio and J Veijola and H Oja and M Koiranen and J Jokelainen and T Croudace and M Jarvelin},
journal = {Schizophr Res},
title = {Early developmental milestones in adult schizophrenia and other psychoses. A 31-year follow-up of the Northern Finland 1966 Birth Cohort},
abstract = {BACKGROUND: Understanding variations in the incidence of schizophrenia is a crucial step in unravelling the aetiology of this group of disorders. The aims of this review are to systematically identify studies related to the incidence of schizophrenia, to describe the key features of these studies, and to explore the distribution of rates derived from these studies. METHODS: Studies with original data related to the incidence of schizophrenia (published 1965-2001) were identified via searching electronic databases, reviewing citations and writing to authors. These studies were divided into core studies, migrant studies, cohort studies and studies based on Other Special Groups. Between- and within-study filters were applied in order to identify discrete rates. Cumulative plots of these rates were made and these distributions were compared when the underlying rates were sorted according to sex, urbanicity, migrant status and various methodological features. RESULTS: We identified 100 core studies, 24 migrant studies, 23 cohort studies and 14 studies based on Other Special Groups. These studies, which were drawn from 33 countries, generated a total of 1,458 rates. Based on discrete core data for persons (55 studies and 170 rates), the distribution of rates was asymmetric and had a median value (10%-90% quantile) of 15.2 (7.7-43.0) per 100,000. The distribution of rates was significantly higher in males compared to females; the male/female rate ratio median (10%-90% quantile) was 1.40 (0.9-2.4). Those studies conducted in urban versus mixed urban-rural catchment areas generated significantly higher rate distributions. The distribution of rates in migrants was significantly higher compared to native-born; the migrant/native-born rate ratio median (10%-90% quantile) was 4.6 (1.0-12.8). Apart from the finding that older studies reported higher rates, other study features were not associated with significantly different rate distributions (e.g. overall quality, methods related to case finding, diagnostic confirmation and criteria, the use of age-standardization and age range). CONCLUSIONS: There is a wealth of data available on the incidence of schizophrenia. The width and skew of the rate distribution, and the significant impact of sex, urbanicity and migrant status on these distributions, indicate substantial variations in the incidence of schizophrenia. Mesh-terms: Cohort Studies; Female; Humans; Incidence; Male; Rural Health; Schizophrenia :: epidemiology; Sex Distribution; Transients and Migrants :: statistics {\&} numerical data; Urban Health;},
number = {1-2},
pages = {1--19},
volume = {52},
year = {2001},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1094},
rating = {0}
}
@article{Anokhin:2010p7651,
author = {Andrey P Anokhin and Simon Golosheykin and Andrew C Heath},
journal = {Behav Genet},
title = {Heritability of individual differences in cortical processing of facial affect},
abstract = {Facial expression of emotion is a key mechanism of non-verbal social communication in humans. Deficits in processing of facial emotion have been implicated in psychiatric disorders characterized by abnormal social behavior, such as autism and schizophrenia. Identification of genetically transmitted variability in the neural substrates of facial processing can elucidate the pathways mediating genetic influences on social behavior and provide useful endophenotypes for psychiatric genetic research. This study examined event-related brain potentials (ERPs) evoked by changes in facial expression in adolescent twins (age 12, 47 monozygotic and 51 dizygotic pairs). Facial images with happy, fearful, and neutral expressions were administered in a continuous mode, such that different expressions of the same face instantaneously replaced each other. This experimental design allowed us to isolate responses elicited by changes in emotional expression that were not confounded with responses elicited by image onset. Changes of emotional expression elicited a N240 wave with a right temporoparietal maximum and a P300 wave with a centropariatal midline maximum. Genetic analyses using a model fitting approach showed that a substantial proportion of the observed individual variation in these ERP responses can be attributed to genetic factors (36-64% for N250 and 42-62% for P300 components, respectively). This study provides the first evidence for heritability of neuroelectric indicators of face processing and suggests that ERP components sensitive to emotional expressions can potentially serve as endophenotypes for psychpathology characterized by abnormalities in social cognition and behavior.},
affiliation = {Department of Psychiatry, Washington University School of Medicine, 660 S. Euclid, Box 8134, St. Louis, MO, 63110, USA. andrey@matlock.wustl.edu},
number = {2},
pages = {178--85},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:20:24 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9337-1},
pmid = {20127403},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Anokhin-2010-Behav%20Genet_Heritability%20of%20indi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7651},
rating = {0}
}
@article{Sadesky:2003p3554,
author = {G S Sadesky},
title = {Cluster Analysis and its Application In Standard Setting},
year = {2003},
date-added = {2010-01-15 21:07:55 +0100},
date-modified = {2010-01-15 21:08:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sadesky-2003-_Cluster%20Analysis%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3554},
rating = {0}
}
@article{Li:2007p9971,
author = {M H Li and A Ferdinandi},
journal = {Journal of Education and Human Development},
title = {Interactions among Children's Ability to Control Impulsive Behaviors, Academic Motivation, and Academic Performance over Years across Kindergarten and First Grade},
abstract = {This study explored the relationships among children's ability to control impulsive behaviors, academic motivation, and academic performance. Results showed that, as early as when children are in kindergarten and first grade, their ability to control impulsiveness and their academic motivation both positively influence academic performance. However, academic motivation does not mediate between children's ability to control impulsiveness and their academic performance. Different aspects of children's self-concepts (social competence and academic competence) are closely associated with each other, but academic motivation does not influence that association. Data were extracted from a national database---the Early Childhood Longitudinal Study- Kindergarten Class of 1998-99.},
number = {2},
volume = {1},
year = {2007},
date-added = {2010-03-31 19:45:38 +0200},
date-modified = {2010-03-31 19:46:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2007-Journal%20of%20Education%20and%20Human%20Development_Interactions%20among%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9971},
rating = {0}
}
@article{Trikalinos:2004p10437,
author = {Thomas A Trikalinos and Evangelia E Ntzani and Despina G Contopoulos-Ioannidis and John P A Ioannidis},
journal = {Eur J Hum Genet},
title = {Establishment of genetic associations for complex diseases is independent of early study findings},
abstract = {Numerous genetic association studies for complex diseases are performed. Investigators place emphasis on formal statistical significance (P-values < 0.05), but the predictive ability of early statistically significant ('positive') findings is unclear. We scrutinized 55 cumulative meta-analyses of genetic associations (579 studies), in order to assess whether having statistical significance in the earliest (first) published study or in at least half among several (> or =3) early-published studies, or high statistical significance in early studies had any predictive ability for establishing or refuting the presence of the genetic association in subsequent research. In 35 associations, a first study was 'positive' and in 15 associations more than half of the early-published reports were 'positive'. The average publication rate of subsequent studies increased 1.71-fold with a 'positive' first report. When compared against the summary results of subsequent research, sensitivity and specificity were 0.65 and 0.38 for the first reports, and 0.40 and 0.73, respectively, when at least three early studies were considered. First studies also had poor predictive ability, when we considered the estimated attributable fraction and coverage of the 95% confidence interval thereof or higher levels of statistical significance. We conclude that although 'positive' findings in the very first reports provide strong incentive for conducting more studies on a putative genetic epidemiological association, the statistical significance or even the magnitude of the effect of early studies cannot adequately predict eventual establishment of an association. Conversely, many genuine epidemiological associations would be missed, if research were abandoned after early underpowered 'negative' studies.},
affiliation = {Clinical and Molecular Epidemiology Unit and Clinical Trials and Evidence-Based Medicine Unit, Department of Hygiene and Epidemiology, University of Ioannina School of Medicine, Ioannina, Greece.},
number = {9},
pages = {762--9},
volume = {12},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Meta-Analysis as Topic, Databases: Factual, Publication Bias, Humans, Sensitivity and Specificity, Odds Ratio, Genetic Predisposition to Disease, Causality},
date-added = {2010-04-07 11:02:44 +0200},
date-modified = {2010-07-29 19:26:28 +0200},
doi = {10.1038/sj.ejhg.5201227},
pii = {5201227},
pmid = {15213707},
url = {http://www.nature.com/ejhg/journal/v12/n9/abs/5201227a.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Trikalinos-2004-Eur%20J%20Hum%20Genet_Establishment%20of%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10437},
rating = {4}
}
@article{Khil:2010p4885,
author = {P P Khil and D Camerini-Otero},
journal = {PLoS Genet},
title = {Genetic Crossovers Are Predicted Accurately by the Computed Human Recombination Map},
abstract = {Hotspots of meiotic recombination can change rapidly over time. This instability and the reported high level of inter-individual variation in meiotic recombination puts in question the accuracy of the calculated hotspot map, which is based on the summation of past genetic crossovers. To estimate the accuracy of the computed recombination rate map, we have mapped genetic crossovers to a median resolution of 70 Kb in 10 CEPH pedigrees. We then compared the positions of crossovers with the hotspots computed from HapMap data and performed extensive computer simulations to compare the observed distributions of crossovers with the distributions expected from the calculated recombination rate maps. Here we show that a population-averaged hotspot map computed from linkage disequilibrium data predicts well present-day genetic crossovers. We find that computed hotspot maps accurately estimate both the strength and the position of meiotic hotspots. An in-depth examination of not-predicted crossovers shows that they are preferentially located in regions where hotspots are found in other populations. In summary, we find that by combining several computed population-specific maps we can capture the variation in individual hotspots to generate a hotspot map that can predict almost all present-day genetic crossovers.},
number = {1},
volume = {6},
year = {2010},
date-added = {2010-02-02 11:24:04 +0100},
date-modified = {2010-02-02 11:24:57 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Khil-2010-PLoS%20Genet_Genetic%20Crossovers%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4885},
rating = {0}
}
@article{Gabel:2008p1692,
author = {M J Gabel and S Hix and M Malecki},
title = {From Preferences to Behaviour: Comparing MEPs' Survey Responses and Roll-Call Voting
Behavior},
abstract = {To what extent do legislative parties shape legislative outcomes? There are strong theoretical reasons to believe that legislative institutions, in particular political parties, have a powerful influence on legislative outcomes by shaping how legislators' personal preferences over policies translate into ``revealed'' legislative behavior and hence ultimately policy outcomes.
Yet, estimating the impact of legislative parties on legislative behaviour is often difficult: cohesive voting among party members could indicate that the party has enforced disciplined voting, or that members share the same preferences on the issue of the vote. The relevant coun- terfactual is how MEPs would have voted in the absense of European or national party influence. We examine these issues in the context of the European Parliament, modeling roll-call votes in a Bayesian hierarchical framework as a function of both party and preferences.
If answers to a European Policy Research Group survey are taken as an exogenous mea- sure of MEPs' preferences, they indicate wide intra-party variation and considerable inter-party overlap. But, as other research has shown, summaries of their voting behavior show them to be neatly divided by party group.
We develop an extension of the item-response model in which the latent ideal point is a function of a set of predictors including party group, nationality, and surveyed preference. In other words, rather than attempting to explain variation among summaries of vote behavior, we estimate the effects of party and preference directly on MEPs' complete vote histories. Finally, we are able to formally compare models with arbitrary predictors -- including national party, european party, nationality, or alternative measures of preference -- via the marginal likelihood.},
year = {2008},
date-added = {2010-01-09 18:35:09 +0100},
date-modified = {2010-01-09 18:35:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gabel-2008-_From%20Preferences%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1692},
rating = {0}
}
@article{Rajaram:2010p7518,
author = {Satwik Rajaram and Yoshi Oono},
journal = {BMC Bioinformatics},
title = {NeatMap - non-clustering heat map alternatives in R},
abstract = {ABSTRACT: BACKGROUND: The clustered heat map is the most popular means of visualizing genomic data. It compactly displays a large amount of data in an intuitive format that facilitates the detection of hidden structures and relations in the data. However, it is hampered by its use of cluster analysis which does not always respect the intrinsic relations in the data, often requiring non-standardized reordering of rows/columns to be performed post-clustering. This sometimes leads to uninformative and/or misleading conclusions. Often it is more informative to use dimension-reduction algorithms (such as Principal Component Analysis and Multi-Dimensional Scaling) which respect the topology inherent in the data. Yet, despite their proven utility in the analysis of biological data, they are not as widely used. This is at least partially due to the lack of user-friendly visualization methods with the visceral impact of the heat map. RESULTS: NeatMap is an R package designed to meet this need. NeatMap offers a variety of novel plots (in 2 and 3 dimensions) to be used in conjunction with these dimension-reduction techniques. Like the heat map, but unlike traditional displays of such results, it allows the entire dataset to be displayed while visualizing relations between elements. It also allows superimposition of cluster analysis results for mutual validation. NeatMap is shown to be more informative than the traditional heat map with the help of two well-known microarray datasets. CONCLUSIONS: NeatMap thus preserves many of the strengths of the clustered heat map while addressing some of its deficiencies. It is hoped that NeatMap will spur the adoption of non-clustering dimension-reduction algorithms.},
affiliation = {Department of Physics, 1110 W, Green Street, University of Illinois at Urbana-Champaign, Urbana, IL 61801-3080, USA. satwik.rajaram@utsouthwestern.edu.},
number = {1},
pages = {45},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-10 20:56:52 +0100},
date-modified = {2010-03-10 20:56:55 +0100},
doi = {10.1186/1471-2105-11-45},
pii = {1471-2105-11-45},
pmid = {20096121},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rajaram-2010-BMC%20Bioinformatics_NeatMap%20-%20non-cluste.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7518},
rating = {2}
}
@article{Gibson:1959p13730,
author = {W A Gibson},
journal = {Psychometrika},
title = {Three multivariate models: Factor analysis, latent structure analysis, and latent profile analysis},
abstract = {The factor analysis model and La~arsfeld's latent structure scheme for analyzing dichotomous attributes are derived to show how the latter model avoids three knotty problems in factor analysis: communality esti- mation, rotation, and curvilinearity. Then the latent structure model is generalized into latent profile analysis for the study of interrelations among quantitative measures. Four latent profile examples are presented and dis- cussed in terms of their limitations and the problems of latent metric and dimensionality thereby raised. The possibihty of treating higher order empiri- cal relations in a manner paralleling their various uses in the latent structure model is indicated.},
number = {3},
pages = {229--252},
volume = {24},
year = {1959},
date-added = {2010-07-24 11:29:57 +0200},
date-modified = {2010-07-24 11:31:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gibson-1959-Psychometrika_Three%20multivariate%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13730},
rating = {0}
}
@article{DeLobel:2010p12100,
author = {Lizzy De Lobel and Pierre Geurts and Guy Baele and Francesc Castro-Giner and Manolis Kogevinas and Kristel Van Steen},
journal = {Eur J Hum Genet},
title = {A screening methodology based on Random Forests to improve the detection of gene-gene interactions},
abstract = {The search for susceptibility loci in gene-gene interactions imposes a methodological and computational challenge for statisticians because of the large dimensionality inherent to the modelling of gene-gene interactions or epistasis. In an era in which genome-wide scans have become relatively common, new powerful methods are required to handle the huge amount of feasible gene-gene interactions and to weed out false positives and negatives from these results. One solution to the dimensionality problem is to reduce data by preliminary screening of markers to select the best candidates for further analysis. Ideally, this screening step is statistically independent of the testing phase. Initially developed for small numbers of markers, the Multifactor Dimensionality Reduction (MDR) method is a nonparametric, model-free data reduction technique to associate sets of markers with optimal predictive properties to disease. In this study, we examine the power of MDR in larger data sets and compare it with other approaches that are able to identify gene-gene interactions. Under various interaction models (purely and not purely epistatic), we use a Random Forest (RF)-based prescreening method, before executing MDR, to improve its performance. We find that the power of MDR increases when noisy SNPs are first removed, by creating a collection of candidate markers with RFs. We validate our technique by extensive simulation studies and by application to asthma data from the European Committee of Respiratory Health Study II.European Journal of Human Genetics advance online publication, 12 May 2010; doi:10.1038/ejhg.2010.48.},
affiliation = {Department of Applied Mathematics and Computer Science, Ghent University, Ghent, Belgium.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-25 23:26:57 +0200},
date-modified = {2010-07-29 19:26:28 +0200},
doi = {10.1038/ejhg.2010.48},
pii = {ejhg201048},
pmid = {20461113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20Lobel-2010-Eur%20J%20Hum%20Genet_A%20screening%20methodol.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12100},
rating = {0}
}
@article{Hidalgo:2009p10143,
author = {C{\'e}sar A Hidalgo and Nicholas Blumm and Albert-L{\'a}szl{\'o} Barab{\'a}si and Nicholas A Christakis},
journal = {PLoS Comput Biol},
title = {A dynamic network approach for the study of human phenotypes},
abstract = {The use of networks to integrate different genetic, proteomic, and metabolic datasets has been proposed as a viable path toward elucidating the origins of specific diseases. Here we introduce a new phenotypic database summarizing correlations obtained from the disease history of more than 30 million patients in a Phenotypic Disease Network (PDN). We present evidence that the structure of the PDN is relevant to the understanding of illness progression by showing that (1) patients develop diseases close in the network to those they already have; (2) the progression of disease along the links of the network is different for patients of different genders and ethnicities; (3) patients diagnosed with diseases which are more highly connected in the PDN tend to die sooner than those affected by less connected diseases; and (4) diseases that tend to be preceded by others in the PDN tend to be more connected than diseases that precede other illnesses, and are associated with higher degrees of mortality. Our findings show that disease progression can be represented and studied using network methods, offering the potential to enhance our understanding of the origin and evolution of human diseases. The dataset introduced here, released concurrently with this publication, represents the largest relational phenotypic resource publicly available to the research community.},
affiliation = {Center for International Development and Harvard Kennedy School, Harvard University, Cambridge, Massachusetts, United States of America.},
number = {4},
pages = {e1000353},
volume = {5},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Phenotype, Proportional Hazards Models, Comorbidity, Epidemiologic Measurements, Algorithms, Risk Factors, Disease Susceptibility, Humans, Risk Assessment, United States},
date-added = {2010-04-01 11:36:57 +0200},
date-modified = {2010-07-29 19:43:29 +0200},
doi = {10.1371/journal.pcbi.1000353},
pmid = {19360091},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hidalgo-2009-PLoS%20Comput%20Biol_A%20dynamic%20network%20ap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10143},
rating = {0}
}
@article{CampoArias:2007p5238,
author = {A Campo-Arias and L A Diaz-Martinez and G E Rueda-Jaimes and L Cadena-Afanador},
journal = {Rev Colomb Psiquiat},
title = {Psychometric properties of the CES-D scale among colombian adults from the general population},
number = {4},
pages = {664--674},
volume = {XXXVI},
year = {2007},
date-added = {2010-02-08 20:11:56 +0100},
date-modified = {2010-02-08 20:13:37 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Campo-Arias-2007-Rev%20Colomb%20Psiquiat_Psychometric%20propert.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5238},
rating = {0}
}
@article{Rijmen:2005,
author = {F Rijmen and Paul De Boeck},
journal = {Psychometrika},
title = {A relation between a between-item multidimensional IRT model and the mixture-Rasch model},
abstract = {Two generalizations of the Rasch model are compared: the between-item multidimensional model (Adams, Wilson, and Wang, 1997), and the mixture Rasch model (Mislevy {\&} Verhelst, 1990; Rost, 1990). It is shown that the between-item multidimensional model is formally equivalent with a continuous mixture of Rasch models for which, within each class of the mixture, the item parameters are equal to the item parameters of the multidimensional model up to a shift parameter that is specific for the dimension an item belongs to in the multidimensional model. In a simulation study, the relation between both types of models also holds when the number of classes of the mixture is as small as two. The relation is illustrated with a study on verbal aggression.},
pages = {481--496},
volume = {70},
year = {2005},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
doi = {10.1007/s11336-002-1007-7},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rijmen-2005-Psychometrika_A%20relation%20between%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2096},
read = {Yes},
rating = {0}
}
@book{McCulloch:2001,
author = {C E McCulloch and S R Searle},
journal = {Book},
title = {Generalized, linear, and mixed models},
year = {2001},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1114},
rating = {0}
}
@article{Tesio:2003p5496,
author = {Luigi Tesio},
journal = {J Rehabil Med},
title = {Measuring behaviours and perceptions: Rasch analysis as a tool for rehabilitation research},
abstract = {Variables present in an individual, for example, independence, pain, balance, fatigue, depression and knowledge, cannot be measured directly (hence the term "latent" variables). They are usually assessed by measuring related behaviours, defined by sets of standardized items. The homogeneity of the different items, and proportionality of raw counts to measure, can only be postulated. In 1960 Georg Rasch proposed a statistical model that complied with the fundamental assumptions made in measurements in physical sciences. It allowed for the transformation of the cumulative raw scores (achieved by a subject across items, or by an item across subjects) into linear continuous measures of ability (for subjects) and difficulty (for items). These 2 parameters, only, govern the probability that "pass" rather than "fail" occurs. The discrepancies between model-expected scores (continuous between 0 and 1) and observed scores (discrete, either 0 or 1) provide indexes of inconsistency of individual subjects, items and classes of subjects. In subsequent years the same principles were extended to rating scales, with items graded on more than 2 levels, and to "many-facet" contexts where, beyond items and subjects, multiple raters, times of administration, etc. converge in determining the observed scores. Rasch modelling has increasing application in rehabilitation medicine. New scales with unprecedented metric validity (including internal consistency and reliability) can be built. Existing scales can be improved or rejected on a sound theoretical basis. In clinical trials the consistency and the linearity of measures of either subjects or raters can be validly matched with those of physical and chemical measures. The stability of the item difficulties across time, cultures, diagnostic groups and time of administration can be estimated, thus making it possible to compare homogeneous measures or foster diagnostic procedures on the reasons for differential item functioning.},
affiliation = {Department of Rehabilitation, Salvatore Maugeri Foundation, IRCCS, Pavia, Italy. ltesio@fsm.it},
number = {3},
pages = {105--15},
volume = {35},
year = {2003},
month = {May},
language = {eng},
keywords = {Activities of Daily Living, Health Status Indicators, Rehabilitation, Research, Humans, Models: Statistical, Disability Evaluation, Brain Injuries, Psychometrics},
date-added = {2010-02-12 14:44:55 +0100},
date-modified = {2010-02-12 14:44:55 +0100},
pmid = {12809192},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5496},
rating = {0}
}
@article{Grasshoff:2009p7755,
author = {U Grasshoff and H Holling and R Schwabe},
title = {Optimal Designs for Linear Logistic Test Models},
abstract = {An important class of models within item response theory are Linear Lo- gistic Test Models (LLTM). These models provide a means for rule-based item gen- eration in educational and psychological testing based upon cognitive theories. After a short introduction into the LLTM, optimal designs for the LLTM will be developed with respect to the item calibration step assuming that persons' abilities are known. Therefore, the LLTM is embedded in a particular generalized linear model. Finally, future developments are outlined.},
year = {2009},
date-added = {2010-03-17 20:51:04 +0100},
date-modified = {2010-03-17 20:51:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grasshoff-2009-_Optimal%20Designs%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7755},
rating = {0}
}
@article{Bjork:2007p4836,
author = {James M Bjork and Ashley R Smith and Cinnamon L Danube and Daniel W Hommer},
journal = {J Neurosci},
title = {Developmental differences in posterior mesofrontal cortex recruitment by risky rewards},
abstract = {Might increased risk taking in adolescence result in part from underdeveloped conflict-monitoring circuitry in the posterior mesofrontal cortex (PMC)? Adults and adolescents underwent functional magnetic resonance imaging during a monetary game of "chicken." As subjects watched ostensible winnings increase over time, they decided when to press a button to bank their winnings, knowing that if they did not stop pursuing money reward before a secret varying time limit, they would "bust" and either lose the money accrued on the current trial (low-penalty trials) or forfeit trial winnings plus a portion of previous winnings (high-penalty trials). Reward accrual at risk of low penalty (contrasted with guaranteed reward) activated the PMC in adults but not in adolescents. Across all subjects, this activation (1) correlated positively with age but negatively with risk exposure and (2) was greater when subjects busted on the previous low-penalty trial. Reward accrual at risk of high penalty was terminated sooner and recruited the PMC in both adults and adolescents when contrasted with guaranteed reward. Predecision PMC activation in the high-penalty trials was significantly reduced in trials when subjects busted. These data suggest that (1) under threat of an explicit severe penalty, recruitment of the PMC is similar in adolescents and adults and correlates with error avoidance, and (2) when potential penalties for a rewarding behavior are mild enough to encourage some risk taking, predecision PMC activation by a reward/risk conflict is sensitive to previous error outcomes, predictive of risk-aversive behavior in that trial, and underactive in adolescents.},
affiliation = {Laboratory of Clinical and Translational Studies, National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Bethesda, Maryland 20892, USA. jbjork@mail.nih.gov},
note = {genim},
number = {18},
pages = {4839--49},
volume = {27},
year = {2007},
month = {May},
language = {eng},
keywords = {Child, Reward, Adolescent, Frontal Lobe, Adolescent Behavior, Decision Making, Recruitment: Neurophysiological, Psychomotor Performance, Photic Stimulation, Female, Risk-Taking, Adult, Nerve Net, Humans, Male},
date-added = {2010-02-01 20:22:49 +0100},
date-modified = {2010-03-25 18:14:33 +0100},
doi = {10.1523/JNEUROSCI.5469-06.2007},
pii = {27/18/4839},
pmid = {17475792},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bjork-2007-J%20Neurosci_Developmental%20differ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4836},
rating = {0}
}
@article{Walson:2008p1815,
author = {Judd L Walson and Phelgona A Otieno and Margaret Mbuchi and Barbra A Richardson and Barbara Lohman-Payne and Steve Wanyee Macharia and Julie Overbaugh and James Berkley and Eduard J Sanders and Michael H Chung and Grace C John-Stewart},
journal = {AIDS},
title = {Albendazole treatment of HIV-1 and helminth co-infection: a randomized, double-blind, placebo-controlled trial},
abstract = {OBJECTIVE: Several co-infections have been shown to impact the progression of HIV-1 infection. We sought to determine if treatment of helminth co-infection in HIV-1-infected adults impacted markers of HIV-1 disease progression. DESIGN: To date, there have been no randomized trials to examine the effects of soil-transmitted helminth eradication on markers of HIV-1 progression. METHODS: A randomized, double-blind, placebo-controlled trial of albendazole (400 mg daily for 3 days) in antiretroviral-naive HIV-1-infected adults (CD4 cell count >200 cells/microl) with soil-transmitted helminth infection was conducted at 10 sites in Kenya (Clinical Trials.gov NCT00130910). CD4 and plasma HIV-1 RNA levels at 12 weeks following randomization were compared in the trial arms using linear regression, adjusting for baseline values. RESULTS: Of 1551 HIV-1-infected individuals screened for helminth infection, 299 were helminth infected. Two hundred and thirty-four adults were enrolled and underwent randomization and 208 individuals were included in intent-to-treat analyses. Mean CD4 cell count was 557 cells/microl and mean plasma viral load was 4.75 log10 copies/ml at enrollment. Albendazole therapy resulted in significantly higher CD4 cell counts among individuals with Ascaris lumbricoides infection after 12 weeks of follow-up (+109 cells/microl; 95% confidence interval +38.9 to +179.0, P = 0.003) and a trend for 0.54 log10 lower HIV-1 RNA levels (P = 0.09). These effects were not seen with treatment of other species of soil-transmitted helminths. CONCLUSION: Treatment of A. lumbricoides with albendazole in HIV-1-coinfected adults resulted in significantly increased CD4 cell counts during 3-month follow-up. Given the high prevalence of A. lumbricoides infection worldwide, deworming may be an important potential strategy to delay HIV-1 progression.},
affiliation = {Centre for Clinical Research, Kenya Medical Research Institute, University of Nairobi, Nairobi, Kenya. walson@u.washington.edu},
number = {13},
pages = {1601--9},
volume = {22},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Species Specificity, Double-Blind Method, HIV-1, Adult, Helminthiasis, RNA: Viral, Follow-Up Studies, Ascariasis, Placebos, Female, Albendazole, Ascaris lumbricoides, Viral Load, CD4 Lymphocyte Count, HIV Infections, Linear Models, Anthelmintics, Male, Helminths, Disease Progression, Animals, Humans},
date-added = {2010-01-09 22:50:11 +0100},
date-modified = {2010-01-09 22:50:11 +0100},
doi = {10.1097/QAD.0b013e32830a502e},
pii = {00002030-200808200-00009},
pmid = {18670219},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Walson-2008-AIDS_Albendazole%20treatmen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1815},
rating = {0}
}
@article{Neeleman:1997,
author = {J Neeleman and D Halpern and D Leon and G Lewis},
journal = {Psychol Med},
title = {Tolerance of suicide, religion and suicide rates; an ecological and individual-level study in 19 western countries},
abstract = {Background. Negative associations between religion and suicide, in individuals and countries, may be mediated by the degree to which suicide is tolerated. Methods. Linear regression was used to examine ecological associations between suicide tolerance, religion and suicide rates in 19 Western countries in 1989/90. Logistic regression was used to study associations between suicide tolerance and strength of religious belief in 28085 individuals in these countries. The concept of effect modifying function was used to examine whether the strength of the association between suicide tolerance and religious belief in individuals depended on the extent of religious belief in their country. Results. Higher female suicide rates were associated with lower aggregate levels of religious belief and, less strongly, religious attendance. These associations were mostly attributable to the association between higher tolerance of suicide and higher suicide rates. In the 28085 subjects suicide tolerance and the strength of religious belief were negatively associated even after adjustment for other religious and sociodemographic variables and general tolerance levels (odds ratios: men 0·74 (95% CI 0·58--0·94), women 0·72 (95% CI 0·60--0·86)). This negative individual- level association was more pronounced in more highly religious countries but this modifying effect of the religious context was apparent for men only. Conclusions. Ecological associations between religious variables and suicide rates are stronger for women than men, stronger for measures of belief than observance and mediated by tolerance of suicide. In individuals, stronger religious beliefs are associated with lower tolerance of suicide. Personal religious beliefs and, for men, exposure to a religious environment, may protect against suicide by reducing its acceptability.},
pages = {1165--1171},
volume = {27},
year = {1997},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1097},
rating = {0}
}
@article{Price:2007p3416,
author = {Alkes L Price and Nick Patterson and Fuli Yu and David R Cox and Alicja Waliszewska and Gavin J McDonald and Arti Tandon and Christine Schirmer and Julie Neubauer and Gabriel Bedoya and Constanza Duque and Alberto Villegas and Maria Catira Bortolini and Francisco M Salzano and Carla Gallo and Guido Mazzotti and Marcela Tello-Ruiz and Laura Riba and Carlos A Aguilar-Salinas and Samuel Canizales-Quinteros and Marta Menjivar and William Klitz and Brian Henderson and Christopher A Haiman and Cheryl Winkler and Teresa Tusie-Luna and Andres Ruiz-Linares and David Reich},
journal = {Am J Hum Genet},
title = {A genomewide admixture map for Latino populations},
abstract = {Admixture mapping is an economical and powerful approach for localizing disease genes in populations of recently mixed ancestry and has proven successful in African Americans. The method holds equal promise for Latinos, who typically inherit a mix of European, Native American, and African ancestry. However, admixture mapping in Latinos has not been practical because of the lack of a map of ancestry-informative markers validated in Native American and other populations. To address this, we screened multiple databases, containing millions of markers, to identify 4,186 markers that were putatively informative for determining the ancestry of chromosomal segments in Latino populations. We experimentally validated each of these markers in at least 232 new Latino, European, Native American, and African samples, and we selected a subset of 1,649 markers to form an admixture map. An advantage of our strategy is that we focused our map on markers distinguishing Native American from other ancestries and restricted it to markers with very similar frequencies in Europeans and Africans, which decreased the number of markers needed and minimized the possibility of false disease associations. We evaluated the effectiveness of our map for localizing disease genes in four Latino populations from both North and South America.},
affiliation = {Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.},
number = {6},
pages = {1024--36},
volume = {80},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Indians: North American, Case-Control Studies, Genetic Testing, Genetics: Population, Genetic Markers, African Continental Ancestry Group, Reproducibility of Results, Alleles, Hispanic Americans, Chromosome Mapping, Computer Simulation, Databases: Genetic, European Continental Ancestry Group, Genetic Predisposition to Disease, Humans, Chromosomes: Human, Genome: Human},
date-added = {2010-01-15 14:52:49 +0100},
date-modified = {2010-01-15 14:52:49 +0100},
doi = {10.1086/518313},
pii = {S0002-9297(07)61022-2},
pmid = {17503322},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Price-2007-Am%20J%20Hum%20Genet_A%20genomewide%20admixtu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3416},
rating = {0}
}
@article{Nylund:2007p11669,
author = {K L Nylund and T Asparouhov and B O Muth{\'e}n},
journal = {Structural Equation Modeling},
title = {Deciding on the Number of Classes in Latent Class Analysis and Growth Mixture Modeling: A Monte Carlo Simulation Study},
abstract = {Mixture modeling is a widely applied data analysis technique used to identify unobserved heterogeneity in a population. Despite mixture models' usefulness in practice, one unresolved issue in the application of mixture models is that there is not one commonly accepted statistical indicator for deciding on the number of classes in a study population. This article presents the results of a simulation study that examines the performance of likelihood-based tests and the traditionally used Information Criterion (ICs) used for determining the number of classes in mixture modeling. We look at the performance of these tests and indexes for 3 types of mixture models: latent class analysis (LCA), a factor mixture model (FMA), and a growth mixture models (GMM). We evaluate the ability of the tests and indexes to correctly identify the number of classes at three different sample sizes (n D 200, 500, 1,000). Whereas the Bayesian Information Criterion performed the best of the ICs, the bootstrap likelihood ratio test proved to be a very consistent indicator of classes across all of the models considered.},
number = {4},
pages = {535--569},
volume = {14},
year = {2007},
date-added = {2010-05-14 21:07:24 +0200},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nylund-2007-Structural%20Equation%20Modeling_Deciding%20on%20the%20Numb.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11669},
rating = {4}
}
@article{Shevlin:2005p11939,
author = {Mark Shevlin and Gary Adamson},
journal = {Psychol Assess},
title = {Alternative factor models and factorial invariance of the GHQ-12: a large sample analysis using confirmatory factor analysis},
abstract = {This study tested alternative factor models of the General Health Questionnaire-12 (GHQ-12), based on previous research findings, with a large sample using confirmatory factor analysis. An alternative models framework was used to test 6 factor analytic models. A 3-factor model was the best explanation of the sample data. The 3 factors were labeled Anxiety-Depression, Social Dysfunction, and Loss of Confidence. The model was found to be factorially invariant between men and women. The utility of the 3 subscales, as opposed to the total GHQ-12 score, is questioned as they appear to provide little information beyond that of a general factor.},
affiliation = {School of Psychology, University of Ulster, Magee Campus, Londonderry, United Kingdom. m.shevlin@ulster.ac.uk},
number = {2},
pages = {231--6},
volume = {17},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Male, Humans, Health Status, Questionnaires, Anxiety, Female, Depression, Social Behavior, Factor Analysis: Statistical, Middle Aged, Self Concept},
date-added = {2010-05-23 16:56:01 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
doi = {10.1037/1040-3590.17.2.231},
pii = {2005-07704-011},
pmid = {16029110},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shevlin-2005-Psychol%20Assess_Alternative%20factor%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11939},
rating = {4}
}
@article{Rose:2009p9445,
author = {Matthias Rose and Andrea Bezjak},
journal = {Qual Life Res},
title = {Logistics of collecting patient-reported outcomes (PROs) in clinical practice: an overview and practical examples},
abstract = {PURPOSE: Interest in collecting patient-reported outcomes (PROs), such as health-related quality of life (HRQOL), health status reports, and patient satisfaction is on the rise and practical aspects of collecting PROs in clinical practice are becoming more important. The purpose of this paper is to draw the attention to a number of issues relevant for a successful integration of PRO measures into the daily work flow of busy clinical settings. METHODS: The paper summarizes the results from a breakout session held at an ISOQOL special topic conference for PRO measures in clinical practice in 2007. RESULTS: Different methodologies of collecting PROs are discussed, and the support needed for each methodology is highlighted. The discussion is illustrated by practical real-life examples from early adaptors who administered paper-pencil, or electronic PRO assessments (ePRO) for more than a decade. The paper also reports about new experiences with more recent technological developments, such as SmartPens and Computer Adaptive Tests (CATs) in daily practice. CONCLUSIONS: Methodological and logistical issues determine the resources needed for a successful integration of PRO measures into daily work flow procedures and influence significantly the usefulness of PRO data for clinical practice.},
affiliation = {Department of Psychosomatic Medicine, University Clinic Eppendorf, Hamburg, Germany. m.rose@uke.de},
number = {1},
pages = {125--36},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Quality of Life, Delivery of Health Care, Health Status, Data Collection, Outcome Assessment (Health Care), Humans, Primary Health Care, Patient Satisfaction},
date-added = {2010-03-23 19:37:16 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-008-9436-0},
pmid = {19152119},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rose-2009-Qual%20Life%20Res_Logistics%20of%20collect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9445},
rating = {0}
}
@article{Corroyer:2003,
author = {D Corroyer and E Devouche and J-M Bernard and P Bonnet and Y Savina},
journal = {L'Ann{\'e}e psychologique},
title = {Comparaison de six logiciels pour l'analyse de variance d'un plan S d{\'e}s{\'e}quilibr{\'e}},
pages = {277--312},
volume = {103},
year = {2003},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1125},
read = {Yes},
rating = {0}
}
@book{Newell:1972,
author = {A Newell and HA Simon},
journal = {Book},
title = {Human Problem Solving},
year = {1972},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p932},
rating = {0}
}
@article{Parkhomenko:2007p2578,
author = {Elena Parkhomenko and David Tritchler and Joseph Beyene},
journal = {BMC Proc},
title = {Genome-wide sparse canonical correlation of gene expression with genotypes},
abstract = {There is a growing interest in studying natural variation in human gene expression. Studies mapping genetic determinants of expression profiles are often carried out considering the expression of one gene at a time, an approach that is computationally intensive and may be prone to high false-discovery rate because the number of genes under consideration often exceeds tens of thousands. We present an exploratory method for investigating such data and apply it to the data provided as Problem 1 of Genetic Analysis Workshop 15 (GAW15). In multivariate analysis, canonical correlation analysis is a common way to inspect the relationship between two sets of variables based on their correlation. It determines linear combinations of all variables from each data set such that the correlation between the two linear combinations is maximized. However, due to the large number of genes, linear combinations involving all single-nucleotide polymorphism (SNP) loci and gene expression phenotypes lack biological plausibility and interpretability. We introduce sparse canonical correlation analysis, which examines the relationships of many genetic loci and gene expression phenotypes by providing sparse linear combinations that include only a small subset of loci and gene expression phenotypes. These correlated sets of variables are sufficiently small for biological interpretability and further investigation. Applying this method to the GAW15 Problem 1 data, we identified groups of 41 loci and 150 gene expressions with the highest between-group correlation of 43%.},
affiliation = {Department of Public Health Sciences, University of Toronto, 155 College Street, Toronto, Ontario, M5T 3M7 Canada. elena@utstat.utoronto.ca},
pages = {S119},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-01-12 22:25:31 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {18466460},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parkhomenko-2007-BMC%20Proc_Genome-wide%20sparse%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2578},
rating = {0}
}
@article{Cachia:2008p5004,
author = {Arnaud Cachia and Marie-Laure Paill{\`e}re-Martinot and Andr{\'e} Galinowski and Dominique Januel and Renaud de Beaurepaire and Frank Bellivier and Eric Artiges and Jamila Andoh and David Bartr{\'e}s-Faz and Edouard Duchesnay and Denis Rivi{\`e}re and Marion Plaze and Jean-Francois Mangin and Jean-Luc Martinot},
journal = {Neuroimage},
title = {Cortical folding abnormalities in schizophrenia patients with resistant auditory hallucinations},
abstract = {Gray matter volume and functional abnormalities have been reported in language-related cortex in schizophrenia patients with auditory hallucinations. Such abnormalities might denote abnormal cortical folding development, which can now be investigated using gyrification measures. Anatomic magnetic resonance images (MRIs) were obtained from 30 schizophrenia patients screened for resistant auditory hallucinations and 28 control subjects. We searched for overall gyrification abnormalities in the whole cortex as well as localized abnormalities in language-related cortex, assuming that gyrification is associated with brain sulcation. A fully automated method was applied to MRIs to extract, label and measure the sulcus area in the whole cortex. Gyrification was assessed using both global and local sulcal indices, respectively the ratio between total sulcal area, or area of each labeled sulcus, and outer cortex area. For both hemispheres, the patients had a lower global sulcal index. The local sulcal index decrease was not homogeneous across the whole cortex. It was more significant in the superior temporal sulcus bilaterally, in the left middle frontal sulcus and in the diagonal branch of left sylvian fissure (Broca's area). Findings suggest abnormalities in cortical gyrification in these patients. Sulcal abnormalities in language-related cortex might underlie these patients' particular vulnerability to hallucinations.},
affiliation = {Inserm, U797 Research Unit Neuroimaging {\&} Psychiatry, IFR49, Orsay, France.},
number = {3},
pages = {927--35},
volume = {39},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Linear Models, Antipsychotic Agents, Magnetic Resonance Imaging, Image Processing: Computer-Assisted, Functional Laterality, Psychiatric Status Rating Scales, Schizophrenia, Cerebral Cortex, Adult, Hallucinations, Male, Middle Aged, Humans, Female},
date-added = {2010-02-05 00:07:27 +0100},
date-modified = {2010-02-05 00:07:27 +0100},
doi = {10.1016/j.neuroimage.2007.08.049},
pii = {S1053-8119(07)00772-0},
pmid = {17988891},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cachia-2008-Neuroimage_Cortical%20folding%20abn.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5004},
rating = {0}
}
@article{Goldberg:1978p13828,
author = {L R Goldberg},
journal = {J Pers Soc Psychol},
title = {Differential attribution of trait-descriptive terms to oneself as compared to well-liked, neutral, and disliked others: A psychometric analysis},
number = {9},
pages = {1012--1028},
volume = {36},
year = {1978},
date-added = {2010-07-29 17:07:24 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1978-J%20Pers%20Soc%20Psychol_Differential%20attribu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13828},
rating = {0}
}
@article{Ackerman:1996,
author = {T Ackerman},
journal = {Applied Psychological Measurement},
title = {Graphical Representation of Multidimensional Item Response Theory Analyses},
pages = {311--329},
volume = {20},
year = {1996},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ackerman-1996-Applied%20Psychological%20Measurement_Graphical%20Representa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2098},
read = {Yes},
rating = {0}
}
@article{Levy:2009p2922,
author = {R Levy and A V Crawford},
journal = {Annual Meeting of the American Educational Research Association},
title = {Bayesian Network Modeling for Student- and Domain-Level Inferences},
year = {2009},
date-added = {2010-01-13 22:06:52 +0100},
date-modified = {2010-01-13 22:09:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2009-Annual%20Meeting%20of%20the%20American%20Educational%20Research%20Association_Bayesian%20Network%20Mod.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2922},
rating = {0}
}
@article{Stein:1999p10335,
author = {M B Stein and K L Jang and W J Livesley},
journal = {Am J Psychiatry},
title = {Heritability of anxiety sensitivity: a twin study},
abstract = {OBJECTIVE: In attempting to explain the familial predisposition to panic disorder, most studies have focused on the heritability of physiologic characteristics (e.g., CO2 sensitivity). A heretofore unexplored possibility is that a psychological characteristic that predisposes to panic-anxiety sensitivity-might be inherited. In this study, the authors examined the heritability of anxiety sensitivity through use of a twin group. METHOD: Scores on the Anxiety Sensitivity Index were examined in a group of 179 monozygotic and 158 dizygotic twin pairs. Biometrical model fitting was conducted through use of standard statistical methods. RESULTS: Broad heritability estimate of the Anxiety Sensitivity Index as a unifactorial construct was 45%. Additive genetic effects and unique environmental effects emerged as the primary influences on anxiety sensitivity. There was no evidence of genetic discontinuity between normal and extreme scores on the Anxiety Sensitivity Index. CONCLUSIONS: This study suggests that one psychological risk factor for the development of panic disorder-anxiety sensitivity-may have a heritable component. As such, anxiety sensitivity should be considered in future research on the heritability of panic disorder.},
affiliation = {Department of Psychiatry, University of California, San Diego, La Jolla 92093-0985, USA. mstein@ucsd.edu},
number = {2},
pages = {246--51},
volume = {156},
year = {1999},
month = {Feb},
language = {eng},
keywords = {Adult, Humans, Personality, Genetic Predisposition to Disease, Models: Genetic, Aged, Diseases in Twins, Panic Disorder, Male, Personality Inventory, Twins: Dizygotic, Anxiety, Middle Aged, Female, Risk Factors, Factor Analysis: Statistical, Twins: Monozygotic, Adolescent},
date-added = {2010-04-02 18:15:28 +0200},
date-modified = {2010-07-29 19:51:28 +0200},
pmid = {9989561},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stein-1999-Am%20J%20Psychiatry_Heritability%20of%20anxi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10335},
rating = {0}
}
@article{Gillespie:2003p12135,
author = {N A Gillespie and R C Cloninger and A C Heath and N G Martin},
journal = {Personality and Individual Differences},
title = {The genetic and environmental relationship between Cloninger's dimensions of temperament and character},
abstract = {The purpose of this study was to determine whether Cloninger's revised 7-factor model of personality showed incremental validity over his four dimensions of temperament. A sample of 2517 Australian twins aged over 50 between 1993 and 1995 returned completed self-reported measures of Self-directedness, Cooperativeness, and Self-transcendence from Cloninger's Temperament and Character Inventory. Many of these twins had participated in a 1988 study containing Cloninger's temperament measures of Harm Avoidance, Novelty Seeking, Reward Dependence and Persistence. Contrary to theoretical expectations, univariate analyses revealed that familial aggregation for the character dimensions could be entirely explained by additive gene action alone. Although temperament explained 26, 37 and 10% of additive genetic variance in Self-directedness, Cooperativeness and Self-transcendence, respectively, seven genetic factors were required to explain the genetic variance among the TPQ dimensions, and almost all of the non-shared environmental variance was unique to each dimension of character. Our results indicate that the inclusion of all seven dimensions in a taxonomy of personality is warranted.},
pages = {1931--1946},
volume = {35},
year = {2003},
date-added = {2010-05-30 10:18:52 +0200},
date-modified = {2010-05-30 10:19:58 +0200},
doi = {10.1016/S0191-8869(03)00042-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gillespie-2003-Personality%20and%20Individual%20Differences_The%20genetic%20and%20envi-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12135},
rating = {0}
}
@article{Andrich:2010p2343,
author = {David Andrich},
title = {Understanding the response structure and process in the polytomous Rasch model},
abstract = {Recent discussions with Guanzhong Luo helped in the articulation of the model for this Report. The research reported in this Report was supported in part by an Australian Research Council Linkage grant with the Australian National Ministerial Council on Employment, Education, Training and Youth Affairs (MCEETYA) Performance Measurement and Reporting Task Force; UNESCO's International Institute for Educational Planning (IIEP), and the Australian Council for Educational Research (ACER) as Industry Partners*. This Report has benefited from the many discussions over the years with many people on the implications of the reversals of Rasch thresholds in polytomous items.},
year = {2010},
date-added = {2010-01-10 13:28:59 +0100},
date-modified = {2010-07-11 09:17:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andrich-2010-_Understanding%20the%20re-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2343},
rating = {0}
}
@article{Hinkelmann:2005p3632,
author = {K Hinkelmann and O Kempthorne},
title = {General Incomplete Block Design},
year = {2005},
date-added = {2010-01-16 19:19:28 +0100},
date-modified = {2010-01-16 19:20:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hinkelmann-2005-_General%20Incomplete%20B.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3632},
rating = {0}
}
@article{Tily:2009p10692,
author = {H Tily and S Piantadosi},
journal = {Proceedings of the Workshop on Production of Referring Expressions, Cogsci},
title = {Refer efficiently: Use less informative expressions for more predictable meanings},
abstract = {We present the results of a large-scale web experiment inves- tigating comprehenders' ability to guess upcoming referents in an unfolding discourse. Participants were given a text that had been cut off just before a noun phrase, and attempted to guess which previously mentioned referent, if any, would be mentioned next. Our results show that writers are more likely to refer using a pronoun or proper name rather than a full NP when comprehenders have less uncertainty about the upcom- ing referent, and are more likely to use names than pronouns when comprehenders all tend to makes guesses to one or a few incorrect referents. These effects hold beyond other possible influences on the choice of referring expression type. Our results support addressee-oriented accounts of referring form choice (e.g. Brennan {\&} Clark, 1996; Arnold, 2008) and suggest that language is a rational solution to the problem of commu- nication: shorter and less informative expressions are favoured when less information is sufficient to carry the message (e.g. Jaeger, 2006; van Son {\&} Pols, 2003).},
year = {2009},
date-added = {2010-04-10 03:20:03 +0200},
date-modified = {2010-04-10 03:24:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tily-2009-Proceedings%20of%20the%20Workshop%20on%20Production%20of%20Referring%20Expressions%20Cogsci_Refer%20efficiently%20U.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10692},
rating = {0}
}
@article{Viswesvaran:2000,
author = {C Viswesvaran and D Ones},
journal = {Educational and Psychological Measurement},
title = {Measurement error in "Big Five Factors" personality assessment: Reliability Generalization across studies and measures},
pages = {224--235},
volume = {60},
year = {2000},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2104},
rating = {0}
}
@article{Pagani:2009p3273,
author = {L Pagani and M C Zanarotti},
title = {Hierarchical Generalized Linear Logistic Models ver- sus canonical Rasch and Multilevel Analysis with ap- plication to University Evaluation Data},
abstract = {Both Multilevel Models (MLM) and Rasch Models (RM) are standard tools for the analysis of latent variables: RM are measure models, MLM are linear models for data nested in a hierarchical structure. More recently some authors have showed the al- gebraic equivalence between RM and Hierarchical Generalized Linear Models (HGLM). The aim of this paper is to compare two different approaches. The first is a two steps approach: RM is used to measure the level of a latent variable and then MLM is used to identify individual and contextual variables that influence the level. The sec- ond approach consider the HGLM with three levels. To illustrate the comparison analy- sis an application with university evaluation data is carried out.},
year = {2009},
date-added = {2010-01-14 21:06:41 +0100},
date-modified = {2010-01-14 21:07:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pagani-2009-_Hierarchical%20General.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3273},
rating = {0}
}
@article{Mullis:2009p8431,
author = {Ricky Mullis and Martyn Lewis and Elaine M Hay},
journal = {Health Qual Life Outcomes},
title = {Testing a model of association between patient identified problems and responses to global measures of health in low back pain patients: a prospective study},
abstract = {BACKGROUND: Self-rated health status has been shown to be related to physical function. Therefore, changes in functional ability should be associated with changes in general health. However, functional needs may vary greatly between individuals. The purpose of this study was to propose and test a model of association between patient identified functional problems and responses to global measures of health in low back pain patients. METHODS: Participants in a low back pain clinical trial were followed up for 12 months. A series of analyses were undertaken using the Jonckheere-Terpstra test and chi-square for trends to determine the associations between two individualised items related to function, and measures of "overall improvement in condition", "general health status" and performance of "usual activities". RESULTS: Significant associations between responses to the five items were found. Performance of usual activities is significantly associated with ratings of general health status (p < 0.001) and overall condition of the back (p < 0.001). The extent to which the patient identified problems influence an individual's perception on multi-task performance is dependent upon the degree of difficulty and level of importance attached to these problems. CONCLUSION: The relationship between patient identified problems and responses to global measures of health is complex. The explanatory model proposed here may improve our understanding of these interactions. TRIAL REGISTRATION: ISRCTN 32765488.},
affiliation = {Arthritis Research Campaign National Primary Care Centre, Keele University, Keele, UK. r.mullis@cphc.keele.ac.uk},
pages = {74},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Prospective Studies, Questionnaires, Clinical Trials as Topic, Humans, Disability Evaluation, Activities of Daily Living, Models: Theoretical, Health Status, Low Back Pain},
date-added = {2010-03-21 17:51:51 +0100},
date-modified = {2010-03-21 17:51:51 +0100},
doi = {10.1186/1477-7525-7-74},
pii = {1477-7525-7-74},
pmid = {19656371},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mullis-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Testing%20a%20model%20of%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8431},
rating = {0}
}
@article{Chen:2006p13045,
author = {Henian Chen and Patricia Cohen and Stephanie Kasen and Jeffrey G Johnson},
journal = {J Adolesc Health},
title = {Adolescent axis I and personality disorders predict quality of life during young adulthood},
abstract = {PURPOSE: To investigate and compare the prospective association of adolescent Axis I mental disorder and personality disorder (PD) with young adult quality of life (QOL) in the general population. METHODS: Seven hundred fifty mothers and youths participating in a prospective longitudinal community-based study were interviewed. Mental disorders were measured at a mean age 16 years. QOL as the outcome indicators were assessed at a mean age 22. RESULTS: Adolescent Axis I disorder predicted elevated negative affect and higher levels of stress some 6 years later. Adolescent PD predicted elevated negative affect and higher levels of stress, and also problems in social support and relationships, and poorer residential, mobility, and financial and health resources in adulthood. Youths with both Axis I disorder and one or more PDs had the worst outcomes with regard to health problems, stressful occupational or educational settings, and resources, net of the effects of adolescent health problems. Nevertheless, some aspects of adult QOL were not significantly related to adolescent disorder, including a positive perspective on the future, own morale in a chosen occupation or educational setting, or the amount of autonomy experienced in that setting. CONCLUSIONS: Among adolescents in the community, PDs during adolescence may have a more adverse impact on young adult QOL than do Axis I disorders. A combination of Axis I and PD may represent a particular risk for new physical health problems and resource inadequacy, including poor access to health care.},
affiliation = {Department of Epidemiology, Columbia University/New York State Psychiatric Institute, New York, New York 10032, USA. chenhen@pi.cpmc.columbia.edu},
number = {1},
pages = {14--9},
volume = {39},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Risk Factors, Personality Disorders, Male, Prospective Studies, Health Services Accessibility, Adult, Female, Child, Quality of Life, Health Status, Humans, Prevalence, Adolescent},
date-added = {2010-06-26 09:37:03 +0200},
date-modified = {2010-07-29 19:52:19 +0200},
doi = {10.1016/j.jadohealth.2005.07.005},
pii = {S1054-139X(05)00337-X},
pmid = {16781956},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2006-J%20Adolesc%20Health_Adolescent%20axis%20I%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13045},
rating = {0}
}
@article{Morillon:1960p14034,
author = {Y Morillon},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Th{\'e}orie de la randomisation},
number = {1},
pages = {29--44},
volume = {8},
year = {1960},
date-added = {2010-08-09 10:04:55 +0200},
date-modified = {2010-08-09 10:05:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Morillon-1960-Revue%20de%20Statistique%20Appliqu%C3%A9e_Th%C3%A9orie%20de%20la%20random.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14034},
rating = {0}
}
@article{Ambroise:2002p12101,
author = {Christophe Ambroise and Geoffrey J McLachlan},
journal = {Proc Natl Acad Sci USA},
title = {Selection bias in gene extraction on the basis of microarray gene-expression data},
abstract = {In the context of cancer diagnosis and treatment, we consider the problem of constructing an accurate prediction rule on the basis of a relatively small number of tumor tissue samples of known type containing the expression data on very many (possibly thousands) genes. Recently, results have been presented in the literature suggesting that it is possible to construct a prediction rule from only a few genes such that it has a negligible prediction error rate. However, in these results the test error or the leave-one-out cross-validated error is calculated without allowance for the selection bias. There is no allowance because the rule is either tested on tissue samples that were used in the first instance to select the genes being used in the rule or because the cross-validation of the rule is not external to the selection process; that is, gene selection is not performed in training the rule at each stage of the cross-validation process. We describe how in practice the selection bias can be assessed and corrected for by either performing a cross-validation or applying the bootstrap external to the selection process. We recommend using 10-fold rather than leave-one-out cross-validation, and concerning the bootstrap, we suggest using the so-called .632+ bootstrap error estimate designed to handle overfitted prediction rules. Using two published data sets, we demonstrate that when correction is made for the selection bias, the cross-validated error is no longer zero for a subset of only a few genes.},
affiliation = {Laboratoire Heudiasyc, Unit{\'e} Mixte de Recherche/Centre National de la Recherche Scientifique 6599, 60200 Compi{\`e}gne, France.},
number = {10},
pages = {6562--6},
volume = {99},
year = {2002},
month = {May},
language = {eng},
keywords = {Linear Models, Oligonucleotide Array Sequence Analysis, Gene Expression, Discriminant Analysis, Selection Bias},
date-added = {2010-05-25 23:28:15 +0200},
date-modified = {2010-05-25 23:28:19 +0200},
doi = {10.1073/pnas.102102699},
pii = {102102699},
pmid = {11983868},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ambroise-2002-Proc%20Natl%20Acad%20Sci%20USA_Selection%20bias%20in%20ge.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12101},
rating = {5}
}
@article{Diehr:2007p13584,
author = {Paula Diehr and William E Lafferty and Donald L Patrick and Lois Downey and Sean M Devlin and Leanna J Standish},
journal = {Health Qual Life Outcomes},
title = {Quality of life at the end of life},
abstract = {BACKGROUND: Little is known about self-perceived quality of life (QOL) near the end of life, because such information is difficult to collect and to interpret. Here, we describe QOL in the weeks near death and determine correlates of QOL over time, with emphasis on accounting for death and missing data. METHODS: Data on QOL were collected approximately every week in an ongoing randomized trial involving persons at the end of life. We used these data to describe QOL in the 52 weeks after enrollment in the trial (prospective analysis, N = 115), and also in the 10 weeks just prior to death (retrospective analysis, N = 83). The analysis consisted of graphs and regressions that accounted explicitly for death and imputed missing data. RESULTS: QOL was better than expected until the final 3 weeks of life, when a terminal drop was observed. Gender, race, education, cancer, and baseline health status were not significantly related to the number of "weeks of good-quality life" (WQL) during the study period. Persons younger than 60 had significantly higher WQL than older persons in the prospective analysis, but significantly lower WQL in the retrospective analysis. The retrospective results were somewhat sensitive to the imputation model. CONCLUSION: In this exploratory study, QOL was better than expected in persons at the end of life, but special interventions may be needed for persons approaching a premature death, and also for the last 3 weeks of life. Our descriptions of the trajectory of QOL at the end of life may help other investigators to plan and analyze future studies of QOL. Methodology for dealing with death and the high amount of missing data in longitudinal studies at the end of life needs further investigation.},
affiliation = {Department of Biostatistics, University of Washington, Seattle, Washington 98195, USA. pdiehr@u.washington.edu},
pages = {51},
volume = {5},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Male, Attitude to Death, Quality of Life, Hospice Care, Middle Aged, Sickness Impact Profile, Terminal Care, Self Assessment (Psychology), Retrospective Studies, Adult, Aged, Data Interpretation: Statistical, Time Factors, Humans, Adolescent, Female, Prospective Studies, Psychometrics, Terminally Ill},
date-added = {2010-07-07 21:17:55 +0200},
date-modified = {2010-07-07 21:17:56 +0200},
doi = {10.1186/1477-7525-5-51},
pii = {1477-7525-5-51},
pmid = {17683554},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diehr-2007-Health%20and%20Quality%20of%20Life%20Outcomes_Quality%20of%20life%20at%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13584},
rating = {0}
}
@article{Zwane:2004p4117,
author = {E N Zwane},
title = {Observed heterogeneity in the capture-recapture problem},
year = {2004},
date-added = {2010-01-20 00:05:05 +0100},
date-modified = {2010-01-20 00:05:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zwane-2004-_Observed%20heterogenei.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4117},
rating = {0}
}
@article{Fienberg:1987p6315,
author = {S E Fienberg and J M Tanur},
journal = {International Statistical Review},
title = {Experimental and Sampling Structures: Parallels Diverging and Meeting},
number = {1},
pages = {75--96},
volume = {55},
year = {1987},
date-added = {2010-02-20 21:10:32 +0100},
date-modified = {2010-02-20 21:11:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fienberg-1987-International%20Statistical%20Review_Experimental%20and%20Sam.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6315},
rating = {0}
}
@article{Paez:2000p11649,
author = {D Paez and A I Vergara},
journal = {Psicothema},
title = {Theoretical and Methodological aspects of cross-cultural research},
abstract = {This monograph is organized around four topics, all involving the relationship between culture and psychosocial processes: a) culture and sociopsychological explanations; b) developments related to cultural dimensions and value syndromes; c) cultur e, emotional feelings and expression, and d) cultu- re and emotional coping with traumatic events.},
pages = {1--5},
volume = {12},
year = {2000},
date-added = {2010-05-11 22:47:41 +0200},
date-modified = {2010-07-29 19:45:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Paez-2000-Psicothema_Theoretical%20and%20Meth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11649},
rating = {0}
}
@article{Beguin:2001aa,
author = {A A B{\'e}guin and B A Hanson},
title = {Effect of Noncompensatory Multidimensionality on Separate and Concurrent estimation in IRT Observed Score Equating},
abstract = {In this article, the results of a simulation study comparing the performance of separate and concurrent estimation of a unidimensional item response theory (IRT) model applied to multidimensional noncompensatory data are reported. Data were simulated according to a two-dimensional noncompensatory IRT model for both equivalent and nonequivalent groups designs. The criteria used were the accuracy of estimating a distribution of observed scores, and the accuracy of IRT observed score equating. In general, unidimensional concurrent estimation resulted in lower or equivalent total error than separate estimation, although there were a few cases where separate estimation resulted in slightly less error than concurrent estimation. Estimates from the correctly specified multidimensional model generally resulted in less error than estimates from the unidimensional model. The results of this study, along with results from a previous study where data were simulated using a compensatory multidimensional model, make clear that multidimensionality of the data affects the relative performance of separate and concurrent estimation, although the degree to which the unidimensional model produces biased results with multidimensional data depends on the type of multidimensionality present.},
year = {2001},
month = {Apr},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/B%C3%A9guin-2001-_Effect%20of%20Noncompens.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1223},
rating = {0}
}
@article{LaBuda:1986p10340,
author = {M C LaBuda and J C DeFries and D W Fulker},
journal = {Genet Epidemiol},
title = {Multiple regression analysis of twin data obtained from selected samples},
abstract = {The multiple regression analysis of twin data in which a cotwin's score is predicted from that of a proband (the member of a twin pair selected because of a deviant score) and the coefficient of relationship provides a powerful test of genetic etiology (DeFries and Fulker: Behav Genet 15:467-473, 1985). Moreover, when an augmented model containing an interaction term is fitted to the same data set, direct estimates of heritability (h2) and the proportion of variance owing to shared environmental influences (c2) are also obtained. In the present paper, the expected partial regression coefficients estimated from these models are derived, and the flexibility of the general approach is illustrated. An extended model is formulated for the analysis of data from combined samples of affected and control twin pairs that yields tests for differential h2 and c2 in the two groups as well as pooled estimates of these parameters. The application of these models is illustrated by an analysis of data from reading-disabled and control twin pairs. Because of the ease, flexibility, and utility of the multiple regression analysis of twin data, it is an appealing alternative to more traditional model-fitting approaches.},
number = {6},
pages = {425--33},
volume = {3},
year = {1986},
month = {Jan},
language = {eng},
keywords = {Twins: Monozygotic, Regression Analysis, Humans, Environment, Twins: Dizygotic, Dyslexia, Diseases in Twins, Models: Genetic, Genetic Diseases: Inborn},
date-added = {2010-04-02 18:17:50 +0200},
date-modified = {2010-04-02 18:17:50 +0200},
doi = {10.1002/gepi.1370030607},
pmid = {3803912},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10340},
rating = {0}
}
@article{Norenzayan:2010p11158,
author = {A Norenzayan and I Choi and R E Nisbett},
title = {Cultural Similarities and Differences in Social Inference: Evidence from Behavioral Predictions and Lay Theories of Behavior},
date-added = {2010-04-25 19:27:22 +0200},
date-modified = {2010-04-25 19:28:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Norenzayan--_Cultural%20Similaritie.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11158},
rating = {0}
}
@article{Hampson:2007p13919,
author = {Sarah E Hampson and Lewis R Goldberg and Thomas M Vogt and Joan P Dubanoski},
journal = {Health Psychol},
title = {Mechanisms by which childhood personality traits influence adult health status: educational attainment and healthy behaviors},
abstract = {OBJECTIVE: The purpose of this study was to test a life span health behavior model in which educational attainment and health behaviors (eating habits, smoking, and physical activity) were hypothesized as mechanisms to account for relations between teacher ratings of childhood personality traits and self-reported health status at midlife. DESIGN: The model was tested on 1,054 members of the Hawaii Personality and Health cohort, which is a population-based cohort participating in a longitudinal study of personality and health spanning 40 years from childhood to midlife. OUTCOME: Childhood Agreeableness, Conscientiousness, and Intellect-Imagination influenced adult health status indirectly through educational attainment, healthy eating habits, and smoking. Several direct effects of childhood traits on health behaviors and health status were also observed. CONCLUSION: The model extends past associations found between personality traits and health behaviors or health status by identifying a life-course pathway based on the health behavior model through which early childhood traits influence adult health status. The additional direct effects of personality traits indicate that health behavior mechanisms may not provide a complete account of relations between personality and health.},
affiliation = {Department of Psychology, School of Human Science, University of Surrey and Oregon Research Institute, Guilford, United Kingdom. sarah@ori.org},
number = {1},
pages = {121--5},
volume = {26},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Character, Health Behavior, Health Status, Personality Development, Career Mobility, Hawaii, Longitudinal Studies, Educational Status, Cohort Studies, Female, Humans, Male, Self Efficacy, Child, Adolescent, Middle Aged, Statistics as Topic, Personality Assessment, Adult, Health Surveys},
date-added = {2010-07-29 18:43:21 +0200},
date-modified = {2010-07-29 18:43:21 +0200},
doi = {10.1037/0278-6133.26.1.121},
pii = {2006-23340-015},
pmid = {17209705},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hampson-2007-Health%20Psychol_Mechanisms%20by%20which.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13919},
rating = {0}
}
@article{Cook:2006p5965,
author = {Chad E Cook and Jan K Richardson and Ricardo Pietrobon and Larissa Braga and Henrique Martins Silva and Dennis Turner},
journal = {Disabil Rehabil},
title = {Validation of the NHANES ADL scale in a sample of patients with report of cervical pain: factor analysis, item response theory analysis, and line item validity},
abstract = {BACKGROUND: Few functional outcomes scales have used Item Response Theory (IRT) for validation. IRT allows individual line item validations and offers substantial advantages over classic methods of scale validation or the simplest from of IRT known as Rasch. Rasch analysis reduces data to dichotomous variables thus decreasing the sensitivity of Likert-type data responses. PURPOSE: The purpose of this study was to create an outcome scale associated with the latent trait of functioning and disability, validated using IRT, in a population with report of cervical pain. METHODS: Using the NHANES database, a recently created scale (NHANES ADL scale) was analysed using factor analysis, internal analyses of consistency, IRT, and comparison with internal measures of functioning and disability. RESULTS: The newly created NHANES ADL scale demonstrated uni-dimensionality, was internally reliable, and was correlated to internal measures of functioning and disability. Additionally, the majority of the scale items demonstrate strong discrimination and suitable thresholds. DISCUSSION: The NHANES ADL scale effectively measures physical, social, and emotional disability in patients with a cervical impairment, and may be an efficient measure of perceived limitations from working and generalized daily physical activity. CONCLUSION: The newly created NHANES ADL scale demonstrates internal consistency, unidimensionality, and line item validity. The NHANES ADL scale appears to be a useful instrument in measurement of functioning and disability in patients with report of cervical pain.},
affiliation = {Division of Physical Therapy, Duke University Medical Center, North Carolina 27710, USA. chad.cook@duke.edu},
number = {15},
pages = {929--35},
volume = {28},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Male, Humans, United States, Questionnaires, Neck Pain, Factor Analysis: Statistical, Activities of Daily Living, Psychometrics, Disability Evaluation, Nutrition Surveys, Female},
date-added = {2010-02-18 23:28:56 +0100},
date-modified = {2010-02-18 23:28:56 +0100},
doi = {10.1080/09638280500404263},
pii = {NLH265P514125843},
pmid = {16861200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5965},
rating = {0}
}
@article{Furmark:2009p8871,
author = {Tomas Furmark and Susanne Henningsson and Lieuwe Appel and Fredrik Ahs and Clas Linnman and Anna Pissiota and Vanda Faria and Lars Oreland and Massimo Bani and Emilio Merlo Pich and Elias Eriksson and Mats Fredrikson},
journal = {J Psychiatry Neurosci},
title = {Genotype over-diagnosis in amygdala responsiveness: affective processing in social anxiety disorder},
abstract = {BACKGROUND: Although the amygdala is thought to be a crucial brain region for negative affect, neuroimaging studies do not always show enhanced amygdala response to aversive stimuli in patients with anxiety disorders. Serotonin (5-HT)-related genotypes may contribute to interindividual variability in amygdala responsiveness. The short (s) allele of the 5-HT transporter linked polymorphic region (5-HTTLPR) and the T variant of the G-703T polymorphism in the tryptophan hydroxylase-2 (TPH2) gene have previously been associated with amygdala hyperresponsivity to negative faces in healthy controls. We investigated the influence of these polymorphisms on amygdala responsiveness to angry faces in patients with social anxiety disorder (SAD) compared with healthy controls. METHODS: We used positron emission tomography with oxygen 15-labelled water to assess regional cerebral blood flow in 34 patients with SAD and 18 controls who viewed photographs of angry and neutral faces presented in counterbalanced order. We genotyped all participants with respect to the 5-HTTLPR and TPH2 polymorphisms. RESULTS: Patients with SAD and controls had increased left amygdala activation in response to angry compared with neutral faces. Genotype but not diagnosis explained a significant portion of the variance in amygdala responsiveness, the response being more pronounced in carriers of s and/or T alleles. LIMITATIONS: Our analyses were limited owing to the small sample and the fact that we were unable to match participants on genotype before enrollment. In addition, other imaging techniques not used in our study may have revealed additional effects of emotional stimuli. CONCLUSION: Amygdala responsiveness to angry faces was more strongly related to serotonergic polymorphisms than to diagnosis of SAD. Emotion activation studies comparing amygdala excitability in patient and control groups could benefit from taking variation in 5-HT-related genes into account.},
affiliation = {Department of Psychology, Uppsala University, Uppsala, Sweden. tomas.furmark@psyk.uu.se},
number = {1},
pages = {30--40},
volume = {34},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Serotonin Plasma Membrane Transport Proteins, Gene Frequency, Anxiety Disorders, Tryptophan Hydroxylase, Young Adult, Emotions, Adult, Male, Positron-Emission Tomography, Polymorphism: Genetic, Amygdala, Middle Aged, Genotype, Female, Psychiatric Status Rating Scales, Humans},
date-added = {2010-03-22 12:43:45 +0100},
date-modified = {2010-03-22 12:43:45 +0100},
pmid = {19125211},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Furmark-2009-J%20Psychiatry%20Neurosci_Genotype%20over-diagno.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8871},
rating = {0}
}
@misc{Ricker:2003,
author = {K L Ricker},
journal = {Miscellaneous},
title = {Setting Cut Scores: Critical Review of Angoff and Modified-Angoff Methods},
abstract = {This paper presents a critical review of the Angoff (1971) and Angoff derived methods, according to criteria for assessing cut score setting methods originally proposed by Berk (1986) and further recommendations by Hambleton (2001). The criteria have been updated to reflect the progress that has been made in standard setting research over the past 17 years. The paper also discusses the assumptions of the Angoff method, and other current issues surrounding this method. Recommendations for using the Angoff method are made.},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ricker-2003-Miscellaneous_Setting%20Cut%20Scores.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1922},
rating = {0}
}
@article{Bell:2008p1705,
author = {N Bell and M Garland},
title = {Efficient Sparse Matrix-Vector Multiplication on CUDA},
abstract = {The massive parallelism of graphics processing units (GPUs) offers tremendous performance in many high-performance computing applications. While dense linear algebra readily maps to such platforms, harnessing this potential for sparse matrix computations presents additional challenges. Given its role in iterative methods for solving sparse linear systems and eigenvalue problems, sparse matrix-vector multiplication (SpMV) is of singular importance in sparse linear algebra.
In this paper we discuss data structures and algorithms for SpMV that are efficiently implemented on the CUDA platform for the fine-grained parallel architecture of the GPU. Given the memory-bound nature of SpMV, we emphasize memory bandwidth efficiency and compact storage formats. We consider a broad spectrum of sparse matrices, from those that are well-structured and regular to highly irregular matrices with large imbalances in the distribution of nonzeros per matrix row. We develop methods to exploit several common forms of matrix structure while offering alternatives which accommodate greater irregularity.
On structured, grid-based matrices we achieve performance of 36 GFLOP/s in single precision and 16 GFLOP/s in double precision on a GeForce GTX 280 GPU. For unstructured finite-element matrices, we observe performance in excess of 15 GFLOP/s and 10 GFLOP/s in single and double precision respectively. These results compare favorably to prior state-of-the-art studies of SpMV methods on conventional multicore processors. Our double precision SpMV performance is generally two and a half times that of a Cell BE with 8 SPEs and more than ten times greater than that of a quad-core Intel Clovertown system.},
year = {2008},
date-added = {2010-01-09 19:10:20 +0100},
date-modified = {2010-01-09 19:10:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bell-2008-_Efficient%20Sparse%20Mat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1705},
rating = {0}
}
@article{Rimol:2010p9775,
author = {Lars M Rimol and Matthew S Panizzon and Christine Fennema-Notestine and Lisa T Eyler and Bruce Fischl and Carol E Franz and Donald J Hagler and Michael J Lyons and Michael C Neale and Jennifer Pacheco and Michele E Perry and J Eric Schmitt and Michael D Grant and Larry J Seidman and Heidi W Thermenos and Ming T Tsuang and Seth A Eisen and William S Kremen and Anders M Dale},
journal = {Biol Psychiatry},
title = {Cortical thickness is influenced by regionally specific genetic factors},
abstract = {BACKGROUND: Although global brain structure is highly heritable, there is still variability in the magnitude of genetic influences on the size of specific regions. Yet, little is known about the patterning of those genetic influences, i.e., whether the same genes influence structure throughout the brain or whether there are regionally specific sets of genes. METHODS: We mapped the heritability of cortical thickness throughout the brain using three-dimensional structural magnetic resonance imaging in 404 middle-aged male twins. To assess the amount of genetic overlap between regions, we then mapped genetic correlations between three selected seed points and all other points comprising the continuous cortical surface. RESULTS: There was considerable regional variability in the magnitude of genetic influences on cortical thickness. The primary visual (V1) seed point had strong genetic correlations with posterior sensory and motor areas. The anterior temporal seed point had strong genetic correlations with anterior frontal regions but not with V1. The middle frontal seed point had strong genetic correlations with inferior parietal regions. CONCLUSIONS: These results provide strong evidence of regionally specific patterns rather than a single, global genetic factor. The patterns are largely consistent with a division between primary and association cortex, as well as broadly defined patterns of brain gene expression, neuroanatomical connectivity, and brain maturation trajectories, but no single explanation appears to be sufficient. The patterns do not conform to traditionally defined brain structure boundaries. This approach can serve as a step toward identifying novel phenotypes for genetic association studies of psychiatric disorders and normal and pathological cognitive aging.},
affiliation = {Department of Radiology, University of California, San Diego, La Jolla, California 92093-0738, USA.},
number = {5},
pages = {493--9},
volume = {67},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-26 19:19:43 +0100},
date-modified = {2010-03-26 19:19:43 +0100},
doi = {10.1016/j.biopsych.2009.09.032},
pii = {S0006-3223(09)01228-1},
pmid = {19963208},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9775},
rating = {0}
}
@article{Dong:2007p1335,
author = {Changzheng Dong and Ziliang Qian and Peilin Jia and Ying Wang and Wei Huang and Yixue Li},
journal = {PLoS ONE},
title = {Gene-centric characteristics of genome-wide association studies},
abstract = {BACKGROUND: The high-throughput genotyping chips have contributed greatly to genome-wide association (GWA) studies to identify novel disease susceptibility single nucleotide polymorphisms (SNPs). The high-density chips are designed using two different SNP selection approaches, the direct gene-centric approach, and the indirect quasi-random SNPs or linkage disequilibrium (LD)-based tagSNPs approaches. Although all these approaches can provide high genome coverage and ascertain variants in genes, it is not clear to which extent these approaches could capture the common genic variants. It is also important to characterize and compare the differences between these approaches. METHODOLOGY/PRINCIPAL FINDINGS: In our study, by using both the Phase II HapMap data and the disease variants extracted from OMIM, a gene-centric evaluation was first performed to evaluate the ability of the approaches in capturing the disease variants in Caucasian population. Then the distribution patterns of SNPs were also characterized in genic regions, evolutionarily conserved introns and nongenic regions, ontologies and pathways. The results show that, no mater which SNP selection approach is used, the current high-density SNP chips provide very high coverage in genic regions and can capture most of known common disease variants under HapMap frame. The results also show that the differences between the direct and the indirect approaches are relatively small. Both have similar SNP distribution patterns in these gene-centric characteristics. CONCLUSIONS/SIGNIFICANCE: This study suggests that the indirect approaches not only have the advantage of high coverage but also are useful for studies focusing on various functional SNPs either in genes or in the conserved regions that the direct approach supports. The study and the annotation of characteristics will be helpful for designing and analyzing GWA studies that aim to identify genetic risk factors involved in common diseases, especially variants in genes and conserved regions.},
affiliation = {Bioinformatics Center, Key Lab of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China.},
number = {12},
pages = {e1262},
volume = {2},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Computational Biology, Humans, Introns, Genome: Human, Evolution, Linkage Disequilibrium, Polymorphism: Single Nucleotide},
date-added = {2010-01-07 11:38:35 +0100},
date-modified = {2010-01-07 11:38:35 +0100},
doi = {10.1371/journal.pone.0001262},
pmid = {18060058},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dong-2007-PLoS%20ONE_Gene-centric%20charact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1335},
rating = {0}
}
@article{Rothman:2009p5663,
author = {A J Rothman and E Levina and J Zhu},
title = {A new approach to Cholesky-based covariance regularization in high dimensions},
abstract = {In this paper we propose a new regression interpretation of the Cholesky factor of the covari- ance matrix, as opposed to the well known regression interpretation of the Cholesky factor of the inverse covariance, which leads to a new class of regularized covariance estimators suitable for high-dimensional problems. Regularizing the Cholesky factor of the covariance via this regres- sion interpretation always results in a positive definite estimator. In particular, one can obtain a positive definite banded estimator of the covariance matrix at the same computational cost as the popular banded estimator proposed by Bickel and Levina (2008b), which is not guaranteed to be positive definite. We also establish theoretical connections between banding Cholesky factors of the covariance matrix and its inverse and constrained maximum likelihood estimation under the banding constraint, and compare the numerical performance of several methods in simulations and on a sonar data example.},
year = {2009},
date-added = {2010-02-12 20:27:47 +0100},
date-modified = {2010-02-12 20:28:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rothman-2009-_A%20new%20approach%20to%20Ch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5663},
rating = {0}
}
@article{Hermens:2006p7859,
author = {Marleen L M Hermens and Herman J Ad{\`e}r and Hein P J van Hout and Berend Terluin and Richard van Dyck and Marten de Haan},
journal = {Annals of general psychiatry},
title = {Administering the MADRS by telephone or face-to-face: a validity study},
abstract = {BACKGROUND: The Montgomery Asberg Depression Rating Scale (MADRS) is a frequently used observer-rated depression scale. In the present study, a telephonic rating was compared with a face-to-face rating in 66 primary care patients with minor or mild-major depression. The aim of the present study was to assess the validity of the administration by telephone. Additional objective was to study the validity of the first item, 'apparent sadness', the only item purely based on observation. METHODS: The present study was a validity study. During an in-person interview at the patient's home a trained interviewer administered the MADRS. A few days later the MADRS was administered again, but now by telephone and by a : Mean total score on the in-person administration was 24.0 (SD = 11.1), and on the telephone administration 23.5 (SD = 10.4). The ICC for the full scale was 0.65. Homogeneity analysis showed that the observation item 'apparent sadness' fitted well into the scale. CONCLUSION: The full MADRS, including the observation item 'apparent sadness', can be administered reliably by telephone.},
affiliation = {Department of General Practice, Institute for Research in Extramural Medicine, VU University Medical Center, Amsterdam, The Netherlands. mlm.hermens@tiscali.nl},
pages = {3},
volume = {5},
year = {2006},
month = {Jan},
language = {eng},
date-added = {2010-03-18 21:08:46 +0100},
date-modified = {2010-03-18 21:08:55 +0100},
doi = {10.1186/1744-859X-5-3},
pii = {1744-859X-5-3},
pmid = {16553958},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hermens-2006-Annals%20of%20general%20psychiatry_Administering%20the%20MA.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7859},
rating = {3}
}
@article{Sprangers:1999p13129,
author = {M A Sprangers and C E Schwartz},
journal = {Soc Sci Med},
title = {Integrating response shift into health-related quality of life research: a theoretical model},
abstract = {Patients confronted with a life-threatening or chronic disease are faced with the necessity to accommodate to their illness. An important mediator of this adaptation process is 'response shift' which involves changing internal standards, values and the conceptualization of quality of life (QOL). Integrating response shift into QOL research would allow a better understanding of how QOL is affected by changes in health status and would direct the development of reliable and valid measures for assessing changes in QOL. A theoretical model is proposed to clarify and predict changes in QOL as a result of the interaction of: (a) a catalyst, referring to changes in the respondent's health status; (b) antecedents, pertaining to stable or dispositional characteristics of the individual (e.g. personality); (c) mechanisms, encompassing behavioral, cognitive, or affective processes to accommodate the changes in health status (e.g. initiating social comparisons, reordering goals); and (d) response shift, defined as changes in the meaning of one's self-evaluation of QOL resulting from changes in internal standards, values, or conceptualization. A dynamic feedback loop aimed at maintaining or improving the perception of QOL is also postulated. This model is illustrated and the underlying assumptions are discussed. Future research directions are outlined that may further the investigation of response shift, by testing specific hypotheses and predictions about the QOL domains and the clinical and psychosocial conditions that would potentiate or prevent response shift effects.},
affiliation = {Department of Medical Psychology, Academic Hospital Amsterdam, University of Amsterdam, The Netherlands. m.a.sprangers@amc.uva.nl},
number = {11},
pages = {1507--15},
volume = {48},
year = {1999},
month = {Jun},
language = {eng},
keywords = {Adaptation: Psychological, Quality of Life, Health Status, Humans, Research, Attitude to Health, Models: Theoretical},
date-added = {2010-06-26 10:56:06 +0200},
date-modified = {2010-06-26 10:56:06 +0200},
pii = {S0277953699000453},
pmid = {10400253},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sprangers-1999-Soc%20Sci%20Med_Integrating%20response.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13129},
rating = {0}
}
@article{Dyk:2001p6273,
author = {D van Dyk and X-L Meng},
journal = {Journal of Computational and Graphical Statistics},
title = {The Art of Data Augmentation},
abstract = {The term data augmentation refers to methods for constructing iterative optimization or sampling algorithms via the introduction of unobserved data or latent variables. For de- terministic algorithms, the method was popularized in the general statistical community by the seminal article by Dempster, Laird, and Rubin on the EM algorithm for maximizing a likelihood function or, more generally, a posterior density. For stochastic algorithms, the method was popularized in the statistical literature by Tanner and Wong's Data Augmenta- tion algorithm for posterior sampling and in the physics literature by Swendsen and Wang's algorithm for sampling from the Ising and Potts models and their generalizations; in the physics literature, the method of data augmentation is referred to as the method of auxiliary variables. Data augmentation schemes were used by Tanner and Wong to make simulation feasible and simple, while auxiliary variables were adopted by Swendsen and Wang to im- prove the speed of iterative simulation. In general, however, constructing data augmentation schemes that result in both simple and fast algorithms is a matter of art in that successful strategies vary greatly with the (observed-data)models being considered. After an overview ofdataaugmentation/auxiliaryvariablesandsomerecentdevelopmentsinmethodsforcon- structingsuchefcientdataaugmentationschemes,weintroduceaneffectivesearchstrategy that combines the ideas of marginal augmentation and conditional augmentation, together with a deterministic approximation method for selecting good augmentation schemes. We then apply this strategy to three common classes of models (speci cally, multivariate t, probit regression, and mixed-effects models) to obtain ef cient Markov chain Monte Carlo algorithms for posterior sampling. We provide theoretical and empirical evidence that the resulting algorithms, while requiring similar programming effort, can show dramatic im- provement over the Gibbs samplers commonly used for these models in practice. A key featureofallthesenewalgorithmsisthattheyarepositiverecurrentsubchainsofnonpositive recurrent Markov chains constructed in larger spaces.},
number = {1},
pages = {1--50},
volume = {10},
year = {2001},
date-added = {2010-02-20 17:22:26 +0100},
date-modified = {2010-02-20 17:23:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dyk-2001-Journal%20of%20Computational%20and%20Graphical%20Statistics_The%20Art%20of%20Data%20Augm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6273},
rating = {0}
}
@article{KellyVance:1999p8598,
author = {L Kelly-Vance and H Needelman and K Troia and B O Ryalls},
journal = {Developmental Disabilities Bulletin},
title = {Early Childhood Assessment: A Comparison of the Bayley Scales of Infant Development and Play-Based Assessment in Two-Year Old At-Risk Children},
abstract = {Practitioners are using a variety of assessment tools to measure cognitive functioning in young children. These measures are used for similar purposes yet the relationship among them is largely unknown. The purpose of this study was to analyze the relationship between two assessment approaches used to determine the cognitive functioning level in young children, the Bayley Scales of Infant Development-II and Play-Based Assessment. A sample of two-year olds participating in a Neonatal Intensive Care Unit Follow-Up Clinic were evaluated on both measures. Results indicated a high correlation between the two techniques. A comparison of the two techniques is provided as well as recommendations as to when each might be used most effectively in early childhood assessment.},
number = {1},
volume = {27},
year = {1999},
date-added = {2010-03-22 00:21:38 +0100},
date-modified = {2010-03-22 00:22:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kelly-Vance-1999-Developmental%20Disabilities%20Bulletin_Early%20Childhood%20Asse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8598},
rating = {0}
}
@article{Dayan:2008p12354,
author = {Peter Dayan and Quentin J M Huys},
journal = {PLoS Comput Biol},
title = {Serotonin, inhibition, and negative mood},
abstract = {Pavlovian predictions of future aversive outcomes lead to behavioral inhibition, suppression, and withdrawal. There is considerable evidence for the involvement of serotonin in both the learning of these predictions and the inhibitory consequences that ensue, although less for a causal relationship between the two. In the context of a highly simplified model of chains of affectively charged thoughts, we interpret the combined effects of serotonin in terms of pruning a tree of possible decisions, (i.e., eliminating those choices that have low or negative expected outcomes). We show how a drop in behavioral inhibition, putatively resulting from an experimentally or psychiatrically influenced drop in serotonin, could result in unexpectedly large negative prediction errors and a significant aversive shift in reinforcement statistics. We suggest an interpretation of this finding that helps dissolve the apparent contradiction between the fact that inhibition of serotonin reuptake is the first-line treatment of depression, although serotonin itself is most strongly linked with aversive rather than appetitive outcomes and predictions.},
affiliation = {Gatsby Computational Neuroscience Unit, University College London, London, United Kingdom.},
number = {2},
pages = {e4},
volume = {4},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Humans, Models: Psychological, Depression, Learning, Models: Neurological, Brain, Inhibition (Psychology), Serotonin},
date-added = {2010-06-15 17:28:30 +0200},
date-modified = {2010-07-29 19:43:29 +0200},
doi = {10.1371/journal.pcbi.0040004},
pii = {07-PLCB-RA-0549},
pmid = {18248087},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dayan-2008-PLoS%20Comput%20Biol_Serotonin%20inhibitio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12354},
rating = {0}
}
@book{Verbeke:2000,
author = {G Verbeke and G Molenberghs},
journal = {Book},
title = {Linear mixed models for longitudinal data},
year = {2000},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1109},
rating = {0}
}
@inbook{Thompson:2008a,
author = {B Thompson},
journal = {Book},
title = {Complementary methods for research in education},
chapter = {Research synthesis: Effect sizes},
year = {2008},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1898},
rating = {0}
}
@article{Weich:2004p6893,
author = {Scott Weich and James Nazroo and Kerry Sproston and Sally McManus and Martin Blanchard and Bob Erens and Saffron Karlsen and Michael King and Keith Lloyd and Stephen Stansfeld and Peter Tyrer},
journal = {Psychol Med},
title = {Common mental disorders and ethnicity in England: the EMPIRIC study},
abstract = {BACKGROUND: There is little population-based evidence on ethnic variation in the most common mental disorders (CMD), anxiety and depression. We compared the prevalence of CMD among representative samples of White, Irish, Black Caribbean, Bangladeshi, Indian and Pakistani individuals living in England using a standardized clinical interview. METHOD: Cross-sectional survey of 4281 adults aged 16-74 years living in private households in England. CMD were assessed using the Revised Clinical Interview Schedule (CIS-R), a standardized clinical interview. RESULTS: Ethnic differences in the prevalence of CMD were modest, and some variation with age and sex was noted. Compared to White counterparts, the prevalence of CMD was higher to a statistically significant degree among Irish [adjusted rate ratios (RR) 2.09, 95% CI 1.16-2.95, p = 0.02] and Pakistani (adjusted RR 2.38, 95 % CI 1.25-3.53, p = 0.02) men aged 35-54 years, even after adjusting for differences in socio-economic status. Higher rates of CMD were also observed among Indian and Pakistani women aged 55-74 years, compared to White women of similar age. The prevalence of CMD among Bangladeshi women was lower than among White women, although this was restricted to those not interviewed in English. There were no differences in rates between Black Caribbean and White samples. CONCLUSIONS: Middle-aged Irish and Pakistani men, and older Indian and Pakistani women, had significantly higher rates of CMD than their White counterparts. The very low prevalence of CMD among Bangladeshi women contrasted with high levels of socio-economic deprivation among this group. Further study is needed to explore reasons for this variation.},
affiliation = {Warwick Medical School, University of Warwick, Coventry CV4 7AL, UK. s.weich@warwick.ac.uk},
number = {8},
pages = {1543--51},
volume = {34},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Female, Male, England, Adult, Humans, Adolescent, Ethnic Groups, Prevalence, Social Class, Aged, Middle Aged, Incidence, Age Factors, Health Surveys, Cross-Sectional Studies, Mental Disorders},
date-added = {2010-03-06 10:56:58 +0100},
date-modified = {2010-03-06 10:56:59 +0100},
pmid = {15724884},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Weich-2004-Psychol%20Med_Common%20mental%20disord.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6893},
rating = {0}
}
@article{Emons:2003p2709,
author = {W H M Emons and C A W Glas and R R Meijer and K Sijtsma},
journal = {Applied Psychological Measurement},
title = {Person Fit in Order-Restricted Latent Class Models},
abstract = {Person-fit analysis revolves around fitting an item response theory (IRT) model to respondents' vectors of item scores on a test and drawing statistical inferences about fit or misfit of these vectors. Four person-fit measures were studied in order-restricted latent class models (OR-LCMs). To decide whether the OR-LCM fits an item score vector, a Bayesian framework was adopted and posterior predictive checks were used. First, simulated Type I error rates and detection rates were investigated for the four person-fit measures under varying test and item characteristics. Second, the suitability of the OR-LCM methodology in a nonparametric IRT context was investigated. The result was Type I error rates close to the nominal Type I error rates and detection rates close to the detection rates found in OR-LCMs. This means that the OR-LCM methodology is a suitable alternative for assessing person fit in nonparametric IRT models.},
number = {6},
pages = {459--478},
volume = {27},
year = {2003},
date-added = {2010-01-13 10:26:33 +0100},
date-modified = {2010-07-29 19:16:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Emons-2003-Applied%20Psychological%20Measurement_Person%20Fit%20in%20Order.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2709},
rating = {0}
}
@article{Liao:2009p4084,
author = {H Liao and Y Liu and M K Ng},
journal = {The Third International Symposium on Optimization and Systems Biology (OSB'09)},
title = {Shrunken Dissimilarity Measure for Genome-wide SNP Data Classification},
abstract = {Recent development of high-resolution single-nucleotide polymorphism (SNP) arrays allows detailed assessment of genome-wide human genome variations. However, SNP data typi- cally has a large number of SNPs (e.g., 400 thousand SNPs in genome-wide Parkinson disease SNP data) and a few hundred of samples. Conventional classification methods may not be effective when applied to such genome-wide SNP data. In this paper, we propose to develop and use shrunken dis- similarity measure to analyze and select relevant SNPs for classification problems. Examples for HapMap data and Parkinson data are given to demonstrate the effectiveness of the proposed method and illustrate it has the potential to become a useful analysis tool for SNP data sets. In particular, we find some SNPs in chromosome 2 that they contain in some genes which is relevant to Parkinson disease.},
pages = {73--80},
year = {2009},
date-added = {2010-01-19 16:03:31 +0100},
date-modified = {2010-01-19 16:04:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liao-2009-The%20Third%20International%20Symposium%20on%20Optimization%20and%20Systems%20Biology%20(OSB%E2%80%9909)_Shrunken%20Dissimilari.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4084},
read = {Yes},
rating = {0}
}
@article{Greenhalgh:2005p7327,
author = {Joanne Greenhalgh and Andrew F Long and Rob Flynn},
journal = {Soc Sci Med},
title = {The use of patient reported outcome measures in routine clinical practice: lack of impact or lack of theory?},
abstract = {This paper applies a theory-driven approach to explore why the use of patient-reported outcome (PRO) measures in clinical practice, in particular, health-related quality of life (HRQoL) instruments, has little or no apparent influence on clinical decision making. A theory-driven approach involves combining knowledge of whether and how an intervention works. It is argued that such an approach is currently lacking within the literature evaluating the effectiveness of feeding back HRQoL information to clinicians. The paper identifies a number of mechanisms that might give rise to the expected outcomes that are currently implicit within the design of the intervention and hypotheses specified within the trials evaluating the use of HRQoL measures in clinical practice. It then examines how far current clinical practice matches these mechanisms and in doing so, a number of possible explanations for the lack of impact of HRQoL on clinical decision making are reviewed. The influence of HRQoL information on clinical decision making depends on a large number of factors related to the design of the intervention, patients' and clinicians' desire to discuss HRQoL issues within the consultation and the legitimacy that clinicians give to HRQoL instruments. To date, knowledge of how the feedback of HRQoL information to clinicians might improve doctor-patient communication or clinical decision making has yet to sufficiently inform an assessment of whether these aspects of patient care are improved. The paper concludes by specifying how the feedback of HRQoL information to clinicians might be modified to maximise its impact on clinical decision making.},
affiliation = {Health Care Practice R{\&}D Unit, Allerton Building, University of Salford, Salford M6 6PU, UK. j.greenhalgh@salford.ac.uk},
number = {4},
pages = {833--43},
volume = {60},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Decision Making, Humans, Outcome Assessment (Health Care), Quality of Life, Health Status, Quality of Health Care, Health Status Indicators},
date-added = {2010-03-10 20:21:33 +0100},
date-modified = {2010-03-10 20:21:33 +0100},
doi = {10.1016/j.socscimed.2004.06.022},
pii = {S0277953604002898},
pmid = {15571900},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Greenhalgh-2005-Soc%20Sci%20Med_The%20use%20of%20patient%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7327},
rating = {0}
}
@article{Crawford:1985p3651,
author = {G Crawford and C Wiliams},
title = {The analysis of subjective judgment matrices},
year = {1985},
date-added = {2010-01-16 20:00:14 +0100},
date-modified = {2010-01-16 20:01:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crawford-1985-_The%20analysis%20of%20subj.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3651},
rating = {0}
}
@article{Gannon:2005p13151,
author = {N Gannon and R Ranzijn},
journal = {Personality and Individual Differences},
title = {Does emotional intelligence predict unique variance in life satisfaction beyond IQ and personality?},
abstract = {Many emotional intelligence (EI) scales have been found to overlap with personality scales and it has been argued that EI scales are measuring personality. In the present study it was hypothesised that EI would explain unique variance in life satisfaction beyond that predicted by personality, IQ, and control variables. A community sample (N = 191) aged 18--79 years (M = 35.94, SD = 14.17) was recruited. Because IQ showed no bivariate relationship with life satisfaction, IQ was not used in further analyses. After con- trolling for marital status and income, personality accounted for an additional 34.2% of the variance in life satisfaction, and total EI scores accounted for a further 1.3% (p < 0.05). Further analysis revealed that the additional variance was explained by the EI dimension of Emotional Management. In a competing analy- sis, EI explained 28.3% of the variance at step 2, and personality accounted for a further 8.8% of the var- iance at step 3. It was concluded that EI predicted some unique variance in life satisfaction, and that there was substantial conceptual overlap between EI and personality. However, it is argued that, rather than being redundant, emotional intelligence may offer valuable insights to current conceptions of personality.},
pages = {1353--1364},
volume = {38},
year = {2005},
date-added = {2010-06-26 11:09:28 +0200},
date-modified = {2010-06-26 11:10:21 +0200},
doi = {10.1016/j.paid.2004.09.001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gannon-2005-Personality%20and%20Individual%20Differences_Does%20emotional%20intel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13151},
rating = {0}
}
@article{McQueen:2005p3935,
author = {Matthew B McQueen and B Devlin and Stephen V Faraone and Vishwajit L Nimgaonkar and Pamela Sklar and Jordan W Smoller and Rami Abou Jamra and Margot Albus and Silviu-Alin Bacanu and Miron Baron and Thomas B Barrett and Wade Berrettini and Deborah Blacker and William Byerley and Sven Cichon and Willam Coryell and Nick Craddock and Mark J Daly and J Raymond DePaulo and Howard J Edenberg and Tatiana Foroud and Michael Gill and T Conrad Gilliam and Marian Hamshere and Ian Jones and Lisa Jones and Suh-Hang Juo and John R Kelsoe and David Lambert and Christoph Lange and Bernard Lerer and Jianjun Liu and Wolfgang Maier and James D Mackinnon and Melvin G McInnis and Francis J McMahon and Dennis L Murphy and Markus M Nothen and John I Nurnberger and Carlos N Pato and Michele T Pato and James B Potash and Peter Propping and Ann E Pulver and John P Rice and Marcella Rietschel and William Scheftner and Johannes Schumacher and Ricardo Segurado and Kristel Van Steen and Weiting Xie and Peter P Zandi and Nan M Laird},
journal = {Am J Hum Genet},
title = {Combined analysis from eleven linkage studies of bipolar disorder provides strong evidence of susceptibility loci on chromosomes 6q and 8q},
abstract = {Several independent studies and meta-analyses aimed at identifying genomic regions linked to bipolar disorder (BP) have failed to find clear and consistent evidence of linkage regions. Our hypothesis is that combining the original genotype data provides benefits of increased power and control over sources of heterogeneity that outweigh the difficulty and potential pitfalls of the implementation. We conducted a combined analysis using the original genotype data from 11 BP genomewide linkage scans comprising 5,179 individuals from 1,067 families. Heterogeneity among studies was minimized in our analyses by using uniform methods of analysis and a common, standardized marker map and was assessed using novel methods developed for meta-analysis of genome scans. To date, this collaboration is the largest and most comprehensive analysis of linkage samples involving a psychiatric disorder. We demonstrate that combining original genome-scan data is a powerful approach for the elucidation of linkage regions underlying complex disease. Our results establish genomewide significant linkage to BP on chromosomes 6q and 8q, which provides solid information to guide future gene-finding efforts that rely on fine-mapping and association approaches.},
affiliation = {Harvard School of Public Health, Department of Epidemiology, Boston, MA 02115, USA. mmcqueen@hsph.harvard.edu},
number = {4},
pages = {582--95},
volume = {77},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Genetic Heterogeneity, Chromosomes: Human: Pair 8, Genetic Predisposition to Disease, Humans, Chromosomes: Human: Pair 6, Bipolar Disorder, Linkage (Genetics)},
date-added = {2010-01-16 21:06:11 +0100},
date-modified = {2010-01-16 21:06:11 +0100},
doi = {10.1086/491603},
pii = {S0002-9297(07)61006-4},
pmid = {16175504},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3935},
rating = {0}
}
@article{Bardo:2007p12392,
author = {M T Bardo and Y Williams and L P Dwoskin and S E Moynahan and I B Perry and C A Martin},
journal = {Current Psychiatry Reviews},
title = {The Sensation Seeking Trait and Substance Use: Research Findings and
Clinical Implications},
abstract = {Sensation seeking (SS) is a personality trait defined by a need to seek novel sensations and experiences, ac- companied by a willingness to take risks for the sake of such experiences. Various measures of SS have been developed and validated, including a scale specifically for children. Among different populations, SS has been associated with the expression of various health-related risk behaviors, most notably substance use and abuse. Evidence from basic research with laboratory animals and from human clinical studies indicates that high sensation seekers may have an overactive mesocorticolimbic dopamine system relative to low sensation seekers. While the precise molecular mechanisms underly- ing SS remain to be elucidated, evidence suggests that low levels of monoamine oxidase activity, as well as altered dopa- mine receptor and dopamine transporter expression and function may play a role. Since altered monoamine function has been implicated in various psychiatric disorders, and since SS has been associated with some of these disorders, clinicians may find that SS offers a useful adjunct in promoting effective patient care and improving patient counseling. This may be especially useful in treating children, adolescents and young adults, as the risk for substance use and abuse is an especially relevant concern during this developmental period.},
pages = {3--13},
volume = {3},
year = {2007},
date-added = {2010-06-15 17:29:46 +0200},
date-modified = {2010-07-29 19:25:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bardo-2007-Current%20Psychiatry%20Reviews_The%20Sensation%20Seekin-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12392},
rating = {5}
}
@article{Breiman:2001p14210,
author = {Leo Breiman},
journal = {Statistical Science},
title = {Statistical Modeling: The Two Cultures},
number = {3},
pages = {199--231},
volume = {16},
year = {2001},
date-added = {2010-08-22 20:24:40 +0200},
date-modified = {2010-08-22 20:25:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Breiman-2001-Statistical%20Science_Statistical%20Modeling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14210},
rating = {4}
}
@article{Lashley:1923,
author = {KS Lashley},
journal = {Psychological Review},
title = {The behavioristic interpretation of consciousness II},
abstract = {The problem which confronts the behaviorist is to find in the physical world deterministic relations between nonqualitative, discrete entities in time and space which fulfill certain conditions of relationship laid down by subjective evidence. Enough of organic behavior is not known to be able to say just how bodily mechanisms do bring about the details of behavior, but it is possible to make rather probable guesses as to what is going on at any given time, and to outline roughly the kind of mechanisms that control activity. The object of this article is to discuss consciousness in the context of behaviorism and to point out that the supposed problem of consciousness does not present insurmountable difficulties to behavioristic treatment. The author of this article concludes that the behaviorist may go his way without fear that his final account will fail of including 'mind' and with the conviction that the inclusion of 'mind' will add nothing to scientific psychology.},
pages = {329--353},
volume = {30},
year = {1923},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:45:50 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1002},
rating = {0}
}
@article{Feske:2007,
author = {Ulrike Feske and Levent Kirisci and Ralph E Tarter and Paul A Pilkonis},
journal = {J Pers Disord},
title = {An application of item response theory to the DSM-III-R criteria for borderline personality disorder.},
abstract = {This paper summarizes results from analyses of the DSM criteria for borderline personality disorder (BPD) using models from item response theory (IRT). The study sample consisted of 353 participants, the majority of whom were psychiatric patients. Confirmatory factor analysis showed that a one-factor model provided the best fit to the data. All the DSM BPD criteria had moderate or higher item discrimination parameters, indicating that all items contributed meaningful information in assessing BPD. Item information functions revealed that the BPD criteria as a whole were useful for capturing BPD traits in the moderately severe to severe range, but that they performed less well in the less severe range. The general conclusion is that the criteria do represent a coherent syndrome and that further research on the informational value of the individual criteria would be useful.},
affiliation = {Center for Education and Drug Abuse Research, School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA. ulfl@pitt.edu},
number = {4},
pages = {418--433},
volume = {21},
year = {2007},
month = {Aug},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-07-29 19:31:05 +0200},
doi = {10.1521/pedi.2007.21.4.418},
pmid = {17685837},
url = {http://dx.doi.org/10.1521/pedi.2007.21.4.418},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1157},
rating = {0}
}
@article{Irwin:2009p10690,
author = {Debra E Irwin and James W Varni and Karin Yeatts and Darren A DeWalt},
journal = {Health Qual Life Outcomes},
title = {Cognitive interviewing methodology in the development of a pediatric item bank: a patient reported outcomes measurement information system (PROMIS) study},
abstract = {BACKGROUND: The evaluation of patient-reported outcomes (PROs) in health care has seen greater use in recent years, and methods to improve the reliability and validity of PRO instruments are advancing. This paper discusses the cognitive interviewing procedures employed by the Patient Reported Outcomes Measurement Information System (PROMIS) pediatrics group for the purpose of developing a dynamic, electronic item bank for field testing with children and adolescents using novel computer technology. The primary objective of this study was to conduct cognitive interviews with children and adolescents to gain feedback on items measuring physical functioning, emotional health, social health, fatigue, pain, and asthma-specific symptoms. METHODS: A total of 88 cognitive interviews were conducted with 77 children and adolescents across two sites on 318 items. From this initial item bank, 25 items were deleted and 35 were revised and underwent a second round of cognitive interviews. A total of 293 items were retained for field testing. RESULTS: Children as young as 8 years of age were able to comprehend the majority of items, response options, directions, recall period, and identify problems with language that was difficult for them to understand. Cognitive interviews indicated issues with item comprehension on several items which led to alternative wording for these items. CONCLUSION: Children ages 8-17 years were able to comprehend most item stems and response options in the present study. Field testing with the resulting items and response options is presently being conducted as part of the PROMIS Pediatric Item Bank development process.},
affiliation = {Department of Epidemiology, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. dirwin@email.unc.edu},
pages = {3},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Pediatrics, Child, Male, Outcome Assessment (Health Care), Cognition, Information Systems, Databases as Topic, Adolescent, Health Status, Interviews as Topic, Female, Humans},
date-added = {2010-04-07 11:54:57 +0200},
date-modified = {2010-04-07 11:54:57 +0200},
doi = {10.1186/1477-7525-7-3},
pii = {1477-7525-7-3},
pmid = {19166601},
url = {http://www.hqlo.com/content/7/1/3},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Irwin-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Cognitive%20interviewi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10690},
rating = {0}
}
@article{Newell:1983p4739,
author = {A Newell},
title = {Intellectual issues in the history of artificial intelligence},
year = {1983},
date-added = {2010-01-30 16:25:52 +0100},
date-modified = {2010-01-30 16:26:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newell-1983-_Intellectual%20issues.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4739},
rating = {0}
}
@article{Solomon:2009p6205,
author = {Marjorie Solomon and Sally J Ozonoff and Stefan Ursu and Susan Ravizza and Neil Cummings and Stanford Ly and Cameron S Carter},
journal = {Neuropsychologia},
title = {The neural substrates of cognitive control deficits in autism spectrum disorders},
abstract = {Executive function deficits are among the most frequently reported symptoms of autism spectrum disorders (ASDs), however, there have been few functional magnetic resonance imaging (fMRI) studies that investigate the neural substrates of executive function deficits in ASDs, and only one in adolescents. The current study examined cognitive control - the ability to maintain task context online to support adaptive functioning in the face of response competition - in 22 adolescents aged 12-18 with autism spectrum disorders and 23 age, gender, and IQ matched typically developing subjects. During the cue phase of the task, where subjects must maintain information online to overcome a prepotent response tendency, typically developing subjects recruited significantly more anterior frontal (BA 10), parietal (BA 7 and BA 40), and occipital regions (BA 18) for high control trials (25% of trials) versus low control trials (75% of trials). Both groups showed similar activation for low control cues, however the ASD group exhibited significantly less activation for high control cues. Functional connectivity analysis using time series correlation, factor analysis, and beta series correlation methods provided convergent evidence that the ASD group exhibited lower levels of functional connectivity and less network integration between frontal, parietal, and occipital regions. In the typically developing group, fronto-parietal connectivity was related to lower error rates on high control trials. In the autism group, reduced fronto-parietal connectivity was related to attention deficit hyperactivity disorder symptoms.},
affiliation = {Department of Psychiatry {\&} Behavioral Sciences, University of California, Davis, Sacramento, CA 95817, USA. marjorie.solomon@ucdmc.ucdavis.edu},
number = {12},
pages = {2515--26},
volume = {47},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Statistics as Topic, Autistic Disorder, Brain, Child, Image Processing: Computer-Assisted, Male, Questionnaires, Magnetic Resonance Imaging, Case-Control Studies, Brain Mapping, Female, Cognition Disorders, Oxygen, Humans, Neuropsychological Tests, Social Behavior, Cerebral Cortex, Intelligence Tests, Adolescent},
date-added = {2010-02-19 20:26:13 +0100},
date-modified = {2010-02-19 20:26:13 +0100},
doi = {10.1016/j.neuropsychologia.2009.04.019},
pii = {S0028-3932(09)00191-2},
pmid = {19410583},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6205},
rating = {0}
}
@article{Macnab:2001p12968,
author = {J J Macnab and L T Miller and H J Polatajko},
journal = {Human Movement Science},
title = {The search for subtypes of DCD: Is cluster analysis the answer?},
abstract = {Studies using cluster analysis as a method to identify distinct subtypes of developmental co- ordination disorder (DCD) have been inconclusive leading some authors to conclude that the method of cluster analysis should be abandoned while others call for the validation of pre- viously de{\textregistered}ned subtypes. The objective of the current study was to examine the use of cluster analysis as a method of searching for subtypes of DCD to gain a better understanding of how different samples and different measures in ̄uence the interpretation of results. The paper provides a detailed review of three commonly cited cluster analytical studies and then explores the possible reasons for the discrepant results by replicating the approach with a different clinical sample. The results highlight the impact of different measures on cluster structure and the importance of adoption of a common standard to facilitate interpretation across studies.},
pages = {49--72},
volume = {20},
year = {2001},
date-added = {2010-06-25 22:12:07 +0200},
date-modified = {2010-06-25 22:17:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Macnab-2001-Human%20Movement%20Science_The%20search%20for%20subty.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12968},
rating = {5}
}
@article{Hilsabeck:2005p4534,
author = {Robin C Hilsabeck and Tarek I Hassanein and William Perry},
journal = {J Psychosom Res},
title = {Biopsychosocial predictors of fatigue in chronic hepatitis C},
abstract = {OBJECTIVE: The objective of this study was to investigate the relationship of biopsychosocial variables to fatigue in patients with chronic hepatitis C (CHC) with the goal of identifying areas of possible intervention. METHOD: Ninety-four patients with CHC not on antiviral therapy completed a demographic questionnaire and measures of fatigue, health-related quality of life, and depression. Fibrosis stage and relevant medical information were obtained from medical records. RESULTS: A stepwise multiple regression analysis revealed that the most significant predictor of fatigue was poor social functioning, followed by poor physical functioning, greater depression, and female gender. Together, these variables accounted for 68% of the total variance in fatigue. DISCUSSION: Study findings suggest that treatment strategies for fatigue in patients with CHC should focus on increasing social functioning in addition to improving physical functioning and decreasing depressive symptoms. Research investigating the effectiveness of interventions targeting social functioning, such as support groups and supportive counseling, is recommended.},
affiliation = {Department of Neuropsychiatry and Behavioral Science, Texas Tech University Health Sciences Center, 3601 4th Street, STOP 8321, Lubbock, TX 79430, USA. robin.hilsabeck@ttuhsc.edu},
number = {2},
pages = {173--8},
volume = {58},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Substance-Related Disorders, Male, Humans, Middle Aged, Sex Factors, Health Status, Age Factors, Female, Hepatitis C: Chronic, Quality of Life, Fatigue},
date-added = {2010-01-29 22:24:11 +0100},
date-modified = {2010-01-29 22:24:11 +0100},
doi = {10.1016/j.jpsychores.2004.07.003},
pii = {S0022-3999(04)00517-3},
pmid = {15820845},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4534},
rating = {0}
}
@article{Jobe:1993,
author = {JB Jobe and R Tourangeau and AF Smith},
journal = {Applied Cognitive Psychology},
title = {Contributions of survey research to the understanding of memory},
abstract = {This article reviews the results of survey methodological research that illustrate phenomena of potential interest to investigators of memory, and also reviews psychological research designed to explore some of these phenomena under controlled laboratory conditions. We classify the phenomena reviewed into broad categories of remembering what events occurred, remembering when events occurred, and estimation and reconstruction processes used in reporting recurring events. We delineate the contributions of this research for our understanding of memory phenomena and show where this research has revealed gaps in our existing theories and knowledge. These findings present challenges for future collaboration between cognitive psychologists and survey methodologists.},
pages = {567--584},
volume = {7},
year = {1993},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:15:39 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p969},
rating = {0}
}
@article{Bagby:2004p5436,
author = {R Michael Bagby and Andrew G Ryder and Deborah R Schuller and Margarita B Marshall},
journal = {Am J Psychiatry},
title = {The Hamilton Depression Rating Scale: has the gold standard become a lead weight?},
abstract = {OBJECTIVE: The Hamilton Depression Rating Scale has been the gold standard for the assessment of depression for more than 40 years. Criticism of the instrument has been increasing. The authors review studies published since the last major review of this instrument in 1979 that explicitly examine the psychometric properties of the Hamilton depression scale. The authors' goal is to determine whether continued use of the Hamilton depression scale as a measure of treatment outcome is justified. METHOD: MEDLINE was searched for studies published since 1979 that examine psychometric properties of the Hamilton depression scale. Seventy studies were identified and selected, and then grouped into three categories on the basis of the major psychometric properties examined-reliability, item-response characteristics, and validity. RESULTS: The Hamilton depression scale's internal reliability is adequate, but many scale items are poor contributors to the measurement of depression severity; others have poor interrater and retest reliability. For many items, the format for response options is not optimal. Content validity is poor; convergent validity and discriminant validity are adequate. The factor structure of the Hamilton depression scale is multidimensional but with poor replication across samples. CONCLUSIONS: Evidence suggests that the Hamilton depression scale is psychometrically and conceptually flawed. The breadth and severity of the problems militate against efforts to revise the current instrument. After more than 40 years, it is time to embrace a new gold standard for assessment of depression.},
affiliation = {Centre for Addiction and Mental Health, 250 College St., Toronto, Ont., Canada M5T 1R8. michael_bagby@camh.net},
number = {12},
pages = {2163--77},
volume = {161},
year = {2004},
month = {Dec},
language = {eng},
keywords = {Treatment Outcome, Psychiatric Status Rating Scales, ROC Curve, Factor Analysis: Statistical, Reproducibility of Results, Sensitivity and Specificity, Personality Inventory, Depressive Disorder, Severity of Illness Index, Psychometrics, Humans},
date-added = {2010-02-11 17:23:16 +0100},
date-modified = {2010-07-29 19:51:28 +0200},
doi = {10.1176/appi.ajp.161.12.2163},
pii = {161/12/2163},
pmid = {15569884},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5436},
rating = {0}
}
@article{Bernstein:2002p8810,
author = {David Bernstein and Leah Kleinman and Chris M Barker and Dennis A Revicki and Jesse Green},
journal = {Hepatology},
title = {Relationship of health-related quality of life to treatment adherence and sustained response in chronic hepatitis C patients},
abstract = {Interferon therapy may exacerbate health-related quality of life (HRQL) deficits associated with hepatitis C virus (HCV) early in the course of therapy. Treatment with polyethylene glycol-modified interferon (peginterferon) alfa-2a (40 kd) provides improved sustained response over interferon alfa-2a, but its effect on HRQL is unknown. The objective of this study was to (1) evaluate the effect of sustained virologic response on HRQL in patients with HCV and (2) determine whether impairment of HRQL during treatment contributes to early treatment discontinuation. Data consisted of a pooled secondary analysis of patients (n = 1,441) across 3 international, multicenter, open-label, randomized studies that compared peginterferon alfa-2a (40 kd) with interferon alfa-2a. ANCOVA was used to examine the effect of sustained virologic response on HRQL. Repeated-measures mixed-models ANCOVA was used to compare Fatigue Severity Scale (FSS) and SF-36 scores during treatment by treatment group. Logistic regression analysis was used to examine the association between changes at baseline in on-treatment HRQL and early treatment discontinuation. Sustained virologic response was associated with marked improvements from baseline to end of follow-up in all subjects, including patients with cirrhosis. During treatment, patients receiving peginterferon alfa-2a (40 kd) had statistically significantly better scores on both the SF-36 and FSS. Baseline to 24-week changes in fatigue and SF-36 mental and physical summary scores significantly predicted treatment discontinuation. In conclusion, sustained virologic response is associated with improvements in quality of life in patients with or without advanced liver disease. This parameter may be an important consideration in maximizing treatment adherence.},
affiliation = {North Shore University Hospital, 300 Community Drive, Manhasset, NY 11030, USA. deberns@banet.net},
number = {3},
pages = {704--8},
volume = {35},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Quality of Life, Health Status, Adult, Patient Compliance, Male, Aged, Hepatitis C: Chronic, Randomized Controlled Trials as Topic, RNA: Viral, Middle Aged, Interferon Alfa-2a, Female, Humans},
date-added = {2010-03-22 12:10:46 +0100},
date-modified = {2010-07-29 20:00:05 +0200},
doi = {10.1053/jhep.2002.31311},
pii = {ajhep0350704},
pmid = {11870387},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bernstein-2002-Hepatology_Relationship%20of%20heal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8810},
rating = {0}
}
@article{Hill:2008p10256,
author = {William G Hill and Michael E Goddard and Peter M Visscher},
journal = {PLoS Genet},
title = {Data and theory point to mainly additive genetic variance for complex traits},
abstract = {The relative proportion of additive and non-additive variation for complex traits is important in evolutionary biology, medicine, and agriculture. We address a long-standing controversy and paradox about the contribution of non-additive genetic variation, namely that knowledge about biological pathways and gene networks imply that epistasis is important. Yet empirical data across a range of traits and species imply that most genetic variance is additive. We evaluate the evidence from empirical studies of genetic variance components and find that additive variance typically accounts for over half, and often close to 100%, of the total genetic variance. We present new theoretical results, based upon the distribution of allele frequencies under neutral and other population genetic models, that show why this is the case even if there are non-additive effects at the level of gene action. We conclude that interactions at the level of genes are not likely to generate much interaction at the level of variance.},
affiliation = {Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, United Kingdom. w.g.hill@ed.ac.uk},
number = {2},
pages = {e1000008},
volume = {4},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Phenotype, Animals: Laboratory, Twin Studies as Topic, Models: Genetic, Animals: Domestic, Quantitative Trait Loci, Genetics: Population, Genes: Dominant, Animals, Epistasis: Genetic, Genetic Variation, Alleles, Humans, Gene Frequency},
date-added = {2010-04-02 11:02:31 +0200},
date-modified = {2010-04-02 11:02:31 +0200},
doi = {10.1371/journal.pgen.1000008},
pmid = {18454194},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hill-2008-PLoS%20Genet_Data%20and%20theory%20poin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10256},
rating = {0}
}
@techreport{Blazeby:2002,
author = {J Blazeby and M Sprangers and A Cull and M Groenvold and A Bottomley},
journal = {Techreport},
title = {Guidelines for Developing Questionnaire Modules},
affiliation = {EORTC Quality of Life Group},
year = {2002},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blazeby-2002-Techreport_Guidelines%20for%20Devel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2095},
rating = {0}
}
@article{Zucknick:2008p2576,
author = {Manuela Zucknick and Sylvia Richardson and Euan A Stronach},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Comparing the characteristics of gene expression profiles derived by univariate and multivariate classification methods},
abstract = {One application of gene expression arrays is to derive molecular profiles, i.e., sets of genes, which discriminate well between two classes of samples, for example between tumour types. Users are confronted with a multitude of classification methods of varying complexity that can be applied to this task. To help decide which method to use in a given situation, we compare important characteristics of a range of classification methods, including simple univariate filtering, penalised likelihood methods and the random forest. Classification accuracy is an important characteristic, but the biological interpretability of molecular profiles is also important. This implies both parsimony and stability, in the sense that profiles should not vary much when there are slight changes in the training data. We perform a random resampling study to compare these characteristics between the methods and across a range of profile sizes. We measure stability by adopting the Jaccard index to assess the similarity of resampled molecular profiles. We carry out a case study on five well-established cancer microarray data sets, for two of which we have the benefit of being able to validate the results in an independent data set. The study shows that those methods which produce parsimonious profiles generally result in better prediction accuracy than methods which don't include variable selection. For very small profile sizes, the sparse penalised likelihood methods tend to result in more stable profiles than univariate filtering while maintaining similar predictive performance.},
affiliation = {German Cancer Research Centre. manuela.zucknick03@imperial.ac.uk},
number = {1},
pages = {Article7},
volume = {7},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Humans, Databases: Nucleic Acid, RNA: Messenger, Multivariate Analysis, Female, Prostatic Neoplasms, Algorithms, Likelihood Functions, Gene Expression Profiling, Analysis of Variance, Ovarian Neoplasms, Oligonucleotide Array Sequence Analysis, Logistic Models, Data Interpretation: Statistical, Male, Leukemia, RNA: Neoplasm, Neoplasms, Breast Neoplasms},
date-added = {2010-01-12 22:23:56 +0100},
date-modified = {2010-07-29 19:50:47 +0200},
doi = {10.2202/1544-6115.1307},
pmid = {18312212},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2576},
rating = {0}
}
@article{Schwarzinger:2004p5953,
author = {Micha{\"e}l Schwarzinger and Sahar Dewedar and Claire Rekacewicz and Khaled Mahmoud Abd Elaziz and Arnaud Fontanet and Fabrice Carrat and Mostafa Kamal Mohamed},
journal = {Hepatology},
title = {Chronic hepatitis C virus infection: does it really impact health-related quality of life? A study in rural Egypt},
abstract = {Previous Western studies showed a consistent and marked reduction in health-related quality of life (HRQOL) in patients chronically infected with hepatitis C virus (HCV). However, these studies were conducted on patients whose knowledge of their serological status may have affected their HRQOL. This HRQOL survey conducted in the Egyptian rural population provides a unique opportunity to clarify this issue among a population whose serological status is unknown. HRQOL was assessed by an Arabic translation of the Short-Form 12, and a visual analog scale of the relative severity of one's health status. HCV chronic infection was defined by positive tests for anti-HCV antibody and HCV-RNA. HRQOL was compared according to HCV chronic infection status in linear mixed models adjusted for potential confounding factors, such as age, sex, education, and health care-related risk factors, and adjusted for interviewer as a random effect. One hundred forty-six Egyptians chronically infected with HCV had similar Short-Form 12 and visual analog scale scores, compared with 1,140 uninfected controls from the same rural community. In individuals chronically infected with HCV, serum aminotransferase levels did not correlate with HRQOL. In conclusion, this study did not find a significant reduction of HRQOL in patients chronically infected with HCV compared with uninfected, contemporaneous controls. This may be explained in part by a lower morbidity amongst patients chronically infected with HCV in rural Egypt and a higher morbidity amongst uninfected controls as compared with those of Western studies, as well as a lack of awareness of hepatitis C serological status.},
affiliation = {INSERM U444, Facult{\'e} de M{\'e}decine Saint-Antoine, Paris, France. schwarzi@u444.jussieu.fr},
number = {6},
pages = {1434--41},
volume = {40},
year = {2004},
month = {Dec},
language = {eng},
keywords = {Quality of Life, Transaminases, Egypt, Male, Hepatitis C: Chronic, Prevalence, Multivariate Analysis, Middle Aged, Rural Population, Adult, Humans, Female},
date-added = {2010-02-18 23:23:35 +0100},
date-modified = {2010-07-29 20:00:05 +0200},
doi = {10.1002/hep.20468},
pmid = {15565610},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schwarzinger-2004-Hepatology_Chronic%20hepatitis%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5953},
rating = {0}
}
@article{Debb:2009p5994,
author = {S M Debb and D L Blitz and S W Choi},
journal = {The New School Psychology Bulletin},
title = {Quality of Life Differences In an African American and Caucasian Sample of Chronic Illness Patients: Assessment of Differential Item Functioning},
abstract = {The value of a health care intervention is judged by its impact on the quantity and quality of life (QOL) of an individual (Cella {\&} Bonomi, 1996). When analyzing QOL data, results from the general population are often as- sumed to be equally representative of various subpopulations; however, establishing measurement invariance across different populations (e.g., racial and ethnic groups) is crucial for score interpretability. In this study, ordinal logistic regression (following Zumbo, 1999) was used to examine differential item functioning (DIF) in an African American and Caucasian sample of 898 cancer and chronic illness patients that had been administered a QOL questionnaire for use with chronic illness sufferers. Results indicated that significant differences in response patterns were present between the two groups. This has which have clinical implications pertaining to psychological assessment, concep- tualization and intervention.},
number = {1},
pages = {35--44},
volume = {6},
year = {2009},
date-added = {2010-02-18 23:32:03 +0100},
date-modified = {2010-02-18 23:33:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Debb-2009-The%20New%20School%20Psychology%20Bulletin_Quality%20of%20Life%20Diff.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5994},
rating = {0}
}
@article{Brinza:2008p7193,
author = {Dumitru Brinza and Alexander Zelikovsky},
journal = {Journal of computational biology : a journal of computational molecular cell biology},
title = {Design and validation of methods searching for risk factors in genotype case-control studies},
abstract = {Accessibility of high-throughput genotyping technology allows genome-wide association studies for common complex diseases. This paper addresses two challenges commonly facing such studies: (i) searching an enormous amount of possible gene interactions and (ii) finding reproducible associations. These challenges have been traditionally addressed in statistics while here we apply computational approaches--optimization and cross-validation. A complex risk factor is modeled as a subset of single nucleotide polymorphisms (SNPs) with specified alleles and the optimization formulation asks for the one with the maximum odds ratio. To measure and compare ability of search methods to find reproducible risk factors, we propose to apply a cross-validation scheme usually used for prediction validation. We have applied and cross-validated known search methods with proposed enhancements on real case-control studies for several diseases (Crohn's disease, autoimmune disorder, tick-borne encephalitis, lung cancer, and rheumatoid arthritis). Proposed methods are compared favorably to the exhaustive search: they are faster, find more frequently statistically significant risk factors, and have significantly higher leave-half-out cross-validation rate.},
affiliation = {Department of Computer Science and Engineering, University of California, San Diego, La Jolla, California 92093-0404, USA. dima@cs.ucsd.edu},
number = {1},
pages = {81--90},
volume = {15},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Case-Control Studies, Odds Ratio, Genetic Predisposition to Disease, Software, Reproducibility of Results, Polymorphism: Single Nucleotide, Databases: Genetic, Mutation, Computational Biology, Confidence Intervals, Humans},
date-added = {2010-03-06 21:18:55 +0100},
date-modified = {2010-03-06 21:18:55 +0100},
doi = {10.1089/cmb.2007.0081},
pmid = {18199025},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7193},
rating = {0}
}
@article{Rijn:2000aa,
author = {P W van Rijn and T J H M Eggen and B T Hemker and P F Sanders},
title = {A Selection Procedure for Polytomous Items in Computerized Adaptive Testing},
abstract = {In the present study, a procedure which was developed to select dichotomous items in computerized adaptive testing was applied to polytomous items. The aim of this procedure is to select the item with maximum weighted information. In a simulation study, the item information function was integrated over a fixed interval of ability values and the item with the maximum area was selected. This maximum interval information item selection procedure was compared to a maximum point information item selection procedure. No substantial differences between the two item selection procedures were found when computerized adaptive tests were evaluated on bias and root mean square of the ability estimate.},
year = {2000},
month = {Oct},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rijn-2000-_A%20Selection%20Procedur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1211},
rating = {0}
}
@article{Kastner:2010p5087,
author = {Julia Kastner and F Petermann},
journal = {Klin Padiatr},
title = {[Developmental coordination disorder: relations between deficits in movement and cognition]},
abstract = {Different studies confirm that children with developmental coordination disorders (DCD) feature additionally cognitive deficits in areas of visual perception, memory and processing speed. The aim of the present study was to explore, whether or not children suffering from DCD have specific performance profiles in the WISC-IV. For this purpose, the WISC-IV results of 40 children with DCD (diagnosed using the Movement ABC-2), mean age 7,60, were compared with a control group matched according to age und gender. The children in the clinical group offered a homogenous performance profile, scoring below average in each of the four indices (verbal comprehension, perception reasoning, working memory and processing speed) and general IQ. Therefore, in clinical practice the WISC-IV is an appropriate instrument to detect cognitive deficits that can appear in conjunction with DCD.},
affiliation = {Universit{\"a}t Bremen, Zentrum f{\"u}r Klinische Psychologie und Rehabilitation, Bremen. kastner@uni-bremen.de},
number = {1},
pages = {26--34},
volume = {222},
year = {2010},
month = {Jan},
language = {ger},
date-added = {2010-02-05 20:16:08 +0100},
date-modified = {2010-02-05 20:16:09 +0100},
doi = {10.1055/s-0029-1225656},
pmid = {20084588},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5087},
rating = {0}
}
@article{Lee:2008p459,
author = {Sophia S F Lee and Lei Sun and Rafal Kustra and Shelley B Bull},
journal = {Bioinformatics},
title = {EM-random forest and new measures of variable importance for multi-locus quantitative trait linkage analysis},
abstract = {MOTIVATION: We developed an EM-random forest (EMRF) for Haseman-Elston quantitative trait linkage analysis that accounts for marker ambiguity and weighs each sib-pair according to the posterior identical by descent (IBD) distribution. The usual random forest (RF) variable importance (VI) index used to rank markers for variable selection is not optimal when applied to linkage data because of correlation between markers. We define new VI indices that borrow information from linked markers using the correlation structure inherent in IBD linkage data. RESULTS: Using simulations, we find that the new VI indices in EMRF performed better than the original RF VI index and performed similarly or better than EM-Haseman-Elston regression LOD score for various genetic models. Moreover, tree size and markers subset size evaluated at each node are important considerations in RFs. AVAILABILITY: The source code for EMRF written in C is available at www.infornomics.utoronto.ca/downloads/EMRF.},
affiliation = {Department of Public Health Sciences, University of Toronto, Toronto M5T3M7, Canada.},
number = {14},
pages = {1603--10},
volume = {24},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Chromosome Mapping, Humans, Linkage (Genetics), Phenotype, Programming Languages, Data Interpretation: Statistical, Random Allocation, Genotype, Lod Score, Computational Biology, Regression Analysis, Models: Genetic, Quantitative Trait: Heritable, Algorithms, Models: Statistical},
date-added = {2010-01-03 12:27:49 +0100},
date-modified = {2010-01-03 12:27:49 +0100},
doi = {10.1093/bioinformatics/btn239},
pii = {btn239},
pmid = {18499695},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2008-Bioinformatics_EM-random%20forest%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p459},
rating = {0}
}
@article{Letondal:2001p14109,
author = {C Letondal},
journal = {Bioinformatics},
title = {A Web interface generator for molecular biology programs in Unix},
abstract = {MOTIVATION: Almost all users encounter problems using sequence analysis programs. Not only are they difficult to learn because of the parameters, syntax and semantic, but many are different. That is why we have developed a Web interface generator for more than 150 molecular biology command-line driven programs, including: phylogeny, gene prediction, alignment, RNA, DNA and protein analysis, motif discovery, structure analysis and database searching programs. The generator uses XML as a high-level description language of the legacy software parameters. Its aim is to provide users with the equivalent of a basic Unix environment, with program combination, customization and basic scripting through macro registration. RESULTS: The program has been used for three years by about 15000 users throughout the world; it has recently been installed on other sites and evaluated as a standard user interface for EMBOSS programs.},
affiliation = {Institut Pasteur, Service d'Informatique Scientifique, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France. pise@pasteur.fr},
number = {1},
pages = {73--82},
volume = {17},
year = {2001},
month = {Jan},
language = {eng},
keywords = {User-Computer Interface, Programming Languages, Sequence Analysis, Computational Biology, Internet, Molecular Biology, Software},
date-added = {2010-08-18 16:53:39 +0200},
date-modified = {2010-08-18 16:53:39 +0200},
pmid = {11222264},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Letondal-2001-Bioinformatics_A%20Web%20interface%20gene.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14109},
rating = {0}
}
@book{Tenenhaus1998,
author = {M Tenenhaus},
journal = {Book},
title = {La r{\'e}gression PLS: th{\'e}orie et pratique.},
year = {1998},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-18 15:31:12 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2524},
rating = {0}
}
@article{Poitevineau:2004p913,
author = {J Poitevineau},
journal = {Math{\'e}matiques {\&} Sciences Humaines},
title = {L'usage des tests statistiques par les chercheurs en psychologie : Aspects normatif, descriptif et prescriptif},
abstract = {At a normative level, the significance tests appear to be ill suited and the main criticisms are reported. At a descriptive level, both examination of statistical textbooks, re-analyses of published papers and experiments about the use of significance tests by psychologists clearly reveals many misuses. At a prescriptive level, alternative solutions are considered, especially the Bayesian methods, which appear to be especially attractive.},
number = {167},
pages = {5--25},
volume = {3},
year = {2004},
date-added = {2010-01-03 18:58:05 +0100},
date-modified = {2010-07-29 19:39:20 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Poitevineau-2004-Math%C3%A9matiques%20&%20Sciences%20Humaines_L'usage%20des%20tests%20st.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p913},
rating = {0}
}
@article{Glazebrook:2008p6055,
author = {Cheryl M Glazebrook and Digby Elliott and Peter Szatmari},
journal = {J Autism Dev Disord},
title = {How do individuals with autism plan their movements?},
abstract = {Two experiments investigated how persons with and without autism plan manual aiming movements when advance information is direct and when strategic planning is required. In Experiment 1 advance information about hand, direction, and/or movement amplitude was manipulated. Reaction times suggested both groups adopted a hierarchical pattern of movement planning. In Experiment 2, participants performed aiming movements to one of two targets that were the same or different size. Participants without autism varied the starting location in anticipation of specific target stimuli whereas participants with autism consistently selected the midpoint. Overall, individuals with autism used advance information to plan their movements when this information was direct. However, their performance became stereotyped when strategies were self-generated.},
affiliation = {Department of Kinesiology, McMaster University, 1280 Main St West, Ivor Wynne Centre, AB108, L8S 4K1, Hamilton, ON, Canada. bezalg@mcmaster.ca},
number = {1},
pages = {114--26},
volume = {38},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Female, Reaction Time, Autistic Disorder, Cognition Disorders, Adult, Humans, Severity of Illness Index, Male},
date-added = {2010-02-19 17:02:23 +0100},
date-modified = {2010-02-19 17:02:23 +0100},
doi = {10.1007/s10803-007-0369-1},
pmid = {17436068},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6055},
rating = {0}
}
@article{Chen:2008p12784,
author = {W T Chen and M M Coughlin},
journal = {NESUG},
title = {An Approach to CDISC SDTM Implementation for Clinical Trials Data},
abstract = {The Clinical Data Interchange Standards Consortium (CDISC) is a non-profit international organization estab- lished to define standard data formats to support the exchange of clinical data among and within organiza- tions such as pharmaceutical and medical device companies, contract research organizations, universities, medical research institutions, and regulatory agencies. The CDISC Study Data Tabulation Model (SDTM) defines the standard format for tabulation data. Generally, there are three approaches for implementing SDTM within the pharmaceutical industry: pure SDTM, submission-only, and database-only. The pure SDTM approach means all study data will be SDTM-compliant, starting from data capture and ending with data analysis and submission. The submission-only approach leaves the current practice alone and creates the SDTM-complaint datasets for submissions. The database-only approach feeds the study data into a clinical database, which is SDTM-compliant. This paper discusses the database-only approach to implementation of SDTM version 1.1 and SDTMIG (Implementation Guide) version 3.1.1 and explores the pros and cons of the current SDTM standard.},
year = {2008},
date-added = {2010-06-18 20:47:49 +0200},
date-modified = {2010-06-18 20:48:27 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2008-NESUG_An%20Approach%20to%20CDISC.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12784},
rating = {0}
}
@article{Dimitrov:2006p13797,
author = {Dimiter M Dimitrov},
journal = {Work},
title = {Comparing groups on latent variables: a structural equation modeling approach},
abstract = {Structural equation modeling (SEM) provides a dependable framework for testing differences among groups on latent variables (constructs, factors). The purpose of this article is to illustrate SEM-based testing for group mean differences on latent variables. Related procedures of confirmatory factor analysis and testing for measurement invariance across compared groups are also presented in the context of rehabilitation research.},
affiliation = {Graduate School of Education, George Mason University, 4400 University Drive, MS 4B3, Fairfax, VA 22030-4444, USA. ddimitro@gmu.edu},
number = {4},
pages = {429--36},
volume = {26},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Analysis of Variance, Population Groups, Humans, Factor Analysis: Statistical, Multiple Sclerosis, United States, Rehabilitation: Vocational, Models: Statistical},
date-added = {2010-07-29 12:18:34 +0200},
date-modified = {2010-07-29 12:18:34 +0200},
pmid = {16788262},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13797},
rating = {0}
}
@article{Mislevy:2002p4261,
author = {R J Mislevy and M R Wilson and K Ercikan and N Chudowsky},
title = {Psychometric Principles in Student Assessment},
abstract = {In educational assessment, we observe what students say, do, or in a few particular circumstances make, and attempt to infer what they know, can do, or h a v e accomplished more generally. Some links in the chain of inference depend on statistical models and probability-based reasoning, and it is with these links that terms such as validity, reliability, and comparability are typically associated---psychometric principles, as it were. Familiar formulas and procedures from test theory provide working definitions and practical tools for addressing these more broadly applicable qualities of the chains of argument from observations to inferences about students, as they apply to familiar methods of gathering and using assessment data. This report has four objectives: It offers a framework for the evidentiary arguments that ground assessments, examines where psychometric principles fit in this framework, shows how familiar formulas apply these ideas to familiar forms of assessment, and looks a h e a d to extending the same principles to new kinds of assessments.},
year = {2002},
date-added = {2010-01-23 21:09:30 +0100},
date-modified = {2010-01-23 21:10:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-2002-_Psychometric%20Princip.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4261},
rating = {0}
}
@article{Pickles:2010p13694,
author = {Andrew Pickles and Tim Croudace},
journal = {Stat Methods Med Res},
title = {Latent mixture models for multivariate and longitudinal outcomes},
abstract = {Repeated measures and multivariate outcomes are an increasingly common feature of trials. Their joint analysis by means of random effects and latent variable models is appealing but patterns of heterogeneity in outcome profile may not conform to standard multivariate normal assumptions. In addition, there is much interest in both allowing for and identifying sub-groups of patients who vary in treatment responsiveness. We review methods based on discrete random effects distributions and mixture models for application in this field.},
affiliation = {Biostatistics, Health Methodology Research Group, University of Manchester, University Place, Oxford Road, Manchester, M13 9PL, UK. andrew.pickles@manchester.ac.uk},
number = {3},
pages = {271--89},
volume = {19},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-11 09:05:21 +0200},
date-modified = {2010-07-11 09:05:21 +0200},
doi = {10.1177/0962280209105016},
pii = {0962280209105016},
pmid = {19608600},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pickles-2010-Stat%20Methods%20Med%20Res_Latent%20mixture%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13694},
rating = {0}
}
@article{Dillon:2010p9592,
author = {Daniel G Dillon and Ryan Bogdan and Jesen Fagerness and Avram J Holmes and Roy H Perlis and Diego A Pizzagalli},
journal = {Hum Brain Mapp},
title = {Variation in TREK1 gene linked to depression-resistant phenotype is associated with potentiated neural responses to rewards in humans},
abstract = {The TREK1 gene has been linked to a depression-resistant phenotype in rodents and antidepressant response in humans, but the neural mechanisms underlying these links are unclear. Because TREK1 is expressed in reward-related basal ganglia regions, it has been hypothesized that TREK1 genetic variation may be associated with anhedonic symptoms of depression. To investigate whether TREK1 genetic variation influences reward processing, we genotyped healthy individuals (n = 31) who completed a monetary incentive delay task during functional magnetic resonance imaging (fMRI). Three genotypes previously linked to positive antidepressant response were associated with potentiated basal ganglia activity to gains, but did not influence responses to penalties or no change feedback. TREK1 genetic variations did not affect basal ganglia volume, and fMRI group differences were confirmed when accounting for self-report measures of anhedonia. In addition, the total number of "protective" TREK1 alleles was associated with stronger responses to gains in several other reward-related regions, including the dorsal anterior cingulate cortex, orbitofrontal cortex, and mesial prefrontal cortex. In control analyses, associations between basal ganglia responses to gains and functional polymorphisms in the dopamine transporter (DAT1) and catechol-O-methyltransferase (COMT) genes were also explored. Results revealed that TREK1 and DAT/COMT genotypes were independently related to basal ganglia responses to gains. These findings indicate that TREK1 genotypes are associated with individual differences in reward-related brain activity. Future studies in depressed samples should evaluate whether variation in neural responses to rewards may contribute to the association between TREK1 and antidepressant response in humans.},
affiliation = {Department of Psychology, Harvard University, Cambridge, Massachusetts 02138, USA.},
note = {genim},
number = {2},
pages = {210--21},
volume = {31},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Phenotype, Depression, Genotype, Dopamine Plasma Membrane Transport Proteins, Linkage Disequilibrium, Male, Brain Mapping, Basal Ganglia, Female, Reward, Magnetic Resonance Imaging, Polymorphism: Single Nucleotide, Humans, Neuropsychological Tests, Potassium Channels: Tandem Pore Domain, Brain, Sequence Analysis: DNA, Young Adult, Catechol O-Methyltransferase},
date-added = {2010-03-25 14:35:33 +0100},
date-modified = {2010-03-25 18:16:05 +0100},
doi = {10.1002/hbm.20858},
pmid = {19621370},
url = {http://www3.interscience.wiley.com/journal/122515655/abstract?CRETRY=1&SRETRY=0},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dillon-2010-Hum%20Brain%20Mapp_Variation%20in%20TREK1%20g.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9592},
rating = {0}
}
@article{Gabriel:2009p8331,
author = {Adel Gabriel and Claudio Violato},
journal = {BMC Psychiatry},
title = {The development of a knowledge test of depression and its treatment for patients suffering from non-psychotic depression: a psychometric assessment},
abstract = {BACKGROUND: To develop and psychometrically assess a multiple choice question (MCQ) instrument to test knowledge of depression and its treatments in patients suffering from depression. METHODS: A total of 63 depressed patients and twelve psychiatric experts participated. Based on empirical evidence from an extensive review, theoretical knowledge and in consultations with experts, 27-item MCQ knowledge of depression and its treatment test was constructed. Data collected from the psychiatry experts were used to assess evidence of content validity for the instrument. RESULTS: Cronbach's alpha of the instrument was 0.68, and there was an overall 87.8% agreement (items are highly relevant) between experts about the relevance of the MCQs to test patient knowledge on depression and its treatments. There was an overall satisfactory patients' performance on the MCQs with 78.7% correct answers. Results of an item analysis indicated that most items had adequate difficulties and discriminations. CONCLUSION: There was adequate reliability and evidence for content and convergent validity for the instrument. Future research should employ a lager and more heterogeneous sample from both psychiatrist and community samples, than did the present study. Meanwhile, the present study has resulted in psychometrically tested instruments for measuring knowledge of depression and its treatment of depressed patients.},
affiliation = {University of Calgary and Calgary Health region, 2000 Pegasus Rd NE, Calgary AB T2E 8K7, Canada. gabriel@ucalgary.ca},
pages = {56},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Male, Middle Aged, Clinical Competence, Psychiatry, Aged, Attitude of Health Personnel, Female, Health Knowledge: Attitudes: Practice, Psychometrics, Questionnaires, Reproducibility of Results, Adolescent, Humans, Attitude to Health, Adult, Depressive Disorder},
date-added = {2010-03-21 12:35:43 +0100},
date-modified = {2010-03-21 12:35:43 +0100},
doi = {10.1186/1471-244X-9-56},
pii = {1471-244X-9-56},
pmid = {19754944},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gabriel-2009-BMC%20Psychiatry_The%20development%20of%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8331},
rating = {0}
}
@article{Lawlor:2008p9926,
author = {Debbie A Lawlor and Roger M Harbord and Jonathan A C Sterne and Nic Timpson and George Davey Smith},
journal = {Stat Med},
title = {Mendelian randomization: using genes as instruments for making causal inferences in epidemiology},
abstract = {Observational epidemiological studies suffer from many potential biases, from confounding and from reverse causation, and this limits their ability to robustly identify causal associations. Several high-profile situations exist in which randomized controlled trials of precisely the same intervention that has been examined in observational studies have produced markedly different findings. In other observational sciences, the use of instrumental variable (IV) approaches has been one approach to strengthening causal inferences in non-experimental situations. The use of germline genetic variants that proxy for environmentally modifiable exposures as instruments for these exposures is one form of IV analysis that can be implemented within observational epidemiological studies. The method has been referred to as 'Mendelian randomization', and can be considered as analogous to randomized controlled trials. This paper outlines Mendelian randomization, draws parallels with IV methods, provides examples of implementation of the approach and discusses limitations of the approach and some methods for dealing with these.},
affiliation = {Department of Social Medicine, University of Bristol, U.K. d.a.lawlor@bristol.ac.uk},
number = {8},
pages = {1133--63},
volume = {27},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Molecular Epidemiology, Models: Econometric, Genome: Human, Bias (Epidemiology), Causality, Genetic Diseases: Inborn, Genotype, Randomized Controlled Trials as Topic, Humans, Epidemiologic Methods},
date-added = {2010-03-31 16:08:14 +0200},
date-modified = {2010-03-31 16:08:14 +0200},
doi = {10.1002/sim.3034},
pmid = {17886233},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lawlor-2008-Stat%20Med_Mendelian%20randomizat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9926},
rating = {0}
}
@book{Cortina:2000,
author = {J M Cortina and H Nouri},
journal = {Book},
title = {Effect size for ANOVA designs},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1949},
rating = {0}
}
@article{Slavin:2008p1768,
author = {R E Slavin and D Smith},
journal = {Annual meetings of the Society for Research on Effective Education},
title = {Effects of Sample Size on Effect Size in Systematic Reviews in Education},
year = {2008},
date-added = {2010-01-09 21:21:44 +0100},
date-modified = {2010-01-09 21:22:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Slavin-2008-Annual%20meetings%20of%20the%20Society%20for%20Research%20on%20Effective%20Education_Effects%20of%20Sample%20Si.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1768},
rating = {0}
}
@misc{Agresti:2000,
author = {Alan Agresti and J G Booth and J P Hobert and B Caffo},
journal = {Miscellaneous},
title = {Random effects modeling of categorical response data},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:17:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Agresti-2000-Miscellaneous_Random%20effects%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2145},
read = {Yes},
rating = {3}
}
@article{Bechger:2004aa,
author = {Timo M Bechger and Gunter Maris},
title = {STRUCTURAL EQUATION MODELLING OF MULTIPLE FACET DATA: EXTENDING MODELS FOR MULTITRAIT-MULTIMETHOD DATA},
abstract = {This paper is about the structural equation modelling of quantitative measures that are obtained from a multiple facet design. A facet is simply a set consisting of a finite number of elements. It is assumed that measures are obtained by combining each element of each facet. Methods and traits are two such facets, and a multitrait-multimethod study is a two-facet design. We extend models that were proposed for multitrait-multimethod data by Wothke (1984;1996) and Browne (1984, 1989, 1993), and demonstrate how they can be fitted using standard software for structural equation modelling. Each model is derived from the model for individual measurements in order to clarify the first principles underlying each model.},
year = {2004},
month = {Feb},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2004-_STRUCTURAL%20EQUATION.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1214},
read = {Yes},
rating = {0}
}
@article{Hothorn:2008p3623,
author = {T Hothorn and F Bretz and P Westfall},
title = {Simultaneous Inference in General Parametric Models},
year = {2008},
date-added = {2010-01-16 18:43:00 +0100},
date-modified = {2010-01-16 18:43:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hothorn-2008-_Simultaneous%20Inferen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3623},
rating = {0}
}
@article{Peyre:2010p5234,
author = {Hugo Peyre and Joel Coste and Alain Leplege},
journal = {Health Qual Life Outcomes},
title = {Identifying type and determinants of missing items in quality of life questionnaires: Application to the SF-36 French version of the 2003 Decennial Health Survey},
abstract = {ABSTRACT: Background Missing items are common in quality of life (QoL) questionnaires and present a challenge for research in this field. The development of sound strategies of replacement and prevention requires accurate knowledge of their type and determinants. Methods We used the 2003 French Decennial Health Survey of a representative sample of the general population --including 22,620 adult subjects who completed the SF-36 questionnaire-- to test various socio-demographic, health status and QoL variables as potential predictors of missingness. We constructed logistic regression models for each SF-36 item to identify independent predictors and classify them according to Little and Rubin ("missing completely at random", "missing at random" and "missing not at random"). Results The type of missingness was missing at random for half of the items of the SF-36 and missing not at random for the others. None of the items were missing completely at random. Independent predictors of missingness were age, female sex, low scores on the SF-36 subscales and in some cases low educational level, occupation, nationality and poor health status. Conclusion This study of the SF-36 shows that imputation of missing items is necessary and emphasizes several factors for missingness that should be considered in prevention strategies of missing data. Similar methodologies could be applied to item missingness in other QoL questionnaires.},
number = {1},
pages = {16},
volume = {8},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-08 19:32:42 +0100},
date-modified = {2010-03-21 12:42:36 +0100},
doi = {10.1186/1477-7525-8-16},
pii = {1477-7525-8-16},
pmid = {20128899},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Peyre-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Identifying%20type%20and-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5234},
rating = {4}
}
@article{Atkinson:2007p1360,
author = {A C Atkinson and M Riani},
journal = {Computational Statistics},
title = {Exploratory tools for clustering multivariate data},
abstract = {The forward search provides a series of robust parameter estimates based on increasing numbers of observations. The resulting series of robust Mahalanobis distances is used to cluster multivariate normal data. The method depends on envelopes of the distribution of the test statistics in forward plots. These envelopes can be found by simulation; flexible polynomial approximations to the envelopes are given. New graphical tools provide methods not only of detecting clusters but also of determining their membership. Comparisons are made with mclust and k-means clustering.},
pages = {272--285},
volume = {52},
year = {2007},
keywords = {Graphics, mclust, Simulation envelopes, Mahalanobis distance, Random start, Forward search, k-means},
date-added = {2010-01-07 11:53:07 +0100},
date-modified = {2010-07-29 19:24:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Atkinson-2007-Computational%20Statistics_Exploratory%20tools%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1360},
rating = {0}
}
@article{Ginkel:2007a,
author = {Joost R van Ginkel and L Andries van der Ark and Klaas Sijtsma},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Multiple imputation for item scores when test data are factorially complex},
abstract = {Multiple imputation under a two-way model with error is a simple and effective method that has been used to handle missing item scores in unidimensional test and questionnaire data. Extensions of this method to multidimensional data are proposed. A simulation study is used to investigate whether these extensions produce biased estimates of important statistics in multidimensional data, and to compare them with lower benchmark listwise deletion, two-way with error and multivariate normal imputation. The new methods produce smaller bias in several psychometrically interesting statistics than the existing methods of two-way with error and multivariate normal imputation. One of these new methods clearly is preferable for handling missing item scores in multidimensional test data.},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ginkel-2007-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Multiple%20imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1897},
rating = {0}
}
@article{Cooper:2002p11567,
author = {Richelle J Cooper and David L Schriger and Reb J H Close},
journal = {Ann Emerg Med},
title = {Graphical literacy: the quality of graphs in a large-circulation journal},
abstract = {STUDY OBJECTIVES: We sought to characterize the quantity and quality of graphs in the Journal of American Medicine (JAMA), contrasting articles published in 1999 with those published in 2000 after the addition of a dedicated tables and figures editor. We also sought to compare the quality of graphs in JAMA with the quality of graphs in Annals of Emergency Medicine. METHODS: Two reviewers independently assessed all graphs in original research articles from 12 randomly chosen issues of JAMA, 6 each from 1999 and 2000, using a standardized abstraction form. We noted graph type, clarity, and completeness and identified internal discrepancies. We examined the graphs and articles to observe discrepancies with text, to observe efficiency of graph presentation, and to determine whether the graph portrayed unaggregated data. Results were compared with results from a previously published study of graphs from 18 consecutive issues of Annals of Emergency Medicine beginning in January 1998. RESULTS: The 12 JAMA issues contained 56 research articles, with 64 graphs in the 37 articles that had graphs (28 in 27 1999 articles, 36 in 29 2000 articles). Simple bar or point charts (63%) predominated. We rarely encountered internal errors (8%), contradictions with text (3%), numeric distortion (6%), lack of visual clarity (5%), nonstandard graphing conventions (11%), or extraneous decoration (0%). Graphs generally defined all symbols (98%), but 31% were not self-explanatory; that is, despite knowing the study's design and reading the figure's legend, we could not unambiguously interpret the graph. Fourteen percent contained redundancies. Graphs infrequently portrayed by-subject data (9%) or advanced features (15%) such as pairing, symbolic dimensionality, or small multiples. Forty-eight percent (21/44) of graphs did not illustrate the underlying distribution, 48% (26/54) did not depict important covariates, and 67% (14/21) did not portray pairing inherent in the data. There were no differences between 1999 and 2000 graphs, although we noted more graphs in the 2000 issues. Graph quality was similar in Annals of Emergency Medicine and JAMA, but graphs were more common in the original research articles in JAMA. Although univariate displays predominated in both publications, there were more bivariate displays in Annals of Emergency Medicine but fewer advanced graphic features. CONCLUSION: The graphs in JAMA were similar to those in Annals of Emergency Medicine and, although generally clear and without errors, often failed to depict detailed data. Authors and editors could improve data presentations by incorporating graphic formats that depict stratified, detailed data.},
affiliation = {UCLA Emergency Medicine Center, UCLA School of Medicine, Los Angeles, CA 900024, USA. richelle@ucla.edu},
number = {3},
pages = {317--22},
volume = {40},
year = {2002},
month = {Sep},
language = {eng},
keywords = {Periodicals as Topic, Journalism: Medical, Medical Illustration, Statistics as Topic},
date-added = {2010-05-01 17:37:30 +0200},
date-modified = {2010-05-01 17:37:30 +0200},
pii = {S019606440200046X},
pmid = {12192357},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cooper-2002-Ann%20Emerg%20Med_Graphical%20literacy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11567},
rating = {0}
}
@article{Finch:2010p13493,
author = {W H Finch},
journal = {Journal of Data Science},
title = {Imputation Methods for Missing Categorical Questionnaire Data: A Comparison of Approaches},
abstract = {Missing data are a common problem for researchers working with surveys and other types of questionnaires. Often, respondents do not re- spond to one or more items, making the conduct of statistical analyses, as well as the calculation of scores difficult. A number of methods have been de- veloped for dealing with missing data, though most of these have focused on continuous variables. It is not clear that these techniques for imputation are appropriate for the categorical items that make up surveys. However, meth- ods of imputation specifically designed for categorical data are either limited in terms of the number of variables they can accommodate, or have not been fully compared with the continuous data approaches used with categorical variables. The goal of the current study was to compare the performance of these explicitly categorical imputation approaches with the more well es- tablished continuous method used with categorical item responses. Results of the simulation study based on real data demonstrate that the continuous based imputation approach and a categorical method based on stochastic regression appear to perform well in terms of creating data that match the complete datasets in terms of logistic regression results.},
pages = {361--378},
volume = {8},
year = {2010},
date-added = {2010-07-01 22:35:44 +0200},
date-modified = {2010-07-01 22:36:26 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finch-2010-Journal%20of%20Data%20Science_Imputation%20Methods%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13493},
rating = {0}
}
@article{Smith:1998,
author = {R M Smith},
journal = {J Outcome Meas},
title = {Corrected Rasch asymptotic standard errors for person ability estimates.},
abstract = {Most calibration programs designed for the family of Rasch psychometric models report the asymptotic standard errors for person and item measure estimates resulting from the calibration process. Although these estimates are theoretically correct, they may be influenced by any number of factors, e.g., restrictions due to the loss of degrees of freedom in estimation, targeting of the instrument, i.e., the degree of offset between mean item difficulty and mean person ability, and the presence of misfit in the data. The effect of these factors on the standard errors reported for the person has not been previously reported. The purpose of this study was to investigate the effects of these three factors on the asymptotic standard errors for person measures using simulated data. The results indicate that asymptotic errors systematically underestimate the observed standard deviation of ability in simulated data, though this underestimation is usually small for targeted instruments with reasonable sample size. However, the underestimation can easily be corrected with a simple linear function. These simulations use only dichotomous data and the results may not generalize to the rating scale and partial credit models.},
number = {4},
pages = {351--364},
volume = {2},
year = {1998},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:30:30 +0200},
pmid = {9803720},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1136},
rating = {0}
}
@article{Cilibrasi:2005p529,
author = {Rudi Cilibrasi and Leo van Iersel and Steven Kelk and John Tromp},
journal = {arXiv},
title = {On the Complexity of the Single Individual SNP Haplotyping Problem},
abstract = { We present several new results pertaining to haplotyping. These results concern the combinatorial problem of reconstructing haplotypes from incomplete and/or imperfectly sequenced haplotype fragments. We consider the complexity of the problems Minimum Error Correction (MEC) and Longest Haplotype Reconstruction (LHR) for different restrictions on the input data. Specifically, we look at the gapless case, where every row of the input corresponds to a gapless haplotype-fragment, and the 1-gap case, where at most one gap per fragment is allowed. We prove that MEC is APX-hard in the 1-gap case and still NP-hard in the gapless case. In addition, we question earlier claims that MEC is NP-hard even when the input matrix is restricted to being completely binary. Concerning LHR, we show that this problem is NP-hard and APX-hard in the 1-gap case (and thus also in the general case), but is polynomial time solvable in the gapless case. },
annote = {26 pages. Related to the WABI2005 paper, "On the Complexity of
Several Haplotyping Problems", but with more/different results. This papers
has just been submitted to the IEEE/ACM Transactions on Computational Biology
and Bioinformatics and we are awaiting a decision on acceptance. It differs
from the mid-August version of this paper because here we prove that 1-gap
LHR is APX-hard. (In the earlier version of the paper we could prove only
that it was NP-hard.)},
eprint = {q-bio/0508012v2},
volume = {q-bio.GN},
year = {2005},
month = {Jan},
keywords = {q-bio.QM, q-bio.GN},
date-added = {2010-01-03 13:43:22 +0100},
date-modified = {2010-01-03 13:43:22 +0100},
pmid = {q-bio/0508012v2},
url = {http://arxiv.org/abs/q-bio/0508012v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cilibrasi-2005-arXiv_On%20the%20Complexity%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p529},
rating = {0}
}
@article{Lusa:2007p1454,
author = {Lara Lusa and Lisa M McShane and Michael D Radmacher and Joanna H Shih and George W Wright and Richard Simon},
journal = {Stat Med},
title = {Appropriateness of some resampling-based inference procedures for assessing performance of prognostic classifiers derived from microarray data},
abstract = {The goal of many gene-expression microarray profiling clinical studies is to develop a multivariate classifier to predict patient disease outcome from a gene-expression profile measured on some biological specimen from the patient. Often some preliminary validation of the predictive power of a profile-based classifier is carried out using the same data set that was used to derive the classifier. Techniques such as cross-validation or bootstrapping can be used in this setting to assess predictive power, and if applied correctly, can result in a less biased estimate of predictive accuracy of a classifier. However, some investigators have attempted to apply standard statistical inference procedures to assess the statistical significance of associations between true and cross-validated predicted outcomes. We demonstrate in this paper that na{\"\i}ve application of standard statistical inference procedures to these measures of association under null situations can result in greatly inflated testing type I error rates. Under alternatives of small to moderate associations, confidence interval coverage probabilities may be too low, although for very large associations coverage probabilities approach their intended values. Our results suggest that caution should be exercised in interpreting some of the claims of exceptional prognostic classifier performance that have been reported in prominent biomedical journals in the past few years.},
affiliation = {Department of Experimental Oncology, Istituto Nazionale per lo Studio e la Cura dei Tumori, Milano, Italy. lara.lusa@ifom-ieo-campus.it},
number = {5},
pages = {1102--13},
volume = {26},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Odds Ratio, DNA Fingerprinting, Humans, Oligonucleotide Array Sequence Analysis, Data Interpretation: Statistical, Clinical Trials as Topic, Confidence Intervals},
date-added = {2010-01-07 12:24:45 +0100},
date-modified = {2010-01-07 12:24:45 +0100},
doi = {10.1002/sim.2598},
pmid = {16755534},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lusa-2007-Stat%20Med_Appropriateness%20of%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1454},
rating = {0}
}
@article{Chiu:2008p2293,
author = {C Y Chiu and M Seo and J Douglas},
title = {Cluster Analysis for Cognitive Diagnosis: An Application to the 2001 PIRLS Reading Assessment},
abstract = {Latent class models for cognitive diagnosis often begin with specification of a matrix that indicates which attributes or skills are needed for each item. Then by imposing restrictions that take this into account, along with a theory governing how subjects interact with items, parametric formulations of item response functions are derived and fitted. Cluster analysis provides an alternative approach that does not require specifying an item response model, but does require an item-by-attribute matrix. After summarizing the data with a particular vector of sum-scores, K-means cluster analysis or hierarchical agglomerative cluster analysis can be applied with the purpose of clustering subjects who possess the same skills. An application study to the 2001 PIRLS reading data is conducted to illustrate how the methods can be implemented in practice.},
year = {2008},
date-added = {2010-01-10 12:06:36 +0100},
date-modified = {2010-01-10 12:07:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chiu-2008-_Cluster%20Analysis%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2293},
read = {Yes},
rating = {0}
}
@article{Gill:2009p2743,
author = {M Gill and G Donohoe and A Corvin},
journal = {Psychol Med},
title = {What have the genomics ever done for the psychoses?},
abstract = {BACKGROUND: Despite the substantial heritability of the psychoses and their genuine public health burden, the applicability of the genomic approach in psychiatry has been strongly questioned or prematurely dismissed.MethodA selective review of the recent literature on molecular genetic and genomic approaches to the psychoses including the early output from genome-wide association studies and the genomic analysis of DNA structural variation. RESULTS: Susceptibility variants at strong candidate genes have been identified including neuregulin, dysbindin, DISC1 and neurexin 1. Rare but highly penetrant copy number variants and new mutations affecting genes involved in neurodevelopment, cell signalling and synaptic function have been described showing some overlapping genetic architecture with other developmental disorders including autism. The de-novo mutations described offer an explanation for the familial sporadic divide and the persistence of schizophrenia in the population. The functional effects of risk variants at the level of cognition and connectivity has been described and recently, ZNF804A has been identified, and the MHC re-identified as risk loci, and it has been shown that at least a third of the variation in liability is due to multiple common risk variants of small effect with a substantial shared genetic liability between schizophrenia and bipolar affective disorder. CONCLUSIONS: The genomics have done much for the psychoses to date and more is anticipated.},
affiliation = {Neuropsychiatric Genetics Research Group, Department of Psychiatry, School of Medicine, Trinity College Dublin, Ireland.},
pages = {1--12},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-01-13 14:21:43 +0100},
date-modified = {2010-01-13 14:21:43 +0100},
doi = {10.1017/S0033291709991139},
pii = {S0033291709991139},
pmid = {19818200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2743},
rating = {0}
}
@article{Holland:1990p6283,
author = {P W Holland},
journal = {Psychometrika},
title = {On the sampling theory foundations of item response theory models},
abstract = {Item response theory (IRT) models are now in common use for the analysis of dichotomous item responses. This paper examines the sampling theory foundations for statistical inference in these models. The discussion includes: some history on the "stochastic subject" versus the random sampling interpretations of the probability in IRT models; the relationship between three versions of maximum likelihood estimation for IRT models; estimating 0 versus estimating 0-predictors; IRT models and loglinear models; the identifiability of IRT models; and the role of robustness and Bayesian statistics from the sampling theory perspective.},
number = {4},
pages = {577--601},
volume = {55},
year = {1990},
date-added = {2010-02-20 18:07:36 +0100},
date-modified = {2010-07-11 09:47:48 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holland-1990-Psychometrika_On%20the%20sampling%20theo-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6283},
rating = {0}
}
@article{Young:2002p9521,
author = {S E Young and R P Corley and M C Stallings and S H Rhee and T J Crowley and J K Hewitt},
journal = {Drug Alcohol Depend},
title = {Substance use, abuse and dependence in adolescence: prevalence, symptom profiles and correlates},
abstract = {We present data on the lifetime prevalence of substance use, abuse and dependence in adolescents obtained through structured psychiatric interviews and self-report questionnaires. Most notably, we evaluate symptom profiles based on DSM-IV abuse and dependence criteria for tobacco, alcohol and marijuana, including a gender comparison. Participants are 3,072 adolescents (12-18 years) drawn from three community-based family samples in Colorado. Age trends suggest that substance use is a developmental phenomenon, which increases almost linearly from early to late adolescence. Substance use disorders are less common than experimentation in adolescence, but approximately 1 in 4 adolescents in the oldest cohorts meets criteria for abuse for at least one substance, and 1 in 5 meets criteria for substance dependence. By age 18 nearly 1 in 3 adolescents report daily smoking and 8.6% meet criteria for tobacco dependence. Although alcohol is the most commonly abused substance (10%), a slightly larger proportion of adolescents meet criteria for dependence on marijuana (4.3%) than alcohol (3.5%). Gender differences in prevalence of use more often show greater use in males than females. Males more frequently meet criteria for dependence on alcohol and marijuana in late adolescence, while females are more often nicotine dependent. A comparison of abuse and dependence symptom profiles shows some interesting variability across substances, and suggests that manifestations of a subset of symptoms are gender specific.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Campus Box 447, Boulder, CO 80309, USA. susan.young@colorado.edu},
number = {3},
pages = {309--22},
volume = {68},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Male, Female, Prevalence, Questionnaires, Substance-Related Disorders, Adolescent, Humans, Child, Adolescent Behavior},
date-added = {2010-03-23 19:44:11 +0100},
date-modified = {2010-07-11 09:39:08 +0200},
pii = {S0376871602002259},
pmid = {12393225},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9521},
rating = {3}
}
@article{Klein:2007p1619,
author = {Robert J Klein},
journal = {BMC Genet},
title = {Power analysis for genome-wide association studies},
abstract = {BACKGROUND: Genome-wide association studies are a promising new tool for deciphering the genetics of complex diseases. To choose the proper sample size and genotyping platform for such studies, power calculations that take into account genetic model, tag SNP selection, and the population of interest are required. RESULTS: The power of genome-wide association studies can be computed using a set of tag SNPs and a large number of genotyped SNPs in a representative population, such as available through the HapMap project. As expected, power increases with increasing sample size and effect size. Power also depends on the tag SNPs selected. In some cases, more power is obtained by genotyping more individuals at fewer SNPs than fewer individuals at more SNPs. CONCLUSION: Genome-wide association studies should be designed thoughtfully, with the choice of genotyping platform and sample size being determined from careful power calculations.},
affiliation = {Program in Cancer Biology and Genetics, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY, USA. kleinr@mskcc.org},
pages = {58},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Models: Genetic, Genome: Human, Humans, Gene Frequency, Computational Biology, Genotype, Polymorphism: Single Nucleotide, Genetic Markers},
date-added = {2010-01-08 21:49:34 +0100},
date-modified = {2010-01-08 21:49:34 +0100},
doi = {10.1186/1471-2156-8-58},
pii = {1471-2156-8-58},
pmid = {17725844},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Klein-2007-BMC%20Genet_Power%20analysis%20for%20g.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1619},
read = {Yes},
rating = {0}
}
@article{Lorenzetti:2009p8842,
author = {Valentina Lorenzetti and Nicholas B Allen and Alex Fornito and Murat Y{\"u}cel},
journal = {J Affect Disord},
title = {Structural brain abnormalities in major depressive disorder: a selective review of recent MRI studies},
abstract = {BACKGROUND: While there is evidence to suggest that major depressive disorder (MDD) is associated with structural brain abnormalities, the precise nature of these abnormalities remains unclear. AIMS: To review recent structural magnetic resonance imaging (MRI) research findings in MDD while considering the potential influence of key clinical and demographic variables. METHOD: A selective review of all T1-weighted structural MRI studies published between 2000 and 2007 in adult samples of MDD patients. RESULTS: Volumetric reductions of the hippocampus, basal ganglia and OFC and SGPFC are consistently found in MDD patients, with more persistent forms of MDD (e.g., multiple episodes or repeated relapses, longer illness duration) being associated with greater impact on regional brain volumes. Gender, medication, stage of illness, and family history all affect the nature of the findings in a regionally specific manner. LIMITATIONS: Overall, differences between the samples in factors such as illness severity, medication, gender and family history of mental illness makes difficult to identify their confounding effects on the observed neuroanatomical changes. Also, the tracing protocols used for particular brain regions were different amongst the reviewed studies, making difficult to compare their findings. CONCLUSIONS: The data support the notion that MDD involves pathological alterations of limbic and cortical structures, and that they are generally more apparent in patients with more severe or persistent forms of the illness.},
affiliation = {Melbourne Neuropsychiatry Centre, Department of Psychiatry, Australia.},
number = {1-2},
pages = {1--17},
volume = {117},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Depressive Disorder: Major, Brain, Adult, Male, Temporal Lobe, Limbic System, Magnetic Resonance Imaging, Hippocampus, Sex Factors, Frontal Lobe, Amygdala, Severity of Illness Index, Basal Ganglia, Female, Genetic Predisposition to Disease, Humans},
date-added = {2010-03-22 12:37:08 +0100},
date-modified = {2010-07-29 19:31:26 +0200},
doi = {10.1016/j.jad.2008.11.021},
pii = {S0165-0327(08)00476-X},
pmid = {19237202},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0165-0327(08)00476-X},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lorenzetti-2009-J%20Affect%20Disord_Structural%20brain%20abn.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8842},
rating = {0}
}
@article{Watson:2006p1823,
author = {Kathy Watson and Tom Baranowski and Debbe Thompson and Russell Jago and Janice Baranowski and Lisa M Klesges},
journal = {Health Educ Res},
title = {Innovative application of a multidimensional item response model in assessing the influence of social desirability on the pseudo-relationship between self-efficacy and behavior},
abstract = {This study examined multidimensional item response theory (MIRT) modeling to assess social desirability (SocD) influences on self-reported physical activity self-efficacy (PASE) and fruit and vegetable self-efficacy (FVSE). The observed sample included 473 Houston-area adolescent males (10-14 years). SocD (nine items), PASE (19 items) and FVSE (21 items) were measured with previously validated self-report instruments containing Likert-type responses. Physical activity was objectively measured using the Computer Science Application Incorporated/Manufacturing Technology Incorporated (CSA/MTI) accelerometer. Total fruit, juice and vegetable consumption was measured with a food frequency questionnaire. Correlations between self-efficacy and behaviors were minimal, regardless of controlling for SocD. However, in a simulated sample derived to demonstrate the utility of MIRT when relationships exist, the pseudo-relationships between self-efficacy and behaviors were substantially weaker after controlling for SocD. MIRT provided disattenuated correlations between SocD and self-efficacy, thereby providing more precise estimates of the real influence of SocD on the relationship between self-efficacy and behavior. However, as shown in the observed sample, more research is needed to understand the influence of SocD on the relationship between self-efficacy and behaviors for different populations and for different degrees of SocD response bias.},
affiliation = {Department of Pediatrics, Children's Nutrition Research Center, Baylor College of Medicine, 1100 Bates Street, Houston, TX 77030, USA. kwatson@bcm.tmc.edu},
pages = {i85--97},
volume = {21 Suppl 1},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Data Interpretation: Statistical, Child, Psychometrics, Vegetables, Fruit, Male, Social Desirability, Humans, Health Behavior, Self Efficacy, Questionnaires, Models: Educational},
date-added = {2010-01-09 23:00:24 +0100},
date-modified = {2010-01-09 23:00:24 +0100},
doi = {10.1093/her/cyl137},
pii = {cyl137},
pmid = {17085752},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1823},
rating = {0}
}
@article{Badia:1999p8432,
author = {X Badia and D Podzamczer and M Garcia and C L{\'o}pez-Lavid C and E Consiglio},
journal = {AIDS},
title = {A randomized study comparing instruments for measuring health-related quality of life in HIV-infected patients. Spanish MOS-HIV and MQOL-HIV Validation Group. Medical Outcomes Study HIV Health Survey},
abstract = {OBJECTIVE: To compare the feasibility, reliability, validity and sensitivity to change of the MOS-HIV and MQOL-HIV in order to determine their suitability for use in clinical research. METHODS: Five hundred and fifty-eight HIV-infected patients and 80 healthy blood donors were randomly assigned to receive the MOS-HIV or MQOL-HIV. Test-retest reliability was assessed in 98 clinically stable patients, and responsiveness in 296 patients initiating or switching anti-retroviral treatment. Feasibility was assessed using mean time of administration and percentage of missing responses. Reliability was assessed using Cronbach's alpha and the intraclass correlation coefficient (ICC). Construct validity was assessed by correlating questionnaire scores with EuroQol-5D scores, number of symptoms, CD4 cell count and viral load. The area under the curve (AUC) was used for discrimination between patients and healthy donors, and HRQoL scores were compared across disease stage. Responsiveness was assessed by calculating the standardized effect size (SES). RESULTS: Mean administration time was 16 minutes for both questionnaires. On the MOS-HIV 18.9% patients had missing responses compared with 33.6% on the MQOL-HIV. Cronbach's alpha values were higher for MOS-HIV sub-scales (0.78-0.89) than MQOL-HIV sub-scales (0.44-0.82), and neither instrument showed good test-retest reliability (ICC values of 0.24-0.85 for MOS-HIV versus 0.48-0.82 for MQOL-HIV). AUC values for the MOS-HIV were 0.6-0.86, compared with 0.5-0.79 for the MQOL-HIV, and the MOS-HIV had higher correlations with symptoms (r = -0.28 to 0.79) and EuroQol scores (r = 0.4-0.66) than the MQOL-HIV (r = -0.15 to 0.42 and r = -0.11 to 0.59, respectively). Neither instrument discriminated well between disease stages. Eight of 11 MOS-HIV sub-scales and the Mental Health Summary Score were responsive to change (SES, 0.18-0.36), compared with six of 10 MQOL-HIV sub-scales and MQOL Index (SES, 0.16-0.27). CONCLUSIONS: Neither instrument demonstrated completely satisfactory psychometric properties for use in clinical research, although the MOS-HIV performed slightly better on feasibility and validity and the MQOL-HIV on test-retest reliability.},
affiliation = {Catalan Institute of Public Health, University of Barcelona, L'Hospitalet de Llobregat, Spain. xbadia@bell.ub.es},
number = {13},
pages = {1727--35},
volume = {13},
year = {1999},
month = {Sep},
language = {eng},
keywords = {Adolescent, Quality of Life, Female, Adult, Aged, Middle Aged, Male, Reproducibility of Results, Attitude to Health, HIV Infections, Spain, Humans, Health Status, Questionnaires},
date-added = {2010-03-21 17:52:16 +0100},
date-modified = {2010-03-21 17:52:23 +0100},
pmid = {10509575},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Badia-1999-AIDS_A%20randomized%20study%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8432},
rating = {5}
}
@article{Guo:1999p8025,
author = {S Guo},
journal = {Hum Hered},
title = {The behaviors of some heritability estimators in the complete absence of genetic factors},
abstract = {Heritability is an important concept in quantitative genetics and is widely used in human genetics. A high or even a moderate value of heritability estimate is usually taken as evidence for a genetic component for a quantitative trait. In this paper, the behaviors of some correlation-based heritability estimators are reexamined under the assumption of complete absence of any genetic factors. It turns out that when monozygotic (MZ) twins (or full sibs) are environmentally more similar than dizygotic twins (or half sibs), or when there is placement bias in MZ twins reared apart, those correlation-based heritability estimates can lead to nonnegligible or even high heritability values, even when genetic factors are completely absent. These alarming results suggest that extreme care should be exercised when using these heritability estimators.},
affiliation = {Institute of Human Genetics and Division of Epidemiology, University of Minnesota, Minneapolis, MN 55454, USA.},
number = {4},
pages = {215--28},
volume = {49},
year = {1999},
month = {Jul},
language = {eng},
keywords = {Twins: Dizygotic, Phenotype, Humans, Quantitative Trait: Heritable, Twins: Monozygotic, Data Interpretation: Statistical, Environment, Genetic Variation},
date-added = {2010-03-20 19:39:34 +0100},
date-modified = {2010-03-20 19:39:34 +0100},
pii = {hhe49215},
pmid = {10436384},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guo-1999-Hum%20Hered_The%20behaviors%20of%20som.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8025},
rating = {0}
}
@article{Guo:2009p4750,
author = {W Guo and S K Sarkar},
title = {Stepdown Procedures Controlling A Generalized False Discovery Rate},
abstract = {Often in practice when a large number of hypotheses are simultaneously tested, one is willing to allow a few false rejections, say at most k − 1, for some fixed k > 1. In such a case, the ability of a procedure controlling an error rate measuring at least one false rejection can potentially be improved in terms of its ability to detect false null hypotheses by gen- eralizing this error rate to one that measures at least k false rejections and using procedures that control it. The k-FDR which is the expected proportion of k or more false rejections and a natural generalization of the false discovery rate (FDR) is such a generalized notion of error rate that has recently been introduced and procedures controlling it have been proposed. Many of these procedures are stepup procedures. Some stepdown procedures controlling the k-FDR are presented in this article.},
year = {2009},
date-added = {2010-02-01 12:03:10 +0100},
date-modified = {2010-03-16 13:13:43 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guo-2009-_Stepdown%20Procedures.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4750},
rating = {3}
}
@article{Stroup:2000,
author = {DF Stroup and JA Berlin and SC et al Morton},
journal = {JAMA},
title = {Meta-analysis of observational studies in epidemiology. A proposal for reporting},
abstract = {Objective Because of the pressure for timely, informed decisions in public health and clinical practice and the explosion of information in the scientific literature, research results must be synthesized. Meta-analyses are increasingly used to address this problem, and they often evaluate observational studies. A workshop was held in Atlanta, Ga, in April 1997, to examine the reporting of meta-analyses of observational studies and to make recommendations to aid authors, reviewers, editors, and readers. Participants Twenty-seven participants were selected by a steering committee, based on expertise in clinical practice, trials, statistics, epidemiology, social sciences, and biomedical editing. Deliberations of the workshop were open to other interested scientists. Funding for this activity was provided by the Centers for Disease Control and Prevention. Evidence We conducted a systematic review of the published literature on the conduct and reporting of meta-analyses in observational studies using MEDLINE, Educational Research Information Center (ERIC), PsycLIT, and the Current Index to Statistics. We also examined reference lists of the 32 studies retrieved and contacted experts in the field. Participants were assigned to small-group discussions on the subjects of bias, searching and abstracting, heterogeneity, study categorization, and statistical methods. Consensus Process From the material presented at the workshop, the authors developed a checklist summarizing recommendations for reporting meta-analyses of observational studies. The checklist and supporting evidence were circulated to all conference attendees and additional experts. All suggestions for revisions were addressed. Conclusions The proposed checklist contains specifications for reporting of meta-analyses of observational studies in epidemiology, including background, search strategy, methods, results, discussion, and conclusion. Use of the checklist should improve the usefulness of meta-analyses for authors, reviewers, editors, readers, and decision makers. An evaluation plan is suggested and research areas are explored.},
pages = {2008--2012},
volume = {283},
year = {2000},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:00:58 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1041},
rating = {0}
}
@article{Hanson:2007p3637,
author = {R M Hanson},
title = {Feedback in Intelligent Computer-Assisted Language Learning and Second Language Acquisition: A study of its effect on the acquisition of French past tense aspect using an Intelligent Language Tutoring System},
year = {2007},
date-added = {2010-01-16 19:40:41 +0100},
date-modified = {2010-01-16 19:41:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hanson-2007-_Feedback%20in%20Intellig.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3637},
rating = {0}
}
@article{Uh:2007p461,
author = {Hae-Won Uh and Bart J A Mertens and Henk Jan van der Wijk and Hein Putter and Hans C van Houwelingen and Jeanine J Houwing-Duistermaat},
journal = {BMC Proc},
title = {Model selection based on logistic regression in a highly correlated candidate gene region},
abstract = {Our aim is to develop methods for identifying a (causal) variant or variants from a dense panel of single-nucleotide polymorphisms (SNPs) that are genotyped on the evidence of previous studies. Because a large number of SNPs are in close proximity to each other, the magnitude of linkage disequilibrium (LD) plays an important role. Namely, highly correlated SNPs may hamper standard methods such as multivariate logistic regression due to multicolinearity between the covariates. Sequences of models with high dimension naturally raise questions about model selection strategies. We investigate three variable selection methods based on logistic regression. The penalties on stepwise selection were imposed using the Akaike's Information Criterion (AIC), and using the lasso penalty. Finally, a Bayesian variable-selection logistic regression model was implemented. The methods are illustrated using the simulated dense SNPs including the causal DR/C locus on chromosome 6. We also evaluate model selection in terms of average prediction error across nine replicates. We conclude that for the Genetic Analysis Workshop 15 (GAW15) data, the newly developed Bayesian selection method performs well.},
affiliation = {Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Leiden, The Netherlands. h.uh@lumc.nl},
pages = {S114},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-01-03 12:29:43 +0100},
date-modified = {2010-01-03 12:29:43 +0100},
pmid = {18466455},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Uh-2007-BMC%20Proc_Model%20selection%20base.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p461},
rating = {0}
}
@article{Purcell:2007p1559,
author = {S Purcell and B Neale and K Todd-Brown and L Thomas and M A R Ferreira and D Bender and J Maller and P I W de Bakker and M J Daly and P C Sham},
title = {PLINK: a toolset for whole genome association and population-based linkage analyses},
abstract = {Whole-genome association studies (WGAS) bring new computational as well as analytic challenges to researchers. Many existing genetic analysis tools are not designed to handle such large datasets in a convenient manner and do not necessarily exploit the new opportunities that whole-genome data bring. To address these issues, we developed PLINK, an open source C/C++ WGAS toolset. Large datasets, comprising hundreds of thousands of markers genotyped for thousands of individuals, can be rapidly manipulated and analyzed in their entirety. As well as providing tools to make the basic analytic steps computationally efficient, PLINK also supports some novel approaches to whole-genome data, that take advantage of whole-genome coverage. We introduce PLINK and describe the five main domains of function: data management, summary statistics, population stratification, association analysis and identity-by-descent estimation. In particular, we focus on the estimation and use of identity-by-state and identity-by-descent information in the context of population-based whole-genome studies. This information can be used to detect and correct for population stratification and to identify extended chromosomal segments that are shared identical-by-descent between very distantly related individuals. Analysis of the patterns of segmental sharing has the potential to map disease loci that contain multiple, rare variants in a ``population-based linkage analysis''. PLINK is freely available from the author's website, http://pngu.mgh.harvard.edu/purcell/plink/},
year = {2007},
date-added = {2010-01-07 16:44:38 +0100},
date-modified = {2010-01-07 16:46:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Purcell-2007-_PLINK%20a%20toolset%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1559},
rating = {0}
}
@article{Jacobson:1991p5374,
author = {N S Jacobson and P Truax},
journal = {Journal of Consulting and Clinical Psychology},
title = {Clinical significance: a statistical approach to defining meaningful change in psychotherapy research},
abstract = {In 1984, Jacobson, Follette, and Revenstorf defined clinically significant change as the extent to which therapy moves someone outside the range of the dysfunctional population or within the range of the functional population. In the present article, ways of operationalizing this definition are described, and examples are used to show how clients can be categorized on the basis of this definition. A reliable change index (RC) is also proposed to determine whether the magnitude of change for a given client is statistically reliable. The inclusion of the RC leads to a twofold criterion for clinically significant change.},
affiliation = {Department of Psychology, University of Washington, Seattle 98195.},
number = {1},
pages = {12--9},
volume = {59},
year = {1991},
month = {Feb},
language = {eng},
keywords = {Humans, Marriage, Marital Therapy, Female, Male, Models: Statistical, Psychotherapy, Research Design, Clinical Protocols},
date-added = {2010-02-11 10:28:34 +0100},
date-modified = {2010-02-11 10:28:34 +0100},
pmid = {2002127},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacobson-1991-Journal%20of%20Consulting%20and%20Clinical%20Psychology_Clinical%20significanc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5374},
rating = {0}
}
@article{Moffatt:2007p2303,
author = {Miriam F Moffatt and Michael Kabesch and Liming Liang and Anna L Dixon and David Strachan and Simon Heath and Martin Depner and Andrea von Berg and Albrecht Bufe and Ernst Rietschel and Andrea Heinzmann and Burkard Simma and Thomas Frischer and Saffron A G Willis-Owen and Kenny C C Wong and Thomas Illig and Christian Vogelberg and Stephan K Weiland and Erika von Mutius and Gon{\c c}alo R Abecasis and Martin Farrall and Ivo G Gut and G Mark Lathrop and William O C Cookson},
journal = {Nature},
title = {Genetic variants regulating ORMDL3 expression contribute to the risk of childhood asthma},
abstract = {Asthma is caused by a combination of poorly understood genetic and environmental factors. We have systematically mapped the effects of single nucleotide polymorphisms (SNPs) on the presence of childhood onset asthma by genome-wide association. We characterized more than 317,000 SNPs in DNA from 994 patients with childhood onset asthma and 1,243 non-asthmatics, using family and case-referent panels. Here we show multiple markers on chromosome 17q21 to be strongly and reproducibly associated with childhood onset asthma in family and case-referent panels with a combined P value of P < 10(-12). In independent replication studies the 17q21 locus showed strong association with diagnosis of childhood asthma in 2,320 subjects from a cohort of German children (P = 0.0003) and in 3,301 subjects from the British 1958 Birth Cohort (P = 0.0005). We systematically evaluated the relationships between markers of the 17q21 locus and transcript levels of genes in Epstein-Barr virus (EBV)-transformed lymphoblastoid cell lines from children in the asthma family panel used in our association study. The SNPs associated with childhood asthma were consistently and strongly associated (P < 10(-22)) in cis with transcript levels of ORMDL3, a member of a gene family that encodes transmembrane proteins anchored in the endoplasmic reticulum. The results indicate that genetic variants regulating ORMDL3 expression are determinants of susceptibility to childhood asthma.},
affiliation = {National Heart and Lung Institute, Imperial College, London SW3 6LY, UK.},
number = {7152},
pages = {470--3},
volume = {448},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Membrane Proteins, Child, Gene Expression Regulation, RNA: Messenger, Chromosomes: Human: Pair 17, Humans, Case-Control Studies, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide, Great Britain, Age of Onset, Asthma, Germany},
date-added = {2010-01-10 12:17:00 +0100},
date-modified = {2010-01-10 12:17:00 +0100},
doi = {10.1038/nature06014},
pii = {nature06014},
pmid = {17611496},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moffatt-2007-Nature_Genetic%20variants%20reg.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2303},
rating = {0}
}
@article{Kahler:2008p7353,
author = {Elke Kahler and Anja Rogausch and Edgar Brunner and Wolfgang Himmel},
journal = {Journal of Clinical Epidemiology},
title = {A parametric analysis of ordinal quality-of-life data can lead to erroneous results},
abstract = {OBJECTIVE: Measurements from health-related quality-of-life (HRQoL) studies, although usually of an ordered categorical nature, are typically treated as continuous variables, allowing the calculation of mean values and the administration of parametric statistics, such as t-tests. We investigated whether parametric, compared to nonparametric, analyses of ordered categorical data may lead to different conclusions. STUDY DESIGN AND SETTING: HRQoL data were obtained from patients with a diagnosis of asthma (n=192) and chronic obstructive pulmonary disease (COPD; n=88) at two time points. The impact of the group factor (asthma vs. COPD) and the time factor (t1 vs. t2) on HRQoL was analyzed with a metric approach (repeated measures ANOVA) and two ordinal approaches (each with a nonparametric repeated measures ANOVA). RESULTS: Using the metric approach, a significant effect of "group" (P=0.0061) and "time" (P=0.0049) on HRQoL was found. The first ordinal approach (ranked total score) still showed a significant effect for "group" (P=0.0033) with a worse HRQoL for patients suffering from COPD. In the second approach (ranks for each HRQoL item and summed ranks), there were no significant effects. CONCLUSION: Applying simple parametric methods to ordered categorical HRQoL scores led to different results from those obtained with nonparametric methods. In these cases, an ordinal approach will prevent inappropriate conclusions.},
affiliation = {Department of Medical Statistics, University of G{\"o}ttingen, Humboldtallee 32, D-37073 G{\"o}ttingen, Germany.},
number = {5},
pages = {475--80},
volume = {61},
year = {2008},
month = {May},
language = {eng},
keywords = {Aged: 80 and over, Research Design, Quality of Life, Pulmonary Disease: Chronic Obstructive, Female, Data Interpretation: Statistical, Adult, Humans, Asthma, Male, Statistics: Nonparametric, Health Status Indicators, Middle Aged, Aged, Family Practice, Psychometrics},
date-added = {2010-03-10 20:25:01 +0100},
date-modified = {2010-03-10 20:25:01 +0100},
doi = {10.1016/j.jclinepi.2007.05.019},
pii = {S0895-4356(07)00216-8},
pmid = {18394541},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kahler-2008-Journal%20of%20Clinical%20Epidemiology_A%20parametric%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7353},
rating = {0}
}
@article{Lee:2009p11811,
author = {David W Lee and Peter J Neumann and John A Rizzo},
journal = {Value Health},
title = {Understanding the Medical and Nonmedical Value of Diagnostic Testing},
abstract = {ABSTRACT Objectives: To develop a framework for defining the potential value of diagnostic testing, and discuss its implications for the health-care delivery system. Methods: We reviewed the conceptual and empirical literature related to the valuing of diagnostic tests, and used this information to create a framework for characterizing their value. We then made inferences about the impact of this framework on health insurance coverage, health technology assessment, physician-patient relationships, and public health policy. Results: Three dimensions can effectively classify the potential value created by diagnostic tests: 1) medical value (impact on treatment decisions); 2) planning value (affect on patients' ability to make better life decisions); and 3) psychic value (how test information affects patients' sense of self). This comprehensive framework for valuing diagnostics suggests that existing health technology assessments may systematically under- or overvalue diagnostics, leading to potentially incorrect conclusions about cost-effectiveness. Further, failure to account for all value dimensions may lead to distorted payments under a value-based health-care system. Conclusions: The potential value created by medical diagnostics incorporates medical value as well as value associated with well-being and planning. Consideration of all three dimensions has important implications for technology assessment and value-based payment.},
affiliation = {GE Healthcare, Waukesha, WI, USA.},
pages = {},
year = {2009},
month = {Sep},
language = {ENG},
date-added = {2010-05-23 10:44:35 +0200},
date-modified = {2010-05-23 10:44:43 +0200},
doi = {10.1111/j.1524-4733.2009.00597.x},
pii = {VHE597},
pmid = {19744295},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2009-Value%20Health_Understanding%20the%20Me.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11811},
rating = {4}
}
@article{Gliem:2003p3008,
author = {J A Gliem and R R Gliem},
title = {Calculating, Interpreting, and Reporting Cronbach's Alpha Reliability Coefficient for Likert-Type Scales},
abstract = {The purpose of this paper is to show why single-item questions pertaining to a construct are not reliable and should not be used in drawing conclusions. By comparing the reliability of a summated, multi-item scale versus a single-item question, the authors show how unreliable a single item is; and therefore it is not appropriate to make inferences based upon the analysis of single-item questions which are used in measuring a construct.},
year = {2003},
date-added = {2010-01-13 23:22:26 +0100},
date-modified = {2010-01-13 23:23:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gliem-2003-_Calculating%20Interpr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3008},
rating = {0}
}
@article{Scharpf:2007p3405,
author = {Robert B Scharpf and Jason C Ting and Jonathan Pevsner and Ingo Ruczinski},
journal = {Bioinformatics},
title = {SNPchip: R classes and methods for SNP array data},
abstract = {High-density single nucleotide polymorphism microarrays (SNP chips) provide information on a subject's genome, such as copy number and genotype (heterozygosity/homozygosity) at a SNP. While fluorescence in situ hybridization and karyotyping reveal many abnormalities, SNP chips provide a higher resolution map of the human genome that can be used to detect, e.g., aneuploidies, microdeletions, microduplications and loss of heterozygosity (LOH). As a variety of diseases are linked to such chromosomal abnormalities, SNP chips promise new insights for these diseases by aiding in the discovery of such regions, and may suggest targets for intervention. The R package SNPchip contains classes and methods useful for storing, visualizing and analyzing high density SNP data. Originally developed from the SNPscan web-tool, SNPchip utilizes S4 classes and extends other open source R tools available at Bioconductor. This has numerous advantages, including the ability to build statistical models for SNP-level data that operate on instances of the class, and to communicate with other R packages that add additional functionality. AVAILABILITY: The package is available from the Bioconductor web page at www.bioconductor.org. SUPPLEMENTARY INFORMATION: The supplementary material as described in this article (case studies, installation guidelines and R code) is available from http://biostat.jhsph.edu/~iruczins/publications/sm/},
affiliation = {Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA.},
number = {5},
pages = {627--8},
volume = {23},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Models: Statistical, Oligonucleotide Array Sequence Analysis, Software},
date-added = {2010-01-15 14:44:48 +0100},
date-modified = {2010-01-15 14:44:48 +0100},
doi = {10.1093/bioinformatics/btl638},
pii = {btl638},
pmid = {17204461},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharpf-2007-Bioinformatics_SNPchip%20R%20classes%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3405},
rating = {0}
}
@article{Zhang:2005p4606,
author = {Y Zhang and N J Dorans and J L Matthews-Lopez},
journal = {College Board Research Report No. 2005-10},
title = {Using DIF Dissection Method to Assess Effects of Item Deletion},
abstract = {Statistical procedures for detecting differential item functioning (DIF) are often used as an initial step to screen items for construct irrelevant variance. This research applies a DIF dissection method and a two-way classification scheme to SAT Reasoning TestTM verbal section data and explores the effects of deleting sizable DIF items on reported scores after re-equating. The DIF dissection approach and the two-way classification scheme may yield new and detailed insight into item functioning at the subgroup level. Two hypotheses are studied: (1) whether or not the deletion of a sizeable DIF item that is the most disadvantageous to a particular subgroup will affect the scores for that subgroup the most; and (2) whether or not the effects of item deletion on scores can be predicted by the standardization method. Both hypotheses are supported by the results of this research.},
affiliation = {ETS},
year = {2005},
date-added = {2010-01-29 22:54:47 +0100},
date-modified = {2010-01-29 22:55:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2005-College%20Board%20Research%20Report%20No.%202005-10_Using%20DIF%20Dissection.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4606},
rating = {0}
}
@article{Liebowitz:2005p5947,
author = {Michael R Liebowitz and Philip T Ninan and Franklin R Schneier and Carlos Blanco},
journal = {CNS Spectr},
title = {Integrating neurobiology and psychopathology into evidence-based treatment of social anxiety disorder},
abstract = {Social anxiety disorder (SAD) is a common, chronic psychiatric disorder characterized by a persistent fear of social or performance situations in which embarrassment can occur. This disorder typically appears during the mid-adolescent years and is unremitting throughout life if not properly treated. SAD presents as two subtypes: the more common and debilitating generalized form, and the nongeneralized form, which consists predominantly of performance anxiety. The majority of patients with SAD have comorbid mental disorders, including mood, anxiety, and substance abuse. No single development theory has been proposed to account for the origins of SAD, although current understanding of the etiology of SAD posits an interaction between psychological and biological factors. Risk factors include environmental and parenting influences and dysfunctional cognitive and conditioning events in early childhood. The neurobiology of SAD appears to involve neurochemical dysfunction, as evidenced by studies of neuroreceptor imaging, neuroendocrine function, and profiles of response to specific medications. Clinical trials have demonstrated that benzodiazepines and antidepressants are effective in the treatment of SAD. The selective serotonin reuptake inhibitors are emerging as the first-line treatment for SAD, based on their proven safety, tolerability, and efficacy. Goals for ongoing future research include development of approaches to achieve remission, to convert nonresponders and partial responders to full responders, and to prevent relapse and maintain long-term efficacy. This monograph explores the epidemiology, clinical presentation, and differential diagnosis of SAD, with a focus on neural circuitry of social relationships and neurochemical dysfunction. The prevalence, rates of recognition and treatment, patterns of comorbidity, quality-of-life issues, and natural history of SAD are discussed as well as pharmacologic and psychosocial treatment strategies for SAD.},
affiliation = {Anxiety Disorders Clinic, New York State Psychiatric Institute, New York City, USA.},
number = {10},
pages = {suppl13 1-11; discussion 12-3; quiz 14--5},
volume = {10},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Benzodiazepines, Animals, Long-Term Care, Antidepressive Agents, Infant, Cross-Sectional Studies, Brain, Serotonin Uptake Inhibitors, Socialization, Child, Evidence-Based Medicine, Risk Factors, Humans, Adult, Phobic Disorders},
date-added = {2010-02-18 23:18:06 +0100},
date-modified = {2010-02-18 23:18:06 +0100},
pmid = {16404800},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5947},
rating = {0}
}
@article{Tiemeier:2010p5080,
author = {Henning Tiemeier and Rhoshel K Lenroot and Deanna K Greenstein and Lan Tran and Ronald Pierson and Jay N Giedd},
journal = {Neuroimage},
title = {Cerebellum development during childhood and adolescence: a longitudinal morphometric MRI study},
abstract = {In addition to its well-established role in balance, coordination, and other motor skills, the cerebellum is increasingly recognized as a prominent contributor to a wide array of cognitive and emotional functions. Many of these capacities undergo dramatic changes during childhood and adolescence. However, accurate characterization of co-occurring anatomical changes has been hindered by lack of longitudinal data and methodologic challenges in quantifying subdivisions of the cerebellum. In this study we apply an innovative image analysis technique to quantify total cerebellar volume and 11 subdivisions (i.e. anterior, superior posterior, and inferior posterior lobes, corpus medullare, and three vermal regions) from anatomic brain MRI scans from 25 healthy females and 25 healthy males aged 5-24 years, each of whom was scanned at least three times at approximately 2-year intervals. Total cerebellum volume followed an inverted U shaped developmental trajectory peaking at age 11.8 years in females and 15.6 years in males. Cerebellar volume was 10% to 13% larger in males depending on the age of comparison and the sexual dimorphism remained significant after covarying for total brain volume. Subdivisions of the cerebellum had distinctive developmental trajectories with more phylogenetically recent regions maturing particularly late. The cerebellum's unique protracted developmental trajectories, sexual dimorphism, preferential vulnerability to environmental influences, and frequent implication in childhood onset disorders such as autism and ADHD make it a prime target for pediatric neuroimaging investigations.},
affiliation = {Child Psychiatry Branch, National Institute of Mental Health/NIH, Bethesda, MD 20892, USA. h.tiemeier@erasmusmc.nl},
number = {1},
pages = {63--70},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Male, Longitudinal Studies, Female, Regression Analysis, Magnetic Resonance Imaging, Cerebellum, Humans, Child, Functional Laterality, Cerebellar Cortex, Cohort Studies, Sex Characteristics, Adolescent, Image Processing: Computer-Assisted, Young Adult, Adult},
date-added = {2010-02-05 20:14:50 +0100},
date-modified = {2010-02-05 20:14:50 +0100},
doi = {10.1016/j.neuroimage.2009.08.016},
pii = {S1053-8119(09)00893-3},
pmid = {19683586},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5080},
rating = {0}
}
@article{Haworth:2009p7585,
author = {Claire M A Haworth and Philip S Dale and Robert Plomin},
journal = {Behav Genet},
title = {Generalist genes and high cognitive abilities},
abstract = {The concept of generalist genes operating across diverse domains of cognitive abilities is now widely accepted. Much less is known about the etiology of the high extreme of performance. Is there more specialization at the high extreme? Using a representative sample of 4,000 12-year-old twin pairs from the UK Twins Early Development Study, we investigated the genetic and environmental overlap between web-based tests of general cognitive ability, reading, mathematics and language performance for the top 15% of the distribution using DF extremes analysis. Generalist genes are just as evident at the high extremes of performance as they are for the entire distribution of abilities and for cognitive disabilities. However, a smaller proportion of the phenotypic intercorrelations appears to be explained by genetic influences for high abilities.},
affiliation = {Social, Genetic and Developmental Psychiatry Centre P080, Institute of Psychiatry, King's College London, London, UK. Claire.Haworth@iop.kcl.ac.uk},
number = {4},
pages = {437--45},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Twins: Dizygotic, Multivariate Analysis, Reading, Language Development, Intelligence, Wechsler Scales, Humans, England, Cognition, Twins: Monozygotic, Statistics as Topic, Male, Aptitude, Genotype, Models: Genetic, Wales, Psychometrics, Child: Gifted, Social Environment, Child, Mathematics, Phenotype, Female, Comprehension, Problem Solving},
date-added = {2010-03-15 23:09:45 +0100},
date-modified = {2010-07-29 20:09:07 +0200},
doi = {10.1007/s10519-009-9271-2},
pmid = {19377870},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haworth-2009-Behav%20Genet_Generalist%20genes%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7585},
rating = {0}
}
@article{Tibaldi:2007p12897,
author = {F S Tibaldi and G Verbeke and G Molenberghs and D Renard and W Van den Noortgate and Paul De Boeck},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Conditional mixed models with crossed random effects},
abstract = {The analysis of continuous hierarchical data such as repeated measures or data from meta-analyses can be carried out by means of the linear mixed-effects model. However, in some situations this model, in its standard form, does pose computational problems. For example, when dealing with crossed random-effects models, the estimation of the variance components becomes a non-trivial task if only one observation is available for each cross-classified level. Pseudolikelihood ideas have been used in the context of binary data with standard generalized linear multilevel models. However, even in this case the problem of the estimation of the variance remains non-trivial. In this paper, we first propose a method to fit a crossed random-effects model with two levels and continuous outcomes, borrowing ideas from conditional linear mixed-effects model theory. We also propose a crossed random-effects model for binary data combining ideas of conditional logistic regression with pseudolikelihood estimation. We apply this method to a case study with data coming from the field of psychometrics and study a series of items (responses) crossed with participants. A simulation study assesses the operational characteristics of the method.},
pages = {351--365},
volume = {60},
year = {2007},
date-added = {2010-06-24 13:55:25 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tibaldi-2007-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Conditional%20mixed%20mo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12897},
rating = {4}
}
@article{Takano:2007p12384,
author = {Akihiro Takano and Ryosuke Arakawa and Mika Hayashi and Hidehiko Takahashi and Hiroshi Ito and Tetsuya Suhara},
journal = {Biol Psychiatry},
title = {Relationship between neuroticism personality trait and serotonin transporter binding},
abstract = {BACKGROUND: Personality trait is thought to be one of the important factors for vulnerability to depression. The relation between serotonin transporter (5-HTT) polymorphism and anxiety-related personality has been investigated in genetic research. In this study, we investigated the relation between in vivo regional 5-HTT binding in the brain and personality inventory measures in normal male volunteers. METHODS: Thirty-one healthy male volunteers underwent positron emission tomography scans with (11)C-labeled 3-amino-4-(2-dimethylaminomethyl-phenylsulfanyl) benzonitrile ([(11)C]DASB) to measure 5-HTT and completed revised NEO Personality Inventory. Correlation of [(11)C]DASB binding potentials (BP) with personality inventory measures was calculated using region-of-interest analysis and statistical parametric mapping based on the BP images. RESULTS: Neuroticism was positively correlated with 5-HTT binding in the thalamus (p = .004). No significant correlation was observed in any other brain region. Within the neuroticism dimension, the facet of depression was positively correlated with 5-HTT binding in the thalamus (p = .001). CONCLUSIONS: Subjects with higher thalamic 5-HTT binding are more likely to express higher levels of neuroticism and depressive feeling. Serotonin transporter binding in the thalamus might be a marker of vulnerability to depression.},
affiliation = {Department of Molecular Neuroimaging, Molecular Imaging Center, National Institute of Radiological Sciences, 4-9-1 Anagawa, Inage-ku, Chiba 263-8555, Japan.},
number = {6},
pages = {588--92},
volume = {62},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Personality, Disease Susceptibility, Biological Markers, Risk Factors, Male, Sex Factors, Adult, Positron-Emission Tomography, Brain, Serotonin Plasma Membrane Transport Proteins, Depressive Disorder, Benzylamines, Humans, Thalamus, Carbon Radioisotopes, Personality Inventory, Neurotic Disorders},
date-added = {2010-06-15 17:28:59 +0200},
date-modified = {2010-06-15 17:29:00 +0200},
doi = {10.1016/j.biopsych.2006.11.007},
pii = {S0006-3223(06)01447-8},
pmid = {17336939},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takano-2007-Biol%20Psychiatry_Relationship%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12384},
rating = {0}
}
@article{DOnofrio:1999p11467,
author = {B M D'Onofrio and L Murrelle and L J Eaves and M E McCullough and J L Landis and H H Maes},
journal = {Twin Res},
title = {Adolescent religiousness and its influence on substance use: preliminary findings from the Mid-Atlantic School Age Twin Study},
abstract = {Research has consistently shown that religiousness is associated with lower levels of alcohol and drug use, but little is known about the nature of adolescent religiousness or the mechanisms through which it influences problem behavior in this age group. This paper presents preliminary results from the Mid-Atlantic School Age Twin Study, a prospective, population-based study of 6-18-year-old twins and their mothers. Factor analysis of a scale developed to characterize adolescent religiousness, the Religious Attitudes and Practices Inventory (RAPI), revealed three factors: theism, religious/spiritual practices, and peer religiousness. Twin correlations and univariate behavior-genetic models for these factors and a measure of belief that drug use is sinful reveal in 357 twin pairs that common environmental factors significantly influence these traits, but a minor influence of genetic factors could not be discounted. Correlations between the multiple factors of adolescent religiousness and substance use, comorbid problem behavior, mood disorders, and selected risk factors for substance involvement are also presented. Structural equation modeling illustrates that specific religious beliefs about the sinfulness of drugs and level of peer religiousness mediate the relationship between theistic beliefs and religious/spiritual practices on substance use. Limitations and future analyses are discussed.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, Richmond 23298-0003, USA.},
number = {2},
pages = {156--68},
volume = {2},
year = {1999},
month = {Jun},
language = {eng},
keywords = {Humans, Genetics: Behavioral, Adolescent, Models: Genetic, Adolescent Behavior, Child, Male, Mid-Atlantic Region, Prospective Studies, Twins, Environment, Mood Disorders, Substance-Related Disorders, Adult, Attitude to Health, Mental Disorders, Risk Factors, Models: Psychological, Female, Peer Group, Religion, Analysis of Variance, Mother-Child Relations, Population Surveillance},
date-added = {2010-05-01 17:24:33 +0200},
date-modified = {2010-05-01 17:24:33 +0200},
pmid = {10480750},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11467},
rating = {0}
}
@article{Serretti:2005p8814,
author = {Alessandro Serretti and Laura Mandelli and Cristina Lorenzi and Enrico Smeraldi},
journal = {Psychiatry Res},
title = {Social adjustment could be associated with the serotonin transporter gene in remitted patients with mood disorders and healthy subjects},
abstract = {We investigated the serotonin transporter gene (5-HTTLPR) in the functioning of euthymic patients with mood disorders (n=285) and healthy controls (n=94). The 5-HTTLPR genotype showed marginal associations with working, familial and social adjustment, with marked differences between controls and patients. Because of the exploratory nature of our analyses, all results should be viewed with caution. However, we observed how the s/s variant, commonly associated with detrimental effects, could be beneficial in specific areas of social adjustment.},
affiliation = {Department of Psychiatry, Istituto Scientifico H San Raffaele, Vita-Salute University, San Raffaele Institute, Via Stamira D'Ancona 20, 20127 Milan, Italy. serretti.alessandro@hsr.it},
number = {2},
pages = {191--4},
volume = {134},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Membrane Transport Proteins, Mood Disorders, Depressive Disorder: Major, Nerve Tissue Proteins, Alleles, Adult, Selection: Genetic, Evolution, Gene Frequency, Male, Remission Induction, Retrospective Studies, Female, Humans, Social Adjustment, Serotonin Plasma Membrane Transport Proteins, Genotype, Social Behavior, Questionnaires, Membrane Glycoproteins},
date-added = {2010-03-22 12:14:14 +0100},
date-modified = {2010-07-29 19:45:28 +0200},
doi = {10.1016/j.psychres.2005.01.006},
pii = {S0165-1781(05)00026-0},
pmid = {15840420},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Serretti-2005-Psychiatry%20Res_Social%20adjustment%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8814},
rating = {0}
}
@article{Cronbach:2004p923,
author = {Lee J Cronbach},
title = {My Current Thoughts on Coefficient Alpha and Successor Procedures},
affiliation = {Stanford University},
year = {2004},
date-added = {2010-01-03 19:16:27 +0100},
date-modified = {2010-01-03 19:17:07 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cronbach-2004-_My%20Current%20Thoughts.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p923},
rating = {3}
}
@article{Diehr:2005p3003,
author = {Paula Diehr and Lu Chen and Donald Patrick and Ziding Feng and Yutaka Yasui},
journal = {Contemporary clinical trials},
title = {Reliability, effect size, and responsiveness of health status measures in the design of randomized and cluster-randomized trials},
abstract = {BACKGROUND: New health status survey instruments are often described by their psychometric (measurement) properties, such as Validity, Reliability, Effect Size, and Responsiveness. For cluster-randomized trials, another important statistic is the Intraclass Correlation (ICC) for the instrument within clusters. Studies using better instruments can be performed with smaller sample sizes, but better instruments may be more expensive in terms of dollars, opportunity cost, or poorer data quality due to the response burden of longer instruments. METHODS: We defined the psychometric statistics in terms of a mathematical model, and examined the power of a two-sample test as a function of the test-retest Reliability, Effect Size, Responsiveness, and Intraclass Correlation of the instrument. We examined the "cost-effectiveness" of using a one-item versus a five-item measure of mental health status. FINDINGS: Under the standard model for measurement error, the psychometric statistics are all functions of the same error term. They are also functions of the setting in which they were estimated. In randomized trials, power is a function of Reliability and sample size, and a less reliable instrument can achieve the desired power if N is increased. In cluster-randomized trials, adequate power may be obtained by increasing the number of clusters per treatment group (and often the number of persons per cluster), as well as by choosing a more reliable instrument. The one-item measure of mental health status may be more cost-effective than the five-item measure in some situations. CONCLUSION: If the goal is to diagnose or refer individual patients, an instrument with high Validity and Reliability is needed. In settings where the sample sizes are large or can be increased easily, any valid instrument may be cost-effective. It is likely that many published values of psychometric statistics are accurate only in settings similar to that in which they were estimated.},
affiliation = {Department of Biostatistics University of Washington, Box 357232, Seattle, WA 98195, USA. pdiehr@u.washington.edu},
number = {1},
pages = {45--58},
volume = {26},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Interview: Psychological, Health Surveys, Psychological Tests, Cost-Benefit Analysis, Reproducibility of Results, Research Design, Randomized Controlled Trials as Topic, Epidemiologic Factors, Mental Health, Humans, Depressive Disorder, Sample Size},
date-added = {2010-01-13 23:14:18 +0100},
date-modified = {2010-01-13 23:14:18 +0100},
doi = {10.1016/j.cct.2004.11.014},
pii = {S1551-7144(05)00009-1},
pmid = {15837452},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diehr-2005-Contemporary%20clinical%20trials_Reliability%20effect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3003},
rating = {0}
}
@article{Huang:2010p7017,
author = {S Huang and T Tong and H Zhao},
journal = {Biometrics},
title = {Bias-Corrected Diagonal Discriminant Rules for High-Dimensional Classification},
abstract = {Diagonal discriminant rules have been successfully used for high-dimensional classification problems, but suffer from the serious drawback of biased discriminant scores. In this article, we propose improved diagonal discriminant rules with bias-corrected discriminant scores for high-dimensional classification. We show that the proposed discriminant scores dominate the standard ones under the quadratic loss function. Analytical results on why the bias-corrected rules can potentially improve the predication accuracy are also provided. Finally, we demonstrate the improvement of the proposed rules over the original ones through extensive simulation studies and real case studies.},
year = {2010},
date-added = {2010-03-06 19:55:17 +0100},
date-modified = {2010-03-06 19:56:02 +0100},
doi = {10.1111/j.1541-0420.2010.01395.x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huang-2010-Biometrics_Bias-Corrected%20Diago.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7017},
rating = {0}
}
@article{Hennessy:2010p13382,
author = {Michael Hennessy and Amy Bleakley and Martin Fishbein and Larry Brown and Ralph Diclemente and Daniel Romer and Robert Valois and Peter A Vanable and Michael P Carey and Laura Salazar},
journal = {AIDS Behav},
title = {Differentiating between precursor and control variables when analyzing reasoned action theories},
abstract = {This paper highlights the distinction between precursor and control variables in the context of reasoned action theory. Here the theory is combined with structural equation modeling to demonstrate how age and past sexual behavior should be situated in a reasoned action analysis. A two wave longitudinal survey sample of African-American adolescents is analyzed where the target behavior is having vaginal sex. Results differ when age and past behavior are used as control variables and when they are correctly used as precursors. Because control variables do not appear in any form of reasoned action theory, this approach to including background variables is not correct when analyzing data sets based on the theoretical axioms of the Theory of Reasoned Action, the Theory of Planned Behavior, or the Integrative Model.},
affiliation = {Public Policy Center, Annenberg School for Communication, University of Pennsylvania, 3620 Walnut Street, Philadelphia, PA, 19104, USA, mhennessy@asc.upenn.edu.},
number = {1},
pages = {225--36},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Adolescent Behavior, Systems Theory, Humans, African Americans, Psychology, Preventive Health Services, Models: Psychological, New York, HIV Infections, Georgia, Male, Attitude to Health, Sexually Transmitted Diseases, Adolescent, Intention, Female},
date-added = {2010-07-01 19:23:36 +0200},
date-modified = {2010-07-01 19:23:36 +0200},
doi = {10.1007/s10461-009-9560-z},
pmid = {19370408},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hennessy-2010-AIDS%20Behav_Differentiating%20betw.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13382},
rating = {0}
}
@article{Firth:2003p2802,
author = {D Firth},
title = {CGIwithR: Facilities for processing web forms using R},
abstract = {CGIwithR is a package for use with the R statistical computing environment, to facilitate processing of information from web-based forms, and reporting of results in the Hypertext Markup Language (HTML), through the Common Gateway Interface (CGI). CGIwithR permits the straightforward use of R as a CGI scripting language. This paper serves as an extended user manual for CGIwithR, supplementary to the R help pages installed with the package.},
year = {2003},
date-added = {2010-01-13 14:32:40 +0100},
date-modified = {2010-01-13 14:33:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Firth-2003-_CGIwithR%20Facilities.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2802},
rating = {0}
}
@article{Montazeri:2009p8345,
author = {Ali Montazeri},
journal = {Health Qual Life Outcomes},
title = {Quality of life data as prognostic indicators of survival in cancer patients: an overview of the literature from 1982 to 2008},
abstract = {BACKGROUND: Health-related quality of life and survival are two important outcome measures in cancer research and practice. The aim of this paper is to examine the relationship between quality of life data and survival time in cancer patients. METHODS: A review was undertaken of all the full publications in the English language biomedical journals between 1982 and 2008. The search was limited to cancer, and included the combination of keywords 'quality of life', 'patient reported-outcomes' 'prognostic', 'predictor', 'predictive' and 'survival' that appeared in the titles of the publications. In addition, each study was examined to ensure that it used multivariate analysis. Purely psychological studies were excluded. A manual search was also performed to include additional papers of potential interest. RESULTS: A total of 451 citations were identified in this rapid and systematic review of the literature. Of these, 104 citations on the relationship between quality of life and survival were found to be relevant and were further examined. The findings are summarized under different headings: heterogeneous samples of cancer patients, lung cancer, breast cancer, gastro-oesophageal cancers, colorectal cancer, head and neck cancer, melanoma and other cancers. With few exceptions, the findings showed that quality of life data or some aspects of quality of life measures were significant independent predictors of survival duration. Global quality of life, functioning domains and symptom scores - such as appetite loss, fatigue and pain - were the most important indicators, individually or in combination, for predicting survival times in cancer patients after adjusting for one or more demographic and known clinical prognostic factors. CONCLUSION: This review provides evidence for a positive relationship between quality of life data or some quality of life measures and the survival duration of cancer patients. Pre-treatment (baseline) quality of life data appeared to provide the most reliable information for helping clinicians to establish prognostic criteria for treating their cancer patients. It is recommended that future studies should use valid instruments, apply sound methodological approaches and adequate multivariate statistical analyses adjusted for socio-demographic characteristics and known clinical prognostic factors with a satisfactory validation strategy. This strategy is likely to yield more accurate and specific quality of life-related prognostic variables for specific cancers.},
affiliation = {Iranian Institute for Health Sciences Research, ACECR, Tehran, Iran. montazeri@acecr.ac.ir},
pages = {102},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Mental Health, Prognosis, Neoplasms, Multivariate Analysis, Sickness Impact Profile, Health Status, Quality of Life, Humans, Survival Analysis},
date-added = {2010-03-21 12:48:37 +0100},
date-modified = {2010-03-21 12:48:45 +0100},
doi = {10.1186/1477-7525-7-102},
pii = {1477-7525-7-102},
pmid = {20030832},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Montazeri-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Quality%20of%20life%20data.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8345},
rating = {5}
}
@article{Doehring:2009p2495,
author = {Alexandra Doehring and Anja Kirchhof and J{\"o}rn L{\"o}tsch},
journal = {Psychiatr Genet},
title = {Genetic diagnostics of functional variants of the human dopamine D2 receptor gene},
abstract = {INTRODUCTION: The importance of dopamine D2 receptors (DRD2) for central nervous dopaminergic signalling makes variants in the DRD2 gene potential modulators of the risk or course of various behavioural, psychiatric or neurologic diseases (e.g. addiction, schizophrenia, Parkinson's disease). We developed Pyrosequencing genetic screening assays for single nucleotide polymorphisms spanning the whole range of the DRD2 gene locus up to the functionally related ankyrin repeat and kinase domain containing 1 gene (ANKK1) located at approximately 10 kb downstream of DRD2. METHODS: Assays for 11 genetic variants with reported functional association were developed in DNA samples from 300 unrelated healthy Caucasians and validated by independent conventional sequencing. RESULTS: In all DNA samples the DRD2/ANKK1 genetic variants were identified correctly as verified by the control samples. The observed frequencies of homozygous, heterozygous and noncarriers of the minor alleles were in agreement with the Hardy-Weinberg equilibrium. Observed minor allele frequencies were DRD2 rs12364283T>C: 6.5%, rs1799978A>G: 4.8%, rs1799732C del: 14.2%, rs4648317C>T: 12.8%, rs1079597G>A: 13.8%, rs1076560G>T: 14.5%, rs1800496C>T: 0.2%, rs1801028C>G: 3.0%, rs6275C>T: 32.7%, rs6277C>T: 53.0% and ANKK1 rs1800497C>T: 17.5%. CONCLUSION: The presently developed Pyrosequencing assays are provided to facilitate further research toward personalized approaches to pathophysiological conditions involving behavioural, psychiatric and neurologic disorders including addiction, schizophrenia and Parkinson's disease.},
affiliation = {Pharmazentrum frankfurt/ZAFES, Institute of Clinical Pharmacology, Johann Wolfgang Goethe-University, Frankfurt am Main, Germany.},
number = {5},
pages = {259--68},
volume = {19},
year = {2009},
month = {Oct},
language = {eng},
date-added = {2010-01-12 13:33:35 +0100},
date-modified = {2010-07-29 19:45:11 +0200},
doi = {10.1097/YPG.0b013e32832d0941},
pmid = {19512960},
url = {http://meta.wkhealth.com/pt/pt-core/template-journal/lwwgateway/media/landingpage.htm?issn=0955-8829&volume=19&issue=5&spage=259},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2495},
rating = {4}
}
@article{Eigenmann:2009,
author = {C A Eigenmann and R Colagiuri and T C Skinner and L Trevena},
journal = {Diabet Med},
title = {Are current psychometric tools suitable for measuring outcomes of diabetes education?},
abstract = {AIMS: To critically appraise the suitability, validity, reliability, feasibility and sensitivity to change of available psychometric tools for measuring the education outcomes identified in the (Australian) National Consensus on Outcomes and Indicators for Diabetes Patient Education. METHODS: Potentially suitable psychometric measurement tools were identified through a two-step process. Step 1: a structured semi-systematic literature review and consultation with experts; step 2: development of inclusion criteria and a formal, purpose-designed, systematically derived Appraisal Checklist-from the literature and with expert psychometric advice-to critically appraise the identified tools for relevance, validity, reliability, responsiveness to change, burden, feasibility and acceptability. RESULTS: Searching medline, PubMed, PsycINFO and cinhal yielded 37 diabetes-specific and generic measurement tools. Eleven of these did not address the research questions, leaving 26 tools. Of these, 11 assessed indicators of psychological adjustment; seven assessed various domains of self-determination; five measured self-management behaviours, for example, foot care, blood glucose testing and lifestyle domains; and three measured diabetes knowledge und understanding, respectively. When the Appraisal Checklist was applied, only three tools met all criteria, namely the Problem Areas in Diabetes (PAID) scale, the Summary of Diabetes Self-Care Activities (SDSCA) scale and the Appraisal of Diabetes Scale (ADS). However, a number of other suitable tools [i.e. the Diabetes Integration Scale (ATT19), the Diabetes Health Profile (DHP-1/18), the Self-Care Inventory-Revised (SCI-R), the Diabetes Management Self Efficacy Scale Australian/English version (DMSES-A/E), the Diabetes Empowerment Scale-Short Form (DES-SF)] met all except one criteria, that is, either no formal test-retest or no responsiveness to change data. CONCLUSIONS: Although numerous tools were identified, few met rigorous psychometric appraisal criteria. Issues of suitability, adequate psychometric testing for the intended purpose, burden and feasibility need to be considered before adopting tools for measuring diabetes education outcomes.},
affiliation = {The Diabetes Unit-Menzies Centre for Health Policy, University of Sydney, Sydney, NSW, Australia.},
number = {4},
pages = {425--436},
volume = {26},
year = {2009},
month = {Apr},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1111/j.1464-5491.2009.02697.x},
pii = {DME2697},
pmid = {19388974},
url = {http://dx.doi.org/10.1111/j.1464-5491.2009.02697.x},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1158},
rating = {0}
}
@article{Perlman:2009p9092,
author = {Susan B Perlman and James P Morris and Brent C Vander Wyk and Steven R Green and Jaime L Doyle and Kevin A Pelphrey},
journal = {PLoS ONE},
title = {Individual differences in personality predict how people look at faces},
abstract = {BACKGROUND: Determining the ways in which personality traits interact with contextual determinants to shape social behavior remains an important area of empirical investigation. The specific personality trait of neuroticism has been related to characteristic negative emotionality and associated with heightened attention to negative, emotionally arousing environmental signals. However, the mechanisms by which this personality trait may shape social behavior remain largely unspecified. METHODOLOGY/PRINCIPAL FINDINGS: We employed eye tracking to investigate the relationship between characteristics of visual scanpaths in response to emotional facial expressions and individual differences in personality. We discovered that the amount of time spent looking at the eyes of fearful faces was positively related to neuroticism. CONCLUSIONS/SIGNIFICANCE: This finding is discussed in relation to previous behavioral research relating personality to selective attention for trait-congruent emotional information, neuroimaging studies relating differences in personality to amygdala reactivity to socially relevant stimuli, and genetic studies suggesting linkages between the serotonin transporter gene and neuroticism. We conclude that personality may be related to interpersonal interaction by shaping aspects of social cognition as basic as eye contact. In this way, eye gaze represents a possible behavioral link in a complex relationship between genes, brain function, and personality.},
affiliation = {Yale Child Study Center, Yale University, New Haven, Connecticut, United States of America. sperlman@cmu.edu},
number = {6},
pages = {e5952},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Affect, Models: Biological, Face, Individuality, Emotions, Neurotic Disorders, Personality, Male, Facial Expression, Eye Movements, Adolescent, Adult, Female, Environment, Humans},
date-added = {2010-03-22 13:23:38 +0100},
date-modified = {2010-03-22 13:23:38 +0100},
doi = {10.1371/journal.pone.0005952},
pmid = {19543398},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Perlman-2009-PLoS%20ONE_Individual%20differenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9092},
rating = {0}
}
@article{Pallier:2003p4637,
author = {C Pallier and S Dehaene and J-B Poline and D LeBihan and A-M Argenti and E Dupoux and J Mehler},
journal = {Cereb Cortex},
title = {Brain imaging of language plasticity in adopted adults: can a second language replace the first?},
abstract = {Do the neural circuits that subserve language acquisition lose plasticity as they become tuned to the maternal language? We tested adult subjects born in Korea and adopted by French families in childhood; they have become fluent in their second language and report no conscious recollection of their native language. In behavioral tests assessing their memory for Korean, we found that they do not perform better than a control group of native French subjects who have never been exposed to Korean. We also used event-related functional magnetic resonance imaging to monitor cortical activations while the Korean adoptees and native French listened to sentences spoken in Korean, French and other, unknown, foreign languages. The adopted subjects did not show any specific activations to Korean stimuli relative to unknown languages. The areas activated more by French stimuli than by foreign stimuli were similar in the Korean adoptees and in the French native subjects, but with relatively larger extents of activation in the latter group. We discuss these data in light of the critical period hypothesis for language acquisition.},
affiliation = {INSERM U562, Service Hospitalier Fredrik Joliot, CEA/DSV/DRM, {\&} IFR49, 4 place du G{\'e}n{\'e}ral Leclerc, Orsay, France. pallier@lscp.ehess.fr},
number = {2},
pages = {155--61},
volume = {13},
year = {2003},
month = {Feb},
language = {eng},
keywords = {Adult, Memory, Magnetic Resonance Imaging, Critical Period (Psychology), Neuronal Plasticity, Male, Korea, Mental Recall, Brain, Language Development, Brain Mapping, Adoption, Female, France, Humans, Multilingualism},
date-added = {2010-01-30 15:38:09 +0100},
date-modified = {2010-07-29 19:22:58 +0200},
pmid = {12507946},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pallier-2003-Cereb%20Cortex_Brain%20imaging%20of%20lan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4637},
rating = {0}
}
@article{deVries:2008p6246,
author = {Hein de Vries and Jonathan van 't Riet and Mark Spigt and Job Metsemakers and Marjan van den Akker and Jeroen K Vermunt and Stef Kremers},
journal = {Prev Med},
title = {Clusters of lifestyle behaviors: results from the Dutch SMILE study},
abstract = {OBJECTIVE: This study aimed to identify differences and similarities in health behavior clusters for respondents with different educational backgrounds. METHODS: A total of 9449 respondents from the 2002 wave of the Dutch SMILE cohort study participated. Latent class analyses were used to identify clusters of people based on their adherence to Dutch recommendations for five important preventive health behaviors: non-smoking, alcohol use, fruit consumption, vegetable consumption and physical exercise. RESULTS: The distribution of these groups of behaviors resulted in three clusters of people: a healthy, an unhealthy and poor nutrition cluster. This pattern was replicated in groups with low, moderate and high educational background. The high educational group scored much better on all health behaviors, whereas the lowest educational group scored the worst on the health behaviors. CONCLUSION: The same three patterns of health behavior can be found in different educational groups (high, moderate, low). The high educational group scored much better on all health behaviors, whereas the lowest educational group scored the worst on the health behaviors. Tailoring health education messages using a cluster-based approach may be a promising new approach to address multiple behavior change more effectively.},
affiliation = {Department of Health Education and Health Promotion, Maastricht University, The Netherlands. hein.devries@gvo.unimaas.nl},
number = {3},
pages = {203--8},
volume = {46},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Cluster Analysis, Child, Humans, Adolescent, Male, Aged, Exercise, Adult, Smoking, Middle Aged, Cohort Studies, Diet, Guideline Adherence, Nutrition Surveys, Health Behavior, Alcohol Drinking, Netherlands, Female, Life Style},
date-added = {2010-02-19 21:23:27 +0100},
date-modified = {2010-02-19 21:23:28 +0100},
doi = {10.1016/j.ypmed.2007.08.005},
pii = {S0091-7435(07)00369-6},
pmid = {17904212},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Vries-2008-Prev%20Med_Clusters%20of%20lifestyl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6246},
rating = {0}
}
@article{Nichols:2003p1682,
author = {T E Nichols and A P Holmes},
title = {Nonparametric Permutation Tests for Functional Neuroimaging},
affiliation = {Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, 48109. USA.},
year = {2003},
date-added = {2010-01-08 22:28:48 +0100},
date-modified = {2010-01-08 22:29:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nichols-2003-_Nonparametric%20Permut.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1682},
rating = {0}
}
@article{Varni:2007p8504,
author = {James W Varni and Christine A Limbers and Tasha M Burwinkle},
journal = {Health Qual Life Outcomes},
title = {How young can children reliably and validly self-report their health-related quality of life?: an analysis of 8,591 children across age subgroups with the PedsQL 4.0 Generic Core Scales},
abstract = {BACKGROUND: The last decade has evidenced a dramatic increase in the development and utilization of pediatric health-related quality of life (HRQOL) measures in an effort to improve pediatric patient health and well-being and determine the value of healthcare services. The emerging paradigm shift toward patient-reported outcomes (PROs) in clinical trials has provided the opportunity to further emphasize the value and essential need for pediatric patient self-reported outcomes measurement. Data from the PedsQL DatabaseSM were utilized to test the hypothesis that children as young as 5 years of age can reliably and validly report their HRQOL. METHODS: The sample analyzed represented child self-report age data on 8,591 children ages 5 to 16 years from the PedsQL 4.0 Generic Core Scales DatabaseSM. Participants were recruited from general pediatric clinics, subspecialty clinics, and hospitals in which children were being seen for well-child checks, mild acute illness, or chronic illness care (n = 2,603, 30.3%), and from a State Children's Health Insurance Program (SCHIP) in California (n = 5,988, 69.7%). RESULTS: Items on the PedsQL 4.0 Generic Core Scales had minimal missing responses for children as young as 5 years old, supporting feasibility. The majority of the child self-report scales across the age subgroups, including for children as young as 5 years, exceeded the minimum internal consistency reliability standard of 0.70 required for group comparisons, while the Total Scale Scores across the age subgroups approached or exceeded the reliability criterion of 0.90 recommended for analyzing individual patient scale scores. Construct validity was demonstrated utilizing the known groups approach. For each PedsQL scale and summary score, across age subgroups, including children as young as 5 years, healthy children demonstrated a statistically significant difference in HRQOL (better HRQOL) than children with a known chronic health condition, with most effect sizes in the medium to large effect size range. CONCLUSION: The results demonstrate that children as young as the 5 year old age subgroup can reliably and validly self-report their HRQOL when given the opportunity to do so with an age-appropriate instrument. These analyses are consistent with recent FDA guidelines which require instrument development and validation testing for children and adolescents within fairly narrow age groupings and which determine the lower age limit at which children can provide reliable and valid responses across age categories.},
affiliation = {Department of Pediatrics, College of Medicine, Department of Landscape Architecture and Urban Planning, College of Architecture, Texas A{\&}M University, 3137 TAMU, College Station, TX 77843-3137, USA. jvarni@archmail.tamu.edu},
pages = {1},
volume = {5},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Self Assessment (Psychology), Adolescent, Quality of Life, Female, Age Factors, Child: Preschool, Male, Self Disclosure, Attitude to Health, Pediatrics, Child, Child Welfare, Psychometrics, California, Humans, Health Status},
date-added = {2010-03-21 18:07:33 +0100},
date-modified = {2010-03-21 18:07:33 +0100},
doi = {10.1186/1477-7525-5-1},
pii = {1477-7525-5-1},
pmid = {17201920},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Varni-2007-Health%20and%20Quality%20of%20Life%20Outcomes_How%20young%20can%20childr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8504},
rating = {0}
}
@article{Lagae:2010p10920,
author = {Lieven Lagae and Hel{\`e}ne Verhelst and Berten Ceulemans and Linda De Meirleir and Marie-C{\'e}cile Nassogne and Valerie De Borchgrave and Marc D'Hooghe and Martine Foulon and Patrick Van Bogaert},
journal = {Seizure},
title = {Treatment and long term outcome in West syndrome: the clinical reality. A multicentre follow up study},
abstract = {We systematically reviewed the files of 51 infants presenting with infantile spasms and hypsarrhythmia in order to study the initial treatment strategies and the long term outcome. 80% of the infants were classified as symptomatic. In the nine participating centres, different treatment protocols were used, but the large majority of the children received vigabatrin as first line treatment. Second line options included hormonal treatment, topiramate and valproate. The time to reach cessation of infantile spasms was significantly shorter in the cryptogenic group than in the symptomatic group (50% at 13 days versus 66 days respectively) and was irrespective of the treatment used. The late follow up data (>2 years) showed that 60% of the children had epilepsy and that 75% of the children had a delay in their psychomotor development. Again, outcome in the cryptogenic group was better than in the symptomatic group, but also in the cryptogenic group, 50% of the children had a clear developmental delay, even if spasms were controlled early in the course of the disease. Our retrospective study illustrates that not only the underlying brain dysfunction is the major determinant for later outcome in infantile spasms (symptomatic group) but also even a short period of infantile spasms can be responsible for later developmental delay (cryptogenic group).},
affiliation = {University Hospitals KULeuven, Department of Pediatric Neurology, Herestraat 49, 3000 Leuven, Belgium. lieven.lagae@uzleuven.be},
number = {3},
pages = {159--64},
volume = {19},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-04-13 16:21:09 +0200},
date-modified = {2010-04-13 16:21:09 +0200},
doi = {10.1016/j.seizure.2010.01.008},
pii = {S1059-1311(10)00009-9},
pmid = {20149693},
url = {http://linkinghub.elsevier.com/retrieve/pii/S1059-1311(10)00009-9},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lagae-2010-Seizure_Treatment%20and%20long%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10920},
rating = {0}
}
@article{Kose:2003p11593,
author = {S Kose},
journal = {Yeni Symposium},
title = {A psychobiological model of temperament and character: tci},
abstract = {Cloninger developed a dimensional psychobiological model of personality that accounts for both normal and abnormal variation in two major components of personality, tempera- ment and character. The Temperament and Character Inventory (TCI) is a self-administe- red dimensional questioannaire constructed to assess the seven basic dimensions of per- sonality. TCI maintains the strong theoretical and empirical support of previously develo- ped psychobiological models while overcoming some of their limitations for clinical use. Cloninger's model of personality has a tremendous potential to provide comprehensive in- sight into human personality at multiple levels of analysis, including including the genetics of personality, neurobiological foundations of behavior, the cognitive emotional structure and development of personality, the behavioral correlates of individual differences in per- sonality dimensions, and the interactions of personality constellations with developmental factors in relation to the vulnerability to psychiatric disorders. Within emerging neuroima- ging technology, Cloninger's model of personality will provide novel opportunities for elu- cidating the characterization of neural correlates of personality, and enable a better un- derstanding of normal and pathological states. In this article, both underlying theory and empirically valiated findings along with its potential use in in both general population and psychiatric patient population were reviewed.},
number = {2},
pages = {86--97},
volume = {41},
year = {2003},
date-added = {2010-05-09 21:16:07 +0200},
date-modified = {2010-05-09 21:17:25 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kose-2003-Yeni%20Symposium_A%20psychobiological%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11593},
rating = {4}
}
@article{Sykes:1987,
author = {W Sykes and J Morton-Williams},
journal = {Journal of Official Statistics},
title = {Evaluating survey questions},
pages = {191--207},
volume = {3},
year = {1987},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1005},
rating = {0}
}
@article{PaisRibeiro:2004p8791,
author = {J L Pais-Ribeiro},
journal = {Clin Nutr},
title = {Quality of life is a primary end-point in clinical settings},
abstract = {The objective of this review is to present and discuss the quality of life (QOL) construct, more specifically the QOL in the field of health and disease also designated as health-related quality of life (HRQOL). QOL is an everyday language concept with a relatively short history in the health field. It became a principal end-point in health care as a consequence of the development of patients' rights movements. It is important for clinical, economic and political decisions. There is no gold standard way to measure QOL and the existence of a huge number of measures and related QOL concepts makes it difficult to discuss QOL. This means that many times we are using the same expression "QOL" but we are not talking about the same thing. So we submit that it is important to keep looking for the good construct and the good measure. The reason why we decide to evaluate QOL influences the measures we choose. In general, QOL measures are based on questionnaires that must be short and easy to answer. The interest in these kind of soft measures (in opposition to the traditional hard physiologically or biochemically oriented measures) is growing fast.},
affiliation = {Faculdade de Psicologia e de Ci{\^e}ncias da Educa{\c c}{\~a}o, Universidade do Porto, Rua do Campo Alegre 1055, 4169-004 Porto, Portugal. jlpr@psi.up.pt},
number = {1},
pages = {121--30},
volume = {23},
year = {2004},
month = {Feb},
language = {eng},
keywords = {Quality of Health Care, Quality of Life, Humans, Activities of Daily Living, Health Status, Questionnaires},
date-added = {2010-03-22 12:07:33 +0100},
date-modified = {2010-03-22 12:07:33 +0100},
pii = {S0261561403001092},
pmid = {14757401},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pais-Ribeiro-2004-Clin%20Nutr_Quality%20of%20life%20is%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8791},
rating = {0}
}
@article{Belmonte:2004p6226,
author = {M K Belmonte and E H Cook and G M Anderson and J L R Rubenstein and W T Greenough and A Beckel-Mitchener and E Courchesne and L M Boulanger and S B Powell and P R Levitt and E K Perry and Y H Jiang and T M DeLorey and E Tierney},
journal = {Mol Psychiatry},
title = {Autism as a disorder of neural information processing: directions for research and targets for therapy},
abstract = {The broad variation in phenotypes and severities within autism spectrum disorders suggests the involvement of multiple predisposing factors, interacting in complex ways with normal developmental courses and gradients. Identification of these factors, and the common developmental path into which they feed, is hampered by the large degrees of convergence from causal factors to altered brain development, and divergence from abnormal brain development into altered cognition and behaviour. Genetic, neurochemical, neuroimaging, and behavioural findings on autism, as well as studies of normal development and of genetic syndromes that share symptoms with autism, offer hypotheses as to the nature of causal factors and their possible effects on the structure and dynamics of neural systems. Such alterations in neural properties may in turn perturb activity-dependent development, giving rise to a complex behavioural syndrome many steps removed from the root causes. Animal models based on genetic, neurochemical, neurophysiological, and behavioural manipulations offer the possibility of exploring these developmental processes in detail, as do human studies addressing endophenotypes beyond the diagnosis itself.},
affiliation = {Autism Research Centre, Departments of Psychiatry and Experimental Psychology, University of Cambridge, Douglas House, 18b Trumpington Road, Cambridge CB2 2AH, UK. belmonte@mit.edu},
number = {7},
pages = {646--63},
volume = {9},
year = {2004},
month = {Jul},
language = {eng},
keywords = {Autistic Disorder, Cognition Disorders, Animals, Humans},
date-added = {2010-02-19 20:26:32 +0100},
date-modified = {2010-02-19 20:26:32 +0100},
doi = {10.1038/sj.mp.4001499},
pii = {4001499},
pmid = {15037868},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Belmonte-2004-Mol%20Psychiatry_Autism%20as%20a%20disorder.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6226},
rating = {0}
}
@article{Cantell:2003,
author = {Marja H Cantell and Mary M Smyth and Timo P Ahonen},
journal = {Hum Mov Sci},
title = {Two distinct pathways for developmental coordination disorder: persistence and resolution.},
abstract = {This article describes the perceptual motor, educational and social outcome of early motor delay in a group of 17-18 year old Finnish adolescents who were originally evaluated at age 5. The study group consisted of 65 adolescents: 22 with significant motor problems (or developmental coordination disorder, DCD), 23 with minor motor problems (intermediate group) and 20 controls. The goal of this study was to reassess the results obtained when they were age 15 and to determine whether the variables used earlier could still discriminate the adolescents at age 17. The results showed that at age 17 all perceptual motor tasks differentiated the three groups. The DCD group performed less well than the control group on all tasks, with the intermediate group situated between these two. Discriminant function analyses showed that more classification errors occurred between the control and intermediate groups at age 17 than at age 15, suggesting that the distinction between these groups becomes more difficult with age. In the educational domain, similar to the findings at age 15, the adolescents with DCD had the lowest WAIS scores and shortest school careers of the three groups. In the social domain, as found two years earlier, the DCD group had the lowest perceptions of athletic and scholastic competence while the intermediate and control groups did not differ. In addition, the interview results indicated that the three groups were in different stages of identity development. In sum, the outcome at age 17 was a replication of the results obtained at age 15 and suggests two developmental paths for those with early perceptual motor problems: 'persistence' and 'catching up'.},
affiliation = {Department of Paediatrics, University of Calgary, Alberta Children's Hospital, 1820 Richmond Rd. S.W., Calgary, Alberta, T2T 5C7 Canada. marja.cantell@calgaryhealthregion.ca},
number = {4-5},
pages = {413--431},
volume = {22},
year = {2003},
month = {Nov},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
pii = {S0167945703000642},
pmid = {14624826},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1130},
read = {Yes},
rating = {0}
}
@article{Fox:2004,
author = {Jean-Paul Fox},
journal = {School Effectiveness and School Improvement},
title = {Applications of Multilevel IRT Modeling},
pages = {261--280},
volume = {15},
year = {2004},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2004-School%20Effectiveness%20and%20School%20Improvement_Applications%20of%20Mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2041},
rating = {0}
}
@article{Fidalgo:2010p4612,
author = {A M Fidalgo and G J Mellenbergh and J Muniz},
title = {Effects of Amount of DIF, Test Length, and Purification Type on Robustness and Power of Mantel-Haenszel Procedures},
date-added = {2010-01-30 15:11:40 +0100},
date-modified = {2010-01-30 15:13:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fidalgo--_Effects%20of%20Amount%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4612},
rating = {0}
}
@article{Eggen:1998ab,
author = {T J H M Eggen},
title = {Item Selection in Adaptive Testing with the Sequential Probability Ratio Test},
abstract = {Computerized adaptive tests (CATs) were originally developed to obtain an efficient estimate of an examinee's ability. For classification problems, applications of the Sequential Probability Ratio Test (Wald, 1947) have been shown to be a promising alternative for testing algorithms which are based on statistical estimation. However, the method of item selection currently being used in these algorithms, which use statistical testing to infer on the examinees, is either random or based on a criterion which is related to optimizing estimates of examinees (maximum (Fisher) information). In this study, an item selection method based on Kullback-Leibler information is presented, which is theoretically more suitable for statistical testing problems and which can improve the testing algorithm for classification problems. Simulation studies were conducted for two- and three-way classification problems, in which item selection based on Fisher information and Kullback-Leibler information were compared. The results of these studies showed that the performance of the testing algorithms with Kullback-Leibler information-based item selection are sometimes better and never worse than algorithms with Fisher information-based item selection.},
year = {1998},
month = {Sep},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eggen-1998-_Item%20Selection%20in%20Ad.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1202},
rating = {0}
}
@article{Leask:2009p6248,
author = {S J Leask and J K Vermunt and D J Done and T J Crow and M Blows and M P Boks},
journal = {Schizophr Res},
title = {Beyond symptom dimensions: schizophrenia risk factors for patient groups derived by latent class analysis},
abstract = {INTRODUCTION: Patients grouped by latent class analysis of symptoms show some consensus between studies, and may be less etiologically heterogeneous than current diagnoses. If so, the effect size of 'neurodevelopmental' risk factors may be greater than in equivalent DSMIV diagnostic groups. METHOD: Two hundred fifty six individuals with neurodevelopmental risk factors recorded in the National Child Development Study (1958) UK birth cohort were grouped by data-driven illness subtypes, derived previously in over 1000 individuals. The effect sizes of these risks were compared between data-derived and DSMIV schizophrenia (295.x) groups. RESULTS: Compared to DSMIV schizophrenia, the data-driven subtype broadly characterized by the presence of psychotic symptoms in the absence of affective symptoms showed significantly greater effect sizes in eight out of thirteen continuously-rated risk factors: birth weight, cognition, childhood behavioural problems, and neurological softsigns including handedness. CONCLUSION: A data-driven subgroup of schizophrenia patients, characterized as lacking co-morbid depressive symptoms, is less heterogeneous with respect to neurodevelopmental etiology.},
affiliation = {Division of Psychiatry, Nottingham University, A floor, South Block, Queen's Medical Centre, Nottingham NG7 2UH, UK. stuart.leask@nottingham.ac.uk},
number = {2-3},
pages = {346--50},
volume = {115},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Schizophrenic Psychology, Child, Schizophrenia, Male, Risk Factors, Humans, Psychiatric Status Rating Scales, Analysis of Variance, Factor Analysis: Statistical, Female, Retrospective Studies, Cohort Studies, Netherlands, Personality Assessment},
date-added = {2010-02-19 21:24:22 +0100},
date-modified = {2010-07-29 19:50:06 +0200},
doi = {10.1016/j.schres.2009.09.017},
pii = {S0920-9964(09)00436-8},
pmid = {19840897},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leask-2009-Schizophr%20Res_Beyond%20symptom%20dimen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6248},
rating = {0}
}
@article{Maracy:2008p6422,
author = {Mohammad Maracy and Graham Dunn},
journal = {Stat Methods Med Res},
title = {Estimating dose-response effects in psychologicaltreatment trials: the role of instrumental variables},
abstract = {We present a relatively non-technical and practically orientated review of statistical methods that can be used to estimate dose-response relationships in randomised controlled psychotherapy trials in which participants fail to attend all of the planned sessions of therapy. Here we are investigating the effects on treatment outcome of the number of sessions attended when the latter is possibly subject to hidden selection effects (hidden confounding). The aim is to estimate the parameters of a structural mean model (SMM) using randomisation, and possibly randomisation by covariate interactions, as instrumental variables. We describe, compare and illustrate the equivalence of the use of a simple G-estimation algorithm and two two-stage least squares procedures that are traditionally used in economics.},
affiliation = {Biostatistics, Health Methodology Research Group, School of Community Based Medicine, University of Manchester, UK (Current address: Biostatistics and Epidemiology Group, School of Health, Isfahan University of Medical Science, Iran.},
pages = {},
year = {2008},
month = {Nov},
language = {ENG},
date-added = {2010-02-23 08:27:47 +0100},
date-modified = {2010-02-23 08:27:47 +0100},
doi = {10.1177/0962280208097243},
pii = {0962280208097243},
pmid = {19036909},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6422},
rating = {0}
}
@article{Dick:2009p9094,
author = {Danielle M Dick and Shawn J Latendresse and Jennifer E Lansford and John P Budde and Alison Goate and Kenneth A Dodge and Gregory S Pettit and John E Bates},
journal = {Arch Gen Psychiatry},
title = {Role of GABRA2 in trajectories of externalizing behavior across development and evidence of moderation by parental monitoring},
abstract = {CONTEXT: As we identify genes involved in psychiatric disorders, the next step will be to study how the risk associated with susceptibility genes manifests across development and in conjunction with the environment. We describe analyses aimed at characterizing the pathway of risk associated with GABRA2, a gene previously associated with adult alcohol dependence, in a community sample of children followed longitudinally from childhood through young adulthood. OBJECTIVE: To test for an association between GABRA2 and trajectories of externalizing behavior from adolescence to young adulthood and for moderation of genetic effects by parental monitoring. DESIGN: Data were analyzed from the Child Development Project, with yearly assessments conducted since that time. A saliva sample was collected for DNA at the 2006 follow-up, with a 93% response rate in the target sample. Growth mixture modeling was conducted using Mplus to identify trajectories of externalizing behavior and to test for effects of GABRA2 sequence variants and parental monitoring. SETTING: Nashville and Knoxville, Tennessee, and Bloomington, Indiana. PARTICIPANTS: A community-based sample of families enrolled at 3 sites as children entered kindergarten in 1987 and 1988. Analyses for the white subset of the sample (n = 378) are reported here. MAIN OUTCOME MEASURES: Parental monitoring measured at 11 years of age; Child Behavior Checklist youth reports of externalizing behavior at ages 12, 14, 15, 16, 17, 19, 20, 21, and 22 years. RESULTS: Two classes of externalizing behavior emerged: a stable high externalizing class and a moderate decreasing externalizing behavior class. The GABRA2 gene was associated with class membership, with subjects who showed persistent elevated trajectories of externalizing behavior more likely to carry the genotype previously associated with increased risk of adult alcohol dependence. A significant interaction with parental monitoring emerged; the association of GABRA2 with externalizing trajectories diminished with high levels of parental monitoring. CONCLUSIONS: These analyses underscore the importance of studying genetic effects across development and of identifying environmental factors that moderate risk.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, Department of Psychiatry, PO Box 980126, Richmond, VA 23298-0126, USA. ddick@vcu.edu},
number = {6},
pages = {649--57},
volume = {66},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Phenotype, Parenting, Linear Models, Young Adult, Aggression, Alleles, Bayes Theorem, Longitudinal Studies, Antisocial Personality Disorder, Male, Polymorphism: Single Nucleotide, Adolescent, Humans, Receptors: GABA-A, Internal-External Control, Child: Preschool, Genetic Predisposition to Disease, Female, Social Environment, Likelihood Functions, Alcoholism, Genotype, Child},
date-added = {2010-03-22 13:24:17 +0100},
date-modified = {2010-03-22 13:24:22 +0100},
doi = {10.1001/archgenpsychiatry.2009.48},
pii = {66/6/649},
pmid = {19487630},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dick-2009-Arch%20Gen%20Psychiatry_Role%20of%20GABRA2%20in%20tr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9094},
rating = {4}
}
@article{Dragan:2007p11431,
author = {Alina Dragan and Noori Akhtar-Danesh},
journal = {BMC Med Res Methodol},
title = {Relation between body mass index and depression: a structural equation modeling approach},
abstract = {BACKGROUND: Obesity and depression are two major diseases which are associated with many other health problems such as hypertension, dyslipidemia, diabetes mellitus, coronary heart disease, stroke, myocardial infarction, heart failure in patients with systolic hypertension, low bone mineral density and increased mortality. Both diseases share common health complications but there are inconsistent findings concerning the relationship between obesity and depression. In this work we used the structural equation modeling (SEM) technique to examine the relation between body mass index (BMI), as a proxy for obesity, and depression using the Canadian Community Health Survey, Cycle 1.2. METHODS: In this SEM model we postulate that 1) BMI and depression are directly related, 2) BMI is directly affected by the physical activity and, 3)depression is directly influenced by stress. SEM was also used to assess the relation between BMI and depression separately for males and females. RESULTS: The results indicate that higher BMI is associated with more severe form of depression. On the other hand, the more severe form of depression may result in less weight gain. However, the association between depression and BMI is gender dependent. In males, the higher BMI may result in a more severe form of depression while in females the relation may not be the same. Also, there was a negative relationship between physical activity and BMI. CONCLUSION: In general, use of SEM method showed that the two major diseases, obesity and depression, are associated but the form of the relation is different among males and females. More research is necessary to further understand the complexity of the relationship between obesity and depression. It also demonstrated that SEM is a feasible technique for modeling the relation between obesity and depression.},
affiliation = {Nursing Health Services Research Unit, McMaster University, Canada. dragana@mcmaster.ca },
pages = {17},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Obesity, Adolescent, Male, Socioeconomic Factors, Sex Factors, Body Mass Index, Female, Family Health, Humans, Depression, Adult, Aged},
date-added = {2010-05-01 17:12:50 +0200},
date-modified = {2010-05-01 17:12:51 +0200},
doi = {10.1186/1471-2288-7-17},
pii = {1471-2288-7-17},
pmid = {17470289},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dragan-2007-BMC%20Med%20Res%20Methodol_Relation%20between%20bod.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11431},
rating = {0}
}
@article{Ali:2005p11930,
author = {J Ali and D M McInerney},
journal = {AARE 2005 International Educational Conference},
title = {Testing the Invariance of a Motivation Model across Seven Cultural Groups},
abstract = {Using confirmatory factor analysis this study examines the cross-cultural generalizability of the factor structure for the Inventory of School Motivation (ISM), an instrument based on Personal Investment theory. The instrument consists of eight different scales with 43 survey items (ranging from 3 to 7 items each) and each reflecting one of eight specific dimensions: task, effort, competition, social power, affiliation, social concern, praise, and token. The factor structure was invariant over large samples of responses by Anglo-Australian (n=2,616), Migrant Australian (n=1,265), Aboriginal Australian (n=906), Hong Kong Chinese (n=697), Navajo (n=1,776), Anglo-American (n=884) and African (n=819) cultural groups of high school students. The results of factorial invariance analysis indicated that the ISM has a stable and reliable factor structure among the 7 cultural groups. Findings also provide evidence that the ISM scales are applicable to students of different cultural backgrounds; meaningful cross-cultural comparisons should use the 43 items in educational settings.},
year = {2005},
date-added = {2010-05-23 16:44:57 +0200},
date-modified = {2010-05-23 16:45:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ali-2005-AARE%202005%20International%20Educational%20Conference_Testing%20the%20Invarian.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11930},
rating = {4}
}
@article{Zwirs:2007p4373,
author = {Barbara W C Zwirs and Huibert Burger and Tom W J Schulpen and Martin Wiznitzer and Hans Fedder and Jan K Buitelaar},
journal = {J Abnorm Child Psychol},
title = {Prevalence of psychiatric disorders among children of different ethnic origin},
abstract = {The present study assesses the population prevalence of DSM-IV disorders among native and immigrant children living in low socio-economic status (SES) inner-city neighborhoods in the Netherlands. In the first phase of a two-phase epidemiological design, teachers screened an ethnically diverse sample of 2041 children aged 6-10 years using the Strengths and Difficulties Questionnaire (SDQ). In the second phase, a subsample of 253 children was psychiatrically examined, while their parents were interviewed. In addition, teachers completed a short questionnaire about 10 DSM-IV items. Prevalence was estimated using the best-estimate diagnosis based on parent, child and teacher information. Projected to the total population, 11% of the children had one or more impairing psychiatric disorders, which did not differ between native and non-native children. In the total group a clear relationship was observed between the prevalence of psychiatric disorders and gender, parental psychopathology, peer problems and school problems, but not among all ethnic groups separately. This study suggests that the prevalence of psychiatric disorders among non-treated minority and native children in low SES inner-city neighborhoods does not materially differ. However, associated mechanisms may be influenced by ethnicity.},
affiliation = {Department of Paediatrics, University Medical Centre Utrecht, Utrecht, The Netherlands. Zwirs@frg.eur.nl},
number = {4},
pages = {556--66},
volume = {35},
year = {2007},
month = {Aug},
language = {eng},
keywords = {Mental Disorders, Internal-External Control, Urban Population, Turkey, Bipolar Disorder, Ethnic Groups, Morocco, Emigration and Immigration, Female, Male, Attention Deficit Disorder with Hyperactivity, Cross-Sectional Studies, Netherlands, Socioeconomic Factors, Child, Suriname, Cross-Cultural Comparison, Conduct Disorder, Attention Deficit and Disruptive Behavior Disorders, Stress Disorders: Post-Traumatic, Anxiety Disorders, Anxiety: Separation, Humans, Child Behavior Disorders, Mass Screening, Depressive Disorder: Major, Personality Assessment},
date-added = {2010-01-28 16:31:02 +0100},
date-modified = {2010-01-28 16:31:03 +0100},
doi = {10.1007/s10802-007-9112-9},
pmid = {17342420},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4373},
rating = {0}
}
@article{Doll:1994,
author = {R Doll and R Peto and K Wheatley and R Gray and I Sutherland},
journal = {British Medical Journal},
title = {Mortality in relation to smoking: 40 years' observations on male British doctors},
abstract = {Objective : To assess the hazards associated with long term use of tobacco. Design : Prospective study of mortality in relation to smoking habits assessed in 1951 and again from20time to time thereafter, with causes sought of deaths20over 40 years (to 1991). Continuation of a study that was last reported after 20 years' follow up (1951-71). Subjects : 34 439 British male doctors who replied20to a postal questionnaire in 1951, of whom 10 000 had died during the first 20 years and another 10 000 have died during the second 20 years. Results - Excess mortality associated with20smoking was about twice as extreme during the second half of the study as it had been during the first half. The death rate ratios during 1971-91 (comparing continuing cigarette smokers with lifelong20non-smokers) were approximately threefold at ages 45-64 and twofold at ages 65-84. The excess mortality was chiefly from diseases that can be caused by smoking. Positive associations with smoking were confirmed for death from cancers of the mouth, oesophagus, pharynx, larynx, lung, pancreas, and bladder; from chronic obstructive pulmonary disease and other respiratory diseases; from vascular diseases; from peptic ulcer; and (perhaps because of confounding by personality and alcohol use) from cirrhosis, suicide, and poisoning. A negative association was confirmed with death20from Parkinson's disease. Those who stopped20smoking before middle age subsequently avoided almost all of the excess risk that they would otherwise have suffered, but even those who stopped smoking in middle age were subsequently at substantially less risk than those who continued to smoke. Conclusion : Results from the first 20 years of this study, and of other studies at that time, substantially20underestimated the hazards of long term use of tobacco. It now seems that about half of all regular cigarette smokers will eventually be killed by their habit.},
number = {6959},
pages = {901--911},
volume = {309},
year = {1994},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1082},
rating = {0}
}
@article{Bollen:2002p6274,
author = {K A Bollen},
journal = {Annual Review of Psychology},
title = {Latent variables in Psychology and the Social Sciences},
abstract = {The paper discusses the use of latent variables in psychology and social science research. Local independence, expected value true scores, and nondeterministic functions of observed variables are three types of definitions for latent variables. These definitions are reviewed and an alternative ``sample realizations'' definition is presented. Another section briefly describes identification, latent variable indeterminancy, and other properties common to models with latent variables. The paper then reviews the role of latent variables in multiple regression, probit and logistic regression, factor analysis, latent curve models, item response theory, latent class analysis, and structural equation models. Though these application areas are diverse, the paper highlights the similarities as well as the differences in the manner in which the latent variables are defined and used. It concludes with an evaluation of the different definitions of latent variables and their properties.},
pages = {605--634},
volume = {53},
year = {2002},
date-added = {2010-02-20 17:26:59 +0100},
date-modified = {2010-07-29 19:15:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bollen-2002-Annual%20Review%20of%20Psychology_Latent%20variables%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6274},
rating = {0}
}
@article{Cohen:1996p9546,
author = {S R Cohen and S A Hassan and B J Lapointe and B M Mount},
journal = {AIDS},
title = {Quality of life in HIV disease as measured by the McGill quality of life questionnaire},
abstract = {OBJECTIVE: To test the acceptability, validity, and internal consistency reliability of the McGill quality of life questionnaire (MQOL) for persons living with HIV/AIDS. DESIGN: The validity of MQOL was tested by having HIV-seropositive outpatients complete the 16-item MQOL, a single-item scale (SIS) measuring overall quality of life (QOL), and a physical symptom questionnaire. METHODS: Factor analysis was used as a guide for construction of MQOL subscales. Validity was studied by determining the correlation between MQOL and SIS, and between MQOL physical measures, CD4 counts and the physical symptoms questionnaire. Multiple regression was employed to determine how best to combine MQOL subscales to predict SIS. RESULTS: MQOL was acceptable to this patient population. Factor analysis suggests that MQOL can be represented by live measures: a single item measuring physical well-being and four subscales representing physical symptoms, psychological symptoms, existential well-being, and support. Multiple regression analyses suggest that the existential domain contributes greatly to QOL for people with advanced HIV disease (CD4 counts < 100 x 10(6)/l). CONCLUSION: MQOL is an acceptable and valid measure of QOL for people living with HIV/AIDS, with meaningful and reliable subscales as well as a summary score. The inclusion of a measure of existential well-being in MQOL may make it a more valid measure of QOL, especially for people with advanced disease, than QOL instruments which do not include this domain.},
affiliation = {Department of Oncology, McGill University, Montreal, Quebec, Canada.},
number = {12},
pages = {1421--7},
volume = {10},
year = {1996},
month = {Oct},
language = {eng},
keywords = {Male, Female, Questionnaires, Adult, CD4 Lymphocyte Count, Humans, HIV Infections, Quality of Life},
date-added = {2010-03-23 20:43:59 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {8902073},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-1996-AIDS_Quality%20of%20life%20in%20H.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9546},
rating = {0}
}
@article{Schepers:2006p12050,
author = {JM Schepers},
journal = {SA Journal of Industrial Psychology},
title = {The utility of canonical correlation analysis, coupled with target rotation, in coping with the effects of differential skewness of variables},
abstract = {The principal objective of the study was to determine the utility of canonical correlation analysis, coupled with target rotation, in coping with the effects of differential skewness of variables representing two batteries of tests. Generally speaking joint factor analyses of two or more batteries of tests result in factors of skewness rather than factors of content. To examine the problem, the General Scholastic Aptitude Test (GSAT) and Senior Ability Tests (SAT) were jointly applied to a sample of 1598 first-year university students, and subjected to both a principal factor analysis (PFA) and a canonical correlation analysis (CCA), coupled with target rotation. Three factors were obtained in both instances. The PFA yielded factors of skewness and the CCA factors of content. The target rotation gave a good fit with the theoretically specified values. The implications of the findings are discussed.},
number = {2},
pages = {19--22},
volume = {32},
year = {2006},
date-added = {2010-05-24 10:33:17 +0200},
date-modified = {2010-05-24 10:35:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schepers-2006-SA%20Journal%20of%20Industrial%20Psychology_The%20utility%20of%20canon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12050},
rating = {4}
}
@article{Buckland:1997p7033,
author = {S T Buckland and K P Burnham and N H Augustin},
journal = {Biometrics},
title = {Model selection an integral part of inference},
number = {2},
pages = {603--618},
volume = {53},
year = {1997},
date-added = {2010-03-06 20:07:46 +0100},
date-modified = {2010-03-06 20:08:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buckland-1997-Biometrics_Model%20selection%20an%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7033},
rating = {0}
}
@article{Kaiser:2008p12859,
author = {S Kaiser and F Leisch},
title = {A Toolbox for Bicluster Analysis in R},
abstract = {Over the last decade, bicluster methods have become more and more popular in different fields of two way data analysis and a wide variety of algorithms and analysis methods have been published. In this paper we introduce the R package biclust, which contains a collection of bicluster algorithms, preprocessing methods for two way data, and validation and visualization techniques for bicluster results. For the first time, such a package is provided on a platform like R, where data analysts can easily add new bicluster algorithms and adapt them to their special needs.},
year = {2008},
date-added = {2010-06-22 08:22:47 +0200},
date-modified = {2010-06-22 08:24:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kaiser-2008-_A%20Toolbox%20for%20Biclus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12859},
rating = {0}
}
@article{Cavill:2009p343,
author = {Rachel Cavill and Hector C Keun and Elaine Holmes and John C Lindon and Jeremy K Nicholson and Timothy M D Ebbels},
journal = {Bioinformatics},
title = {Genetic algorithms for simultaneous variable and sample selection in metabonomics},
abstract = {MOTIVATION: Metabolic profiles derived from high resolution (1)H-NMR data are complex, therefore statistical and machine learning approaches are vital for extracting useful information and biological insights. Focused modelling on targeted subsets of metabolites and samples can improve the predictive ability of models, and techniques such as genetic algorithms (GAs) have a proven utility in feature selection problems. The Consortium for Metabonomic Toxicology (COMET) obtained temporal NMR spectra of urine from rats treated with model toxins and stressors. Here, we develop a GA approach which simultaneously selects sets of samples and spectral regions from the COMET database to build robust, predictive classifiers of liver and kidney toxicity. RESULTS: The results indicate that using simultaneous sample and variable selection improved performance by over 9% compared with either method alone. Simultaneous selection also halved computation time. Successful classifiers repeatedly selected particular variables indicating that this approach can aid defining biomarkers of toxicity. Novel visualizations of the results from multiple computations were developed to aid the interpretability of which samples and variables were frequently selected. This method provides an efficient way to determine the most discriminatory variables and samples for any post-genomic dataset. AVAILABILITY: GA code available from http://www1.imperial.ac.uk/medicine/people/r.cavill/},
affiliation = {Department of Biomolecular Medicine, Division of Surgery, Oncology, Reproductive Biology and Anaesthetics, Faculty of Medicine, Imperial College London, Sir Alexander Fleming Building, South Kensington, London, SW7 2AZ, UK. r.cavill@imperial.ac.uk},
number = {1},
pages = {112--8},
volume = {25},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Databases: Genetic, Algorithms, Time Factors, Principal Component Analysis, Metabolomics, Rats: Sprague-Dawley, Animals, Rats},
date-added = {2010-01-03 11:46:16 +0100},
date-modified = {2010-01-03 11:46:16 +0100},
doi = {10.1093/bioinformatics/btn586},
pii = {btn586},
pmid = {19010803},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cavill-2009-Bioinformatics_Genetic%20algorithms%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p343},
rating = {0}
}
@article{Dickinson:2007p2338,
author = {Gemma L Dickinson and Martin S Lennard and Geoffrey T Tucker and Amin Rostami-Hodjegan},
journal = {Br J Clin Pharmacol},
title = {The use of mechanistic DM-PK-PD modelling to assess the power of pharmacogenetic studies -CYP2C9 and warfarin as an example},
abstract = {AIM: To assess the power of in vivo studies needed to discern the effect of genotype on pharmacokinetics (PK) and pharmacodynamics (PD) using CYP2C9 and (S)-warfarin as an example. METHODS: Information on the in vitro metabolism of (S)-warfarin and genetic variation in CYP2C9 was incorporated into a mechanistic population-based PK-PD model. The influence of study design on the ability to detect significant differences in PK (AUC(0-12 h)) and PD (AUEC(0-12 h) INR) between CYP2C9 genotypes was investigated. RESULTS: A study size of 90 (based on the natural abundance of genotypes and uniform dosage) was required to achieve 80% power to discriminate the PK of (S)-warfarin between wild type (*1/*1) and the combination of all other genotypes. About 250 subjects were needed to detect a difference in anticoagulant response. The power to detect differences between specific genotypes was much lower. Analysis of experimental comparisons of the PK or PD between wild-type and other individual genotypes indicated that only 21% of cases (20 of 95 comparisons within 11 PD and four PK-PD studies) reported statistically significant differences. This was similar to the percentage expected from our simulations (20%, chi(2) test, P = 0.80). Simulations of studies enriched with specific genotypes indicated that only three and five subjects were required to detect differences in PK and PD between wild type and the *3/*3 genotype, respectively. CONCLUSION: The utilization of prior information (including in vivo enzymology) in clinical trial simulations can guide the design of subsequent in vivo studies of the impact of genetic polymorphisms, and may help to avoid costly, inconclusive outcomes.},
affiliation = {Academic Unit of Clinical Pharmacology, University of Sheffield, Royal Hallamshire Hospital, Sheffield, UK.},
number = {1},
pages = {14--26},
volume = {64},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Models: Biological, Blood Coagulation, Warfarin, Polymorphism: Genetic, Genotype, Anticoagulants, Humans, Aryl Hydrocarbon Hydroxylases},
date-added = {2010-01-10 13:26:58 +0100},
date-modified = {2010-01-10 13:26:58 +0100},
doi = {10.1111/j.1365-2125.2007.02850.x},
pii = {BCP2850},
pmid = {17298479},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dickinson-2007-Br%20J%20Clin%20Pharmacol_The%20use%20of%20mechanist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2338},
rating = {0}
}
@article{Cole:2005p1696,
author = {Stephen R Cole and Miguel A Hern{\'a}n and Joseph B Margolick and Mardge H Cohen and James M Robins},
journal = {Am J Epidemiol},
title = {Marginal structural models for estimating the effect of highly active antiretroviral therapy initiation on CD4 cell count},
abstract = {The effect of highly active antiretroviral therapy (HAART) on the evolution of CD4-positive T-lymphocyte (CD4 cell) count among human immunodeficiency virus (HIV)-positive participants was estimated using inverse probability-of-treatment-and-censoring (IPTC)-weighted estimation of a marginal structural model. Of 1,763 eligible participants from two US cohort studies followed between 1996 and 2002, 60 percent initiated HAART. The IPTC-weighted estimate of the difference in mean CD4 cell count at 1 year among participants continuously treated versus those never treated was 71 cells/mm3 (95% confidence interval: 47.5, 94.6), which agrees with the reported results of randomized experiments. The corresponding estimate from a standard generalized estimating equations regression model that included baseline and most recent CD4 cell count and HIV type 1 RNA viral load as regressors was 26 cells/mm3 (95% confidence interval: 17.7, 34.3). These results indicate that nonrandomized studies of HIV treatment need to be analyzed with methods (e.g., IPTC-weighted estimation) that, in contrast to standard methods, appropriately adjust for time-varying covariates that are simultaneously confounders and intermediate variables. The 1-year estimate of 71 cells/mm3 was followed by an estimated continued increase of 29 cells/mm3 per year (estimated effect at 6 years: 216 cells/mm3), providing evidence that the large short-term effect found in randomized experiments persists and continues to improve over 6 years.},
affiliation = {Department of Epidemiology, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD 21205, USA. scole@jhsph.edu},
number = {5},
pages = {471--8},
volume = {162},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Antiretroviral Therapy: Highly Active, Causality, CD4 Lymphocyte Count, Adult, Confounding Factors (Epidemiology), Models: Statistical, Disease Progression, Female, Male, Bias (Epidemiology), Humans, Acquired Immunodeficiency Syndrome},
date-added = {2010-01-09 18:51:40 +0100},
date-modified = {2010-01-09 18:51:40 +0100},
doi = {10.1093/aje/kwi216},
pii = {kwi216},
pmid = {16076835},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cole-2005-Am%20J%20Epidemiol_Marginal%20structural.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1696},
rating = {0}
}
@article{Provost:2006p8591,
author = {Beth Provost and Sandra Heimerl and Cate McClain and Nae-Hwa Kim and Brian R Lopez and Piyadasa Kodituwakku},
journal = {Pediatr Phys Ther},
title = {Concurrent validity of the Bayley Scales of Infant Development II Motor Scale and the Peabody Developmental Motor Scales-2 in children with developmental delays},
abstract = {PURPOSE: The purpose of this study was to explore concurrent validity of the age equivalent and standard scores of the Bayley Scales of Infant Development II (BSID II) Motor Scale and the Peabody Developmental Motor Scales-2 (PDMS-2), including correlations and clinical agreement between the scores of the two tests. METHODS: One hundred ten children aged three to 41 months who were referred to an early childhood evaluation program because of concerns about their development were administered both the BSID II Motor Scale and the PDMS-2 as part of their developmental evaluations. RESULTS: The correlation coefficients were high to very high for age-equivalent scores, and the Locomotion Subscale had the closest agreement with the BSID II Motor Scale age equivalent. The correlation coefficients were moderate to high for standard scores, and there was only slight agreement between the tests for standard score categories. More than 75% of the 70 children in this study whose scores on the BSID II supported eligibility for services based on scores at least two SD below the mean of the test would not have qualified for services if the PDMS-2 standard scores alone were used to assess their eligibility. Approximately half the children who showed appropriate total motor performance on the PDMS-2 were classified as delayed on the BSID II Motor Scale. CONCLUSIONS: The study supports concurrent validity of the tests only for certain subscale age-equivalent scores, particularly the BSID II Motor Scale with the PDMS-2 Locomotion Subscale. The current findings suggest that the standard scores show poor agreement and have low concurrent validity. There are marked differences in the standard scores of the two tests that may affect a child's eligibility for services in some states, and therapists should be cautious when making clinical decisions based solely on standard scores of one test.},
affiliation = {University of New Mexico, Health Sciences Center, Department of Orthopaedics, Physical Therapy Program, Albuquerque, New Mexico 87131, USA. eprovost@salud.unm.edu},
number = {3},
pages = {149--56},
volume = {16},
year = {2006},
month = {Oct},
language = {eng},
date-added = {2010-03-22 00:12:14 +0100},
date-modified = {2010-03-22 00:12:14 +0100},
doi = {10.1097/01.PEP.0000136005.41585.FE},
pii = {00001577-200401630-00003},
pmid = {17057542},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Provost-2006-Pediatr%20Phys%20Ther_Concurrent%20validity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8591},
rating = {0}
}
@article{Adema:1989,
author = {Jos J Adema and Wim J van der Linden},
journal = {Journal of Educational Statistics},
title = {Algorithms for computerized test construction using classical item parameters},
number = {3},
pages = {279--290},
volume = {14},
year = {1989},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 19:33:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Adema-1989-Journal%20of%20Educational%20Statistics_Algorithms%20for%20compu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1999},
rating = {0}
}
@article{deLosCampos:2007p388,
author = {Gustavo de Los Campos and Daniel Gianola},
journal = {Genet Sel Evol},
title = {Factor analysis models for structuring covariance matrices of additive genetic effects: a Bayesian implementation},
abstract = {Multivariate linear models are increasingly important in quantitative genetics. In high dimensional specifications, factor analysis (FA) may provide an avenue for structuring (co)variance matrices, thus reducing the number of parameters needed for describing (co)dispersion. We describe how FA can be used to model genetic effects in the context of a multivariate linear mixed model. An orthogonal common factor structure is used to model genetic effects under Gaussian assumption, so that the marginal likelihood is multivariate normal with a structured genetic (co)variance matrix. Under standard prior assumptions, all fully conditional distributions have closed form, and samples from the joint posterior distribution can be obtained via Gibbs sampling. The model and the algorithm developed for its Bayesian implementation were used to describe five repeated records of milk yield in dairy cattle, and a one common FA model was compared with a standard multiple trait model. The Bayesian Information Criterion favored the FA model.},
affiliation = {Department of Animal Sciences, University of Wisconsin-Madison, WI 53706, USA. gdeloscampos@wisc.edu},
number = {5},
pages = {481--94},
volume = {39},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Cattle, Factor Analysis: Statistical, Bayes Theorem, Animals, Female, Dairying, Likelihood Functions, Lactation, Models: Genetic, Multivariate Analysis, Linear Models, Algorithms},
date-added = {2010-01-03 11:53:43 +0100},
date-modified = {2010-01-03 11:53:43 +0100},
doi = {10.1051/gse:20070016},
pii = {g06004},
pmid = {17897592},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p388},
rating = {0}
}
@article{Liu:2010p12123,
author = {X Liu and M Daniels},
title = {A New Algorithm for Simulating a Correlation Matrix Based on Parameter
Expansion and Re-parameterization},
abstract = {The correlation matrix (denoted by R) plays an important role in many statistical models. Unfortunately, sampling the correlation matrix in MCMC algorithms can be problematic. In addition to the positive definite constraint of covariance matrices, it has diagonal elements fixed at 1. In this paper, we propose an efficient two-stage parameter expanded re-parameterization and Metropolis-Hastings (PX-RPMH) algorithm for simulating R. The theory of the PX- RPMH algorithm and sufficient conditions to implement it are shown in detail. Using this algorithm, we draw all elements of R simultaneously by first drawing a covariance matrix from an inverse Wishart distribution, and then translating it back to a correlation matrix through a reduction function and accepting it based on a Metropolis-Hastings acceptance probability. This algorithm is illustrated using multivariate probit (MVP) models and multivariate regres- sion (MVR) models with a common correlation matrix across groups. A simulation study and a real data example are done to compare the performance of the PX-RPMH algorithm with those of other common algorithms. The results show that our algorithm is more efficient than other methods for sampling a correlation matrix.},
date-added = {2010-05-30 10:07:09 +0200},
date-modified = {2010-05-30 10:07:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu--_A%20New%20Algorithm%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12123},
rating = {0}
}
@article{Das:2010p14043,
author = {R N Das},
journal = {Quality Technology {\&} Quantitative Management},
title = {Regression Analysis for Correlated Data},
abstract = {Correlated data arise in many situations in health research. On the organismal level, there may be measurements on several tumors, both hands, all teeth, and so on. It is usually expected in such cases that the measurements on a given individual are more similar than those on different individuals. We have considered the regression analysis for sets of observations such that within each set observations having a autocorrelation structure, and any two observations between any two sets having a constant correlation coefficient, and variance of all observations are same. In general, the form of the correlation structure is known for a given situation of data set but parameters that are involved in the correlation structure are always unknown. Herein we have developed a robust method of estimating the best linear unbiased estimators of all regression parameters except the intercept, which is often unimportant. In this connection we have also developed a testing procedure for any set of linear hypotheses regarding the unknown regression coefficients. Confidence ellipsoid of a set of estimable functions of regression coefficients have been developed. Index of fit for the fitted regression equation has also been developed. An example with simulated data is given as an illustration of our developed method.},
number = {3},
pages = {263--277},
volume = {7},
year = {2010},
date-added = {2010-08-10 12:39:08 +0200},
date-modified = {2010-08-10 12:40:00 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Das-2010-Quality%20Technology%20&%20Quantitative%20Management_Regression%20Analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14043},
rating = {0}
}
@article{Martin:1977p10326,
author = {N G Martin and L J Eaves},
journal = {Heredity},
title = {The genetical analysis of covariance structure},
abstract = {The analysis of covariance structures (J{\"o}reskog, 1973) is adapted to the simultaneous maximum likelihood estimation of genetical and environmental factor loadings and specific variances. The goodness of fit is tested by chi square and standard errors of parameter estimates can be obtained. Any linear model used in univariate genetical analyses can be extended to the multivariate case. Most biological hypotheses about the relationships between variables can be specified by a variety of factor models. Individual parameters can be given fixed values or set to zero and hypotheses concerning the congruence of genetical and environmental correlations can be tested. The method is illustrated with published twin data on cognitive abilities.},
number = {1},
pages = {79--95},
volume = {38},
year = {1977},
month = {Feb},
language = {eng},
keywords = {Factor Analysis: Statistical, Genetic Variation, Phenotype, Mathematics, Models: Biological},
date-added = {2010-04-02 18:13:52 +0200},
date-modified = {2010-04-02 18:13:52 +0200},
pmid = {268313},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-1977-Heredity_The%20genetical%20analys.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10326},
rating = {0}
}
@article{Kim:2007p12872,
author = {Y Kim and H Kim},
journal = {Genomics {\&} Informatics},
title = {Application of Random Forests to Association Studies Using Mitochondrial Single Nucleotide Polymorphisms},
abstract = {In previous nuclear genomic association studies, Random Forests (RF), one of several up-to-date machine learning methods, has been used successfully to generate evidence of association of genetic polymorphisms with diseases or other phenotypes. Compared with traditional statistical analytic methods, such as chi-square tests or logistic regression models, the RF method has advantages in handling large numbers of predictor variables and examining gene-gene interactions without a specific model. Here, we applied the RF method to find the association between mitochondrial single nucleotide polymorphisms (mtSNPs) and diabetes risk. The results from a chi-square test validated the usage of RF for association studies using mtDNA. Indexes of important variables such as the Gini index and mean decrease in accuracy index performed well compared with chi-square tests in favor of finding mtSNPs associated with a real disease example, type 2 diabetes.},
number = {4},
pages = {168--173},
volume = {5},
year = {2007},
date-added = {2010-06-24 12:55:10 +0200},
date-modified = {2010-07-29 19:27:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kim-2007-Genomics%20&%20Informatics_Application%20of%20Rando.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12872},
read = {Yes},
rating = {4}
}
@article{Jenny:2007p13553,
author = {B Jenny and N V Kelso},
journal = {SoC Bulletin},
title = {Designing Maps for the Colour-Vision Impaired},
abstract = {To design maps that are readable by the colour-vision impaired but are also appealing to those with normal colour vision successfully, cartographers need to know how the colour-vision impaired person perceives colour and which colour combinations become confused. In this article, we concentrate on red-green colour confusion, which is by far the most common form of colour-impaired vision, and suggest how maps can be designed to consider this user group. We also introduce Color Oracle (see http://colororacle.cartography.ch), a free application that allows the designer to see colours on the monitor as people with colour-impaired vision see them.},
pages = {9--12},
volume = {41},
year = {2007},
date-added = {2010-07-07 21:15:57 +0200},
date-modified = {2010-07-07 21:16:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jenny-2007-SoC%20Bulletin_Designing%20Maps%20for%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13553},
rating = {0}
}
@article{Miles:2003p7224,
author = {Jeremy Miles},
journal = {BMC Med Res Methodol},
title = {A framework for power analysis using a structural equation modelling procedure},
abstract = {BACKGROUND: This paper demonstrates how structural equation modelling (SEM) can be used as a tool to aid in carrying out power analyses. For many complex multivariate designs that are increasingly being employed, power analyses can be difficult to carry out, because the software available lacks sufficient flexibility. Satorra and Saris developed a method for estimating the power of the likelihood ratio test for structural equation models. Whilst the Satorra and Saris approach is familiar to researchers who use the structural equation modelling approach, it is less well known amongst other researchers. The SEM approach can be equivalent to other multivariate statistical tests, and therefore the Satorra and Saris approach to power analysis can be used. METHODS: The covariance matrix, along with a vector of means, relating to the alternative hypothesis is generated. This represents the hypothesised population effects. A model (representing the null hypothesis) is then tested in a structural equation model, using the population parameters as input. An analysis based on the chi-square of this model can provide estimates of the sample size required for different levels of power to reject the null hypothesis. CONCLUSIONS: The SEM based power analysis approach may prove useful for researchers designing research in the health and medical spheres.},
affiliation = {Department of Health Sciences, University of York, Heslington, York, YO10 5DD, United Kingdom. jnvm1@york.ac.uk},
pages = {27},
volume = {3},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Chi-Square Distribution, Research Design, Analysis of Variance, Models: Statistical, Regression Analysis, Linear Models},
date-added = {2010-03-08 19:32:47 +0100},
date-modified = {2010-03-08 19:32:47 +0100},
doi = {10.1186/1471-2288-3-27},
pii = {1471-2288-3-27},
pmid = {14670092},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miles-2003-BMC%20Med%20Res%20Methodol_A%20framework%20for%20powe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7224},
rating = {0}
}
@article{Bohanec:2000p1847,
author = {M Bohanec and Blaz Zupan and V Rajkovic},
journal = {Int J Med Inform},
title = {Applications of qualitative multi-attribute decision models in health care},
abstract = {Hierarchical decision models are a general decision support methodology aimed at the classification or evaluation of options that occur in decision-making processes. They are also important for the analysis, simulation and explanation of options. Decision models are typically developed through the decomposition of complex decision problems into smaller and less complex subproblems; the result of such decomposition is a hierarchical structure that consists of attributes and utility functions. This article presents an approach to the development and application of qualitative hierarchical decision models that is based on DEX, an expert system shell for multi-attribute decision support. The distinguishing characteristics of DEX are the use of qualitative (symbolic) attributes, and 'if-then' decision rules. Also, DEX provides a number of methods for the analysis of models and options, such as selective explanation and what-if analysis. We demonstrate the applicability and flexibility of the approach presenting four real-life applications of DEX in health care: assessment of breast cancer risk, assessment of basic living activities in community nursing, risk assessment in diabetic foot care, and technical analysis of radiogram errors. In particular, we highlight and justify the importance of knowledge presentation and option analysis methods for practical decision-making. We further show that, using a recently developed data mining method called HINT, such hierarchical decision models can be discovered from retrospective patient data.},
affiliation = {Jozef Stefan Institute, Jamova 39, SI-1000, Ljubljana, Slovenia.},
pages = {191--205},
volume = {58-59},
year = {2000},
month = {Sep},
language = {eng},
keywords = {Diabetic Foot, Female, Risk Assessment, Radiography: Thoracic, Delivery of Health Care, Humans, Decision Trees, Nursing Assessment, Breast Neoplasms},
date-added = {2010-01-10 10:48:53 +0100},
date-modified = {2010-07-29 20:46:31 +0200},
pii = {S1386505600000873},
pmid = {10978921},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bohanec-2000-Int%20J%20Med%20Inform_Applications%20of%20qual.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1847},
rating = {0}
}
@article{Cramer:1991p5515,
author = {D Cramer},
journal = {Br J Med Psychol},
title = {Type A behaviour pattern, extraversion, neuroticism and psychological distress},
abstract = {The factorial structure of a nine-item Framingham Type A Scale, the 30-item General Health Questionnaire, the 57-item Eysenck Personality Inventory and a 20-item checklist of predominantly physical symptoms was examined in a nationally representative sample of 3065 women and 2520 men. For both women and men, the six principal components extracted from the 116 items and orthogonally rotated clearly corresponded to the six variables of psychological distress, neuroticism, symptoms, extraversion, the Lie scale and the Type A behaviour pattern. While Type A was positively correlated with neuroticism, psychological distress, extraversion and symptoms, there was no support for the idea that it could be more parsimoniously subsumed under these variables. Type A also showed a significant but very small positive association with self-reported coronary heart disease in men, although the correlations between heart disease and psychological distress, neuroticism and symptoms were more positive.},
affiliation = {Department of Social Sciences, Loughborough University of Technology, Leicestershire, UK.},
pages = {73--83},
volume = {64 ( Pt 1)},
year = {1991},
month = {Mar},
language = {eng},
keywords = {Extraversion (Psychology), Sick Role, Female, Type A Personality, Middle Aged, Coronary Disease, Adult, Personality Tests, Psychophysiologic Disorders, Stress: Psychological, Humans, Risk Factors, Male, Psychometrics, Neurotic Disorders},
date-added = {2010-02-12 14:59:41 +0100},
date-modified = {2010-02-12 14:59:41 +0100},
pmid = {2043507},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5515},
rating = {0}
}
@article{Fois:2010p10930,
author = {Alberto Fois},
journal = {Ital J Pediatr},
title = {Infantile spasms: review of the literature and personal experience},
abstract = {ABSTRACT: This epileptic disorder has become a classic topic for neuropediatricians and the interest is documented by the large number of publications on this subject.The relative frequency among the epileptic syndromes is an another reason why not only neuropediatricians but also general pediatricians must be fully informed about diagnostic, clinical, imaging and genetic aspects.Early diagnosis is of paramount importance in order to obtain even complete results in patients with so called idiopathic situations. A number of problems are still to be solved. There is no agreement on the type and the schedule of treatment. A common denominator about this problem is not jet available even if some advances in this regard have been accomplished. Of paramount importance is an accurate clinical and laboratory examination as a prerequisite regarding prognosis and results of therapy in every single case.However, even if more than 170 years have elapsed since the first communication of dr. West on the peculiar syndrome that his child was suffering of, the interest of scientists on this subject has now been enriched and rewarded.},
affiliation = {Institute of Clinical Pediatrics, University of Siena, Siena, Italy. ftnp@libero.it.},
number = {1},
pages = {15},
volume = {36},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-13 16:24:41 +0200},
date-modified = {2010-04-13 16:24:41 +0200},
doi = {10.1186/1824-7288-36-15},
pii = {1824-7288-36-15},
pmid = {20181122},
url = {http://www.ijponline.net/content/36/1/15},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fois-2010-Ital%20J%20Pediatr_Infantile%20spasms%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10930},
rating = {0}
}
@article{Morton-Williams:1984,
author = {J Morton-Williams and W Sykes},
journal = {Journal of the Market Research Society},
title = {The use of interaction coding and follow-up interviewers to investigate the comprehension of survey questions},
abstract = {This paper was based on findings from a research programme, funded by the ESRC and instituted at the Survey Methods Centre at SCPR under the directorship of the late Professor Gerald Hoinville. Building on the work of researchers in a number of diverse fields, the programme of research sought to 'lay bare' aspects of the survey process which are normally concealed: namely the interactions that take place between interviewers and respondents in the field. The main tool which was developed to assist in this was a classification of interviewer and respondent behaviour, applied in a systematic way to tape-recordings of interviews taking place in the field. For the purposes of this paper, we selected codes which we felt were indicative of problems with the administration or answering of survey questions (e.g. requests for clarification, questions misread), and attempted to identify the items in a survey which seemed persistently to create difficulties of one kind or another. Clarification of the nature of these difficulties was sought using an approach developed in the UK by Bill Belson. Semi-structured interviews were carried out with respondents to the original survey exploring - for each 'problem' item -their understanding of the question, the process by which they had arrived at their answer, their motivation to respond and their views as to the 'accuracy' of their response. The methods we employed now form part of a well-recognised battery of approaches which fall under the loose rubric of cognitive techniques. At the time - in the UK at least - we were breaking new ground and this is all too evident in our rather laborious introductory sections. Nowadays a brief reference to behaviour coding and retrospective 'think aloud' cognitive interviews would do away with most of the first few pages! Whatever the intrinsic value of the contents of this paper, we believe that it contributed to the development of current interest in, and application of more deeply probing methods for developing and testing survey questions. Probably the most famous of all surveys - the Census - is currently being rehauled using ~uch methods. Our re-reading of the paper reminds us only too vividly of the sense of excitement (and occasional despair) with which we approached the whole project. Most remarkable to recall is the opportunity which was given to us to undertake a labour intensive, exploratory piece of work. And to follow our interest without commitment to a specific output or 'useful' application beyond the reporting of our findings.},
pages = {109--127},
volume = {26},
year = {1984},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p943},
rating = {0}
}
@article{Hughes:2006p5439,
author = {Alicia A Hughes and Richard G Heimberg and Meredith E Coles and Brandon E Gibb and Michael R Liebowitz and Franklin R Schneier},
journal = {Behaviour Research and Therapy},
title = {Relations of the factors of the tripartite model of anxiety and depression to types of social anxiety},
abstract = {Our primary goal was to examine the relations of the specific components of the tripartite model of anxiety and depression [Clark, L. A., Watson, D. (1991). Tripartite model of anxiety and depression: Psychometric evidence and taxonomic implications. Journal of Abnormal Psychology, 100, 316-336] to two types of social anxiety (social interaction anxiety and performance anxiety) in 148 individuals with social phobia. In line with previous research, overall social anxiety was more closely related to the anhedonic depression (AD) or low positive affect factor of the tripartite model than to the physiological hyerarousal factor, controlling for general distress. However, as hypothesized, performance anxiety was more closely associated with the physiological hyerarousal factor, whereas social interaction anxiety was more closely associated with the AD or low positive affect factor. We also examined the convergent and discriminant validity of the Mood and Anxiety Symptom Questionnaire (MASQ; [Watson, D., Clark, L. A. (1991). The mood and anxiety symptom questionnaire. Unpublished manuscript, University of Iowa City]). Intercorrelations of the MASQ subscales were as expected, but correlations with measures of social anxiety, nonsocial anxiety, and depression provided only modest support for convergent and discriminant validity. Findings from this study provide a more detailed account of the specific components of the tripartite model that characterize the diversity of symptoms subsumed by social phobia.},
affiliation = {Department of Psychology, Temple University, Weiss Hall, 1701 North 13th Street, Philadelphia, Pennsylvania 19122-6085, USA.},
number = {11},
pages = {1629--41},
volume = {44},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Psychometrics, Anxiety, Models: Psychological, Depression, Humans, Male, Phobic Disorders, Psychiatric Status Rating Scales, Female, Reproducibility of Results, Interpersonal Relations, Adult},
date-added = {2010-02-11 17:23:52 +0100},
date-modified = {2010-07-29 19:18:50 +0200},
doi = {10.1016/j.brat.2005.10.015},
pii = {S0005-7967(05)00266-4},
pmid = {16457777},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5439},
rating = {0}
}
@article{Lou:2006p6787,
author = {Xiang-Yang Lou and Mark C K Yang},
journal = {Genetica},
title = {Estimating effects of a single gene and polygenes on quantitative traits from a diallel design},
abstract = {A genetic model is developed with additive and dominance effects of a single gene and polygenes as well as general and specific reciprocal effects for the progeny from a diallel mating design. The methods of ANOVA, minimum norm quadratic unbiased estimation (MINQUE), restricted maximum likelihood estimation (REML), and maximum likelihood estimation (ML) are suggested for estimating variance components, and the methods of generalized least squares (GLS) and ordinary least squares (OLS) for fixed effects, while best linear unbiased prediction, linear unbiased prediction (LUP), and adjusted unbiased prediction are suggested for analyzing random effects. Monte Carlo simulations were conducted to evaluate the unbiasedness and efficiency of statistical methods involving two diallel designs with commonly used sample sizes, 6 and 8 parents, with no and missing crosses, respectively. Simulation results show that GLS and OLS are almost equally efficient for estimation of fixed effects, while MINQUE (1) and REML are better estimators of the variance components and LUP is most practical method for prediction of random effects. Data from a Drosophila melanogaster experiment (Gilbert 1985a, Theor appl Genet 69:625-629) were used as a working example to demonstrate the statistical analysis. The new methodology is also applicable to screening candidate gene(s) and to other mating designs with multiple parents, such as nested (NC Design I) and factorial (NC Design II) designs. Moreover, this methodology can serve as a guide to develop new methods for detecting indiscernible major genes and mapping quantitative trait loci based on mixture distribution theory. The computer program for the methods suggested in this article is freely available from the authors.},
affiliation = {Department of Psychiatric Medicine, University of Virginia, 1670 Discovery Dr., Suite 110, Charlottesville, VA 22911-5844, USA. XL5N@virginia.edu},
number = {1-3},
pages = {471--84},
volume = {128},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Drosophila Proteins, Female, Alleles, Male, Drosophila melanogaster, Models: Genetic, Carboxylesterase, Biometry, Quantitative Trait: Heritable, Monte Carlo Method, Likelihood Functions, Genes: Insect, Animals},
date-added = {2010-03-05 22:25:33 +0100},
date-modified = {2010-07-29 19:27:08 +0200},
doi = {10.1007/s10709-006-7853-y},
pmid = {17028974},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6787},
rating = {0}
}
@article{Murphy:2003p12286,
author = {Fionnuala C Murphy and Ian Nimmo-Smith and Andrew D Lawrence},
journal = {Cogn Affect Behav Neurosci},
title = {Functional neuroanatomy of emotions: a meta-analysis},
abstract = {The application of functional neuroimaging to the study of human emotion has yielded valuable data; however, the conclusions that may be drawn from any one study are limited. We applied novel statistical techniques to the meta-analysis of 106 PET and fMRI studies of human emotion and tested predictions made by key neuroscientific models. The results demonstrated partial support for asymmetry accounts. Greater left-sided activity was observed for approach emotions, whereas neural activity associated with negative/withdrawal emotions was symmetrical. Support was also found for affect program emotion accounts. The activation distributions associated with fear, disgust, and anger differed significantly. These emotions were most consistently associated in activity in regions associated with selective processing deficits when damaged: the amygdala, the insula and globus pallidus, and the lateral orbitofrontal cortex, respectively. In contrast, the distributions for happiness and sadness did not differ. These findings are considered in the context of conceptualizations of the neural correlates of human emotion.},
affiliation = {MRC Cognition and Brain Sciences Unit, Cambridge, England. fionnuala.murphy@mrc-cbu.cam.ac.uk},
number = {3},
pages = {207--33},
volume = {3},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Models: Neurological, Humans, Tomography: Emission-Computed, Male, Dominance: Cerebral, Magnetic Resonance Imaging, Emotions, Neuroanatomy, Brain, Oxygen Radioisotopes, Brain Mapping, Female},
date-added = {2010-06-09 20:13:34 +0200},
date-modified = {2010-06-09 20:13:34 +0200},
pmid = {14672157},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Murphy-2003-Cogn%20Affect%20Behav%20Neurosci_Functional%20neuroanat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12286},
rating = {0}
}
@article{Levenstien:2003p13192,
author = {Mark A Levenstien and Yaning Yang and J{\"u}rg Ott},
journal = {BMC Bioinformatics},
title = {Statistical significance for hierarchical clustering in genetic association and microarray expression studies},
abstract = {BACKGROUND: With the increasing amount of data generated in molecular genetics laboratories, it is often difficult to make sense of results because of the vast number of different outcomes or variables studied. Examples include expression levels for large numbers of genes and haplotypes at large numbers of loci. It is then natural to group observations into smaller numbers of classes that allow for an easier overview and interpretation of the data. This grouping is often carried out in multiple steps with the aid of hierarchical cluster analysis, each step leading to a smaller number of classes by combining similar observations or classes. At each step, either implicitly or explicitly, researchers tend to interpret results and eventually focus on that set of classes providing the "best" (most significant) result. While this approach makes sense, the overall statistical significance of the experiment must include the clustering process, which modifies the grouping structure of the data and often removes variation. RESULTS: For hierarchically clustered data, we propose considering the strongest result or, equivalently, the smallest p-value as the experiment-wise statistic of interest and evaluating its significance level for a global assessment of statistical significance. We apply our approach to datasets from haplotype association and microarray expression studies where hierarchical clustering has been used. CONCLUSION: In all of the cases we examine, we find that relying on one set of classes in the course of clustering leads to significance levels that are too small when compared with the significance level associated with an overall statistic that incorporates the process of clustering. In other words, relying on one step of clustering may furnish a formally significant result while the overall experiment is not significant.},
affiliation = {Laboratory of Statistical Genetics, Rockefeller University, New York, NY 10021, United States. markl@linkage.rockefeller.edu},
pages = {62},
volume = {4},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Humans, Confidence Intervals, Linkage Disequilibrium, Oligonucleotide Array Sequence Analysis, Gene Expression Regulation: Neoplastic, Genetic Predisposition to Disease, Models: Statistical, Haplotypes, Lymphoma, Cluster Analysis, Substance-Related Disorders, Lung Neoplasms, Gene Expression Profiling},
date-added = {2010-07-01 15:26:55 +0200},
date-modified = {2010-07-01 15:26:56 +0200},
doi = {10.1186/1471-2105-4-62},
pii = {1471-2105-4-62},
pmid = {14667254},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levenstien-2003-BMC%20Bioinformatics_Statistical%20signific.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13192},
rating = {0}
}
@article{Flint:2007p10386,
author = {Jonathan Flint and Marcus R Munaf{\`o}},
journal = {Psychol Med},
title = {The endophenotype concept in psychiatric genetics},
abstract = {The idea that some phenotypes bear a closer relationship to the biological processes that give rise to psychiatric illness than diagnostic categories has attracted considerable interest. Much effort has been devoted to finding such endophenotypes, partly because it is believed that the genetic basis of endophenotypes will be easier to analyse than that of psychiatric disease. This belief depends in part on the assumption that the effect sizes of genetic loci contributing to endophenotypes are larger than those contributing to disease susceptibility, hence increasing the chance that genetic linkage and association tests will detect them. We examine this assumption by applying meta-analytical techniques to genetic association studies of endophenotypes. We find that the genetic effect sizes of the loci examined to date are no larger than those reported for other phenotypes. A review of the genetic architecture of traits in model organisms also provides no support for the view that the effect sizes of loci contributing to phenotypes closer to the biological basis of disease is any larger than those contributing to disease itself. While endophenotype measures may afford greater reliability, it should not be assumed that they will also demonstrate simpler genetic architecture.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK.},
number = {2},
pages = {163--80},
volume = {37},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Models: Genetic, Psychotic Disorders, Mental Disorders, Humans, Psychiatry, Genotype, Phenotype, Models: Psychological, Catechol O-Methyltransferase},
date-added = {2010-04-07 10:54:02 +0200},
date-modified = {2010-04-07 10:54:11 +0200},
doi = {10.1017/S0033291706008750},
pii = {S0033291706008750},
pmid = {16978446},
url = {http://journals.cambridge.org/action/displayAbstract?fromPage=online&aid=658028},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Flint-2007-Psychol%20Med_The%20endophenotype%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10386},
read = {Yes},
rating = {4}
}
@article{Stuger:2006,
author = {H P St{\"u}ger},
journal = {Austrian Journal of Statistics},
title = {Asymmetric Loss Functions and Sample Size Determination: A Bayesian Approach},
number = {1},
pages = {57--66},
volume = {35},
year = {2006},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/St%C3%BCger-2006-Austrian%20Journal%20of%20Statistics_Asymmetric%20Loss%20Func.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2151},
rating = {0}
}
@article{Tennant:2000p5904,
author = {A Tennant},
journal = {British Medical Bulletin},
title = {Measuring outcome},
abstract = {In the context of health and illness, outcome is usually defined as the extent to which goals are achieved. It is necessary to understand: (i) the conceptual basis of the consequences of stroke; (ii) the context of measurement; and (iii) the calibre of the instruments available. In 1980, the World Health Organization provided an appropriate conceptual framework. The location, for example in-patient or out- patient, must be considered; as should the professional mix of the service; the time since onset and whether or not the setting is routine clinical practice or research. For the calibre of the measuring instruments psychometric studies report on reliability and validity. Other limitations and omissions in current measurement practice are being addressed through Item Response Theory. In clinical practice, current use of outcome measures is limited but it would seem that, by default at least, a core set of outcome measures is emerging.},
affiliation = {Rheumatology and Rehabilitation Research Unit, School of Medicine, University of Leeds, Leeds, },
number = {2},
pages = {287--295},
volume = {56},
year = {2000},
date-added = {2010-02-18 23:06:53 +0100},
date-modified = {2010-02-18 23:07:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tennant-2000-British%20Medical%20Bulletin_Measuring%20outcome.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5904},
rating = {0}
}
@article{Hamidovic:2010p7659,
author = {Ajna Hamidovic and Andrea Dlugos and Abraham A Palmer and Harriet de Wit},
journal = {Behav Genet},
title = {Polymorphisms in dopamine transporter (SLC6A3) are associated with stimulant effects of d-amphetamine: an exploratory pharmacogenetic study using healthy volunteers},
abstract = {Individuals vary in their subjective responses to stimulant drugs, and these differences are believed to be partially genetic in origin. We evaluated associations between mood, cognitive and cardiovascular responses to d-amphetamine and four polymorphisms in the dopamine transporter (SLC6A3): rs460000, rs3756450, rs37022 and rs6869645. Healthy Caucasian male and female volunteers (N = 152) participated in a double-blind, crossover design study in which they received placebo, 10 and 20 mg of d-amphetamine. We measured self-reported rating of mood, performance on the Digit Symbol Substitution Task, blood pressure and heart rate. Individuals with the C/C genotype at rs460000 (N = 83) reported approximately twofold higher ratings of stimulation and euphoria relative to the A/A+A/C (N = 69) genotype group, at both the 10 and 20 mg doses. No other responses or SNPs showed significant effects. rs460000 is in perfect LD with rs463379 (CEU: D' = 1; r (2) = 1), which was not studied here, but has been associated with etiology of Attention Deficit Hyperactivity Disorder (ADHD). These findings suggest a pleiotropic effect of this polymorphic locus on both ADHD and sensitivity to the subjective effects of amphetamine.},
affiliation = {The University of Chicago, Chicago, IL, USA.},
number = {2},
pages = {255--61},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:33:23 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9331-7},
pmid = {20091113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamidovic-2010-Behav%20Genet_Polymorphisms%20in%20dop.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7659},
rating = {0}
}
@inproceedings{Seiffert:2006,
author = {U Seiffert and B Hammer and S Kaski and T Villmann},
journal = {Proceedings},
title = {Neural networks and machine learning in bioinformatics -- Theory and Applications},
year = {2006},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:44:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1142},
read = {Yes},
rating = {0}
}
@article{Fraley:2007p3596,
author = {C Fraley and A E Raftery},
journal = {Journal of Statistical Software},
title = {Model-based Methods of Classification: Using the mclust Software in Chemometrics},
abstract = {Due to recent advances in methods and software for model-based clustering, and to the interpretability of the results, clustering procedures based on probability models are increasingly preferred over heuristic methods. The clustering process estimates a model for the data that allows for overlapping clusters, producing a probabilistic clustering that quantifies the uncertainty of observations belonging to components of the mixture. The resulting clustering model can also be used for some other important problems in multi- variate analysis, including density estimation and discriminant analysis. Examples of the use of model-based clustering and classification techniques in chemometric studies include multivariate image analysis, magnetic resonance imaging, microarray image segmentation, statistical process control, and food authenticity. We review model-based clustering and related methods for density estimation and discriminant analysis, and show how the R package mclust can be applied in each instance.},
number = {6},
volume = {18},
year = {2007},
date-added = {2010-01-15 21:25:58 +0100},
date-modified = {2010-01-15 21:27:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fraley-2007-Journal%20of%20Statistical%20Software_Model-based%20Methods.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3596},
rating = {0}
}
@article{Jenkins:1997,
author = {R Jenkins and PE Bebbington and TS Brugha and M Farrell and B Gill and G Lewis and H Meltzer and M Petticrew},
journal = {Psychol Med},
title = {The National Psychiatric Morbidity surveys of Great Britain--strategy and methods},
number = {4},
pages = {765--774},
volume = {27},
year = {1997},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1092},
rating = {0}
}
@article{RotheramBorus:2009p5941,
author = {Mary Jane Rotheram-Borus and Dallas Swendeman and Gary Chovnick},
journal = {Annual review of clinical psychology},
title = {The past, present, and future of HIV prevention: integrating behavioral, biomedical, and structural intervention strategies for the next generation of HIV prevention},
abstract = {In the past 25 years, the field of HIV prevention research has been transformed repeatedly. Today, effective HIV prevention requires a combination of behavioral, biomedical, and structural intervention strategies. Risk of transmitting or acquiring HIV is reduced by consistent male- and female-condom use, reductions in concurrent and/or sequential sexual and needle-sharing partners, male circumcision, and treatment with antiretroviral medications. At least 144 behavioral prevention programs have been found effective in reducing HIV transmission acts; however, scale up of these programs has not occurred outside of the United States. A series of recent failures of HIV-prevention efficacy trials for biomedical innovations such as HIV vaccines, treating herpes simplex 2 and other sexually transmitted infections, and diaphragm and microbicide barriers highlights the need for behavioral strategies to accompany biomedical strategies. This challenges prevention researchers to reconceptualize how cost-effective, useful, realistic, and sustainable prevention programs will be designed, delivered, tested, and diffused. The next generation of HIV prevention science must draw from the successes of existing evidence-based interventions and the expertise of the market sector to integrate preventive innovations and behaviors into everyday routines.},
affiliation = {Semel Institute for Neuroscience and Human Behavior, University of California-Los Angeles, CA 90024-6521, USA. Rotheram@ucla.edu},
pages = {143--67},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Anti-Retroviral Agents, Circumcision: Male, Biomedical Enhancement, Forecasting, Male, Risk-Taking, Cost-Benefit Analysis, Prevalence, AIDS Vaccines, Integrative Medicine, HIV Infections, Evidence-Based Medicine, Incidence, Preventive Health Services, Humans, Condoms},
date-added = {2010-02-18 23:16:53 +0100},
date-modified = {2010-02-18 23:16:53 +0100},
doi = {10.1146/annurev.clinpsy.032408.153530},
pmid = {19327028},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rotheram-Borus-2009-Annual%20review%20of%20clinical%20psychology_The%20past%20present%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5941},
rating = {0}
}
@article{TayLim:2000p2434,
author = {B S H Tay-Lim},
title = {Generating Item Responses for Balance-Incomplete-Block (BIB) Design Using the Generalized Partial Credit Model (GPCM)},
affiliation = {Educational Testing Service},
year = {2000},
date-added = {2010-01-11 23:42:58 +0100},
date-modified = {2010-01-11 23:43:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tay-Lim-2000-_Generating%20Item%20Resp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2434},
read = {Yes},
rating = {0}
}
@article{KrespiBoothby:2010p8668,
author = {Marg{\"o}rit Rita Krespi Boothby and Jonathan Hill and Christopher Holcombe and Louise Clark and Jean Fisher and Peter Salmon},
journal = {Turk Psikiyatri Derg},
title = {[The Accuracy of HADS and GHQ-12 in Detecting Psychiatric Morbidity in Breast Cancer Patients.]},
abstract = {OBJECTIVE: Psychological problems should be identified in breast cancer patients proactively if doctors and nurses are to help them cope with the challenges imposed by their illness. Screening is one possible way to identify emotional problems proactively. Self-report questionnaires can be useful alternatives to carrying out psychiatric interviews during screening, because interviewing a large number of patients can be impractical due to limited resources. Two such measures are the Hospital Anxiety and Depression Scale (HADS) and the General Health Questionnaire-12 (GHQ-12). METHOD: The present study aimed to compare the performance of the GHQ-12, and the HADS Unitary Scale and its subscales to that of the Schedule for Affective Disorders and Schizophrenia (SADS) in identifying patients with affective disorders, including DSM major depression and generalized anxiety disorder. The sample consisted of 296 female breast cancer patients who underwent surgery for breast cancer a year previously. RESULTS: A small number of patients (11%) were identified as having DSM major depression or generalized anxiety disorder based on SADS score. The findings indicate that the optimal thresholds in detecting generalized anxiety disorder and DSM major depression with the HADS anxiety and depression subscales were >/= 8 and >/= 7, with 93.3% and 77.3% sensitivity, respectively, and 77.9% and 87.1% specificity, respectively. They also had a 21% and 36% positive predictive value, respectively. Using the HADS Unitary Scale the optimal threshold for detecting affective disorders was >/= 12, with 88.9% sensitivity, 80.7% specificity, and a 35% positive predictive value. In detecting affective disorders, the optimal threshold on the GHQ-12 was >/= 2, with 77.8% sensitivity and 70.2% specificity. This scale also had a 24% positive predictive value. In detecting generalized anxiety disorder and DSM major depression, the optimal thresholds on the GHQ-12 were >/= 2 and >/= 4 with 73.3% and 77.3% sensitivity, respectively, and 67.5% and 82% specificity, respectively. The scale also had 12% and 29% positive predictive values, respectively. CONCLUSION: The HADS Unitary Scale and its subscales were effective in identifying affective disorders. They can be used as screening measures in breast cancer patients. The GHQ-12 was less accurate in detecting affective disorders than the HADS, but it can also be used as a screening instrument to detect affective disorders, generalized anxiety disorder, and DSM major depression.},
number = {1},
pages = {49--59},
volume = {21},
year = {2010},
month = {Mar},
language = {tur},
date-added = {2010-03-22 11:59:33 +0100},
date-modified = {2010-03-22 11:59:33 +0100},
pii = {744},
pmid = {20204904},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8668},
rating = {0}
}
@article{Ahmed:2010p3959,
author = {Anthony O Ahmed and Bradley A Green and Michael S McCloskey and Mitchell E Berman},
journal = {J Psychiatr Res},
title = {Latent structure of intermittent explosive disorder in an epidemiological sample},
abstract = {Intermittent explosive disorder (IED) is characterized by distinct periods of impulsive aggression marked by assaultive acts or destruction of property. However, impulsive aggression is also a feature of other disorders, all of which are viewed in diagnostic nomenclature as qualitatively distinct from IED. This state of affairs is problematic for categorical models unless it is demonstrated empirically that IED-related impulsive aggression is qualitatively distinct from impulsive aggression observable in other axis I and II disorders. The current study addresses this question using taxometric methods to examine the latent structure of IED. Participants were respondents on the Collaborative Psychiatric Epidemiological Surveys, which obtained data on a range of disorders including intermittent explosive disorder (N=20,013) and a range of psychological variables. Indicator variables used were drawn from the survey items and submitted to select taxometric methods (MAMBAC and MAXEIG) to determine the relative fits of a taxonic versus dimensional model. The results of taxometric analyses provided support for a taxonic, rather than dimensional, structure for IED symptoms in the epidemiological sample. Taxon group membership was associated with treatment seeking, family history of anger attacks, lower age of onset of anger attacks, and male biological sex, providing strong support for the validity of the IED taxon.},
affiliation = {Department of Psychology, University of Southern Mississippi, 118 College Drive, {\#}5025 Hattiesburg, MS 39406, United States.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-17 11:59:24 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2009.12.004},
pii = {S0022-3956(09)00276-3},
pmid = {20064645},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ahmed-2010-J%20Psychiatr%20Res_Latent%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3959},
read = {Yes},
rating = {0}
}
@article{Staner:1998p9671,
author = {L Staner and J Mendlewicz},
journal = {Encephale},
title = {[Heredity and role of serotonin in aggressive impulsive behavior]},
abstract = {The idea that heredity could influence behaviour, including personality is very old. Until the early 1980s, the evidence for genetic influences on personality derived almost exclusively from twin studies. More recently, studies comparing twins raised together with those raised in different environment confirmed that about 40% of the observed personality variance can be attributable to genetic factors. Since complex behaviours, such as those underlying personality functioning, are likely to be influenced by many genes, a continuum of genetic risk underlying behavioural dimensions that extend from normal to abnormal behaviour has been hypothesized. Behaviours related to aggressive impulses regulation could delineate a biologically anchored model of dispositions to both normal and pathological functioning: these behaviours are identified in animal species where they are genetically transmitted, and a growing body of evidence suggests that disturbances in the regulation of aggressive impulses could belong to a behavioural dimension (disturbances of impulse control) linked to serotonin. Theorists involved in modelling personality according to psychobiologic basis agree with the idea of an inhibitory function of serotonin on impulsive behaviour and recognise that the way individuals control their impulses could underlie a basic psychobiological personality dimension. According to genotypes and to environmental factors, these serotonin mediated behaviours may be diversely expressed varying from minor personality peculiarities (characterised by impulsivity, hostility, irritability, psychopathic deviance, excessive violence or by more clear-cut personality dysfunctioning such as antisocial, borderline, narcissistic and histrionic personality traits or disorders) to major psychiatric disturbances (suicidal behaviour, overt aggressive behaviour, intermittent explosive disorder, pathological gambling, pyromania, bulimia and some type of substance or alcohol abuse). Finally, recent molecular genetic studies have demonstrated that genes encoding some key proteins involved in serotonin transmission could present some polymorphism in relation with impulsive-aggressive behaviours.},
affiliation = {FORENAP et Centre Hospitalier, Secteur VIII, Rouffach, France.},
number = {4},
pages = {355--64},
volume = {24},
year = {1998},
month = {Jan},
language = {fre},
keywords = {Impulsive Behavior, Humans, Personality Disorders, Genetic Predisposition to Disease, Serotonin, Twin Studies as Topic, Aggression, Risk Factors, Psychophysiology},
date-added = {2010-03-25 15:02:15 +0100},
date-modified = {2010-03-25 15:02:15 +0100},
pmid = {9809241},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9671},
rating = {0}
}
@article{Yen:2009p11974,
author = {S Yen and M T Shea and C A Sanislow and A E Skodol and C M Grilo and M O Edelen and R L Stout and L C Morey and M C Zanarini and J C Markowitz and T H McGlashan and M T Daversa and J G Gunderson},
journal = {Acta Psychiatrica Scandinavica},
title = {Personality traits as prospective predictors of suicide attempts},
abstract = {OBJECTIVE: To examine higher order personality factors of negative affectivity (NA) and disinhibition (DIS), as well as lower order facets of impulsivity, as prospective predictors of suicide attempts in a predominantly personality disordered sample. METHOD: Data were analyzed from 701 participants of the Collaborative Longitudinal Personality Disorders Study with available follow-up data for up to 7 years. Cox proportional hazards regression analyses was used to examine NA and DIS, and facets of impulsivity (e.g. urgency, lack of perseverance, lack of premeditation and sensation seeking), as prospective predictors of suicide attempts. RESULTS: NA, DIS and all facets of impulsivity except for sensation seeking were significant in univariate analyses. In multivariate models which included sex, childhood sexual abuse, course of major depressive disorder and substance use disorders, only NA and lack of premeditation remained significant in predicting suicide attempts. DIS and the remaining impulsivity facets were not significant. CONCLUSION: NA emerged as a stronger and more robust predictor of suicide attempts than DIS and impulsivity, and warrants greater attention in suicide risk assessment. Distinguishing between facets of impulsivity is important for clinical risk assessment.},
affiliation = {Department of Psychiatry and Human Behavior, Brown Medical School, Providence, RI 02906, USA. shirley_yen_phd@brown.edu},
number = {3},
pages = {222--9},
volume = {120},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Diagnostic and Statistical Manual of Mental Disorders, Follow-Up Studies, Substance-Related Disorders, Adaptation: Psychological, Personality Disorders, Humans, Male, Adult, Patient Acceptance of Health Care, Predictive Value of Tests, Comorbidity, Suicide: Attempted, Female, Impulse Control Disorders, Severity of Illness Index, Young Adult, Prospective Studies, Prevalence, Depressive Disorder: Major, Adolescent, Middle Aged},
date-added = {2010-05-23 17:18:57 +0200},
date-modified = {2010-05-23 17:18:58 +0200},
doi = {10.1111/j.1600-0447.2009.01366.x},
pii = {ACP1366},
pmid = {19298413},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11974},
rating = {0}
}
@article{Boulesteix:2009p4182,
author = {A-L Boulesteix and T Hothorn},
title = {Testing the additional predictive value of high-dimensional molecular data},
abstract = {While high-dimensional molecular data such as microarray gene expression data have been used for disease outcome prediction or diagnosis purposes for about ten years in biomedical research, the question of the additional predictive value of such data given that classical predictors are already available has long been under-considered in the bioinformatics literature.
We suggest an intuitive permutation-based testing procedure for assessing the additional predictive value of high-dimensional molecular data. Our method combines two well-known statistical tools: logistic regression and boosting re- gression. We give clear advice for the choice of the only method parameter (the number of boosting iterations). In simulations, our novel approach is found to have very good power in different settings, e.g. few strong predictors or many weak predictors. For illustrative purpose, it is applied to the two publicly avail- able cancer data sets. Our simple and computationally efficient approach can be used to globally assess the additional predictive power of a large number of can- didate predictors given that a few clinical covariates or a known prognostic index are already available.},
year = {2009},
date-added = {2010-01-21 07:50:36 +0100},
date-modified = {2010-01-21 07:51:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2009-_Testing%20the%20addition.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4182},
rating = {0}
}
@article{Gromping:2007p517,
author = {Ulrike Gr{\"o}mping},
journal = {The American Statistician},
title = {Estimators of Relative Importance in Linear Regression Based on Variance Decomposition},
abstract = {Assigning shares of ``relative importance'' to each of a set of regressors is one of the key goals of researchers applying linear regression, particularly in sciences that work with ob- servational data. Although the topic is quite old, advances in computational capabilities have led to increased applications of computer-intensive methods like averaging over orderings that enable a reasonable decomposition of the model variance. This article serves two purposes: to reconcile the large and somewhat fragmented body of recent literature on relative importance and to investigate the theoretical and empirical properties of the key competitors for decomposition of model variance.},
number = {2},
pages = {1--9},
volume = {61},
year = {2007},
date-added = {2010-01-03 13:12:15 +0100},
date-modified = {2010-01-03 13:14:48 +0100},
doi = {10.1198/000313007X188252},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gr%C3%B6mping-2007-The%20American%20Statistician_Estimators%20of%20Relati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p517},
rating = {0}
}
@article{DeMars:2004p2680,
author = {C E DeMars},
journal = {Applied Psychological Measurement},
title = {Type I Error Rates for Generalized Graded Unfolding Model Fit Indices},
abstract = {Type I error rates were examined for several fit indices available in GGUM2000: extensions of Infit, Outfit, Andrich's χ2, and the log-likelihood ratio χ2. Infit and Outfit had Type I error rates much lower than nominal α. Andrich's χ2 had Type I error rates much higher than nominal α, particularly for shorter tests or larger sample sizes. The log-likelihood χ2 had Type I error rates near or below nominal α for small samples or longer tests but had inflated error rates with large samples and shorter tests. For conditions in which the log-likelihood ratio χ2 did not perform well, alternative fit indices or modifications to these procedures should be considered in future studies.},
number = {1},
pages = {48--71},
volume = {28},
year = {2004},
date-added = {2010-01-13 09:56:20 +0100},
date-modified = {2010-07-29 19:16:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/DeMars-2004-Applied%20Psychological%20Measurement_Type%20I%20Error%20Rates%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2680},
rating = {0}
}
@article{Ruuttu:2006p5435,
author = {Titta Ruuttu and Mirjami Pelkonen and Matti Holi and Linnea Karlsson and Olli Kiviruusu and Hannele Heil{\"a} and Virpi Tuisku and Annamari Tuulio-Henriksson and Mauri Marttunen},
journal = {J Nerv Ment Dis},
title = {Psychometric properties of the defense style questionnaire (DSQ-40) in adolescents},
abstract = {This study examined the psychometric properties of the Defense Style Questionnaire (DSQ-40) in adolescents. Internal consistency, factor structure, and discriminant and concurrent validity of the DSQ-40 were studied in 211 adolescent psychiatric outpatients aged 13 to 19 years and 199 age-matched and sex-matched controls. Principal components analysis yielded four internally consistent components: mature, neurotic, image-distorting, and immature defense styles. The outpatients reported more immature, image-distorting, and neurotic styles and less mature style than did the controls, suggesting adequate discriminant validity. As a demonstration of convergent and concurrent validity, the severity of psychiatric symptoms assessed by the General Health Questionnaire and psychosocial adjustment assessed by the Global Assessment of Functioning Scale correlated theoretically meaningfully with the different defense styles. The DSQ-40 appears to be a reliable and valid instrument for adolescents.},
affiliation = {Department of Mental Health and Alcohol Research, National Public Health Institute, Helsinki, Finland.},
number = {2},
pages = {98--105},
volume = {194},
year = {2006},
month = {Feb},
language = {eng},
keywords = {Humans, Discriminant Analysis, Adult, Sex Factors, Adolescent Psychology, Psychiatric Status Rating Scales, Factor Analysis: Statistical, Male, Age Factors, Social Adjustment, Ambulatory Care, Reproducibility of Results, Personality Inventory, Depressive Disorder, Defense Mechanisms, Female, Adolescent, Questionnaires, Adaptation: Psychological, Psychometrics},
date-added = {2010-02-11 17:22:50 +0100},
date-modified = {2010-02-11 17:22:50 +0100},
doi = {10.1097/01.nmd.0000198141.88926.2e},
pii = {00005053-200602000-00005},
pmid = {16477187},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5435},
rating = {0}
}
@article{Greenspan:2004p2296,
author = {G Greenspan},
title = {HaploBlock Version 1.2 LD Mapping Supplement},
year = {2004},
date-added = {2010-01-10 12:10:35 +0100},
date-modified = {2010-01-10 12:10:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Greenspan-2004-_HaploBlock%20Version%201.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2296},
rating = {0}
}
@article{Anderson:2007p7287,
author = {John P Anderson and Troy L Holbrook},
journal = {Journal of Clinical Epidemiology},
title = {Quality of Well-being profiles followed paths of health status change at micro- and meso-levels in trauma patients},
abstract = {OBJECTIVE: The objective of this study is to analyze Quality of Well-being Scale scores and profiles tracing Trauma Recovery Project (TRP) patient scores over time. STUDY DESIGN AND SETTING: A total of 787 TRP patients had complete preinjury and injury day data. Of these 787, 574 patients were followed up 6 months after hospital release. Analyses include persons with head injury vs. long bone and pelvic injury. RESULTS: Paired t-tests found significant differences for scores between each measurement point. Means analyses found significant variation on first day of hospitalization vs. 6-month recovery scores by injury site--head worse off than long bone and pelvic injury at first, but becoming better off 6 months after release from hospital. These effects were traced to specific symptom/problem complexes and functional limitations. CONCLUSION: Examination of such profiles can add significant information about health implications not obvious from overall scores. The size and direction of such contributions to overall scores may be reliably traced over time.},
affiliation = {Health Measurement and Policy Project 0622, Division of Health Care Sciences, Department of Family and Preventive Medicine, School of Medicine, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0622, USA. jpa@ucsd.edu},
number = {3},
pages = {300--8},
volume = {60},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Craniocerebral Trauma, Quality of Life, Cost-Benefit Analysis, Prospective Studies, Mental Health, Health Status, Hospitalization, Female, Adult, Humans, Male, Wounds and Injuries, Bone and Bones, Treatment Outcome, Pelvis},
date-added = {2010-03-10 20:17:48 +0100},
date-modified = {2010-03-10 20:17:48 +0100},
doi = {10.1016/j.jclinepi.2006.06.003},
pii = {S0895-4356(06)00214-9},
pmid = {17292025},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Anderson-2007-Journal%20of%20Clinical%20Epidemiology_Quality%20of%20Well-bein.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7287},
rating = {0}
}
@article{AlKhalaf:2010p11510,
author = {Mohamad M Al Khalaf and Lukman Thalib and Suhail A R Doi},
journal = {Journal of Clinical Epidemiology},
title = {Combining heterogenous studies using the random-effects model is a mistake and leads to inconclusive meta-analyses},
affiliation = {Department of Medicine, Sabah Hospital, Kuwait.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:32:47 +0200},
date-modified = {2010-05-01 17:32:47 +0200},
doi = {10.1016/j.jclinepi.2010.01.009},
pii = {S0895-4356(10)00043-0},
pmid = {20409685},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Al%20Khalaf-2010-Journal%20of%20Clinical%20Epidemiology_Combining%20heterogeno-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11510},
rating = {0}
}
@article{Ozaki:2006p2664,
author = {K Ozaki and H Toyoda},
journal = {Behaviormetrika},
title = {A paired comparison IRT model using 3-value judgment: Estimation of item difficulty parameters prior to the administration of the test},
abstract = {Currently, test operation using Item Response Theory (IRT) requires test items to undergo parameter estimation using examinee data. Furthermore, after equating, the items may be included in an item pool that can be used for several tests. However, this test operation method contains the probability of item content leakage. Thus, estimating item parameters while keeping the item contents secret would be useful. In this study, to make such a situation possible, a model in which item parameters are estimated using a paired comparison from the perspective of the difficulty of items by a rater familiar with the field is proposed. The estimation accuracy of this model was confirmed in a simulation study, and the feasibility of its use in practical settings is demonstrated using actual data.},
number = {2},
pages = {131--147},
volume = {33},
year = {2006},
date-added = {2010-01-12 22:58:55 +0100},
date-modified = {2010-01-13 09:27:59 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ozaki-2006-Behaviormetrika_A%20paired%20comparison.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2664},
read = {Yes},
rating = {0}
}
@article{Martin:2002p6895,
author = {Neilson Martin and Jane Scourfield and Peter Mcguffin},
journal = {Br J Psychiatry},
title = {Observer effects and heritability of childhood attention-deficit hyperactivity disorder symptoms},
abstract = {BACKGROUND: Twin studies have found that childhood attention-deficit hyperactivity disorder (ADHD) has a strong genetic component. Estimates of heritability, the extent of non-additive genetic effects and of 'sibling contrast' effects vary between different studies. AIMS: To use multiple informants to assess the extent to which observer effects influence such estimates in an epidemiological sample of twins. METHOD: Questionnaire packs were sent to the families and teachers of twins aged 5-16 years in the Bro Taf region of South Wales. The twins were ascertained from community paediatric registers. RESULTS: Both parent- and teacher- rated data showed a high degree of heritability for ADHD measured as a symptom dimension, but the correlation between the two types of rater was modest. Bivariate analyses suggested that parent and teacher ratings reflect the effects of different genes. Self-report data from twins aged 11-16 years showed no evidence of genetic effects. CONCLUSIONS: Although ADHD is shown to be highly heritable by both parent- and teacher-rated data, the underlying genotypes may be substantially different. This has implications for study designs aiming to find genes that contribute to the disorder.},
affiliation = {Division of Psychological Medicine, University of Wales College of Medicine, Heath Park, Cardiff, UK.},
pages = {260--5},
volume = {180},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Regression Analysis, Female, Male, Statistics: Nonparametric, Attention Deficit Disorder with Hyperactivity, Humans, Adolescent, Child, Psychiatric Status Rating Scales, Twins: Monozygotic, Analysis of Variance, Questionnaires, Observer Variation, Pedigree, Child: Preschool, Twins: Dizygotic},
date-added = {2010-03-06 10:58:10 +0100},
date-modified = {2010-07-29 19:52:08 +0200},
pmid = {11872519},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-2002-Br%20J%20Psychiatry_Observer%20effects%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6895},
rating = {0}
}
@article{Fombonne:2004p6104,
author = {Eric Fombonne and Lisa Heavey and Liam Smeeth and Laura C Rodrigues and Claire Cook and Peter G Smith and Linyan Meng and Andrew J Hall},
journal = {BMC Public Health},
title = {Validation of the diagnosis of autism in general practitioner records},
abstract = {BACKGROUND: We report on the validity of the computerized diagnoses of autism in a large case-control study investigating the possible association between autism and the measles, mumps and rubella vaccine in the UK using the General Practitioner Research Database (GPRD). We examined anonymized copies of all relevant available clinical reports, including general practitioners' (GP) notes, consultant, speech therapy and educational psychologists reports, on 318 subjects born between 1973 and 1997 with a diagnosis of autism or a related disorder recorded in their electronic general practice record. METHODS: Data were abstracted to a case validation form allowing for the identification of developmental symptoms relevant to the diagnosis of pervasive developmental disorders (PDDs). Information on other background clinical and familial features was also abstracted. A subset of 50 notes was coded independently by 2 raters to derive reliability estimates for key clinical characteristics. RESULTS: For 294 subjects (92.5%) the diagnosis of PDD was confirmed after review of the records. Of these, 180 subjects (61.2%) fulfilled criteria for autistic disorder. The mean age at first recording of a PDD diagnosis in the GPRD database was 6.3 years (SD = 4.6). Consistent with previous estimates, the proportion of subjects experiencing regression in the course of their development was 19%. Inter-rater reliability for the presence of a PDD diagnosis was good (kappa =.73), and agreement on clinical features such as regression, age of parental recognition of first symptoms, language delay and presence of epilepsy was also good (kappas ranging from.56 to 1.0). CONCLUSIONS: This study provides evidence that the positive predictive value of a diagnosis of autism recorded in the GPRD is high.},
affiliation = {McGill University, Montreal Children's Hospital, 4018 St Catherine St West, Montreal, QC, Canada, H3Z 1P2. eric.fombonne@mcgill.ca},
pages = {5},
volume = {4},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Autistic Disorder, Public Health Informatics, Age of Onset, Male, Medical Records Systems: Computerized, Probability, Infant, Humans, Databases: Factual, Child Development Disorders: Pervasive, Diagnostic and Statistical Manual of Mental Disorders, Female, Infant: Newborn, Diagnosis: Differential, Great Britain, Family Practice, Case-Control Studies, Child: Preschool, Algorithms, Cohort Studies},
date-added = {2010-02-19 17:05:47 +0100},
date-modified = {2010-02-19 17:05:47 +0100},
doi = {10.1186/1471-2458-4-5},
pii = {1471-2458-4-5},
pmid = {15113435},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fombonne-2004-BMC%20Public%20Health_Validation%20of%20the%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6104},
rating = {0}
}
@article{Goldberg:1992p13837,
author = {L R Goldberg},
journal = {Psychol Assess},
title = {The development of markers of the Big-Five factor structure},
number = {1},
pages = {26--42},
volume = {4},
year = {1992},
date-added = {2010-07-29 17:18:21 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1992-Psychol%20Assess_The%20development%20of%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13837},
rating = {0}
}
@article{Anderson:2001p10065,
author = {M J Anderson},
journal = {Can. J. Fish. Aquat. Sci.},
title = {Permutation tests for univariate or multivariate analysis of variance and regression},
abstract = {The most appropriate strategy to be used to create a permutation distribution for tests of individual terms in complex experimental designs is currently unclear. There are often many possibilities, including restricted permutation or permutation of some form of residuals. This paper provides a summary of recent empirical and theoretical results concerning available methods and gives recommendations for their use in univariate and multivariate applications. The focus of the paper is on complex designs in analysis of variance and multiple regression (i.e., linear models). The assumption of exchangeability required for a permutation test is assured by random allocation of treatments to units in experimental work. For observational data, exchangeability is tantamount to the assumption of independent and identi- cally distributed errors under a null hypothesis. For partial regression, the method of permutation of residuals under a reduced model has been shown to provide the best test. For analysis of variance, one must first identify exchangeable units by considering expected mean squares. Then, one may generally produce either (i) an exact test by restricting permutations or (ii) an approximate test by permuting raw data or some form of residuals. The latter can provide a more powerful test in many situations.},
pages = {626--639},
volume = {58},
year = {2001},
date-added = {2010-03-31 20:17:37 +0200},
date-modified = {2010-03-31 20:18:49 +0200},
doi = {10.1139/cjfas-58-3-626},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Anderson-2001-Can.%20J.%20Fish.%20Aquat.%20Sci._Permutation%20tests%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10065},
rating = {5}
}
@article{Ashby:2006p12529,
author = {Deborah Ashby},
journal = {Stat Med},
title = {Bayesian statistics in medicine: a 25 year review},
abstract = {This review examines the state of Bayesian thinking as Statistics in Medicine was launched in 1982, reflecting particularly on its applicability and uses in medical research. It then looks at each subsequent five-year epoch, with a focus on papers appearing in Statistics in Medicine, putting these in the context of major developments in Bayesian thinking and computation with reference to important books, landmark meetings and seminal papers. It charts the growth of Bayesian statistics as it is applied to medicine and makes predictions for the future. From sparse beginnings, where Bayesian statistics was barely mentioned, Bayesian statistics has now permeated all the major areas of medical statistics, including clinical trials, epidemiology, meta-analyses and evidence synthesis, spatial modelling, longitudinal modelling, survival modelling, molecular genetics and decision-making in respect of new technologies.},
affiliation = {Wolfson Institute of Preventive Medicine, Barts and The London, Queen Mary's School of Medicine {\&} Dentistry, University of London, Charterhouse Square, London EC1M 6BQ, UK. d.ashby@qmul.ac.uk},
number = {21},
pages = {3589--631},
volume = {25},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Biometry, Bayes Theorem, Periodicals as Topic},
date-added = {2010-06-15 17:41:59 +0200},
date-modified = {2010-06-15 17:42:04 +0200},
doi = {10.1002/sim.2672},
pmid = {16947924},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ashby-2006-Stat%20Med_Bayesian%20statistics.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12529},
rating = {4}
}
@article{Caruso:2001a,
author = {J C Caruso and K Witkiewitz and A Belcourt-Dittloff and J Gottlieb},
journal = {Educational and Psychological Measurement},
title = {Reliability of scores from the Eysenck Personality Questionnaire: A Reliability Generalization (RG) study},
pages = {675--682},
volume = {61},
year = {2001},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2221},
rating = {0}
}
@article{Molenaar:2009p489,
author = {Peter C M Molenaar and John R Nesselroade},
journal = {Multivariate Behavioral Research},
title = {The Recoverability of P-technique Factor Analysis},
abstract = {It seems that just when we are about to lay P--technique factor analysis finally to rest as obsolete because of newer, more sophisticated multivariate time-series models using latent variables---dynamic factor models---it rears its head to inform us that an obituary may be premature. We present the results of some simulations demonstrating that even though it does not explicitly model lagged information, P--technique's ability to recover the parameters of underlying dynamic processes involving lagged relations among the manifest variables is apparently robust and accurate. An empirical example is presented using 103 days of affective mood self-ratings from a young pregnant woman. Implications of the simulation and empirical findings are briefly discussed.},
pages = {130--141},
volume = {44},
year = {2009},
date-added = {2010-01-03 12:46:36 +0100},
date-modified = {2010-01-03 12:50:48 +0100},
doi = {10.1080/00273170802620204},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Molenaar-2009-Multivariate%20Behavioral%20Research_The%20Recoverability%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p489},
rating = {0}
}
@article{Farmer:2008p13924,
author = {Richard F Farmer and Lewis R Goldberg},
journal = {Psychol Assess},
title = {Brain Modules, Personality Layers, Planes of Being, Spiral Structures, and the Equally Implausible Distinction between TCI-R "Temperament" and "Character" Scales: A Reply to Cloninger},
abstract = {In this reply we address comments by Cloninger (this issue) related to our report (Farmer {\&} Goldberg, this issue) on the psychometric properties of the revised Temperament and Character Inventory (TCI-R) and a short inventory derivative, the TCI-140. Even though Cloninger's psychobiological model has undergone substantial theoretical modifications, the relevance of these changes for the evaluation and use of the TCI-R remains unclear. Aspects of TCI-R assessment also appear to be theoretically and empirically incongruent with Cloninger's assertion that TCI-R personality domains are non-linear and dynamic in nature. Several other core assumptions from the psychobiological model, including this most recent iteration, are non-falsifiable, inconsistently supported, or have no apparent empirical basis. Although researchers using the TCI and TCI-R have frequently accepted the temperament/character distinction and associated theoretical ramifications, for example, we find little overall support for the differentiation of TCI-R domains into these two basic categories. The implications of these observations for TCI-R assessment are briefly discussed.},
affiliation = {Oregon Research Institute.},
number = {3},
pages = {300--304},
volume = {20},
year = {2008},
month = {Sep},
language = {ENG},
date-added = {2010-07-29 18:52:18 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
doi = {10.1037/a0012932},
pmid = {19727313},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Farmer-2008-Psychol%20Assess_Brain%20Modules%20Perso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13924},
rating = {4}
}
@article{Tanaka:1998p5512,
author = {E Tanaka and S Sakamoto and Y Ono and S Fujihara and T Kitamura},
journal = {J Soc Psychol},
title = {Hopelessness in a community population: factorial structure and psychosocial correlates},
abstract = {The factorial structure of the Beck Hopelessness Scale (BHS; A. T. Beck, A. Weissman, D. Lester, {\&} L. Trexler, 1974) was examined in a nonclinical sample (N = 154) in Japan, and the relationships between dimensions of hopelessness and psychosocial variables were analyzed. A semistructured interview was used, as well as a questionnaire consisting of the BHS, the Eysenck Personality Questionnaire (EPQ; H. J. Eysenck {\&} S. B. Eysenck, 1975), and the Parental Bonding Instrument (PBI; G. Parker, H. Tupling, {\&} L. B. Brown, 1979). A factor analysis with principal components solution after oblimin rotation yielded 2 factors--Doubt About a Hopeful Future (Factor 1) and Belief About a Hopeless Future (Factor 2). Significant, positive correlations were found between Factor 2 and (a) the number of emotional symptoms of depression in a 4-day depressive episode and (b) scores on the Neuroticism subscale of the EPQ. The Factor 1 score was significantly and negatively correlated with the Extraversion subscale of the EPQ and the Paternal Care subscale of the PBI.},
affiliation = {Department of Sociocultural Environmental Research, National Institute of Mental Health, Chiba, Japan. eriko.tanaka@nifty.ne.jp},
number = {5},
pages = {581--90},
volume = {138},
year = {1998},
month = {Oct},
language = {eng},
keywords = {Female, Middle Aged, Adult, Aged: 80 and over, Adolescent, Aged, Motivation, Reproducibility of Results, Humans, Social Environment, Personality Inventory, Social Adjustment, Male, Psychometrics},
date-added = {2010-02-12 14:59:20 +0100},
date-modified = {2010-02-12 14:59:20 +0100},
pmid = {9800522},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5512},
rating = {0}
}
@article{WellcomeTrustCaseControlConsortium:2007p5767,
author = {Wellcome Trust Case Control Consortium},
journal = {Nature},
title = {Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls},
abstract = {There is increasing evidence that genome-wide association (GWA) studies represent a powerful approach to the identification of genes involved in common human diseases. We describe a joint GWA study (using the Affymetrix GeneChip 500K Mapping Array Set) undertaken in the British population, which has examined approximately 2,000 individuals for each of 7 major diseases and a shared set of approximately 3,000 controls. Case-control comparisons identified 24 independent association signals at P < 5 x 10(-7): 1 in bipolar disorder, 1 in coronary artery disease, 9 in Crohn's disease, 3 in rheumatoid arthritis, 7 in type 1 diabetes and 3 in type 2 diabetes. On the basis of prior findings and replication studies thus-far completed, almost all of these signals reflect genuine susceptibility effects. We observed association at many previously identified loci, and found compelling evidence that some loci confer risk for more than one of the diseases studied. Across all diseases, we identified a large number of further signals (including 58 loci with single-point P values between 10(-5) and 5 x 10(-7)) likely to yield additional susceptibility loci. The importance of appropriately large samples was confirmed by the modest effect sizes observed at most loci identified. This study thus represents a thorough validation of the GWA approach. It has also demonstrated that careful use of a shared control group represents a safe and effective approach to GWA analyses of multiple disease phenotypes; has generated a genome-wide genotype database for future studies of common diseases in the British population; and shown that, provided individuals with non-European ancestry are excluded, the extent of population stratification in the British population is generally modest. Our findings offer new avenues for exploring the pathophysiology of these important disorders. We anticipate that our data, results and software, which will be widely available to other investigators, will provide a powerful resource for human genetics research.},
number = {7145},
pages = {661--78},
volume = {447},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Case-Control Studies, Humans, Bipolar Disorder, Genetics: Population, Great Britain, Geography, Crohn Disease, Genetic Predisposition to Disease, Genome: Human, Diabetes Mellitus, Gene Frequency, Chromosomes: Human, Coronary Artery Disease, Genetic Markers, Arthritis: Rheumatoid, Hypertension},
date-added = {2010-02-16 12:24:33 +0100},
date-modified = {2010-07-29 19:40:35 +0200},
doi = {10.1038/nature05911},
pii = {nature05911},
pmid = {17554300},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wellcome%20Trust%20Case%20Control%20Consortium-2007-Nature_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5767},
read = {Yes},
rating = {0}
}
@article{Gui:2005p4071,
author = {J Gui and H Li},
journal = {Pac Symp Biocomput},
title = {Threshold gradient descent method for censored data regression with applications in pharmacogenomics},
abstract = {An important area of research in pharmacogenomics is to relate high-dimensional genetic or genomic data to various clinical phenotypes of patients. Due to large variability in time to certain clinical event among patients, studying possibly censored survival phenotypes can be more informative than treating the phenotypes as categorical variables. In this paper, we develop a threshold gradient descent (TGD) method for the Cox model to select genes that are relevant to patients' survival and to build a predictive model for the risk of a future patient. The computational difficulty associated with the estimation in the high-dimensional and low-sample size settings can be efficiently solved by the gradient descent iterations. Results from application to real data set on predicting survival after chemotherapy for patients with diffuse large B-cell lymphoma demonstrate that the proposed method can be used for identifying important genes that are related to time to death due to cancer and for building a parsimonious model for predicting the survival of future patients. The TGD based Cox regression gives better predictive performance than the L2 penalized regression and can select more relevant genes than the L1 penalized regression.},
affiliation = {Department of Statistics and Rowe Program in Genetics, University of California, Davis, CA 95616, USA. jgui@ucdavis.edu},
pages = {272--83},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Survival Analysis, Algorithms, Humans, Regression Analysis, Sensitivity and Specificity, Models: Genetic, Pharmacogenetics, Reproducibility of Results, Genome: Human, Phenotype, Genetics: Medical, Proportional Hazards Models},
date-added = {2010-01-19 15:50:24 +0100},
date-modified = {2010-07-29 19:42:21 +0200},
pmid = {15759633},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gui-2005-Pac%20Symp%20Biocomput_Threshold%20gradient%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4071},
rating = {0}
}
@article{Haan:2010p12855,
author = {P Haan},
journal = {2005},
title = {Much Ado About Nothing: Conditional Logit vs. Random Coefficient Models for Estimating Labour Supply
Elasticities},
abstract = {This study compares several specifications of discrete choice labour supply estimations on basis of the German Socio Economic Panel. My results suggest that despite the restrictive assumptions of the error terms the conditional logit model provides an adequate model choice for the analysis of labour supply functions. Significance tests, which are based on bootstrapped confidence intervals, show that labour supply elastici- ties derived within the conditional logit model do not significantly differ from elasticities derived in flexible random coefficient models.},
date-added = {2010-06-22 08:13:20 +0200},
date-modified = {2010-06-22 08:13:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haan--2005_Much%20Ado%20About%20Nothi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12855},
rating = {0}
}
@misc{Sijtsma:1994,
author = {Klaas Sijtsma and Brian W Junker},
journal = {Miscellaneous},
title = {A survey of theory and methods of invariant item ordering},
year = {1994},
month = {May},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sijtsma-1994-Miscellaneous_A%20survey%20of%20theory%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2168},
rating = {0}
}
@article{Zinbarg:2005p1230,
author = {R E Zinbarg and W Revelle and I Yovel and W Li},
journal = {Psychometrika},
title = {Cronbach's alpha, Revelle's beta, and Mcdonald's omega_h: Theur relations with each other and two alterntive conceptualizations of reliability},
abstract = {We make theoretical comparisons among five coefficients --- Cronbach's alpha, Revelle's beta, McDonald's omega_h, and two alternative conceptualizations of reliability. Though many end users and psychometricians alike may not distinguish among these five coefficients, we demonstrate formally their nonequivalence. Specifically, whereas there are conditions under which alpha, beta, and omega_h are equivalent to each other and to one of the two conceptualizations of reliability considered here, we show that equality with this concep- tualization of reliability and between alpha and omega_h holds only under a highly restrictive set of conditions and that the conditions under which beta equals omega_h are only somewhat more general. The nonequivalence of alpha, beta, and omega_h suggests that important information about the psychometric properties of a scale may be missing when scale developers and users only report alpha as is almost always the case.},
number = {1},
pages = {123--133},
volume = {70},
year = {2005},
date-added = {2010-01-03 19:59:35 +0100},
date-modified = {2010-01-03 20:02:49 +0100},
doi = {10.1007/s11336-003-0974-7},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zinbarg-2005-Psychometrika_Cronbach's%20alpha%20Re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1230},
rating = {0}
}
@article{Benetti:2010p11151,
author = {Stefania Benetti and Eamon McCrory and Sobida Arulanantham and Teresa De Sanctis and Philip McGuire and Andrea Mechelli},
journal = {Hum Brain Mapp},
title = {Attachment style, affective loss and gray matter volume: A voxel-based morphometry study},
abstract = {Early patterns of infant attachment have been shown to be an important influence on adult social behavior. Animal studies suggest that patterns of early attachment influence brain development, contributing to permanent alterations in neural structure; however, there are no previous studies investigating whether differences in attachment style are associated with differences in brain structure in humans. In this study, we used Magnetic Resonance Imaging (MRI) and voxel-based morphometry (VBM) to examine for the first time the association between attachment style, affective loss (for example, death of a loved one) and gray matter volume in a healthy sample of adults (n = 32). Attachment style was assessed on two dimensions (anxious and avoidant) using the ECR-Revised questionnaire. High attachment-related anxiety was associated with decreased gray matter in the anterior temporal pole and increased gray matter in the left lateral orbital gyrus. A greater number of affective losses was associated with increased gray matter volume in the cerebellum; in this region, however, the impact of affective losses was significantly moderated by the level of attachment-related avoidance. These findings indicate that differences in attachment style are associated with differences in the neural structure of regions implicated in emotion regulation. It is hypothesized that early attachment experience may contribute to structural brain differences associated with attachment style in adulthood; furthermore, these findings point to a neuronal mechanism through which attachment style may mediate individual differences in responses to affective loss. Hum Brain Mapp, 2010. (c) 2010 Wiley-Liss, Inc.},
affiliation = {Division of Psychological Medicine and Psychiatry, Institute of Psychiatry, King's College London, London, SE5 8AF, United Kingdom.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-04-14 13:59:48 +0200},
date-modified = {2010-04-14 13:59:48 +0200},
doi = {10.1002/hbm.20954},
pmid = {20127871},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Benetti-2010-Hum%20Brain%20Mapp_Attachment%20style%20af.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11151},
rating = {0}
}
@article{Elliott:2008p12563,
author = {Marc N Elliott and Brian K Finch and David Klein and Sai Ma and D Phuong Do and Megan K Beckett and Nathan Orr and Nicole Lurie},
journal = {Stat Med},
title = {Sample designs for measuring the health of small racial/ethnic subgroups},
abstract = {Most national health surveys do not permit precise measurement of the health of racial/ethnic subgroups that comprise <1 per cent of the U.S. population. We identify three potentially promising sample design strategies for increasing the accuracy of national health estimates for a small target subgroup when used to supplement a small probability sample of that group and apply these strategies to American Indians/Alaska Natives (AI/AN) and Chinese using National Health Interview Survey data. These sample design strategies include (1) complete sampling of targets within households, (2) oversampling selected macrogeographic units, and (3) oversampling from an incomplete list frame. Stage (1) is promising for Chinese and AI/AN; (2) works for both groups, but it would be more cost-effective for AI/AN because of their greater residential concentration; (3) is somewhat effective for groups like Chinese with viable surname lists, but not for AI/AN. Both (2) and (3) efficiently improve measurement precision when the supplement is the same size as the existing core sample, with diminishing additional returns as the supplement grows relative to the core sample, especially for (3). To avoid large design effects, the oversampled geographic areas or lists must have good coverage of the target population. To reduce costs, oversampled geographic tracts and lists must consist primarily of targets. These techniques can be used simultaneously to substantially increase effective sample sizes (ESSs). For example, (1) and (2) in combination can be used to multiply the nominal sample size of AI/AN or Chinese by 8 and the ESS by 4.},
affiliation = {RAND Corporation, Santa Monica, CA, USA. elliott@rand.org},
number = {20},
pages = {4016--29},
volume = {27},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Ethnic Groups, Epidemiologic Research Design, Sampling Studies, Humans, Selection Bias, Health Status Disparities, Population Surveillance, Health Surveys},
date-added = {2010-06-15 22:17:17 +0200},
date-modified = {2010-06-15 22:17:18 +0200},
doi = {10.1002/sim.3244},
pmid = {18351713},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Elliott-2008-Stat%20Med_Sample%20designs%20for%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12563},
rating = {0}
}
@article{DeChamplain:2010p5909,
author = {Andr{\'e} F De Champlain},
journal = {Med Educ},
title = {A primer on classical test theory and item response theory for assessments in medical education},
abstract = {CONTEXT: A test score is a number which purportedly reflects a candidate's proficiency in some clearly defined knowledge or skill domain. A test theory model is necessary to help us better understand the relationship that exists between the observed (or actual) score on an examination and the underlying proficiency in the domain, which is generally unobserved. Common test theory models include classical test theory (CTT) and item response theory (IRT). The widespread use of IRT models over the past several decades attests to their importance in the development and analysis of assessments in medical education. Item response theory models are used for a host of purposes, including item analysis, test form assembly and equating. Although helpful in many circumstances, IRT models make fairly strong assumptions and are mathematically much more complex than CTT models. Consequently, there are instances in which it might be more appropriate to use CTT, especially when common assumptions of IRT cannot be readily met, or in more local settings, such as those that may characterise many medical school examinations. OBJECTIVES: The objective of this paper is to provide an overview of both CTT and IRT to the practitioner involved in the development and scoring of medical education assessments. METHODS: The tenets of CCT and IRT are initially described. Then, main uses of both models in test development and psychometric activities are illustrated via several practical examples. Finally, general recommendations pertaining to the use of each model in practice are outlined. DISCUSSION: Classical test theory and IRT are widely used to address measurement-related issues that arise from commonly used assessments in medical education, including multiple-choice examinations, objective structured clinical examinations, ward ratings and workplace evaluations. The present paper provides an introduction to these models and how they can be applied to answer common assessment questions.},
affiliation = {National Board of Medical Examiners, Philadelphia, Pennsylvania 19104, USA. adechamplain@nbme.org},
number = {1},
pages = {109--17},
volume = {44},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-18 23:10:11 +0100},
date-modified = {2010-02-18 23:10:11 +0100},
doi = {10.1111/j.1365-2923.2009.03425.x},
pii = {MED3425},
pmid = {20078762},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20Champlain-2010-Med%20Educ_A%20primer%20on%20classica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5909},
rating = {0}
}
@article{Yang:2008p2492,
author = {Bao-Zhu Yang and Henry R Kranzler and Hongyu Zhao and Jeffrey R Gruen and Xingguang Luo and Joel Gelernter},
journal = {Alcohol Clin Exp Res},
title = {Haplotypic variants in DRD2, ANKK1, TTC12, and NCAM1 are associated with comorbid alcohol and drug dependence},
abstract = {BACKGROUND: Each gene in the chromosome 11q23 cluster of NCAM1, TTC12, ANKK1, and DRD2 is functionally linked to dopamine in brain. Many association studies of DRD2 and substance dependence (SD), including alcohol dependence (AD) and drug dependence (DD), have been reported; the results have been inconsistent. Recent association studies have considered this cluster more comprehensively, examining the association of SD with several risk variants mapped to the other genes in the cluster. Because comorbid AD with DD (AD+DD) is common, we hypothesized that heterogeneity of the SD diagnoses studied might have contributed to the inconsistency of prior results. METHODS: We conducted 2 separate association studies of AD+DD and AD without DD (AD-only) in 1,090 European-Americans using family-based and case-control designs and 43 single nucleotide polymorphisms mapped to this cluster. We used a generalized linear model and haplotype score tests for the case-control sample, and the family-based association test for the family sample. RESULTS: For AD+DD, the risk regions centered on TTC12 exon 3 [optimal individual haplotype simulated p (p(oihs)) = 0.000015], and another extended from ANKK1 exon 8 to DRD2;C957T (p(oihs) = 0.0028), in both samples. NCAM1 exon 12 markers showed global significance in both designs, but were significant for specific haplotypes (p(oihs) = 0.0029) only for the family sample. For AD-only, NCAM1 intron 14 to 18 and the junction of ANKK1 and DRD2 were associated globally. Population stratification was excluded as the basis for these results. Linkage disequilibrium contrast tests supported selection at TTC12 exon 3 and ANKK1 exon 2. CONCLUSIONS: We conclude that variants in TTC12 exon 3, NCAM1 exon 12, and the two 3'-ends of ANKK1 and DRD2 co-regulate risk for comorbid AD and DD.},
affiliation = {Department of Psychiatry, Division of Human Genetics, Yale University School of Medicine, New Haven, Connecticut 06516, USA.},
number = {12},
pages = {2117--27},
volume = {32},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Linkage (Genetics), Protein-Serine-Threonine Kinases, Receptors: Dopamine D2, Substance-Related Disorders, Humans, Adult, Alcoholism, Genetic Variation, Comorbidity, Neural Cell Adhesion Molecules, Aged, Case-Control Studies, Female, Middle Aged, Young Adult, Proteins, Haplotypes, Male},
date-added = {2010-01-12 13:33:22 +0100},
date-modified = {2010-07-29 19:13:02 +0200},
doi = {10.1111/j.1530-0277.2008.00800.x},
pii = {ACER800},
pmid = {18828801},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2492},
rating = {0}
}
@article{Lubke:2003p11417,
author = {G H Lubke and C V Dolan and H Kelderman and G J Mellenbergh},
journal = {Intelligence},
title = {On the relationship between sources of within- and between-group differences and measurement invariance in the common factor model},
abstract = {Investigating sources of within- and between-group differences and measurement invariance (MI) across groups is fundamental to any meaningful group comparison based on observed test scores. It is shown that by placing certain restrictions on the multigroup confirmatory factor model, it is possible to investigate the hypothesis that within- and between-group differences are due to the same factors. Moreover, the modeling approach clarifies that absence of measurement bias implies common sources of within- and between-group variation. It is shown how the influence of background variables can be incorporated in the model. The advantages of the modeling approach as compared with other commonly used methods for group comparisons is discussed and illustrated by means of an analysis of empirical data.},
pages = {543--566},
volume = {31},
year = {2003},
date-added = {2010-05-01 16:41:20 +0200},
date-modified = {2010-07-29 19:29:16 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubke-2003-Intelligence_On%20the%20relationship.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11417},
rating = {0}
}
@article{Corley:2008p2502,
author = {Robin P Corley and Joanna S Zeiger and Thomas Crowley and Marissa A Ehringer and John K Hewitt and Christian J Hopfer and Jeffrey Lessem and Matthew B McQueen and Soo Hyun Rhee and Andrew Smolen and Michael C Stallings and Susan E Young and Kenneth Krauter},
journal = {Drug Alcohol Depend},
title = {Association of candidate genes with antisocial drug dependence in adolescents},
abstract = {The Colorado Center For Antisocial Drug Dependence (CADD) is using several research designs and strategies in its study of the genetic basis for antisocial drug dependence in adolescents. This study reports single nucleotide polymorphism (SNP) association results from a targeted gene assay (SNP chip) of 231 primarily Caucasian male probands in treatment with antisocial drug dependence and a matched set of community controls. The SNP chip was designed to assay 1500 SNPs distributed across 50 candidate genes that have had associations with substance use disorders and conduct disorder. There was an average gene-wide inter-SNP interval of 3000 base pairs. After eliminating SNPs with poor signals and low minor allele frequencies, 60 nominally significant associations were found among the remaining 1073 SNPs in 18 of 49 candidate genes. Although none of the SNPs achieved genome-wide association significance levels (defined as p<.000001), two genes probed with multiple SNPs (OPRM1 and CHRNA2) emerged as plausible candidates for a role in antisocial drug dependence after gene-based permutation tests. The custom-designed SNP chip served as an effective and flexible platform for rapid interrogation of a large number of plausible candidate genes.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, 447 UCB, Boulder, CO 80309, USA. robin.corley@colorado.edu },
number = {1-2},
pages = {90--8},
volume = {96},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Linkage (Genetics), Receptors: Opioid: mu, Polymorphism: Single Nucleotide, Substance-Related Disorders, Oligonucleotide Array Sequence Analysis, Humans, Antisocial Personality Disorder, Genotype, European Continental Ancestry Group, Adult, Genome: Human, Comorbidity, Case-Control Studies, Female, Chromosome Mapping, Gene Frequency, Male, Adolescent},
date-added = {2010-01-12 13:36:21 +0100},
date-modified = {2010-01-13 09:54:10 +0100},
doi = {10.1016/j.drugalcdep.2008.02.004},
pii = {S0376-8716(08)00072-0},
pmid = {18384978},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Corley-2008-Drug%20Alcohol%20Depend_Association%20of%20candi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2502},
read = {Yes},
rating = {4}
}
@article{Jordan:2007p2660,
author = {W J Jordan and S R Miller},
title = {Inter-Rater Agreement in Analysis of Open-Ended Responses: Lessons from a Mixed Methods Study of Principals},
year = {2007},
date-added = {2010-01-12 22:48:23 +0100},
date-modified = {2010-01-12 22:48:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jordan-2007-_Inter-Rater%20Agreemen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2660},
rating = {0}
}
@article{McCrae:2005p8310,
author = {Robert R McCrae and Thomas A Martin and Paul T Costa},
journal = {Assessment},
title = {Age trends and age norms for the NEO Personality Inventory-3 in adolescents and adults},
abstract = {The NEO Personality Inventory-3 (NEO-PI-3) is a modification of the Revised NEO Personality Inventory (NEO-PI-R) designed to be more understandable to adolescents. Data from adults aged 21 to 91 showed that the NEO-PI-3 also functions as well or better than the NEO-PI-R in adults. Age trends from combined adolescent (n = 500) and adult (n = 635) samples confirmed previous cross-sectional findings and demonstrated the importance of studying age changes especially at the facet level and during the decade of the 20s. Normative data for self-report and observer rating forms for adolescents, younger and older adults, and all adults are discussed, as well as for a combined-age group. It is argued that combined-age norms may be most appropriate for depicting the personality scores of individuals, but the utility for some purposes of within-age group scores is also acknowledged.},
affiliation = {National Institute on Aging. mccraej@grc.nia.nih.gov},
note = {psytools},
number = {4},
pages = {363--73},
volume = {12},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Sex Factors, Psychometrics, Adult, Middle Aged, Personality Inventory, Aged, Aged: 80 and over, Analysis of Variance, Male, Reproducibility of Results, Adolescent, Female, Personality Development, Age Factors, Humans},
date-added = {2010-03-20 20:09:30 +0100},
date-modified = {2010-03-20 20:09:47 +0100},
doi = {10.1177/1073191105279724},
pii = {12/4/363},
pmid = {16244117},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCrae-2005-Assessment_Age%20trends%20and%20age%20n.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8310},
read = {Yes},
rating = {0}
}
@article{Tomita:2000p12157,
author = {T Tomita and H Aoyama and T Kitamura and C Sekiguchi and T Murai and T Matsuda},
journal = {Personality and Individual Differences},
title = {Factor structure of psychobiological seven-factor model of personality: a model-revision},
abstract = {The purpose of this study was to examine the factor structure in the Temperament and Character Inventory [TCI; Cloninger, C. R., Svrakic, D. M., {\&} Przybeck, T. R. (1993). A psychobiological model of temperament and character. Archives of General Psychiatry, 50, 975$\pm$990.] and to determine appropriate subscales and items to assess the psychobiological seven-factor model with a nonclinical Japanese sample by the use of the TCI short version. Among 383 ex-members of the Japanese Antarctic Research Expedition, con{\textregistered}rmatory factor analysis of the TCI showed that temperament consisted of four factors and character of three, as the original model suggested. Harm Avoidance, Reward Dependence, Self Transcendence and Cooperativeness may be interpreted as a constellation of interrelated but possibly discrete dimensions. Most of the items were loaded into each corresponding subscale, although a few of the items were not con{\textregistered}rmed as appropriate. Implications and the future direction of personality research are discussed.},
pages = {709--727},
volume = {29},
year = {2000},
date-added = {2010-05-30 10:40:00 +0200},
date-modified = {2010-07-29 19:42:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tomita-2000-Personality%20and%20Individual%20Differences_Factor%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12157},
rating = {4}
}
@article{Ganchev:2010p14110,
author = {K Ganchev and J Gra{\c c}a and J Gillenwater and B Taskar},
journal = {Journal of Machine Learning},
title = {Posterior Regularization for Structured Latent Variable Models},
abstract = {We present posterior regularization, a probabilistic framework for structured, weakly supervised learning. Our framework efficiently incorporates indirect supervision via constraints on posterior distributions of probabilistic models with latent variables. Posterior regularization separates model complexity from the complexity of structural constraints it is desired to satisfy. By directly impos- ing decomposable regularization on the posterior moments of latent variables during learning, we retain the computational efficiency of the unconstrained model while ensuring desired constraints hold in expectation. We present an efficient algorithm for learning with posterior regularization and illustrate its versatility on a diverse set of structural constraints such as bijectivity, symmetry and group sparsity in several large scale experiments, including multi-view learning, cross-lingual de- pendency grammar induction, unsupervised part-of-speech induction, and bitext word alignment.},
pages = {2001--2049},
volume = {11},
year = {2010},
date-added = {2010-08-18 16:53:53 +0200},
date-modified = {2010-08-18 16:55:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ganchev-2010-Journal%20of%20Machine%20Learning_Posterior%20Regulariza.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14110},
rating = {0}
}
@article{Thompson:2002b,
author = {B Thompson and C Cook},
journal = {Educational and Psychological Measurement},
title = {Stability of the reliability of LibQUAL+TM scores: A "Reliability Generalization" meta-analysis study},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2175},
rating = {0}
}
@article{Metz:2007p5481,
author = {Stacie M Metz and Kathleen W Wyrwich and Ajit N Babu and Kurt Kroenke and William M Tierney and Fredric D Wolinsky},
journal = {Qual Life Res},
title = {Validity of patient-reported health-related quality of life global ratings of change using structural equation modeling},
abstract = {BACKGROUND: Patient-perceived global ratings of change are often used as anchors of health-related quality of life (HRQoL) since they are easy for clinicians to interpret and incorporate the patient's perception of change as a means to capture clinical significance. Although this approach may be preferred, the validity of the anchor-based approach is currently under scrutiny. OBJECTIVE: To estimate the explained variation in single-item domain-specific global ratings of change (GRCs) that is accounted for by time 1 (T1) and time 2 (T2) domain-specific summary change scores from the Short-Form 36, V2 (SF-36) Health Survey in asthma primary care patients. METHODS: The baseline and first follow-up enrollment data to be evaluated in this investigation were part of a larger longitudinal HRQoL study conducted from August 2000-December 2002, in which the 356 asthma patients from Midwestern primary care facilities completed telephone interviews for every two consecutive months for a year on multiple HRQoL measures, including the SF-36 and domain-specific GRCs. A structural equation modeling technique was employed to ascertain the explained variability in patient-reported GRCs for each SF-36 domain that is accounted for by the summary change scores at the two time-points for four SF-36 domains (bodily pain, general health perception, mental health, and physical functioning). The model was estimated by the maximum likelihood method with the Satorra-Bentler correction for ordinal variables using equal threshold asymptotic covariance matrices. RESULTS: Multicollinearity between T1 and T2 latent constructs clouded interpretation of the standardized structural coefficients leading to GRCs. Correlations, however, revealed that all four domain-specific GRCs were more strongly related to T2- than T1-domain summary scores, indicating that patients were not equally relying on T1 and T2 to generate the GRCs. Furthermore, T1-domain summary scores were not of equal magnitude and opposite sign as compared to T2 scores. CONCLUSIONS: In this study, there is insufficient evidence to establish SF-36 domain-specific GRC validity in asthma primary care patients. Therefore, it is recommended to reassess validity before using domain-specific SF-36 GRCs to classify clinically important change over time.},
affiliation = {Department of Health, West Chester University, West Chester, PA 19383, USA. smetz@wcupa.edu},
number = {7},
pages = {1193--202},
volume = {16},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Asthma, Female, Patient Satisfaction, Health Surveys, Middle Aged, Models: Theoretical, Prospective Studies, Questionnaires, Interviews as Topic, Health Status Indicators, Humans, Decision Making, Outcome Assessment (Health Care), Perception, Quality of Life, Male, Mental Health},
date-added = {2010-02-12 14:44:01 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-007-9225-1},
pmid = {17551850},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5481},
rating = {0}
}
@article{Wakefield:2007p3285,
author = {J Wakefield},
journal = {UW Biostatistics Working Paper Series},
title = {Reporting and Interpretation in Genome-Wide Association Studies},
abstract = {In the context of genome-wide association studies we critique a number of methods that have been suggested for flagging associations for further investi- gation. The p-value is by far the most commonly used measure, but requires careful calibration when the a priori probability of an association is small, and discards information by not considering the power associated with each test. The q-value is a frequentist method by which the false discovery rate (FDR) may be controlled. We advocate the use of the Bayes factor as a summary of the information in the data with respect to the comparison of the null and alterna- tive hypotheses, and describe a recently-proposed approach to the calculation of the Bayes factor that is easily implemented. The combination of data across studies is straightforward using the Bayes factor approach, as are power calcu- lations. The Bayes factor and the q-value provide complementary information and when used in addition to the p-value may be used to reduce the number of reported findings that are subsequently not reproduced.},
number = {311},
year = {2007},
date-added = {2010-01-14 21:16:33 +0100},
date-modified = {2010-01-14 21:17:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wakefield-2007-UW%20Biostatistics%20Working%20Paper%20Series_Reporting%20and%20Interp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3285},
rating = {0}
}
@article{Bercini:1992,
author = {DH Bercini},
journal = {Journal of Exposure Analysis and Environmental Epidemiology},
title = {Pretesting questionnaires in the laboratory: An alternative approach},
pages = {241--248},
volume = {2},
year = {1992},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1001},
rating = {0}
}
@article{Preacher:2002p11743,
author = {Kristopher J Preacher and Robert C MacCallum},
journal = {Behav Genet},
title = {Exploratory factor analysis in behavior genetics research: factor recovery with small sample sizes},
abstract = {Results of a Monte Carlo study of exploratory factor analysis demonstrate that in studies characterized by low sample sizes the population factor structure can be adequately recovered if communalities are high, model error is low, and few factors are retained. These are conditions likely to be encountered in behavior genetics research involving mean scores obtained from sets of inbred strains. Such studies are often characterized by a large number of measured variables relative to the number of strains used, highly reliable data, and high levels of communality. This combination of characteristics has special consequences for conducting factor analysis and interpreting results. Given that limitations on sample size are often unavoidable, it is recommended that researchers limit the number of expected factors as much as possible.},
affiliation = {Department of Psychology, The Ohio State University, Columbus 43210-1222, USA. preacher.2@osu.edu},
number = {2},
pages = {153--61},
volume = {32},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Models: Genetic, Genetics: Behavioral, Sampling Studies, Factor Analysis: Statistical, Monte Carlo Method, Animals},
date-added = {2010-05-14 21:37:09 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {12036113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Preacher-2002-Behav%20Genet_Exploratory%20factor%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11743},
rating = {4}
}
@article{RebholzSchuhmann:2010p10007,
author = {D Rebholz-Schuhmann and S Kavaliauskas and P Pezik},
journal = {Bioinformatics},
title = {PaperMaker: validation of biomedical scientific publications},
abstract = {MOTIVATION: The automatic analysis of scientific literature can support authors in writing their manuscripts. IMPLEMENTATION: PaperMaker is a novel IT solution that receives a scientific manuscript via a Web interface, automatically analyses the publication, evaluates consistency parameters and interactively delivers feedback to the author. It analyses the proper use of acronyms and their definitions, and the use of specialized terminology. It provides Gene Ontology (GO) and Medline Subject Headings (MeSH) categorization of text passages, the retrieval of relevant publications from public scientific literature repositories, and the identification of missing or unused references. RESULT: The author receives a summary of findings, the manuscript in its corrected form and a digital abstract containing the GO and MeSH annotations in the NLM/PubMed format. AVAILABILITY: http://www.ebi.ac.uk/Rebholz-srv/PaperMaker.},
affiliation = {European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. rebholz@ebi.ac.uk},
number = {7},
pages = {982--4},
volume = {26},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-03-31 19:49:02 +0200},
date-modified = {2010-03-31 19:49:02 +0200},
doi = {10.1093/bioinformatics/btq060},
pii = {btq060},
pmid = {20200010},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rebholz-Schuhmann-2010-Bioinformatics_PaperMaker%20validati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10007},
rating = {0}
}
@article{Eom:2004p1840,
author = {J H Eom and B T Zhang},
journal = {Genomics {\&} Informatics},
title = {PubMiner: Machine Learning-based Text Mining for Biomedical Information Analysis},
abstract = {In this paper we introduce PubMiner, an intelligent machine learning based text mining system for mining biological information from the literature. PubMiner employs natural language processing techniques and machine learning based data mining techniques for mining useful biological information such as protein- protein interaction from the massive literature. The system recognizes biological terms such as gene, protein, and enzymes and extracts their interactions described in the document through natural language processing. The extracted interactions are further analyzed with a set of features of each entity that were collected from the related public databases to infer more interactions from the original interactions. An inferred interaction from the interaction analysis and native interaction are provided to the user with the link of literature sources. The performance of entity and interaction extraction was tested with selected MEDLINE abstracts. The evaluation of inference proceeded using the protein interaction data of S. cerevisiae (bakers yeast) from MIPS and SGD.},
affiliation = {Biointelligence Laboratory, School of Computer Science and Engineering, Seoul National University, Seoul 151-744, Korea7)},
number = {2},
pages = {99--106},
volume = {2},
year = {2004},
keywords = {Biomedical Text Mining, Machine Learning, data mining, Software Application},
date-added = {2010-01-10 10:33:49 +0100},
date-modified = {2010-01-10 10:35:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eom-2004-Genomics%20&%20Informatics_PubMiner%20Machine%20Le.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1840},
rating = {0}
}
@article{Torre:1995p1546,
author = {F Torre and D Chessel},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Co-structure de deux tableaux totalement appari{\'e}s},
number = {1},
pages = {109--121},
volume = {43},
year = {1995},
date-added = {2010-01-07 16:31:09 +0100},
date-modified = {2010-01-07 16:31:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Torre-1995-Revue%20de%20Statistique%20Appliqu%C3%A9e_Co-structure%20de%20deux.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1546},
rating = {0}
}
@article{Fliers:2010p5069,
author = {Ellen A Fliers and Marieke L A de Hoog and Barbara Franke and Stephen V Faraone and Nanda N J Rommelse and Jan K Buitelaar and Maria W G Nijhuis-van der Sanden},
journal = {J Dev Behav Pediatr},
title = {Actual motor performance and self-perceived motor competence in children with attention-deficit hyperactivity disorder compared with healthy siblings and peers},
abstract = {OBJECTIVE:: Children with attention-deficit hyperactivity disorder (ADHD) frequently experience comorbid motor problems, developmental coordination disorder. Also, children with ADHD are said to overestimate their abilities in the cognitive and social domain, the so-called "Positive Illusory Bias." In this cross-sectional study, the relationship between actual motor performance and perceived motor competence was examined. METHOD: Motor performance was assessed using the Movement Assessment Battery for Children in 100 children and adolescents (age 6-17 years), including 32 children with ADHD combined type, 18 unaffected siblings, and 50 healthy control children. ADHD was diagnosed using Parent and Teacher questionnaires and a clinical interview. Perceived motor competence and interest in the motor domain were rated with the Dutch supplement scale to Harters' Self-Perception Profile for Children, especially focusing on the motor domain (m-CBSK). RESULTS: Children with ADHD had poorer motor performance than unaffected siblings and control children, especially in the field of manual dexterity. However, no relationship was found between motor performance and perceived motor competence. Only children with the very lowest motor performance had a significantly lowered perception of their motor competence. Interest in the motor domain and motor self-perception was positively correlated. CONCLUSION: Children with ADHD performed poorer on the Movement Assessment Battery for Children, but generally overestimated their own motor competence.},
affiliation = {Department of Psychiatry, Donders Institute for Brain, Cognition and Behaviour, Radboud University Nijmegen Medical Centre, Nijmegen, The Netherlands. E.Fliers@psy.umcn.nl},
number = {1},
pages = {35--40},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-05 20:15:03 +0100},
date-modified = {2010-02-05 20:15:03 +0100},
doi = {10.1097/DBP.0b013e3181c7227e},
pmid = {20081434},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5069},
rating = {0}
}
@article{vanBerkel:2009p12160,
author = {H van Berkel},
title = {The relationship between personality, coping styles and stress, anxiety and depression},
year = {2009},
date-added = {2010-05-30 10:42:12 +0200},
date-modified = {2010-05-30 10:42:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Berkel-2009-_The%20relationship%20bet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12160},
rating = {0}
}
@article{Rademacher:2010p9601,
author = {Lena Rademacher and S{\"o}ren Krach and Gregor Kohls and Arda Irmak and Gerhard Gr{\"u}nder and Katja N Spreckelmeyer},
journal = {Neuroimage},
title = {Dissociation of neural networks for anticipation and consumption of monetary and social rewards},
abstract = {Human behaviour is generally guided by the anticipation of potential outcomes that are considered to be rewarding. Reward processing can thus be dissected into a phase of reward anticipation and a phase of reward consumption. A number of brain structures have been suggested to be involved in reward processing. However, it is unclear whether anticipation and consumption are mediated by the same or different neural networks. We examined the neural basis of these processes using functional magnetic resonance imaging (fMRI) in an incentive delay task offering either money or social approval. In both conditions participants (N=28) were given a cue indicating potential reward. In order to receive reward a target button had to be pushed within a certain time window (adapted for individual reaction time). Cues triggering either monetary or social reward anticipation were presented sessionwise. Imaging was performed on a 1.5-Tesla Philips scanner in an event-related design. Anticipation of both reward types activated brain structures constituting the brain reward system including the ventral striatum. In contrast to the task independent activity in the anticipation phase, reward consumption evoked different patterns of activation for money and social approval, respectively. While social stimuli were mainly associated with amygdala activation, the thalamus was more strongly activated by the presentation of monetary rewards. Our results identify dissociable neural networks for the anticipation and consumption of reward. The findings implicate that the neural mechanisms underlying reward consumption are more modality-specific than those for reward anticipation, and that they are mediated by subjective reward value.},
affiliation = {Department of Psychiatry and Psychotherapy, Medical Faculty, RWTH Aachen University, and JARA-Translational Brain Medicine, Pauwelsstr. 30, 52074 Aachen, Germany.},
note = {genim},
number = {4},
pages = {3276--85},
volume = {49},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-03-25 14:37:20 +0100},
date-modified = {2010-03-25 18:16:52 +0100},
doi = {10.1016/j.neuroimage.2009.10.089},
pii = {S1053-8119(09)01162-8},
pmid = {19913621},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4XNW45R-1&_user=2432700&_coverDate=02%252F15%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=81ce89f55220863600b8ad6050ad139c},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rademacher-2010-Neuroimage_Dissociation%20of%20neur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9601},
rating = {0}
}
@article{Dunn:2010p13724,
author = {Graham Dunn},
journal = {Stat Methods Med Res},
title = {Clinical trials in mental health},
number = {3},
pages = {203--4},
volume = {19},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-11 09:07:52 +0200},
date-modified = {2010-07-11 09:07:56 +0200},
doi = {10.1177/0962280209105012},
pii = {19/3/203},
pmid = {20603417},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dunn-2010-Stat%20Methods%20Med%20Res_Clinical%20trials%20in%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13724},
rating = {4}
}
@article{Kagerer:2006p13006,
author = {F A Kagerer and J L Contreras-Vidal and J Bo and J E Clark},
journal = {Human Movement Science},
title = {Abrupt, but not gradual visuomotor distortion facilitates adaptation in children with developmental coordination disorder},
abstract = {A previous experiment investigating visuomotor adaptation in typically developing children and children with Developmental Coordination Disorder (DCD) suggested poor adaptation to an abruptly induced visuomotor perturbation. In the current study, using a similar center-out drawing task, but administering either an abrupt or a gradual perturbation, and twice as many adaptation trials, we show that typically developing children are well able to successfully update an existing internal model in response to a 60 degrees rotation of the visual feedback, independent of the perturbation condition. Children with DCD, however, updated their internal map more effectively during exposure to an abrupt visuomotor perturbation than to a gradual one. This may suggest that the adaptation process in children with DCD responds differently to small vs. large steps of visuomotor discrepancies. Given the known role of the cerebellum in providing an error signal necessary for updating the internal model in response to a gradual visuomotor distortion, the results of our study add to the growing body of evidence implicating compromised cerebellar function in DCD.},
affiliation = {Cognitive Motor Neuroscience Laboratory, Department of Kinesiology, Neuroscience and Cognitive Science Program, University of Maryland, College Park, MD 20742-2611, USA. fkagerer@umd.edu},
number = {4-5},
pages = {622--33},
volume = {25},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Male, Feedback: Psychological, Motor Skills Disorders, Signal Processing: Computer-Assisted, Orientation, Sensory Deprivation, Female, Kinesthesis, Child, Pattern Recognition: Visual, Attention, Perceptual Distortion, Humans},
date-added = {2010-06-25 22:37:00 +0200},
date-modified = {2010-06-25 22:37:00 +0200},
doi = {10.1016/j.humov.2006.06.003},
pii = {S0167-9457(06)00055-8},
pmid = {17011655},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kagerer-2006-Human%20Movement%20Science_Abrupt%20but%20not%20grad.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13006},
rating = {0}
}
@article{Berg:2007,
author = {Stephanie M van den Berg and Cees A W Glas and Dorret I Boomsma},
journal = {Behav Genet},
title = {Variance decomposition using an IRT measurement model.},
abstract = {Large scale research projects in behaviour genetics and genetic epidemiology are often based on questionnaire or interview data. Typically, a number of items is presented to a number of subjects, the subjects' sum scores on the items are computed, and the variance of sum scores is decomposed into a number of variance components. This paper discusses several disadvantages of the approach of analysing sum scores, such as the attenuation of correlations amongst sum scores due to their unreliability. It is shown that the framework of Item Response Theory (IRT) offers a solution to most of these problems. We argue that an IRT approach in combination with Markov chain Monte Carlo (MCMC) estimation provides a flexible and efficient framework for modelling behavioural phenotypes. Next, we use data simulation to illustrate the potentially huge bias in estimating variance components on the basis of sum scores. We then apply the IRT approach with an analysis of attention problems in young adult twins where the variance decomposition model is extended with an IRT measurement model. We show that when estimating an IRT measurement model and a variance decomposition model simultaneously, the estimate for the heritability of attention problems increases from 40% (based on sum scores) to 73%.},
affiliation = {Department of Biological Psychology, Vrije Universiteit Amsterdam, Van der Boechorststraat 1, Amsterdam 1081 BT, The Netherlands. SM.van.den.Berg@psy.vu.nl},
number = {4},
pages = {604--616},
volume = {37},
year = {2007},
month = {Jul},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-007-9156-1},
pmid = {17534709},
url = {http://dx.doi.org/10.1007/s10519-007-9156-1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20den%20Berg-2007-Behav%20Genet_Variance%20decompositi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1162},
read = {Yes},
rating = {3}
}
@article{Tricot:1992p2667,
author = {J M Tricot and Y Lepage},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Tests de l'incertitude des observateurs dans une analyse de concordance sur une {\'e}chelle nominale},
number = {3},
pages = {35--45},
volume = {40},
year = {1992},
date-added = {2010-01-13 09:30:48 +0100},
date-modified = {2010-01-13 09:31:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tricot-1992-Revue%20de%20Statistique%20Appliqu%C3%A9e_Tests%20de%20l'incertitu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2667},
rating = {0}
}
@article{Jackson:2000p5516,
author = {C J Jackson and A Furnham and L Forde and T Cotter},
journal = {Br J Psychol},
title = {The structure of the Eysenck Personality Profiler},
abstract = {The dominant issue in personality research over the last decade has been concerned with the fundamental structure of personality and the best measures of that structure. Exploratory factor analysis was used to investigate possible three- and five-factor solutions to the Eysenck Personality Profiler (EPP; Eysenck, Barrett, Wilson, {\&} Jackson, 1992) which consists of 21 primary scales categorized under three super-factors. Little evidence was found to support Costa and McCrae's (1995) unequivocal comment that a five-factor solution fitted the data well. Confirmatory factor analysis was also used, by means of structural equation modelling, to estimate the goodness of fit of three- and five-factor models and little evidence was found to favour one solution over the other. A shorter version of the EPP, which consists of just nine scales, seemed to favour a three-factor solution. Various criticisms of the EPP are also made: some scales have relatively low alpha, there seem to be too many neuroticism scales and the three category response scales seem less than ideal.},
affiliation = {Department of Psychology, University of Surrey, UK.},
pages = {223--39},
volume = {91 ( Pt 2)},
year = {2000},
month = {May},
language = {eng},
keywords = {Psychometrics, Adult, New Zealand, Reproducibility of Results, Male, Personality, Models: Psychological, Factor Analysis: Statistical, Female, Humans, Personality Inventory},
date-added = {2010-02-12 14:59:03 +0100},
date-modified = {2010-02-12 14:59:03 +0100},
pmid = {10832516},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5516},
rating = {0}
}
@article{Berthoz:2007p14054,
author = {Sylvie Berthoz and Fabienne Perdereau and Nathalie Godart and Maurice Corcos and Mark G Haviland},
journal = {J Psychosom Res},
title = {Observer- and self-rated alexithymia in eating disorder patients: levels and correspondence among three measures},
abstract = {OBJECTIVES: Our objectives were to evaluate the psychometric properties of the Observer Alexithymia Scale (OAS) in eating disorder patients, alexithymia severity across diagnostic subgroups, and correspondence among three alexithymia measures. METHOD: Seventy-five women, each with an eating disorder diagnosis, completed two alexithymia self-reports, the 20-item Toronto Alexithymia Scale (TAS-20) and the Bermond-Vorst Alexithymia Questionnaire-version B (BVAQ-B), and asked a relative or an acquaintance to rate them using the OAS. RESULTS: The OAS showed acceptable discriminant validity and interrater reliability. Patients' OAS scores were higher than scores reported for people-in-general samples and lower than those for outpatient clinical samples. No statistically significant OAS, TAS-20, and BVAQ-B score differences were found between the patients with anorexia nervosa restrictive type and those with bulimia nervosa. OAS, TAS-20, and BVAQ-B total scores were moderately, positively, and significantly correlated. CONCLUSION: These clinical data show the psychometric strength of the OAS, which reasonably can be recommended for use with the TAS-20 in research and clinical practice.},
affiliation = {Department of Psychiatry for Adolescents and Young Adults, IMM, Paris, France; Univesity Paris V, Paris, France. sylvie.berthoz@imm.fr},
number = {3},
pages = {341--7},
volume = {62},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Psychometrics, Female, Personality Assessment, Reproducibility of Results, Adolescent, Affective Symptoms, Anorexia Nervosa, Questionnaires, Personality Inventory, Bulimia Nervosa, Adult, Humans, Statistics as Topic},
date-added = {2010-08-18 10:03:03 +0200},
date-modified = {2010-08-18 10:03:04 +0200},
doi = {10.1016/j.jpsychores.2006.10.008},
pii = {S0022-3999(06)00460-0},
pmid = {17324685},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14054},
rating = {0}
}
@article{Rijsdijk:2002p10349,
author = {Fr{\"u}hling V Rijsdijk and Pak C Sham},
journal = {Brief Bioinformatics},
title = {Analytic approaches to twin data using structural equation models},
abstract = {The classical twin study is the most popular design in behavioural genetics. It has strong roots in biometrical genetic theory, which allows predictions to be made about the correlations between observed traits of identical and fraternal twins in terms of underlying genetic and environmental components. One can infer the relative importance of these 'latent' factors (model parameters) by structural equation modelling (SEM) of observed covariances of both twin types. SEM programs estimate model parameters by minimising a goodness-of-fit function between observed and predicted covariance matrices, usually by the maximum-likelihood criterion. Likelihood ratio statistics also allow the comparison of fit of different competing models. The program Mx, specifically developed to model genetically sensitive data, is now widely used in twin analyses. The flexibility of Mx allows the modelling of multivariate data to examine the genetic and environmental relations between two or more phenotypes and the modelling to categorical traits under liability-threshold models.},
affiliation = {SGDP Centre, Institute of Psychiatry, Kings College London, UK. f.rijsdijk@iop.kcl.ac.uk},
number = {2},
pages = {119--33},
volume = {3},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Software, Data Interpretation: Statistical, Humans, Chi-Square Distribution, Likelihood Functions, Twin Studies as Topic, Multivariate Analysis, Models: Genetic},
date-added = {2010-04-02 18:19:30 +0200},
date-modified = {2010-04-02 18:19:34 +0200},
pmid = {12139432},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rijsdijk-2002-Brief%20Bioinformatics_Analytic%20approaches.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10349},
rating = {5}
}
@article{Vachha:2004p7876,
author = {Behroze Vachha and Richard C Adams},
journal = {Cerebrospinal fluid research},
title = {A temperament for learning: The limbic system and myelomeningocele},
abstract = {: This article was the winner of the triennial Casey Holter Memorial Prize awarded by the Society for Research into Hydrocephalus and Spina Bifida, 2004. ABSTRACT: This essay explores the link between the limbic/hypothalamic systems within the complex conditions of hydrocephalus and myelomeningocele. Acknowledging the neuroanatomical and neuroendocrine risks inherent in the developing brains of these individuals, we focus on the converging components of temperament, cognition, and language.},
affiliation = {Pediatric Developmental Disabilities, Texas Scottish Rite Hospital for Children, Dallas, TX 75219, USA. behroze.vachha@tsrh.org.},
number = {1},
pages = {6},
volume = {1},
year = {2004},
month = {Dec},
language = {ENG},
date-added = {2010-03-20 19:15:53 +0100},
date-modified = {2010-03-20 19:15:53 +0100},
doi = {10.1186/1743-8454-1-6},
pii = {1743-8454-1-6},
pmid = {15679940},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vachha-2004-Cerebrospinal%20fluid%20research_A%20temperament%20for%20le.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7876},
rating = {0}
}
@article{Aboyans:2003p7400,
author = {Victor Aboyans and Philippe Lacroix and Arnaud Lebourdon and Pierre-Marie Preux and Jean Ferri{\`e}res and Mare Laskar},
journal = {Journal of Clinical Epidemiology},
title = {The intra- and interobserver variability of ankle-arm blood pressure index according to its mode of calculation},
abstract = {To propose a standardization of calculus of the ankle-arm index as a diagnostic tool in the clinical setting and epidemiology of peripheral arterial disease, we aimed to study the reproducibility of its measurement through 15 different modes of calculation. The study was performed in a group of 194 vascular laboratory outpatients of a tertiary center. The intra- and interobserver variability was assessed by the intraclass correlation coefficient of agreement and the Bland {\&} Altman method. Methods where the numerator was calculated by the average of posterior tibial and dorsalis pedis artery systolic pressures revealed to be the best reproducible. According to this study and former researches on this topic, we recommend the use of the average of posterior tibial and dorsalis pedis artery systolic pressures of the weakest limb for the numerator and the average of systolic pressures of humeral arteries for the denominator of the ankle-arm index.},
affiliation = {Department of Cardiovascular Surgery {\&} Vascular Medicine, Dupuytren University Hospital 2, Martin Luther King Avenue, Limoges F-87042, France. aboyans@unilim.fr},
number = {3},
pages = {215--20},
volume = {56},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Aged: 80 and over, Ankle, Blood Pressure Determination, Reproducibility of Results, Female, Observer Variation, Adult, Humans, Male, Peripheral Vascular Diseases, Middle Aged, Aged, Tibial Arteries, Arm},
date-added = {2010-03-10 20:36:04 +0100},
date-modified = {2010-03-10 20:36:05 +0100},
pii = {S089543560200584X},
pmid = {12725875},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aboyans-2003-Journal%20of%20Clinical%20Epidemiology_The%20intra-%20and%20inter.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7400},
rating = {0}
}
@article{Hofling:2009p5162,
author = {V H{\"o}fling and K Schermelleh-Engel and H Moosbrugger},
journal = {Methodology},
title = {Analyzing Multitrait-Multimethod Data. A Comparison of Three Approaches},
abstract = {Assessing construct validity is a core task in psychology. Since Campbell and Fiske's (1959) seminal article on multitrait-multimethod (MTMM) analysis, several different methodological approaches for the analysis of convergent and discriminant validity of MTMM data have been developed. In this article, two MTMM approaches are transferred to the general framework of confirmatory factor analysis and compared with the extended version of the correlated trait-correlated method minus one model (Nussbeck, Eid, Geiser, Courvoisier, {\&} Lischetzke, 2009): The multilevel MTMM model (Maas, Lensvelt-Mulders, {\&} Hox, 2009) and the three-mode model (Oort, 2009). Assessing the construct validity of a German Big Five MTMM data set these three MTMM approaches are compared with regard to convergent and discriminant validity estimates and with regard to method effects. Advantages and limitations of each methodological approach will be discussed in detail.},
number = {3},
pages = {99--111},
volume = {5},
year = {2009},
date-added = {2010-02-07 12:24:11 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/H%C3%B6fling-2009-Methodology_Analyzing%20Multitrait.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5162},
rating = {0}
}
@article{Glas:2007p548,
author = {C A W Glas and AVT Dagohoy},
journal = {Psychometrika},
title = {A person-fit test for IRT models for polytomous items},
abstract = {A person fit test based on the Lagrange multiplier test is presented for three item response theory models for polytomous items: the generalized partial credit model, the sequential model, and the graded response model. The test can also be used in the framework of multidimensional ability parameters. It is shown that the Lagrange multiplier statistic can take both the effects of estimation of the item parameters and the estimation of the person parameters into account. The Lagrange multiplier statistic has an asymptotic χ2-distribution. The Type I error rate and power are investigated using simulation studies. Results show that test statistics that ignore the effects of estimation of the persons' ability parameters have decreased Type I error rates and power. Incorporating a correction to account for the effects of the estimation of the persons' ability parameters results in acceptable Type I error rates and power characteristics; incorporating a correction for the estimation of the item parameters has very little additional effect. It is investigated to what extent the three models give comparable results, both in the simulation studies and in an example using data from the NEO Personality Inventory-Revised.},
number = {2},
pages = {159--180},
volume = {72},
year = {2007},
keywords = {model fit, polytomous items, person fit, Type I error, power, item response theory, multidimensional item response theory},
date-added = {2010-01-03 14:18:10 +0100},
date-modified = {2010-01-03 14:22:49 +0100},
doi = {10.1007/s11336-003-1081-5},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2007-Psychometrika_A%20person-fit%20test%20fo-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p548},
rating = {3}
}
@article{Casanova:2007p1706,
author = {Ramon Casanova and Ryali Srikanth and Aaron Baer and Paul J Laurienti and Jonathan H Burdette and Satoru Hayasaka and Lynn Flowers and Frank Wood and Joseph A Maldjian},
journal = {Neuroimage},
title = {Biological parametric mapping: A statistical toolbox for multimodality brain image analysis},
abstract = {In recent years, multiple brain MR imaging modalities have emerged; however, analysis methodologies have mainly remained modality-specific. In addition, when comparing across imaging modalities, most researchers have been forced to rely on simple region-of-interest type analyses, which do not allow the voxel-by-voxel comparisons necessary to answer more sophisticated neuroscience questions. To overcome these limitations, we developed a toolbox for multimodal image analysis called biological parametric mapping (BPM), based on a voxel-wise use of the general linear model. The BPM toolbox incorporates information obtained from other modalities as regressors in a voxel-wise analysis, thereby permitting investigation of more sophisticated hypotheses. The BPM toolbox has been developed in Matlab with a user-friendly interface for performing analyses, including voxel-wise multimodal correlation, ANCOVA, and multiple regression. It has a high degree of integration with the SPM (statistical parametric mapping) software relying on it for visualization and statistical inference. Furthermore, statistical inference for a correlation field, rather than a widely used T-field, has been implemented in the correlation analysis for more accurate results. An example with in vivo data is presented, demonstrating the potential of the BPM methodology as a tool for multimodal image analysis.},
affiliation = {Advanced Neuroscience Imaging Research (ANSIR) Laboratory, Department of Radiology, Wake Forest University School of Medicine, USA. casanova@wfubmc.edu},
number = {1},
pages = {137--43},
volume = {34},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Humans, Software, Brain Mapping, Brain, Statistics as Topic},
date-added = {2010-01-09 19:16:05 +0100},
date-modified = {2010-01-09 19:16:06 +0100},
doi = {10.1016/j.neuroimage.2006.09.011},
pii = {S1053-8119(06)00946-3},
pmid = {17070709},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Casanova-2007-Neuroimage_Biological%20parametri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1706},
rating = {0}
}
@article{Grant:2009p1548,
author = {M C Grant and L Zhang and M Damiano},
title = {An Evaluation of Kernel Equating: Parallel Equating With Classical Methods in the SAT Subject TestsTM Program},
year = {2009},
date-added = {2010-01-07 16:33:05 +0100},
date-modified = {2010-01-07 16:33:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grant-2009-_An%20Evaluation%20of%20Ker.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1548},
rating = {0}
}
@article{May:2006,
author = {H May},
journal = {Journal of Educational and Behavioral Statistics},
title = {A Multilevel Bayesian Item Response Theory Method for Scaling Socioeconomic Status in International Studies of Education},
abstract = {In this article, a new method is presented and implemented for deriving a scale of socioeconomic status (SES) from international survey data using a multilevel Bayesian item response theory (IRT) model. The proposed model incorporates both international anchor items and nation-specific items and is able to (a) produce student family SES scores that are internationally comparable, (b) reduce the influence of irrelevant national differences in culture on the SES scores, and (c) effectively and efficiently deal with the problem of missing data in a manner similar to Rubin's (1987) multiple imputation approach. The results suggest that this model is superior to conventional models in terms of its fit to the data and its ability to use information collected via international surveys.},
number = {1},
pages = {63--79},
volume = {31},
year = {2006},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:33:45 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1150},
read = {Yes},
rating = {0}
}
@article{Tari:2009p2374,
author = {Luis Tari and Chitta Baral and Seungchan Kim},
journal = {J Biomed Inform},
title = {Fuzzy c-means clustering with prior biological knowledge},
abstract = {We propose a novel semi-supervised clustering method called GO Fuzzy c-means, which enables the simultaneous use of biological knowledge and gene expression data in a probabilistic clustering algorithm. Our method is based on the fuzzy c-means clustering algorithm and utilizes the Gene Ontology annotations as prior knowledge to guide the process of grouping functionally related genes. Unlike traditional clustering methods, our method is capable of assigning genes to multiple clusters, which is a more appropriate representation of the behavior of genes. Two datasets of yeast (Saccharomyces cerevisiae) expression profiles were applied to compare our method with other state-of-the-art clustering methods. Our experiments show that our method can produce far better biologically meaningful clusters even with the use of a small percentage of Gene Ontology annotations. In addition, our experiments further indicate that the utilization of prior knowledge in our method can predict gene functions effectively. The source code is freely available at http://sysbio.fulton.asu.edu/gofuzzy/.},
affiliation = {School of Computing and Informatics, Department of Computer Science and Engineering, Ira A. Fulton School of Engineering, Arizona State University, P.O. Box 878809, Tempe, AZ 85287-8809, USA. luis.tari@asu.edu},
number = {1},
pages = {74--81},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Genes: Fungal, Computational Biology, Saccharomyces cerevisiae, Genes, Software, Cluster Analysis, Fuzzy Logic, Databases: Genetic, Algorithms, Reproducibility of Results, Gene Expression Profiling, Oligonucleotide Array Sequence Analysis, Normal Distribution, Internet},
date-added = {2010-01-10 19:28:31 +0100},
date-modified = {2010-01-10 19:28:31 +0100},
doi = {10.1016/j.jbi.2008.05.009},
pii = {S1532-0464(08)00079-8},
pmid = {18595779},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tari-2009-J%20Biomed%20Inform_Fuzzy%20c-means%20cluste.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2374},
rating = {0}
}
@article{Caruso:2000,
author = {J C Caruso},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization of the NEO personality scales},
pages = {236--254},
volume = {60},
year = {2000},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2134},
rating = {0}
}
@article{Pearl:2009p4090,
author = {J Pearl and A Paz},
title = {Confounding Equivalence in Observational Studies (or, when are two measurements equally valuable for effect estimation?)},
abstract = {The paper provides a simple test for deciding, from a given causal diagram, whether two sets of covariates have the same bias-reducing potential under adjustment. The test requires that one of the following two conditions holds: either (1) both sets are admissible (i.e., satisfy the back-door criterion) or (2) the Markov boundaries surrounding the treatment variable(s) are identical in both sets. Applications to covariate selection and model testing are discussed.},
year = {2009},
date-added = {2010-01-19 23:04:51 +0100},
date-modified = {2010-01-19 23:05:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pearl-2009-_Confounding%20Equivale.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4090},
rating = {0}
}
@book{CoE:2005,
author = {CoE},
journal = {Book},
title = {The Common European Framework},
year = {2005},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2215},
rating = {0}
}
@article{Myers:2007p7793,
author = {Amanda J Myers and J Raphael Gibbs and Jennifer A Webster and Kristen Rohrer and Alice Zhao and Lauren Marlowe and Mona Kaleem and Doris Leung and Leslie Bryden and Priti Nath and Victoria L Zismann and Keta Joshipura and Matthew J Huentelman and Diane Hu-Lince and Keith D Coon and David W Craig and John V Pearson and Peter Holmans and Christopher B Heward and Eric M Reiman and Dietrich Stephan and John Hardy},
journal = {Nat Genet},
title = {A survey of genetic human cortical gene expression},
abstract = {It is widely assumed that genetic differences in gene expression underpin much of the difference among individuals and many of the quantitative traits of interest to geneticists. Despite this, there has been little work on genetic variability in human gene expression and almost none in the human brain, because tools for assessing this genetic variability have not been available. Now, with whole-genome SNP genotyping arrays and whole-transcriptome expression arrays, such experiments have become feasible. We have carried out whole-genome genotyping and expression analysis on a series of 193 neuropathologically normal human brain samples using the Affymetrix GeneChip Human Mapping 500K Array Set and Illumina HumanRefseq-8 Expression BeadChip platforms. Here we present data showing that 58% of the transcriptome is cortically expressed in at least 5% of our samples and that of these cortically expressed transcripts, 21% have expression profiles that correlate with their genotype. These genetic-expression effects should be useful in determining the underlying biology of associations with common diseases of the human brain and in guiding the analysis of the genomic regions involved in the control of normal gene expression.},
affiliation = {Laboratory of Neurogenetics, National Institute on Aging, Porter Neuroscience Building, National Institutes of Health Main Campus, Bethesda, Maryland 20892, USA. amyers@med.miami.edu},
number = {12},
pages = {1494--9},
volume = {39},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Aged, Gene Expression Profiling, Genetic Variation, Aged: 80 and over, Polymorphism: Single Nucleotide, Humans, Cerebral Cortex, Oligonucleotide Array Sequence Analysis},
date-added = {2010-03-17 20:59:13 +0100},
date-modified = {2010-03-17 20:59:13 +0100},
doi = {10.1038/ng.2007.16},
pii = {ng.2007.16},
pmid = {17982457},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Myers-2007-Nat%20Genet_A%20survey%20of%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7793},
read = {Yes},
rating = {0}
}
@article{Holland:1990p6272,
author = {P W Holland},
journal = {Psychometrika},
title = {The Dutch Identity: A new tool for the study of item response models},
abstract = {The Dutch Identity is a useful way to reexpress the basic equations of item response models that relate the manifest probabilities to the item response functions (IRFs) and the latent trait distribution. The identity may be exploited in several ways. For example: (a) to suggest how item response models behave for large numbers of items--they are approximate submodels of second-order loglinear models for 2J tables; (b) to suggest new ways to assess the dimen- sionality of the latent trait--principle components analysis of matrices composed of second- order interactions from loglinear models; (c) to give insight into the structure of latent class models; and (d) to illuminate the problem of identifying the IRFs and the latent trait distribution from sample data.},
number = {1},
pages = {5--18},
volume = {55},
year = {1990},
date-added = {2010-02-20 17:20:21 +0100},
date-modified = {2010-02-20 17:21:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holland-1990-Psychometrika_The%20Dutch%20Identity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6272},
rating = {0}
}
@article{Petrov:2000p14180,
author = {Alexander A Petrov and John R Anderson},
title = {ANCHOR: A Memory-Based Model of Category Rating},
abstract = {This paper attempts to draw a bridge between psychophys- ics and memory research by proposing a memory-based model of category rating. The model is based on the cogni- tive architecture ACT-R and uses anchors stored in memory that serve as prototypes for the stimuli classified within a response category. The anchors are retrieved by a partial matching mechanism and updated dynamically by an in- cremental learning mechanism. Anchors also have base- level activations that reflect the frequency and recency of the responses. These mechanisms give rise to sequential effects and nonuniform response distributions. A psycho- logical experiment involving category rating of physical length is reported and the predictions of the model are compared against the empirical data. The psychophysical implications of the model are discussed.},
year = {2000},
date-added = {2010-08-22 20:16:07 +0200},
date-modified = {2010-08-22 20:16:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petrov-2000-_ANCHOR%20A%20Memory-Bas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14180},
rating = {0}
}
@article{Clark:1989,
author = {HH Clark and EF Schaeffer},
journal = {Cognitive Science},
title = {Contributing to discourse},
abstract = {For people to contribute to discourse, they must do more than utter the tight sentence at the right time. The basic requirement is that they add to their common ground in an orderly way. To do this, we argue, they try to establish for each utterance the mutual belief that the addressees have understood what the speaker meant well enough for current purposes. We present a model of contributions and show how it accounts for a variety of features of everyday conversations},
pages = {259--294},
volume = {13},
year = {1989},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1008},
rating = {0}
}
@article{Hartley:1971p6319,
author = {H O Hartley and J N K Rao},
journal = {The American Statistician},
title = {Foundations of Survey Sampling (A Don Quixote Tragedy)},
number = {1},
pages = {21--27},
volume = {25},
year = {1971},
date-added = {2010-02-20 21:14:06 +0100},
date-modified = {2010-07-29 19:51:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hartley-1971-The%20American%20Statistician_Foundations%20of%20Surve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6319},
rating = {0}
}
@article{Johnsen:2010p9809,
author = {Erik Johnsen and Rune A Kroken and Tore Wentzel-Larsen and Hugo A Jorgensen},
journal = {BMC Psychiatry},
title = {Effectiveness of second-generation antipsychotics: a naturalistic, randomized comparison of olanzapine, quetiapine, risperidone, and ziprasidone},
abstract = {ABSTRACT: Background No clear recommendations exist regarding which antipsychotic drug should be prescribed first for a patient suffering from psychosis. The primary aims of this naturalistic study were to assess the head-to-head effectiveness of first-line second-generation antipsychotics with regards to time until drug discontinuation, duration of index admission, time until readmission, change of psychopathology scores and tolerability outcomes. Methods Patients 18 years or more of age admitted to the emergency ward for symptoms of psychosis were consecutively randomized to risperidone (n=53), olanzapine (n=52), quetiapine (n=50), or ziprasidone (n=58), and followed for up to 2 years. Results A total of 213 patients were included, of which 68% were males. The sample represented a diverse population suffering from psychosis. At admittance the mean Positive and Negative Syndrome Scale (PANSS) total score was 74 points and 44% were antipsychotic drug naive. The primary intention-to-treat analyses revealed no substantial differences between the drugs regarding the times until discontinuation of initial drug, until discharge from index admission, or until readmission. Quetiapine was superior to risperidone and olanzapine in reducing the PANSS total score and the positive subscore. Quetiapine was superior to the other drugs in decreasing the PANSS general psychopathology subscore; in decreasing the Clinical Global Impression - Severity of Illness scale score (CGI-S); and in increasing the Global Assessment of Functioning - Split version, Functions scale score (GAF-F). Ziprasidone was superior to risperidone in decreasing the PANSS positive symptoms subscore and the CGI-S score, and in increasing the GAF-F score. The drugs performed equally with regards to most tolerability outcomes except a higher increase of hip-circumference per day for olanzapine compared to risperidone, and more galactorrhoea for risperidone compared to the other groups. Conclusions Quetiapine appears to be a good starting drug candidate in this sample of patients admitted to hospital for symptoms of psychosis. Trial Registration ClinicalTrials.gov ID; URL: http://www.clinicaltrials.gov/: NCT00932529.},
number = {1},
pages = {26},
volume = {10},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-26 19:21:33 +0100},
date-modified = {2010-03-26 19:21:33 +0100},
doi = {10.1186/1471-244X-10-26},
pii = {1471-244X-10-26},
pmid = {20334680},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnsen-2010-BMC%20Psychiatry_Effectiveness%20of%20sec-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9809},
rating = {0}
}
@article{Schafer:2009p7877,
author = {Robin J Schafer and Cheryl Lacadie and Betty Vohr and Shelli R Kesler and Karol H Katz and Karen C Schneider and Kenneth R Pugh and Robert W Makuch and Allan L Reiss and R Todd Constable and Laura R Ment},
journal = {Brain},
title = {Alterations in functional connectivity for language in prematurely born adolescents},
abstract = {Recent data suggest recovery of language systems but persistent structural abnormalities in the prematurely born. We tested the hypothesis that subjects who were born prematurely develop alternative networks for processing language. Subjects who were born prematurely (n = 22; 600-1250 g birth weight), without neonatal brain injury on neonatal cranial ultrasound, and 26 term control subjects were examined with a functional magnetic resonance imaging (fMRI) semantic association task, the Wechsler Intelligence Scale for Children-III (WISC-III) and the Clinical Evaluation of Language Fundamentals (CELF). In-magnet task accuracy and response times were calculated, and fMRI data were evaluated for the effect of group on blood oxygen level dependent (BOLD) activation, the correlation between task accuracy and activation and the functional connectivity between regions activating to task. Although there were differences in verbal IQ and CELF scores between the preterm (PT) and term control groups, there were no significant differences for either accuracy or response time for the in-magnet task. Both groups activated classic semantic processing areas including the left superior and middle temporal gyri and inferior frontal gyrus, and there was no significant difference in activation patterns between groups. Clear differences between the groups were observed in the correlation between task accuracy and activation to task at P < 0.01, corrected for multiple comparisons. Left inferior frontal gyrus correlated with accuracy only for term controls and left sensory motor areas correlated with accuracy only for PT subjects. Left middle temporal gyri correlated with task accuracy for both groups. Connectivity analyses at P < 0.001 revealed the importance of a circuit between left middle temporal gyri and inferior frontal gyrus for both groups. In addition, the PT subjects evidenced greater connectivity between traditional language areas and sensory motor areas but significantly fewer correlated areas within the frontal lobes when compared to term controls. We conclude that at 12 years of age, children born prematurely and children born at term had no difference in performance on a simple lexical semantic processing task and activated similar areas. Connectivity analyses, however, suggested that PT subjects rely upon different neural pathways for lexical semantic processing when compared to term controls. Plasticity in network connections may provide the substrate for improving language skills in the prematurely born.},
affiliation = {Department of Diagnostic Imaging, Magnetic Resonance Research Center, Yale University School of Medicine, PO Box 208043, New Haven, CT 06520, USA. rschafer01@gmail.com},
number = {Pt 3},
pages = {661--70},
volume = {132},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Language Tests, Semantics, Intelligence, Case-Control Studies, Brain Mapping, Frontal Lobe, Temporal Lobe, Infant: Newborn, Neuronal Plasticity, Language Development, Neural Pathways, Magnetic Resonance Imaging, Birth Weight, Child, Infant: Premature, Male, Female, Humans},
date-added = {2010-03-20 19:16:33 +0100},
date-modified = {2010-03-20 19:16:33 +0100},
doi = {10.1093/brain/awn353},
pii = {awn353},
pmid = {19158105},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schafer-2009-Brain_Alterations%20in%20funct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7877},
rating = {0}
}
@article{Moss:2010p13660,
author = {Sue Moss},
journal = {Stat Methods Med Res},
title = {Design issues in cancer screening trials},
abstract = {Randomised controlled trials avoid many of the potential biases associated with the evaluation of cancer screening. Nevertheless there are many issues concerning the design of such trials that require careful consideration and that will influence interpretation of the results. This article discusses issues related to recruitment and randomisation, which will affect the extent to which the population studied, is representative of the eventual target population of a screening programme. It addresses sample size considerations, the use of appropriate outcome measures and the timing of the intervention. Finally, issues related to ensuring appropriate analyses are discussed.},
affiliation = {Cancer Screening Evaluation Unit, Institute of Cancer Research, Sutton, Surrey, UK.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-07-11 09:03:33 +0200},
date-modified = {2010-07-11 09:03:33 +0200},
doi = {10.1177/0962280209359846},
pii = {0962280209359846},
pmid = {20442197},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moss-2010-Stat%20Methods%20Med%20Res_Design%20issues%20in%20can.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13660},
rating = {0}
}
@article{Knop:2009p1252,
author = {Joachim Knop and Elizabeth C Penick and Elizabeth J Nickel and Erik L Mortensen and Margaret A Sullivan and Syed Murtaza and Per Jensen and Ann M Manzardo and William F Gabrielli},
journal = {Journal of studies on alcohol and drugs},
title = {Childhood ADHD and conduct disorder as independent predictors of male alcohol dependence at age 40},
abstract = {OBJECTIVE: The Danish Longitudinal Study on Alcoholism was designed to identify antecedent predictors of adult male alcoholism. The influence of premorbid behaviors consistent with childhood conduct disorder (CD) and attention-deficit/hyperactivity disorder (ADHD) on the development of alcohol misuse was examined. METHOD: Subjects were selected from a Danish birth cohort (9,125), which included 223 sons of alcoholic fathers (high risk) and 106 matched sons of nonalcoholic fathers (low risk). These subjects have been studied systematically over the past 40 years. They were evaluated in their teens (n=238), later as adults at age 30 (n=241), and more recently at age 40 (n=202). At 19-year/20-year follow-ups, an ADHD scale was derived from teacher ratings and a CD scale was derived from a social worker interview. At 30-year and 40-year follow-ups, a psychiatrist used structured interviews and criteria from the Diagnostic and Statistical Manual of Mental Disorders, Third Edition, Revised, to quantify lifetime alcoholism severity and to diagnose alcohol-use disorder. Of the original subjects, 110 had complete data for the two childhood measures and the adult alcoholism outcomes. RESULTS: In this smaller subsample, paternal risk did not predict adult alcohol dependence. Subjects who were above a median split on both the ADHD and the CD scales were more than six times more likely to develop alcohol dependence than subjects who scored below the median on both. Although the two childhood measures were correlated, a multiple regression showed that each independently predicted a measure of lifetime alcoholism severity. CONCLUSIONS: ADHD comorbid with CD was the strongest predictor of later alcohol dependence.},
affiliation = {Institute of Preventive Medicine, Center for Health and Society, Copenhagen University Hospital, Oster Sogade 18, 1.floor, DK-1357 Copenhagen K, Denmark. jk@ipm.regionh.dk},
number = {2},
pages = {169--77},
volume = {70},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Diagnosis: Dual (Psychiatry), Follow-Up Studies, Fathers, Male, Conduct Disorder, Aging, Predictive Value of Tests, Adult, Genetic Predisposition to Disease, Longitudinal Studies, Attention Deficit Disorder with Hyperactivity, Risk Factors, Humans, Alcoholism},
date-added = {2010-01-07 11:23:29 +0100},
date-modified = {2010-01-07 11:23:29 +0100},
pmid = {19261228},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1252},
rating = {0}
}
@article{Li:2009p1538,
author = {Jiuyong Li and Ada Wai-chee Fu and Paul Fahey},
journal = {Artif Intell Med},
title = {Efficient discovery of risk patterns in medical data},
abstract = {OBJECTIVE: This paper studies a problem of efficiently discovering risk patterns in medical data. Risk patterns are defined by a statistical metric, relative risk, which has been widely used in epidemiological research. METHODS: To avoid fruitless search in the complete exploration of risk patterns, we define optimal risk pattern set to exclude superfluous patterns, i.e. complicated patterns with lower relative risk than their corresponding simpler form patterns. We prove that mining optimal risk pattern sets conforms an anti-monotone property that supports an efficient mining algorithm. We propose an efficient algorithm for mining optimal risk pattern sets based on this property. We also propose a hierarchical structure to present discovered patterns for the easy perusal by domain experts. RESULTS: The proposed approach is compared with two well-known rule discovery methods, decision tree and association rule mining approaches on benchmark data sets and applied to a real world application. The proposed method discovers more and better quality risk patterns than a decision tree approach. The decision tree method is not designed for such applications and is inadequate for pattern exploring. The proposed method does not discover a large number of uninteresting superfluous patterns as an association mining approach does. The proposed method is more efficient than an association rule mining method. A real world case study shows that the method reveals some interesting risk patterns to medical practitioners. CONCLUSION: The proposed method is an efficient approach to explore risk patterns. It quickly identifies cohorts of patients that are vulnerable to a risk outcome from a large data set. The proposed method is useful for exploratory study on large medical data to generate and refine hypotheses. The method is also useful for designing medical surveillance systems.},
affiliation = {School of Computer and Information Science, University of South Australia, Mawson Lakes, Adelaide 5095, South Australia, Australia. jiuyong.li@unisa.edu.au},
number = {1},
pages = {77--89},
volume = {45},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Male, Female, Decision Trees, Middle Aged, Algorithms, Adult, Humans, Risk Assessment},
date-added = {2010-01-07 16:21:40 +0100},
date-modified = {2010-07-29 19:17:26 +0200},
doi = {10.1016/j.artmed.2008.07.008},
pii = {S0933-3657(08)00090-0},
pmid = {18783927},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2009-Artif%20Intell%20Med_Efficient%20discovery.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1538},
rating = {0}
}
@techreport{Antonietti:2006,
author = {J-P Antonietti},
journal = {Techreport},
title = {Mesures objectives de traits latents},
affiliation = {Institut de Math{\'e}matiques Appliqu{\'e}es},
year = {2006},
month = {Nov},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Antonietti-2006-Techreport_Mesures%20objectives%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1993},
rating = {0}
}
@article{Crawford:2009p3274,
author = {A V Crawford and S B Green and R Levy},
journal = {AERA},
title = {Evaluation of Parallel Analysis Methods for Determining the Number of Factors},
abstract = {Population and sample simulation approaches were used to compare the performance of parallel
analysis using principal component analysis (PA-PCA) and parallel analysis using principal axis factoring (PA-PAF) to identify the number of underlying factors. Additionally, the accuracy of the mean eigenvalue and the 95th percentile eigenvalue criteria was examined. PA-PCA tended to perform as well or better than PA-PAF for models with zero factors, one factor, or multiple uncorrelated factors. PA-PAF generally outperformed PA-PCA to the extent that factors were correlated or strong general factor(s) as well as group factors were present. The 95th percentile criterion was preferable for assessing the first eigenvalue, while the mean eigenvalue criterion tended to perform as well or better for subsequent eigenvalues.},
year = {2009},
date-added = {2010-01-14 21:07:44 +0100},
date-modified = {2010-01-14 21:08:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crawford-2009-AERA_Evaluation%20of%20Parall.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3274},
rating = {0}
}
@article{Jacobs:2009p914,
author = {Kevin B Jacobs and Meredith Yeager and Sholom Wacholder and David Craig and Peter Kraft and David J Hunter and Justin Paschal and Teri A Manolio and Margaret Tucker and Robert N Hoover and Gilles D Thomas and Stephen J Chanock and Nilanjan Chatterjee},
journal = {Nat Genet},
title = {A new statistic and its power to infer membership in a genome-wide association study using genotype frequencies},
abstract = {Aggregate results from genome-wide association studies (GWAS), such as genotype frequencies for cases and controls, were until recently often made available on public websites because they were thought to disclose negligible information concerning an individual's participation in a study. Homer et al. recently suggested that a method for forensic detection of an individual's contribution to an admixed DNA sample could be applied to aggregate GWAS data. Using a likelihood-based statistical framework, we developed an improved statistic that uses genotype frequencies and individual genotypes to infer whether a specific individual or any close relatives participated in the GWAS and, if so, what the participant's phenotype status is. Our statistic compares the logarithm of genotype frequencies, in contrast to that of Homer et al., which is based on differences in either SNP probe intensity or allele frequencies. We derive the theoretical power of our test statistics and explore the empirical performance in scenarios with varying numbers of randomly chosen or top-associated SNPs.},
number = {11},
pages = {1253--7},
volume = {41},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Sensitivity and Specificity, Genotype, Models: Statistical, Likelihood Functions, Models: Genetic, Humans, Polymorphism: Single Nucleotide, Genome-Wide Association Study},
date-added = {2010-01-03 19:00:32 +0100},
date-modified = {2010-01-03 19:00:32 +0100},
doi = {10.1038/ng.455},
pii = {ng.455},
pmid = {19801980},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacobs-2009-Nat%20Genet_A%20new%20statistic%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p914},
rating = {0}
}
@article{Jorgenson:2006p3916,
author = {Eric Jorgenson and John S Witte},
journal = {Am J Hum Genet},
title = {Coverage and power in genomewide association studies},
abstract = {The ability of genomewide association studies to decipher genetic traits is driven in part by how well the measured single-nucleotide polymorphisms "cover" the unmeasured causal variants. Estimates of coverage based on standard linkage-disequilibrium measures, such as the average maximum squared correlation coefficient (r2), can lead to inaccurate and inflated estimates of the power of genomewide association studies. In contrast, use of the "cumulative r2 adjusted power" measure presented here gives more-accurate estimates of power for genomewide association studies.},
affiliation = {Department of Epidemiology and Biostatistics, Center for Human Genetics, University of California-San Francisco, San Francisco, CA 94143-0794, USA. jorg@itsa.ucsf.edu},
number = {5},
pages = {884--8},
volume = {78},
year = {2006},
month = {May},
language = {eng},
keywords = {Genome: Human, Quantitative Trait: Heritable, Linkage Disequilibrium, Genetic Variation, Chromosome Mapping, Humans, Polymorphism: Single Nucleotide, Models: Statistical},
date-added = {2010-01-16 21:05:14 +0100},
date-modified = {2010-01-16 21:05:15 +0100},
doi = {10.1086/503751},
pii = {S0002-9297(07)63822-1},
pmid = {16642443},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3916},
rating = {3}
}
@article{deLeeuw:2010p4265,
author = {Jan de Leeuw and P Mair},
title = {Homogeneity Analysis in R: The Package homals},
abstract = {Homogeneity analysis combines maximizing the correlations between variables of a multivariate data set with that of optimal scaling. In this article we present methodological and practical issues of the R package homals which performs homogeneity analysis and various extensions. By setting rank constraints nonlinear principal component analysis can be performed. The variables can be partitioned into sets such that homogeneity analysis is extended to nonlinear canonical correlation analysis or to predictive models which emulate discriminant analysis and regression models. For each model the scale level of the variables can be taken into account by setting level constraints. All algorithms allow for missing values.},
date-added = {2010-01-23 21:27:59 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw--_Homogeneity%20Analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4265},
rating = {0}
}
@article{Tenenhaus:1995p1547,
author = {M Tenenhaus and J P Gauchi and C M{\'e}nardo},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {R{\'e}gression PLS et applications},
number = {1},
pages = {7--63},
volume = {43},
year = {1995},
date-added = {2010-01-07 16:32:05 +0100},
date-modified = {2010-01-07 16:32:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tenenhaus-1995-Revue%20de%20Statistique%20Appliqu%C3%A9e_R%C3%A9gression%20PLS%20et%20ap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1547},
rating = {0}
}
@article{Glas:2005p1746,
author = {C A W Glas and I Hendrawan},
journal = {Multivariate Behavioral Research},
title = {Testing Linear Models for Ability Parameters in Item Response Models},
abstract = {Methods for testing hypotheses concerning the regression parameters in linear mod- els for the latent person parameters in item response models are presented. Three tests are outlined: A likelihood ratio test, a Lagrange multiplier test and a Wald test. The tests are derived in a marginal maximum likelihood framework. They are explic- itly formulated for the 3-parameter logistic model, but it is shown that the approach applies to a broad class of item response models. Since the distributions of the test statistics are derived asymptotically, simulation studies were performed to assess the Type I error rates of the tests for small realistic sample sizes. Overall, the Type I error rates for the null hypothesis that a regression coefficient equals zero, were close to the nominal significance level. A number of power studies were conducted. It is ar- gued that on theoretical grounds the power of the Lagrange multiplier test might be less than the power of the other two tests, but this expectation was not corroborated.
The robustness of the tests to violation of the item response model was investi- gated with simulation studies of the power and Type I error rate. The results showed that the performance of the tests was acceptable in the cases where local independ- ence and the constancy of the discrimination parameters over treatment groups were violated to the same extent for all treatment groups. The simulation studies also showed that the tests were biased if local independence was violated for one of the treatment groups.},
number = {1},
pages = {25--51},
volume = {40},
year = {2005},
date-added = {2010-01-09 20:37:56 +0100},
date-modified = {2010-01-09 20:43:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2005-Multivariate%20Behavioral%20Research_Testing%20Linear%20Model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1746},
rating = {0}
}
@article{Glas:2003p7441,
author = {Afina S Glas and Jeroen G Lijmer and Martin H Prins and Gouke J Bonsel and Patrick M M Bossuyt},
journal = {Journal of Clinical Epidemiology},
title = {The diagnostic odds ratio: a single indicator of test performance},
abstract = {Diagnostic testing can be used to discriminate subjects with a target disorder from subjects without it. Several indicators of diagnostic performance have been proposed, such as sensitivity and specificity. Using paired indicators can be a disadvantage in comparing the performance of competing tests, especially if one test does not outperform the other on both indicators. Here we propose the use of the odds ratio as a single indicator of diagnostic performance. The diagnostic odds ratio is closely linked to existing indicators, it facilitates formal meta-analysis of studies on diagnostic test performance, and it is derived from logistic models, which allow for the inclusion of additional variables to correct for heterogeneity. A disadvantage is the impossibility of weighing the true positive and false positive rate separately. In this article the application of the diagnostic odds ratio in test evaluation is illustrated.},
affiliation = {Department of Clinical Epidemiology {\&} Biostatistics, University of Amsterdam, Academic Medical Center, Post Office Box 22700, 100 DE Amsterdam, The Netherlands. a.s.glas@amc.uva.nl},
number = {11},
pages = {1129--35},
volume = {56},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Diagnosis, Sensitivity and Specificity, Predictive Value of Tests, Humans, Logistic Models, Odds Ratio, Meta-Analysis as Topic},
date-added = {2010-03-10 20:40:19 +0100},
date-modified = {2010-03-10 20:40:20 +0100},
pii = {S089543560300177X},
pmid = {14615004},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2003-Journal%20of%20Clinical%20Epidemiology_The%20diagnostic%20odds.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7441},
rating = {0}
}
@article{Cleveland:1988p10912,
author = {W S Cleveland and S J Devlin},
journal = {JAMA},
title = {Locally Weighted Regression: An Approach to Regression Analysis by Local Fitting},
number = {403},
pages = {596--610},
volume = {83},
year = {1988},
date-added = {2010-04-11 21:37:32 +0200},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cleveland-1988-JAMA_Locally%20Weighted%20Reg.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10912},
rating = {0}
}
@article{Spycher:2009p2980,
author = {B D Spycher and C E Minder and C E Kuehni},
journal = {Stat Med},
title = {Multivariate modelling of responses to conditional items: New possibilities for latent class analysis},
abstract = {Questionnaire data may contain missing values because certain questions do not apply to all respondents. For instance, questions addressing particular attributes of a symptom, such as frequency, triggers or seasonality, are only applicable to those who have experienced the symptom, while for those who have not, responses to these items will be missing. This missing information does not fall into the category 'missing by design', rather the features of interest do not exist and cannot be measured regardless of survey design. Analysis of responses to such conditional items is therefore typically restricted to the subpopulation in which they apply. This article is concerned with joint multivariate modelling of responses to both unconditional and conditional items without restricting the analysis to this subpopulation. Such an approach is of interest when the distributions of both types of responses are thought to be determined by common parameters affecting the whole population. By integrating the conditional item structure into the model, inference can be based both on unconditional data from the entire population and on conditional data from subjects for whom they exist. This approach opens new possibilities for multivariate analysis of such data. We apply this approach to latent class modelling and provide an example using data on respiratory symptoms (wheeze and cough) in children. Conditional data structures such as that considered here are common in medical research settings and, although our focus is on latent class models, the approach can be applied to other multivariate models.},
affiliation = {Institute of Social and Preventive Medicine, University of Bern, Finkenhubelweg 11, Bern, Switzerland. bspycher@ispm.unibe.ch},
number = {14},
pages = {1927--39},
volume = {28},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Respiratory Sounds, Phenotype, Child, Cough, Questionnaires, Infant, Effect Modifiers (Epidemiology), Likelihood Functions, Data Interpretation: Statistical, Classification, Skin Tests, Common Cold, Humans, Models: Statistical, Algorithms, Child: Preschool, Multivariate Analysis},
date-added = {2010-01-13 23:13:14 +0100},
date-modified = {2010-01-13 23:13:14 +0100},
doi = {10.1002/sim.3550},
pmid = {19205074},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spycher-2009-Stat%20Med_Multivariate%20modelli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2980},
rating = {0}
}
@article{Grove:2005p13813,
author = {William M Grove},
journal = {J Clin Psychol},
title = {Clinical versus statistical prediction: the contribution of Paul E. Meehl},
abstract = {The background of Paul E. Meehl's work on clinical versus statistical prediction is reviewed, with detailed analyses of his arguments. Meehl's four main contributions were the following: (a) he put the question, of whether clinical or statistical combinations of psychological data yielded better predictions, at center stage in applied psychology; (b) he convincingly argued, against an array of objections, that clinical versus statistical prediction was a real (not concocted) problem needing thorough study; (c) he meticulously and even-handedly dissected the logic of clinical inference from theoretical and probabilistic standpoints; and (c) he reviewed the studies available in 1954 and thereafter, which tested the validity of clinical versus statistical predictions. His early conclusion that the literature strongly favors statistical prediction has stood up extremely well, and his conceptual analyses of the prediction problem (especially his defense of applying aggregate-based probability statements to individual cases) have not been significantly improved since 1954.},
affiliation = {University of Minnesota, Twin Cities Campus. MN 55455-0344, USA. groove001@umn.edu},
number = {10},
pages = {1233--43},
volume = {61},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Minnesota, Statistics as Topic, Humans, Psychology: Clinical, History: 20th Century, Forecasting, United States},
date-added = {2010-07-29 12:37:55 +0200},
date-modified = {2010-07-29 12:37:55 +0200},
doi = {10.1002/jclp.20179},
pmid = {16041780},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13813},
rating = {0}
}
@misc{Holmes:2005,
author = {S Holmes},
journal = {Miscellaneous},
title = {Multivariate data analysis: The french way},
year = {2005},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holmes-2005-Miscellaneous_Multivariate%20data%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2056},
rating = {0}
}
@article{Strauss:2009p5938,
author = {Milton E Strauss and Gregory T Smith},
journal = {Annual review of clinical psychology},
title = {Construct validity: advances in theory and methodology},
abstract = {Measures of psychological constructs are validated by testing whether they relate to measures of other constructs as specified by theory. Each test of relations between measures reflects on the validity of both the measures and the theory driving the test. Construct validation concerns the simultaneous process of measure and theory validation. In this article, we review the recent history of validation efforts in clinical psychological science that has led to this perspective, and we review the following recent advances in validation theory and methodology of importance for clinical researchers. These are: the emergence of nonjustificationist philosophy of science; an increasing appreciation for theory and the need for informative tests of construct validity; valid construct representation in experimental psychopathology; the need to avoid representing multidimensional constructs with a single score; and the emergence of effective new statistical tools for the evaluation of convergent and discriminant validity.},
affiliation = {Department of Psychology, University of New Mexico, Albuquerque, New Mexico 87131-0001, USA. milton.strauss@gmail.com},
pages = {1--25},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Psychology: Clinical, Biomedical Research, Models: Psychological, Psychological Theory},
date-added = {2010-02-18 23:16:07 +0100},
date-modified = {2010-02-18 23:16:07 +0100},
doi = {10.1146/annurev.clinpsy.032408.153639},
pii = {10.1146/annurev.clinpsy.032408.153639},
pmid = {19086835},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Strauss-2009-Annual%20review%20of%20clinical%20psychology_Construct%20validity.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5938},
rating = {0}
}
@article{Mewton:2010p10668,
author = {Louise Mewton and Maree Teesson and Tim Slade},
journal = {Addict Behav},
title = {"Youthful epidemic" or diagnostic bias? Differential item functioning of DSM-IV cannabis use criteria in an Australian general population survey},
abstract = {BACKGROUND: Prevalence rates of cannabis abuse and dependence are higher for younger adults when compared with older adults. It is necessary to examine the performance of criteria across age groups to establish whether these differences in prevalence rates are a result of diagnostic bias. The current study aims to investigate whether there is any age-related differential item functioning in the DSM-IV diagnostic criteria for cannabis use disorders using an item response theory approach. METHOD: The sample consisted of 10,641 participants in a population-based survey of Australian adults aged 18 years and older. DSM-IV cannabis use disorders were assessed in all respondents who had used cannabis more than five times in the previous twelve months (n=722). Age-based differential item functioning was assessed in each of the DSM-IV criteria for cannabis use disorders. RESULTS: Age-based differential item functioning was only detected in the Hazard criterion of the DSM-IV cannabis use disorders. The Hazard criterion was found to be more discriminating for those aged 18-24 when compared with those aged 25 and over. CONCLUSIONS: The DSM-IV criteria for cannabis use disorders appear to function similarly across age groups. Differential item functioning was only detected in the alpha parameter for the Hazard criterion. These results are discussed with regard to implications for future editions of the DSM system.},
affiliation = {National Drug and Alcohol Research Centre, University of New South Wales, NSW 2052, Australia. louisem@unsw.edu.au},
number = {5},
pages = {408--13},
volume = {35},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-04-07 11:48:06 +0200},
date-modified = {2010-07-29 19:12:35 +0200},
doi = {10.1016/j.addbeh.2009.12.001},
pii = {S0306-4603(09)00324-4},
pmid = {20071097},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VC9-4XY4K4J-1&_user=2432700&_coverDate=05%252F31%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=67921bf421972730b7ed6c38ed472b5b},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mewton-2010-Addict%20Behav_%22Youthful%20epidemic%22.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10668},
rating = {4}
}
@article{Rossier:2007p8318,
author = {J{\'e}r{\^o}me Rossier and Anton Aluja and Luis F Garc{\'\i}a and Alois Angleitner and Vilfredo De Pascalis and Wei Wang and Michael Kuhlman and Marvin Zuckerman},
journal = {J Pers Assess},
title = {The cross-cultural generalizability of Zuckerman's alternative five-factor model of personality},
abstract = {The aim of this study was to analyze the cross-cultural generalizability of the Alternative five-factor model (AFFM; Zuckerman, Kuhlman, {\&} Camac, 1988). The total sample was made up of 9,152 subjects from six countries: China, Germany, Italy, Spain, Switzerland, and the United States. The internal consistencies for all countries were generally similar to those found for the normative American sample. Factor analyses within cultures showed that the normative American structure was replicated in all cultures; however, the congruence coefficients were slightly lower in China and Italy. A similar analysis at the facet level confirmed the high cross-cultural replicability of the AFFM. Mean-level comparisons did not always show the hypothesized effects. The mean score differences across countries were very small.},
affiliation = {Institute of Psychology, University of Lausanne, Switzerland. Jerome.Rossier@unil.ch},
number = {2},
pages = {188--96},
volume = {89},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Reproducibility of Results, Cross-Cultural Comparison, Humans, Switzerland, Germany, Spain, Personality Assessment, Psychometrics, Questionnaires, Female, Italy, Adult, Models: Psychological, China, Psychiatric Status Rating Scales, United States, Personality Inventory, Personality, Factor Analysis: Statistical, Male},
date-added = {2010-03-20 20:11:27 +0100},
date-modified = {2010-03-20 20:11:27 +0100},
doi = {10.1080/00223890701468618},
pmid = {17764395},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8318},
rating = {0}
}
@book{Tourangeau:2000,
author = {R Tourangeau and LJ Rips and K Rasinski},
journal = {Book},
title = {The psychology of survey response},
year = {2000},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p961},
rating = {0}
}
@article{DesJarlais:2004p9369,
author = {Don C Des Jarlais and Cynthia Lyles and Nicole Crepaz and TREND Group},
journal = {Am J Public Health},
title = {Improving the reporting quality of nonrandomized evaluations of behavioral and public health interventions: the TREND statement},
abstract = {Developing an evidence base for making public health decisions will require using data from evaluation studies with randomized and nonrandomized designs. Assessing individual studies and using studies in quantitative research syntheses require transparent reporting of the study, with sufficient detail and clarity to readily see differences and similarities among studies in the same area. The Consolidated Standards of Reporting Trials (CONSORT) statement provides guidelines for transparent reporting of randomized clinical trials. We present the initial version of the Transparent Reporting of Evaluations with Nonrandomized Designs (TREND) statement. These guidelines emphasize the reporting of theories used and descriptions of intervention and comparison conditions, research design, and methods of adjusting for possible biases in evaluation studies that use nonrandomized designs.},
affiliation = {Baron Edmond de Rothschild Chemical Dependency Institute, Beth Israel Medical Center, New York City, USA. dcdesjarla@aol.com},
number = {3},
pages = {361--6},
volume = {94},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Epidemiologic Research Design, Decision Making, Program Evaluation, Intervention Studies, Behavioral Research, Information Dissemination, Humans, Evidence-Based Medicine, Quality Control, Publishing, Public Health Practice, Periodicals as Topic},
date-added = {2010-03-23 18:42:00 +0100},
date-modified = {2010-07-29 19:14:25 +0200},
pmid = {14998794},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Des%20Jarlais-2004-Am%20J%20Public%20Health_Improving%20the%20report.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9369},
rating = {0}
}
@article{Niida:2010p13185,
author = {Atsushi Niida and Seiya Imoto and Rui Yamaguchi and Masao Nagasaki and Satoru Miyano},
journal = {PLoS ONE},
title = {Gene set-based module discovery decodes cis-regulatory codes governing diverse gene expression across human multiple tissues},
abstract = {Decoding transcriptional programs governing transcriptomic diversity across human multiple tissues is a major challenge in bioinformatics. To address this problem, a number of computational methods have focused on cis-regulatory codes driving overexpression or underexpression in a single tissue as compared to others. On the other hand, we recently proposed a different approach to mine cis-regulatory codes: starting from gene sets sharing common cis-regulatory motifs, the method screens for expression modules based on expression coherence. However, both approaches seem to be insufficient to capture transcriptional programs that control gene expression in a subset of all samples. Especially, this limitation would be serious when analyzing multiple tissue data. To overcome this limitation, we developed a new module discovery method termed BEEM (Biclusering-based Extraction of Expression Modules) in order to discover expression modules that are functional in a subset of tissues. We showed that, when applied to expression profiles of human multiple tissues, BEEM finds expression modules missed by two existing approaches that are based on the coherent expression and the single tissue-specific differential expression. From the BEEM results, we obtained new insights into transcriptional programs controlling transcriptomic diversity across various types of tissues. This study introduces BEEM as a powerful tool for decoding regulatory programs from a compendium of gene expression profiles.},
affiliation = {Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, Japan. aniida@ims.u-tokyo.ac.jp},
number = {6},
pages = {e10910},
volume = {5},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-06-26 11:20:39 +0200},
date-modified = {2010-06-26 11:20:39 +0200},
doi = {10.1371/journal.pone.0010910},
pmid = {20544005},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Niida-2010-PLoS%20ONE_Gene%20set-based%20modul.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13185},
rating = {0}
}
@article{Santos:2007p13988,
author = {In{\'a} S Santos and Alicia Matijasevich and Beatriz Franck Tavares and Alu{\'\i}sio J D Barros and Iara Picinini Botelho and Catherine Lapolli and Pedro Vieira da Silva Magalh{\~a}es and Ana Paula Pereira Neto Barbosa and Fernando C Barros},
journal = {Cad Saude Publica},
title = {Validation of the Edinburgh Postnatal Depression Scale (EPDS) in a sample of mothers from the 2004 Pelotas Birth Cohort Study},
abstract = {The aim of this study was to evaluate the Edinburgh Postnatal Depression Scale (EPDS) for screening and diagnosis of postpartum depression. Three months after delivery, EPDS was administered to 378 mothers from the 2004 Pelotas Birth Cohort Study, Rio Grande do Sul State, Brazil. Up to 15 days later, mothers were re-interviewed by mental health care professionals using a semi-structured interview based on ICD-10 (gold standard). We calculated the sensitivity and specificity of each cutoff point, and values were plotted as a receiver operator characteristic curve. The best cutoff point for screening postpartum depression was > 10, with 82.6% (75.3-89.9%) sensitivity and 65.4% (59.8-71.1%) specificity. For screening moderate and severe cases, the best cutoff point was > 11, with 83.8% (73.4-91.3%) sensitivity and 74.7% (69.4-79.5%) specificity. For diagnosis, EPDS was valid only for prevalence of postpartum depression in the 20-25% range, with 60% PPV for the > 13 cutoff point (59.5% sensitivity; 88.4% specificity). The specificities and PPVs for all cutoff points were below those reported by other authors. Small numbers and the calculation of PPV in samples with overrepresentation of cases in the majority of studies appear to account for these differences.},
affiliation = {Faculdade de Medicina, Universidade Federal de Pelotas, Avenida Duque de Caxias 250, Pelotas, RS, Brazil.},
number = {11},
pages = {2577--88},
volume = {23},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Humans, Questionnaires, Brazil, Socioeconomic Factors, Female, Sensitivity and Specificity, Mass Screening, Adult, Mothers, Cross-Sectional Studies, Mental Status Schedule, Depression: Postpartum},
date-added = {2010-08-04 09:19:48 +0200},
date-modified = {2010-08-04 09:19:49 +0200},
pii = {S0102-311X2007001100005},
pmid = {17952250},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Santos-2007-Cad%20Saude%20Publica_Validation%20of%20the%20Ed.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13988},
rating = {0}
}
@article{Kvam:2010p14046,
author = {Ann K Kvam and Finn Wisloff and Peter M Fayers},
journal = {Health Qual Life Outcomes},
title = {Minimal important differences and response shift in health-related quality of life; a longitudinal study in patients with multiple myeloma},
abstract = {ABSTRACT: BACKGROUND: We previously reported that changes of 6-17 percent in the EORTC QLQ-C30 scores are considered important by patients with multiple myeloma and thus may be considered as Minimal Important Differences (MIDs). However, patients' internal standard of measurement may have changed over time (response shift, RS). In the present work, we evaluated whether myeloma patients experience RS and if this could affect the MID-estimates. METHODS: Between 2006 and 2008, 239 patients with multiple myeloma completed the EORTC QLQ-C30 at inclusion (T1) and after three months (T2). At T2, patients were asked if they had noticed any change in the domains pain, fatigue, physical function and global quality of life. They were also asked to give a retrospective judgment of their health-related quality of life at T1 for the four domains. RESULTS: We found clear evidence of RS in myeloma patients. However, there were differences in both magnitude and direction between patients who stated that they improved and those who deteriorated. Deteriorating patients retrospectively reported better health-related quality of life at T1 for the domains pain, fatigue and physical function. In these patients, MIDs adjusted for RS were observed to increase up to 12 percentage points. In contrast, for patients stating that they improved, we only found evidence of statistically significant RS in global quality of life. CONCLUSIONS: MIDs estimated from pre-test/post-test data appeared to be robust against RS in patients reporting improvement over 3-months. This could indicate that RS has a minimal impact on the results in patients who respond to treatment, and that RS may not have an important impact on interpretation of changes reported in clinical trials where an improvement occurs. Although the effect sizes of the RSs were small, RS in deteriorating patients may have an important impact on the interpretation of changes reported in clinical trials. Trial registration: The study is registered at clinicaltrials.gov, identifier NCT00290095.},
number = {1},
pages = {79},
volume = {8},
year = {2010},
month = {Aug},
language = {ENG},
date-added = {2010-08-10 12:43:51 +0200},
date-modified = {2010-08-10 12:43:51 +0200},
doi = {10.1186/1477-7525-8-79},
pii = {1477-7525-8-79},
pmid = {20678240},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kvam-2010-Health%20Qual%20Life%20Outcomes_Minimal%20important%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14046},
rating = {0}
}
@article{Tavano:2009p5154,
author = {Alessandro Tavano and Renato Borgatti},
journal = {Cortex},
title = {Evidence for a link among cognition, language and emotion in cerebellar malformations},
abstract = {We compared the neurobehavioral profiles of children with Joubert syndrome (JS participants), a rare autosomal recessive condition characterized on magnetic resonance imaging (MRI) by hypoplasia of the cerebellar vermis and midbrain-hindbrain malformations, and children with malformations confined to the cerebellar vermis and one or both hemispheres (Cerebellar malformations - CM participants). We aimed at investigating the influence of anatomo-clinical similarities (vermian malformation) and differences (intact cerebellar hemispheres vs sparing of the pons, respectively) with respect to cognitive, linguistic and emotional development, assuming as a reference framework the Cerebellar Cognitive Affective Syndrome (CCAS). Results show that severe to moderate mental retardation is infrequent in JS children, while it is present in more than half the sample of CM children. Affect development was generally preserved in JS, in high-functioning CM individuals and also in some of the CM children with moderate mental retardation, which raised questions as to the role of a cerebellar vermis lesion in determining affect disorders. Further, cognitive and linguistic profiles on both intellectual and neuropsychological evaluations provided evidence for distinct patterns of peaks and valleys in the two groups, with JS children being significantly more impaired in language and verbal working memory and CM individuals showing a significant impairment of executive functions and emotional development. The overall evidence provides support for an important role of cerebellar structures per se in shaping emotional, cognitive and linguistic development, when vermian lesions are associated to cerebellar hemispheric lesions. Cerebellar vermis and brainstem lesions instead appear to have a major impact on motor-related skills, including oro-motor abilities and verbal working memory.},
affiliation = {"Eugenio Medea" Scientific Institute, Department of Child Neuropsychiatry and Neurorehabilitation, Bosisio Parini (LC), Italy.},
pages = {},
year = {2009},
month = {Sep},
language = {ENG},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-02-05 20:19:44 +0100},
doi = {10.1016/j.cortex.2009.07.017},
pii = {S0010-9452(09)00258-5},
pmid = {19857864},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5154},
rating = {0}
}
@article{Cella:1996p9555,
author = {D F Cella and N L McCain and A H Peterman and F Mo and D Wolen},
journal = {Qual Life Res},
title = {Development and validation of the Functional Assessment of Human Immunodeficiency Virus Infection (FAHI) quality of life instrument},
abstract = {The Functional Assessment of Human Immuno-deficiency Virus (HIV) Infection (FAHI) quality of life instrument was developed using a combination of conceptual and empirical strategies. The core, general health-related quality of life instrument is the Functional Assessment of Cancer Therapy-General (FACT-G) questionnaire. The FACT-G was selected to enable comparison of data across two similar, life-threatening conditions and because of its desirable psychometric properties. Initial data on both the relevance (applicability) of the FACT-G to the HIV population and the generation and testing of questions for an HIV-specific subscale were encouraging. Consequently, the FACT-G and a 9-item HIV-specific subscale were combined and tested in 196 patients in three categories: an English-speaking stress management sample from Chicago, illinois (n = 110); an English-speaking urban, mixed race sample from Chicago (n = 71); and a Spanish-speaking urban sample from Chicago and San Juan, Puerto Rico (n = 64). With the exception of the Social Well-being subscale, the subscales of the FACT-G demonstrated good internal consistency reliability across all three samples (alpha range = 0.72-0.88). Total FAHI scores produced consistently high alpha coefficients (0.89-0.91). Concurrent validity data included moderately strong associations with other measures of similar concepts and an ability to distinguish groups of patients by activity level and disease severity. Sensitivity to change in mood disturbance and responsiveness to a stress management intervention were also evident. The 9-item HIV-specific subscale demonstrated relatively low alpha coefficients (range = 0.53-0.71) and marginal sensitivity to change, leading to supplementation of content with an additional 11 items, creating a 20-item HIV-specific subscale that is currently being tested. Clinical trial and clinical practice investigators are encouraged to use the FACT-G in its current (version 3) form when evaluating group differences and within-group change over time. It should prove particularly useful when comparing clinical trial and clinical practice data for cancer vs. HIV-infected patients and in the evaluation of treatments for HIV disease and HIV-related malignancy. The supplemental 20 questions comprising the revised HIV-specific subscale are undergoing further testing, and may ultimately enhance the value of this measurement system.},
affiliation = {Division of Psychosocial Oncology, Rush-Presbyterian-St. Luke's Medical Center, Chicago, IL 60612, USA.},
number = {4},
pages = {450--63},
volume = {5},
year = {1996},
month = {Aug},
language = {eng},
keywords = {Female, HIV Infections, Quality of Life, Middle Aged, Adult, Aged, Humans, Health Status Indicators, Questionnaires, Male, Adolescent, Reproducibility of Results},
date-added = {2010-03-23 20:51:04 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
pmid = {8840825},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9555},
rating = {0}
}
@article{Trepalin:2008p515,
author = {Sergei V Trepalin and Alexander V Yarkov},
journal = {Algorithms},
title = {Hierarchical Clustering of Large Databases and Classification of Antibiotics at High Noise Levels},
abstract = {A new algorithm for divisive hierarchical clustering of chemical compounds based on 2D structural fragments is suggested. The algorithm is deterministic, and given a random ordering of the input, will always give the same clustering and can process a database up to 2 million records on a standard PC. The algorithm was used for classification of 1,183 antibiotics mixed with 999,994 random chemical structures. Similarity threshold, at which best separation of active and non active compounds took place, was estimated as 0.6. 85.7% of the antibiotics were successfully classified at this threshold with 0.4% of inaccurate compounds. A .sdf file was created with the probe molecules for clustering of external databases.},
affiliation = {Institute of Physiologically Active Compounds, Russian Academy of Sciences, 142432, Chernogolovka, Moscow Region, Russia},
pages = {183--200},
volume = {1},
year = {2008},
keywords = {algorithm, classification of antibiotics, Molecular structure, hierarchical clustering},
date-added = {2010-01-03 13:07:47 +0100},
date-modified = {2010-01-03 13:10:01 +0100},
doi = {10.3390/a1020183},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Trepalin-2008-Algorithms_Hierarchical%20Cluster.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p515},
rating = {0}
}
@article{Chachamovich:2009p6381,
author = {Eduardo Chachamovich and Marcelo P Fleck and Mick Power},
journal = {Journal of Clinical Epidemiology},
title = {Literacy affected ability to adequately discriminate among categories in multipoint Likert Scales},
abstract = {OBJECTIVES: To assess the effect of inability to read on a five-point Likert scale, using the WHOQOL-BREF response scale. It is hypothesized that inability to read is related to loss of discriminant power among the five-category response scale. STUDY DESIGN AND SETTING: In a cross-sectional design, nonreaders (n=141) and subjects educated at a graduate level (n-907) were assessed. Statistical analyses combined classic and modern psychometric approaches (Confirmatory factor analysis and Rasch analysis). RESULTS: There is a remarkable difference in the psychometric performance of items across the two subgroups. Fit indexes proved to be closer to the ideal for the graduate group, but not for the nonreader group. Reducing the number of response categories improved the model exclusively for the nonreader sample. Nonreaders do not interpret the scale as a true five-category scale, but exhibit a response pattern indicative that only three categories are in fact considered. CONCLUSION: These results confirm the hypothesis that a multiple-category response scale is not suitable for nonreaders. They suggest that a simpler response scale should be adopted to achieve a more reliable and satisfactory psychometric performance in this population. This effect seems to be stronger when more abstract and subjective constructs are involved.},
affiliation = {Post-Graduate Program on Psychiatry, University Federal of Rio Grande do Sul, Rua Florencio Ygartua, 391/308, Porto Alegre - RS, CEP 90430-010, Brazil. echacha.ez@terra.com.br},
number = {1},
pages = {37--46},
volume = {62},
year = {2009},
month = {Jan},
language = {eng},
keywords = {World Health, Aged: 80 and over, Humans, Factor Analysis: Statistical, Aptitude, Aged, Reading, Psychometrics, Cross-Cultural Comparison, Female, Male, Cross-Sectional Studies, Questionnaires, Educational Status, Middle Aged},
date-added = {2010-02-23 08:22:42 +0100},
date-modified = {2010-02-23 08:22:42 +0100},
doi = {10.1016/j.jclinepi.2008.03.002},
pii = {S0895-4356(08)00064-4},
pmid = {18619806},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chachamovich-2009-Journal%20of%20Clinical%20Epidemiology_Literacy%20affected%20ab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6381},
rating = {4}
}
@article{Smyth:1996p823,
author = {P Smyth},
journal = {Proceedings of the Second International Conference on Knowledge Discovery and Data Mining (KDD-96)},
title = {Clustering using Monte-Carlo cross-validation},
pages = {126--133},
year = {1996},
date-added = {2010-01-03 17:45:36 +0100},
date-modified = {2010-01-03 17:47:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smyth-1996-Proceedings%20of%20the%20Second%20International%20Conference%20on%20Knowledge%20Discovery%20and%20Data%20Mining%20(KDD-96)_Clustering%20using%20Mon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p823},
rating = {0}
}
@article{Hrisos:2009p6428,
author = {Susan Hrisos and Martin P Eccles and Jill J Francis and Marije Bosch and Rob Dijkstra and Marie Johnston and Richard Grol and Eileen F S Kaner and Ian N Steen},
journal = {BMC Health Serv Res},
title = {Using psychological theory to understand the clinical management of type 2 diabetes in Primary Care: a comparison across two European countries},
abstract = {BACKGROUND: Long term management of patients with Type 2 diabetes is well established within Primary Care. However, despite extensive efforts to implement high quality care both service provision and patient health outcomes remain sub-optimal. Several recent studies suggest that psychological theories about individuals' behaviour can provide a valuable framework for understanding generalisable factors underlying health professionals' clinical behaviour. In the context of the team management of chronic disease such as diabetes, however, the application of such models is less well established. The aim of this study was to identify motivational factors underlying health professional teams' clinical management of diabetes using a psychological model of human behaviour. METHODS: A predictive questionnaire based on the Theory of Planned Behaviour (TPB) investigated health professionals' (HPs') cognitions (e.g., beliefs, attitudes and intentions) about the provision of two aspects of care for patients with diabetes: prescribing statins and inspecting feet.General practitioners and practice nurses in England and the Netherlands completed parallel questionnaires, cross-validated for equivalence in English and Dutch. Behavioural data were practice-level patient-reported rates of foot examination and use of statin medication. Relationships between the cognitive antecedents of behaviour proposed by the TPB and healthcare teams' clinical behaviour were explored using multiple regression. RESULTS: In both countries, attitude and subjective norm were important predictors of health professionals' intention to inspect feet (Attitude: beta = .40; Subjective Norm: beta = .28; Adjusted R2 = .34, p < 0.01), and their intention to prescribe statins (Attitude: beta = .44; Adjusted R2 = .40, p < 0.01). Individuals' self-reported intention did not predict practice-level performance of either clinical behaviour. CONCLUSION: Using the TPB, we identified modifiable factors underlying health professionals' intentions to perform two clinical behaviours, providing a rationale for the development of targeted interventions. However, we did not observe a relationship between health professionals' intentions and our proxy measure of team behaviour. Significant methodological issues were highlighted concerning the use of models of individual behaviour to explain behaviours performed by teams. In order to investigate clinical behaviours performed by teams it may be necessary to develop measures that reflect the collective cognitions of the members of the team to facilitate the application of these theoretical models to team behaviours.},
affiliation = {Institute of Health and Society, Newcastle University, Newcastle Upon Tyne, UK. susan.hrisos@ncl.ac.uk},
pages = {140},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Adult, Diabetes Mellitus: Type 2, Humans, Europe, Primary Health Care, Diabetic Foot, Hydroxymethylglutaryl-CoA Reductase Inhibitors, Psychological Theory, Health Personnel, Cross-Sectional Studies, Disease Management, Mass Screening, Aged: 80 and over},
date-added = {2010-02-23 08:27:38 +0100},
date-modified = {2010-02-23 08:27:38 +0100},
doi = {10.1186/1472-6963-9-140},
pii = {1472-6963-9-140},
pmid = {19656372},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6428},
rating = {0}
}
@article{Richardson:2005p12972,
author = {Alexandra J Richardson and Paul Montgomery},
journal = {Pediatrics},
title = {The Oxford-Durham study: a randomized, controlled trial of dietary supplementation with fatty acids in children with developmental coordination disorder},
abstract = {BACKGROUND: Developmental coordination disorder (DCD) affects approximately 5% of school-aged children. In addition to the core deficits in motor function, this condition is associated commonly with difficulties in learning, behavior, and psychosocial adjustment that persist into adulthood. Mounting evidence suggests that a relative lack of certain polyunsaturated fatty acids may contribute to related neurodevelopmental and psychiatric disorders such as dyslexia and attention-deficit/hyperactivity disorder. Given the current lack of effective, evidence-based treatment options for DCD, the use of fatty acid supplements merits investigation. METHODS: A randomized, controlled trial of dietary supplementation with omega-3 and omega-6 fatty acids, compared with placebo, was conducted with 117 children with DCD (5-12 years of age). Treatment for 3 months in parallel groups was followed by a 1-way crossover from placebo to active treatment for an additional 3 months. RESULTS: No effect of treatment on motor skills was apparent, but significant improvements for active treatment versus placebo were found in reading, spelling, and behavior over 3 months of treatment in parallel groups. After the crossover, similar changes were seen in the placebo-active group, whereas children continuing with active treatment maintained or improved their progress. CONCLUSIONS: Fatty acid supplementation may offer a safe efficacious treatment option for educational and behavioral problems among children with DCD. Additional work is needed to investigate whether our inability to detect any improvement in motor skills reflects the measures used and to assess the durability of treatment effects on behavior and academic progress.},
affiliation = {University Laboratory of Physiology, Parks Road, Oxford OX1 3PT, United Kingdom. alex.richardson@physiol.ox.ac.uk},
number = {5},
pages = {1360--6},
volume = {115},
year = {2005},
month = {May},
language = {eng},
keywords = {Dietary Supplements, Motor Skills, Motor Skills Disorders, Child Behavior, Cross-Over Studies, Child, Language Arts, Fatty Acids: Omega-3, Fatty Acids: Omega-6, Attention Deficit Disorder with Hyperactivity, Humans},
date-added = {2010-06-25 22:28:01 +0200},
date-modified = {2010-06-25 22:28:01 +0200},
doi = {10.1542/peds.2004-2164},
pii = {115/5/1360},
pmid = {15867048},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12972},
rating = {0}
}
@article{Bech:1997p6855,
author = {P Bech and K B Stage and N P Nair and J K Larsen and P Kragh-S{\o}rensen and A Gjerris},
journal = {J Affect Disord},
title = {The Major Depression Rating Scale (MDS). Inter-rater reliability and validity across different settings in randomized moclobemide trials. Danish University Antidepressant Group},
abstract = {The Major Depression Rating Scale (MDS) has been derived from the Hamilton Depression Scale and the Melancholia Scale. The MDS contains the nine DSM-IV items for major depression which all have anchoring scores from 0 to 4; hence, the theoretical score range is up to 36. The Major Depression Rating Scale has in this study been psychometrically analysed in randomized moclobemide trials. The results showed that the MDS had higher internal validity than the Hamilton Depression Scale. Thus, the homogeneity of the items was higher; factor analysis identified only one general depression factor (after 4 weeks of treatment explaining more than 50% of the variance). The inter-rater reliability of the two scales was of the same high level. The ability to measure changes (external validity) was tested in randomized clinical trials with moclobemide versus tricyclics (clomipramine and notriptyline) performed in Denmark in the psychiatric setting as well as in the general practice. The results showed that in the psychiatric setting tricyclics were superior to moclobemide with effect sizes ranging between 0.43 and 0.53. The highest effect size was obtained with the Melancholia Scale and the Major Depression Rating Scale, while the Hamilton Depression Scale was below 0.50. In the general practice setting no difference was found between moclobemide and clomipramine. In conclusion, the Major Depression Rating Scale has been found to have a more homogeneous factor structure than the Hamilton Depression Scale, but still with the same level of reliability and external validity. However, studies are needed to standardize the scale, especially in the general practice setting.},
affiliation = {Psychiatric Institute, Frederiksborg General Hospital, Hiller{\o}d, Denmark. slej@login.dknet.dk},
number = {1},
pages = {39--48},
volume = {42},
year = {1997},
month = {Jan},
language = {eng},
keywords = {Psychometrics, Moclobemide, Benzamides, Antidepressive Agents, Humans, Depressive Disorder, Clomipramine, Nortriptyline, Reproducibility of Results, Observer Variation, Personality Inventory, Drug Therapy: Combination, Isocarboxazid},
date-added = {2010-03-06 10:32:21 +0100},
date-modified = {2010-07-29 19:31:26 +0200},
pii = {S0165032796000948},
pmid = {9089057},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bech-1997-J%20Affect%20Disord_The%20Major%20Depression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6855},
rating = {0}
}
@article{Jones:2009p14036,
author = {B Jones and CF Nachtshein},
journal = {Journal of Quality Technology},
title = {Split-Plot Designs: What, Why, and How},
abstract = {The past decade has seen rapid advances in the development of new methods for the design and analysis of split-plot experiments. Unfortunately, the value of these designs for industrial experimentation has not been fully appreciated. In this paper, we review recent developments and provide guidelines for the use of split-plot designs in industrial applications.},
number = {4},
pages = {340--361},
volume = {41},
year = {2009},
date-added = {2010-08-09 10:06:40 +0200},
date-modified = {2010-08-09 10:07:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jones-2009-Journal%20of%20Quality%20Technology_Split-Plot%20Designs.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14036},
rating = {0}
}
@article{Capraro:2002,
author = {R M Capraro and M M Capraro},
journal = {Educational and Psychological Measurement},
title = {Myers-Briggs Type Indicator score reliability across studies: A meta-analytic Reliability Generalization study},
pages = {659--673},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2203},
rating = {0}
}
@article{Kooperberg:2001p473,
author = {C Kooperberg and I Ruczinski and M L LeBlanc and L Hsu},
journal = {Genet Epidemiol},
title = {Sequence analysis using logic regression},
abstract = {Logic Regression is a new adaptive regression methodology that attempts to construct predictors as Boolean combinations of (binary) covariates. In this paper we use this algorithm to deal with single-nucleotide polymorphism (SNP) sequence data. The predictors that are found are interpretable as risk factors of the disease. Significance of these risk factors is assessed using techniques like cross-validation, permutation tests, and independent test sets. These model selection techniques remain valid when data is dependent, as is the case for the family data used here. In our analysis of the Genetic Analysis Workshop 12 data we identify the exact locations of mutations on gene 1 and gene 6 and a number of mutations on gene 2 that are associated with the affected status, without selecting any false positives.},
affiliation = {Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue N, MP-1002, Seattle, WA 98109-1024, USA.},
pages = {S626--31},
volume = {21 Suppl 1},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Logistic Models, Polymorphism: Single Nucleotide, Algorithms, Female, Humans, Chromosome Mapping, Male, Quantitative Trait: Heritable, Models: Genetic, DNA Mutational Analysis, Genetic Predisposition to Disease},
date-added = {2010-01-03 12:30:44 +0100},
date-modified = {2010-01-03 12:30:44 +0100},
pmid = {11793751},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kooperberg-2001-Genet%20Epidemiol_Sequence%20analysis%20us.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p473},
rating = {0}
}
@article{Christensen:2003p2367,
author = {K B Christensen and J B Bjorner},
title = {SAS macros for Rasch based latent variable modelling},
abstract = {This paper describes SAS macros that can be used to estimate item parameters using CML, test the assumption of unidimensionality, and fit regression models where either outcome variables or covariates are latent variables measured using (log linear) Rasch models.},
year = {2003},
date-added = {2010-01-10 13:43:30 +0100},
date-modified = {2010-01-10 13:44:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Christensen-2003-_SAS%20macros%20for%20Rasch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2367},
rating = {0}
}
@article{Chun:2009p2565,
author = {Hyonho Chun and S{\"u}nd{\"u}z Keles},
journal = {Genetics},
title = {Expression quantitative trait loci mapping with multivariate sparse partial least squares regression},
abstract = {Expression quantitative trait loci (eQTL) mapping concerns finding genomic variation to elucidate variation of expression traits. This problem poses significant challenges due to high dimensionality of both the gene expression and the genomic marker data. We propose a multivariate response regression approach with simultaneous variable selection and dimension reduction for the eQTL mapping problem. Transcripts with similar expression are clustered into groups, and their expression profiles are viewed as a multivariate response. Then, we employ our recently developed sparse partial least-squares regression methodology to select markers associated with each cluster of genes. We demonstrate with extensive simulations that our eQTL mapping with multivariate response sparse partial least-squares regression (M-SPLS eQTL) method overcomes the issue of multiple transcript- or marker-specific analyses, thereby avoiding potential elevation of type I error. Additionally, joint analysis of multiple transcripts by multivariate response regression increases power for detecting weak linkages. We illustrate that M-SPLS eQTL compares competitively with other approaches and has a number of significant advantages, including the ability to handle highly correlated genotype data and computational efficiency. We provide an application of this methodology to a mouse data set concerning obesity and diabetes.},
affiliation = {Department of Biostatistics and Medical Informatics, University of Wisconsin, Madison, Wisconsin 53705, USA.},
number = {1},
pages = {79--90},
volume = {182},
year = {2009},
month = {May},
language = {eng},
keywords = {Animals, Genetic Markers, Diabetes Mellitus, Mice: Obese, Least-Squares Analysis, Gene Expression, Linkage (Genetics), Gene Expression Profiling, Mice, Computer Simulation, Quantitative Trait Loci, Oligonucleotide Array Sequence Analysis, Chromosomes: Mammalian, Models: Statistical, Bayes Theorem},
date-added = {2010-01-12 22:21:32 +0100},
date-modified = {2010-07-29 19:27:13 +0200},
doi = {10.1534/genetics.109.100362},
pii = {genetics.109.100362},
pmid = {19270271},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chun-2009-Genetics_Expression%20quantitat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2565},
rating = {0}
}
@article{Fabbri:2004p7716,
author = {D Fabbri and C Monfardini and R Radice},
title = {Testing exogeneity in the bivariate probit model: Monte Carlo evidence and an application to health economics},
abstract = {Many economic applications involve the modeling of a binary variable as simultaneously determined with one of its dycotomous regressors. In this paper we deal with a prominent health economics case study, that of cesarean section delivery utilization across public and private hospitals. Estimating the probability of cesarean section in a univariate framework neglecting the potential endogeneity of the hospital type dummy might lead to invalid inference. Since little is known about the exact sampling properties of alternative statistics for testing exogeneity of a dycotomous regressor in probit models, we conduct an extensive Monte Carlo exper- iment. Equipped with the simulation results we apply a comprehensive battery of tests to an Italian sample of women and find clear evidence against exogeneity of the hospital type dummy. We speculate on the economic implications of these results and discuss the misleading inter- pretation arising from the adoption of either univariate probit model or seemingly unrelated bivariate probit model.},
year = {2004},
date-added = {2010-03-17 20:48:13 +0100},
date-modified = {2010-03-17 20:48:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fabbri-2004-_Testing%20exogeneity%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7716},
rating = {0}
}
@article{Bollen:1995p11757,
author = {K A Bollen},
title = {Apparent And Nonapparent Significance Tests},
year = {1995},
date-added = {2010-05-23 09:57:09 +0200},
date-modified = {2010-05-23 09:57:48 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bollen-1995-_Apparent%20And%20Nonappa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11757},
rating = {0}
}
@article{Vanderveen:2008p9634,
author = {Joseph W Vanderveen and Lee M Cohen and David R M Trotter and Frank L Collins},
journal = {Addict Behav},
title = {Impulsivity and the role of smoking-related outcome expectancies among dependent college-aged cigarette smokers},
abstract = {The relationship between trait-impulsivity and smoking expectancies on smoking progression in undergraduate college students was examined over a 48-hour period of smoking abstinence. Participants were forty-nine college-aged dependent cigarette smokers who completed measures designed to assess impulsivity, nicotine dependence, and smoking expectancies. Using a series of multilevel models, impulsivity by time analyses indicated significant differences in positive reinforcement expectancies, [F (2, 94)=3.19, p<.05], but not in negative reinforcement expectancies, [F (2, 94)=0.49, p=.61]. Simple slopes analyses indicated that heightened trait-impulsivity predicted greater increases in positive reinforcement outcome expectancies at 48 h of abstinence. Level of impulsivity, however, was not related to changes in negative reinforcement expectancies. Results indicate that during an abstinence period, college students higher in trait-impulsivity may be more prone to relapse due to stronger beliefs about the positive effects from smoking a cigarette. These findings highlight the importance of understanding the interaction of personality and cognitive factors when working with young adult smokers wishing to quit this health-compromising behavior.},
affiliation = {Texas Tech University, Department of Psychology, Lubbock, TX 79409-2051, USA.},
number = {8},
pages = {1006--11},
volume = {33},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Young Adult, Students, Questionnaires, Male, Adolescent, Female, Reinforcement (Psychology), Smoking, Universities, Impulsive Behavior, Humans, Smoking Cessation, Motivation, Tobacco Use Disorder, Choice Behavior},
date-added = {2010-03-25 14:47:58 +0100},
date-modified = {2010-07-29 19:12:35 +0200},
doi = {10.1016/j.addbeh.2008.03.007},
pii = {S0306-4603(08)00084-1},
pmid = {18474413},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vanderveen-2008-Addict%20Behav_Impulsivity%20and%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9634},
rating = {0}
}
@article{Verguts:2001,
author = {Tom Verguts and Paul De Boeck},
journal = {Journal of Mathematical and Statistical Psychology},
title = {Some Mantel-Haenszel tests of Rasch model assumptions},
pages = {21--37},
volume = {54},
year = {2001},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verguts-2001-Journal%20of%20Mathematical%20and%20Statistical%20Psychology_Some%20Mantel-Haenszel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1970},
rating = {0}
}
@article{Furnkranz:2002p4609,
author = {J F{\"u}rnkranz},
title = {Pairwise Classification as an Ensemble Technique},
abstract = {In this paper we investigate the performance of pairwise (or round robin) classification, originally a technique for turning multi-class problems into two-class problems, as a general ensemble technique. In particular, we show that the use of round robin ensembles will also increase the classification performance of decision tree learners, even though they can directly handle multi-class prob- lems. The performance gain is not as large as for bagging and boosting, but on the other hand round robin ensembles have a clearly defined semantics. Furthermore, we show that the advantage of pairwise classification over direct multi-class clas- sification and one-against-all binarization increases with the number of classes, and that round robin ensembles form an interesting alternative for problems with ordered class values.},
affiliation = {Austrian Research Institute for Artificial Intelligence Schottengasse 3, A-1010 Wien, Austria},
year = {2002},
date-added = {2010-01-30 15:08:34 +0100},
date-modified = {2010-01-30 15:09:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/F%C3%BCrnkranz-2002-_Pairwise%20Classificat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4609},
rating = {0}
}
@misc{Rizopoulos:2005,
author = {Dimitris Rizopoulos},
journal = {Miscellaneous},
title = {Nonlinear effects in generalized latent variable models},
year = {2005},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rizopoulos-2005-Miscellaneous_Nonlinear%20effects%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1909},
rating = {0}
}
@misc{Eggen:2005,
author = {Theo Eggen},
journal = {Miscellaneous},
title = {Computerized adaptive testing},
year = {2005},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eggen-2005-Miscellaneous_Computerized%20adaptiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2115},
rating = {0}
}
@article{RavensSieberer:2006p7947,
author = {Ulrike Ravens-Sieberer and Michael Erhart and Nora Wille and Ralf Wetzel and Jennifer Nickel and Monika Bullinger},
journal = {Pharmacoeconomics},
title = {Generic health-related quality-of-life assessment in children and adolescents: methodological considerations},
abstract = {The health-related quality of life (HR-QOL) of children and adolescents is increasingly considered a relevant topic for research. Instruments to assess quality of life in children and adolescents of a generic as well as disease- or condition-specific nature are being developed and applied in epidemiological surveys, clinical studies, quality assurance and health economics. This paper attempts to give an overview on the state of the art of HR-QOL assessment in children as it relates to methodological and conceptual challenges. Instruments available in international or cross-cultural research to assess HR-QOL in generic terms were identified and described according to psychometric data provided and the width of application. In an initial literature search, several challenges in the assessment of child and adolescent HR-QOL were identified, ranging from conceptual and methodological to practical aspects. Seven specific major issues were considered: (i) What are the dimensions of HR-QOL relevant for children and adolescents, and do suitable instruments for their measurement exist? (ii) Can these dimensions be collected in a cross-culturally comparable way? (iii) What advantages and disadvantages do self-rated versus externally evaluated HR-QOL measurements of children and adolescents have? (iv) How can HR-QOL be assessed in an age-appropriate way? (v) What are the advantages and disadvantages of disease-specific and generic data collection? (vi) What advantages and disadvantages do profile and index instruments have? (vii) How can HR-QOL be connected with utility- preference values? In a second literature search we identified nine generic HR-QOL instruments and four utility health state classification systems that complied with the prespecified inclusion criteria. It was concluded that (i) HR-QOL instruments are available to assess the dimensions of the construct relevant to children and adolescents; (ii) provided that an instrument was constructed in an appropriate way, the dimensions of HR-QOL can be measured in an interculturally comparable manner; (iii) the HR-QOL of children and adolescents can and should be ascertained by self-rating; (iv) the measurement instruments used have to consider maturity and cognitive development; (v) only generic quality-of-life instruments allow for an assessment of HR-QOL in both healthy and chronically ill children and adolescents; (vi) the representation of HR-QOL achieved through a singular index value is connected to strict psychometric conditions: the index instrument has to be tailored to these psychometric conditions; (vii) how far utility measures are employable with children and adolescents has to be investigated in further studies. The problem aspects identified indicate the necessity for further research. Nevertheless, instruments for assessing the HR-QOL of children and adolescents can be identified that meet the requirements mentioned above.},
affiliation = {Research Unit Psychosocial Health, Robert Koch-Institut, Berlin, Germany. Ravens-SiebererU@rki.de},
number = {12},
pages = {1199--220},
volume = {24},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Child: Preschool, Quality of Life, Humans, Child, Health, Adolescent, Age Factors, Models: Statistical, Cross-Cultural Comparison},
date-added = {2010-03-20 19:31:31 +0100},
date-modified = {2010-03-20 19:31:31 +0100},
pii = {24125},
pmid = {17129075},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7947},
rating = {0}
}
@article{Torgersen:2009p9057,
author = {Svenn Torgersen},
journal = {Scand J Psychol},
title = {The nature (and nurture) of personality disorders},
abstract = {Personality disorders have a long history in the literature but a short scientific history. The point prevalence of personality disorders is 10%, but the lifetime prevalence is probably 30-40%. Genetic factors contribute to around 40-50% of the variation in the development of personality disorders. The effect of shared environment is very small or non-existent. Some researchers have tried to promote gene-environment interaction. However, in reality, the studies investigated gene-situation interaction, as the "environment" may in reality be partly of a genetic nature. Thus, we are dealing with an unknown part of gene-gene interaction. Gene-experience (not gene-environment) correlations are the rule in human life. Personality disorders co-occur (are comorbid) with symptom disorders (Axis I) and correlate with common personality dimensions. Possibly, the concept of personality disorder could merge with dysfunctional personality types. But it is likely that the concept will survive on its own.},
affiliation = {Department of Psychology, University of Oslo, Oslo, Norway. svenn.torgersen@psykologi.uio.no},
number = {6},
pages = {624--32},
volume = {50},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Personality Disorders, Genetic Predisposition to Disease, Social Environment, Risk Factors, Life Change Events, Humans, Prevalence},
date-added = {2010-03-22 13:18:51 +0100},
date-modified = {2010-07-29 19:49:57 +0200},
doi = {10.1111/j.1467-9450.2009.00788.x},
pii = {SJOP788},
pmid = {19930262},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Torgersen-2009-Scand%20J%20Psychol_The%20nature%20(and%20nurt.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9057},
rating = {0}
}
@article{Dennis:2004p12746,
author = {Cindy-Lee Dennis},
journal = {J Affect Disord},
title = {Can we identify mothers at risk for postpartum depression in the immediate postpartum period using the Edinburgh Postnatal Depression Scale?},
abstract = {BACKGROUND: Postpartum depression is a major health issue for many women around the world with well-documented negative health consequences for the mother, child and family. While research has demonstrated the amenability of postpartum depression to treatment, there is preliminary evidence suggesting maternal mood in the immediate postpartum period may be predictive of postpartum depression such that secondary preventive interventions may be implemented. METHODS: A population-based sample of 594 mothers completed the Edinburgh Postnatal Depression Scale (EPDS) at 1, 4 and 8 weeks postpartum. The sensitivity, specificity and predictive power of the 1-week EPDS in relation to identifying mothers with elevated EPDS scores at 4 and 8 weeks was determined. The predictive power of the 1-week EPDS was further assessed using odds ratios and receiver operator characteristic (ROC) curves. RESULTS: At 1 week postpartum, 29.5% of mothers scored >9 on the EPDS, decreasing to 23% at 4 weeks and 20.5% at 8 weeks. Using the cut-off score of 9/10, the 1-week EPDS accurately classified 85.4% mothers at 4 weeks and 82.5% mothers at 8 weeks with or without postpartum depression symptomatology. The 1-week EPDS was significantly correlated to the 4-week (r=0.72, P<0.001) and 8-week (r=0.65, P<0.001) EPDS. Mothers with a 1-week EPDS score >9 were 30.3 times more likely at 4 weeks (95% CI=17.5-42.3) and 19.1 times more likely at 8 weeks (95% CI=11.0-32.9) to exhibit postpartum depression symptomatology. LIMITATIONS: Psychiatric interviews were not completed in collaboration with the EPDS. CONCLUSION: The EPDS administered in the 1st week postpartum was predictive of maternal mood at 4 and 8 weeks postpartum. To identify mothers at high risk for postpartum depression, health care professionals could consider screening all new mothers in the immediate postpartum period such that secondary preventive interventions may be implemented.},
affiliation = {Faculty of Nursing, University of Toronto, 50 St. George Street, Toronto, Ont., Canada M5S 3H4. cindylee.dennis@utoronto.ca},
number = {2},
pages = {163--9},
volume = {78},
year = {2004},
month = {Feb},
language = {eng},
keywords = {Adolescent, Mothers, Mass Screening, Follow-Up Studies, Adult, Male, Depression: Postpartum, Risk Factors, Questionnaires, Reproducibility of Results, Female, Humans, ROC Curve},
date-added = {2010-06-15 22:49:48 +0200},
date-modified = {2010-06-15 22:49:59 +0200},
pii = {S0165032702002999},
pmid = {14706728},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dennis-2004-J%20Affect%20Disord_Can%20we%20identify%20moth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12746},
rating = {3}
}
@article{Luke:1995p8218,
author = {B Luke and S Leurgans and L Keith and D Keith},
journal = {Acta Genet Med Gemellol (Roma)},
title = {The childhood growth of twin children},
abstract = {The objective of this study was to assess the childhood growth of twin children in terms of the effects of intrauterine growth retardation (IUGR) and discordancy at birth on the incidence and severity of stunting and discordancy in current height and weight. The study was part of a cross-sectional field project conducted at the Annual Twins Days Festival in Twinsburg. Ohio, USA, during 1990, 1991, and 1993, and including all twin children between 2 and 12 years of age. Mothers of twins were interviewed regarding their children's birthweights and gestational age; the twin children were measured for their current heights and weights. The study population included 990 twin children, including 555 boys and 435 girls, of which there were 254 boy pairs and 194 girls pairs. Birthweight for gestational age and current weight and height were each converted into Z-scores and characterized as severe (Z-score < -2,0), or moderate IUGR or stunting (Z-score > -2.0 and < -1.2). For the present study discordancy in birthweight, and current height and weight was calculated for like-gender twin pairs. Only twin children with severe IUGR at birth showed an increased risk of stunting in their current height or weight, and this risk was only for moderate, not severe, stunting. Boy twins with severe IUGR at birth were at increased risk of moderate stunting in their current weight (OR 2.67, 95% CI 1.55, 4.58, p = 0.002), while girl twins with severe IUGR at birth were at increased risk of moderate stunting in their current height (OR 4.09, 95% CI 1.49, 10.99, p = 0.003). Among like-gender twin pairs, there were no differences in mean or categories of birthweight or current weight discordancy, but boy twin pairs did show a significantly greater proportion of current weight discordancy compared to girl twin pairs (p = 0.005). Overall, there was a significant tendency for differences in height and weight between like-gender twin pairs to disappear over time, with the effect being greater for boy twin pairs. We conclude from these findings that twin children tend to overcome growth retardation and discordancy present at birth, and although children who had severe IUGR or discordancy at birth were more likely to have some residual moderate stunting or discordancy in height or weight, they still tended to be within normal values for their gender and current age.},
affiliation = {Department of Obstetrics and Gynecology, University of Michigan Medical School, Ann Arbor, USA.},
number = {3-4},
pages = {169--78},
volume = {44},
year = {1995},
month = {Jan},
language = {eng},
keywords = {Child: Preschool, Body Weight, United States, Follow-Up Studies, Body Height, Growth, Twins: Dizygotic, Humans, Male, Twins: Monozygotic, Twins, Female, Fetal Growth Retardation, Child, Cohort Studies},
date-added = {2010-03-20 19:54:41 +0100},
date-modified = {2010-03-20 19:54:41 +0100},
pmid = {8739728},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luke-1995-Acta%20Genet%20Med%20Gemellol%20(Roma)_The%20childhood%20growth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8218},
rating = {0}
}
@article{Bartels:2003p1359,
author = {M Bartels and J J Hudziak and E J C G van den Oord and C E M van Beijsterveldt and M J H Rietveld and Dorret I Boomsma},
journal = {Behav Genet},
title = {Co-occurrence of aggressive behavior and rule-breaking behavior at age 12: multi-rater analyses},
abstract = {Aggressive Behavior (AGG) and Rule-Breaking Behavior (RB) are two of the eight CBCL syndromes. The phenotypic correlation between AGG and RB ranges from.48 to.76, and varies depending on the rater and the sex of the child. Prevalence of AGG and RB (i.e., T > or = 67) is in the range of 6%-7% in both boys and girls. Fifty percent to 60% of the children who are deviant on AGG are also deviant on RB and vice versa. Why so many children show problem behavior in the clinical range for both syndromes is unclear. This co-occurrence could be due to genetic factors influencing both traits, to environmental factors influencing both traits, or to both. The purpose of this study is to use a genetically informative sample to estimate genetic and environmental influences on AGG and RB and to investigate the etiology of the co-occurrence of both behaviors. We do this using multiple informants to take into account underlying sources of parental agreement and disagreement in ratings of their offspring. To this end, mother and father ratings of AGG and RB were collected by using the Child Behavior Checklist in a large sample of 12-year-old twins. Parental agreement is represented by an interparent correlation in the range of .53-.76, depending on phenotype (AGG or RB) and sex of the child. Genetic influences account for 79% and 69% of the individual differences in RB and AGG behavior (defined as AGG and RB on which both parents do agree) in boys. In girls 56% and 72% of the variance in RB and AGG are accounted for by genetic factors. Shared environmental influences are significant for RB in girls only, explaining 23% of the total variance. Eighty percent of the covariance between AGG and RB, similarly assessed by both parents, can be explained by genetic influences. So, co-occurrence in AGG and RB is mainly caused by a common set of genes. Parental disagreement seems to be a combination of so-called rater bias and of parental specific views.},
affiliation = {Dept. of Psychology, Vrije Universiteit, Amsterdam, The Netherlands.},
number = {5},
pages = {607--21},
volume = {33},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Male, Models: Genetic, Models: Psychological, Mental Disorders, Female, Phenotype, Observer Variation, Incidence, Netherlands, Aggression, Humans, Child},
date-added = {2010-01-07 11:52:51 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
pii = {470351},
pmid = {14574136},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bartels-2003-Behav%20Genet_Co-occurrence%20of%20agg.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1359},
rating = {0}
}
@article{Wang:1987p6276,
author = {Y J Wang and G Y Wong},
journal = {JAMA},
title = {Stochastic Blockmodels for Directed Graphs},
abstract = {Holland and Leinhardt (1981) proposed t h e p , model for the analysis of binary directed graph data in network studies. Such a model provides information about the "attractiveness" and "expansiveness" of the in- dividual nodes in the network, as well as the tendency of a pair of nodes to reciprocate relational ties. When the nodes are a priori partitioned into subgroups based on attributes such as race and sex, the density of ties from one subgroup to another can differ considerably from that relating another pair of subgroups, thus creating a situation called block- ing in social networks. Thep, model completely ignores this extra piece of information and is, therefore, unable to explain the block structure. Blockmodels that are simple extensions of the p, model are proposed specifically for such data. An iterative scaling algorithm is presented for fitting the model parameters by maximum likelihood. The methodology is illustrated in detail on two empirical examples.},
number = {397},
pages = {8--19},
volume = {82},
year = {1987},
date-added = {2010-02-20 17:39:09 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-1987-JAMA_Stochastic%20Blockmode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6276},
rating = {0}
}
@article{Ai:2000p4114,
author = {C Ai and EC Norton},
title = {Interaction Terms in Nonlinear Models},
abstract = {Although applied economists often estimate interaction terms to infer how the effect of one independent variable on the dependent variable depends on the magnitude of another independent variable, most researchers misinterpret the coefficient in nonlinear models. The magnitude of the interaction effect does not equal the coefficient on the interaction term, can be of opposite sign, and is conditional on all the independent variables. The statistical significance of the interaction effect may change substantially with changes in the independent variable. Implications are discussed for difference in difference models. We illustrate with an empirical example.},
year = {2000},
date-added = {2010-01-20 00:01:56 +0100},
date-modified = {2010-01-20 00:02:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ai-2000-_Interaction%20Terms%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4114},
rating = {0}
}
@article{Crowley:2009p9620,
author = {Michael J Crowley and Jia Wu and Clifford Crutcher and Christopher A Bailey and C W Lejuez and Linda C Mayes},
journal = {Dev Neurosci},
title = {Risk-taking and the feedback negativity response to loss among at-risk adolescents},
abstract = {Event-related brain potentials were examined in 32 adolescents (50% female) from a high-risk sample, who were exposed to cocaine and other drugs prenatally. Adolescents were selected for extreme high- or low-risk behavior on the Balloon Analog Risk Task, a measure of real-world risk-taking propensity. The feedback error-related negativity (fERN), an event-related potential (ERP) that occurs when an expected reward does not occur, was examined in a game in which choices lead to monetary gains and losses with feedback delayed 1 or 2 s. The fERN was clearly visible in the fronto-central scalp region in this adolescent sample. Feedback type, feedback delay, risk status, and sex were all associated with fERN variability. Monetary feedback also elicited a P300-like component, moderated by delay and sex. Delaying reward feedback may provide a means for studying complementary functioning of dopamine and norepinephrine systems.},
affiliation = {Yale Child Study Center, Yale School of Medicine, New Haven, CT 06473, USA. michael.crowley@yale.edu},
note = {genim},
number = {1-2},
pages = {137--48},
volume = {31},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Risk-Taking, Event-Related Potentials: P300, Sex Characteristics, Male, Adolescent, Psychometrics, Female, Reward, Humans, Evoked Potentials, Feedback: Psychological, Neuropsychological Tests, Motivation, Electroencephalography, Risk},
date-added = {2010-03-25 14:41:53 +0100},
date-modified = {2010-03-25 18:17:28 +0100},
doi = {10.1159/000207501},
pii = {000207501},
pmid = {19372694},
url = {http://content.karger.com/produktedb/produkte.asp?typ=fulltext&file=000207501},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crowley-2009-Dev%20Neurosci_Risk-taking%20and%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9620},
rating = {0}
}
@article{Tuerlinckx:2001,
author = {F Tuerlinckx and Paul De Boeck},
journal = {Methods of Psychological Research Online},
title = {Non-modeled item interactions can lead to distorted discrimination parameters: A case study},
pages = {159--174},
volume = {6},
year = {2001},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tuerlinckx-2001-Methods%20of%20Psychological%20Research%20Online_Non-modeled%20item%20int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2004},
rating = {0}
}
@article{Kankaras:2009p13443,
author = {M Kankaras and J K Vermunt and G Moors},
title = {Measurement Equivalence of Ordinal Items: A Comparison of Factor Analytic, Item Response Theory, and Latent Class Approaches},
abstract = {Three distinctive methods of assessing measurement equivalence of ordinal items, i.e. confirmatory factor analysis, differential item functioning using item response theory and latent class factor analysis, make different modeling assumptions and adopt different procedures. Simulation data are used to compare the performance of these three approaches in detecting the sources of measurement inequivalence. For this purpose, we simulated Likert-type data using two non-linear models, one with categorical and one with continuous latent variables. Inequivalence was set up in the slope parameters (loadings) as well as in the item intercept parameters in a form resembling agreement and extreme response styles. Results indicate that the item response theory and latent class factor models can relatively accurately detect and locate inequivalence in the intercept and slope parameters both at the scale and the item level. Confirmatory factor analysis performs well when inequivalence is located in the slope parameters, but wrongfully indicates inequivalence in the slope parameters when inequivalence is located in the intercept parameters. Influences of sample size, number of inequivalent items in a scale, and model fit criteria on the performance of the three methods are also analysed.},
year = {2009},
date-added = {2010-07-01 20:13:40 +0200},
date-modified = {2010-07-01 20:14:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kankaras-2009-_Measurement%20Equivale.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13443},
rating = {5}
}
@misc{Birkett:1986,
author = {N J Birkett},
journal = {Miscellaneous},
title = {Selecting the number of response categories for a Lickert-type scale},
year = {1986},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Birkett-1986-Miscellaneous_Selecting%20the%20number.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2155},
rating = {0}
}
@article{Verstralen:1996p1849,
author = {H H F M Verstralen},
title = {Estimating Integer Parameters in IRT Models for Polytomous Items},
year = {1996},
date-added = {2010-01-10 11:17:57 +0100},
date-modified = {2010-01-10 11:18:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-1996-_Estimating%20Integer%20P.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1849},
rating = {0}
}
@article{Hardoon:2009p916,
author = {David R Hardoon and Ulrich Ettinger and Janaina Mour{\~a}o-Miranda and Elena Antonova and David Collier and Veena Kumari and Steven C R Williams and Michael Brammer},
journal = {Neurosci Lett},
title = {Correlation-based multivariate analysis of genetic influence on brain volume},
abstract = {Considerable research effort has focused on achieving a better understanding of the genetic correlates of individual differences in volumetric and morphological brain measures. The importance of these efforts is underlined by evidence suggesting that brain changes in a number of neuropsychiatric disorders are at least partly genetic in origin. The currently used methods to study these relationships are mostly based on single-genotype univariate analysis techniques. These methods are limited as multiple genes are likely to interact with each other in their influences on brain structure and function. In this paper we present a feasibility study where we show that by using kernel correlation analysis, with a new genotypes representation, it is possible to analyse the relative associations of several genetic polymorphisms with brain structure. The implementation of the method is demonstrated on genetic and structural magnetic resonance imaging (MRI) data acquired from a group of 16 healthy subjects by showing the multivariate genetic influence on grey and white matter.},
affiliation = {Computational Statistics {\&} Machine Learning Centre, Dept. of Computer Science, University College London, London WC1E 6BT, United Kingdom. D.Hardoon@cs.ucl.ac.uk},
number = {3},
pages = {281--6},
volume = {450},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Brain, Adolescent, Magnetic Resonance Imaging, Genotype, Nerve Fibers: Myelinated, Male, Multivariate Analysis, Genetic Variation, Pattern Recognition: Automated, Phenotype, Organ Size, Female, Gene Expression Regulation: Developmental, Humans, Polymorphism: Genetic, Image Processing: Computer-Assisted, Polymorphism: Single Nucleotide, Anthropometry, Adult, Young Adult},
date-added = {2010-01-03 19:01:34 +0100},
date-modified = {2010-01-03 19:01:34 +0100},
doi = {10.1016/j.neulet.2008.11.035},
pii = {S0304-3940(08)01604-2},
pmid = {19028548},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardoon-2009-Neurosci%20Lett_Correlation-based%20mu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p916},
read = {Yes},
rating = {0}
}
@article{Ding:2004p2927,
author = {B Ding and R Gentleman},
journal = {Bioconductor Project Working Papers},
title = {Classification Using Generalized Partial Least Squares},
abstract = {The advances in computational biology have made simultaneous monitoring of thousands of features possible. The high throughput technologies not only bring about a much richer information context in which to study various aspects of gene functions but they also present challenge of analyzing data with large number of covariates and few samples. As an integral part of machine learning, classification of samples into two or more categories is almost always of interest to scientists. In this paper, we address the question of classification in this setting by extending partial least squares (PLS), a popular dimension reduction tool in chemometrics, in the context of generalized linear regression based on a previous approach, Iteratively ReWeighted Partial Least Squares, i.e. IRWPLS (Marx, 1996). We compare our results with two-stage PLS (Nguyen and Rocke, 2002A; Nguyen and Rocke, 2002B) and other classifiers. We show that by phrasing the problem in a generalized linear model setting and by applying bias correction to the likelihood to avoid (quasi)separation, we often get lower classification error rates.},
number = {5},
year = {2004},
date-added = {2010-01-13 22:15:22 +0100},
date-modified = {2010-01-13 22:16:13 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ding-2004-Bioconductor%20Project%20Working%20Papers_Classification%20Using.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2927},
rating = {0}
}
@article{Guttman:1977p7066,
author = {L Guttman},
journal = {The Statistician},
title = {What is Not What in Statistics},
number = {2},
pages = {81--107},
volume = {26},
year = {1977},
date-added = {2010-03-06 20:10:14 +0100},
date-modified = {2010-07-29 19:53:47 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guttman-1977-The%20Statistician_What%20is%20Not%20What%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7066},
rating = {0}
}
@article{Reeve:2010p11578,
author = {B Reeve},
title = {Applications of Item Response Theory (IRT) Modeling for Building and Evaluating Questionnaires Measuring Patient-Reported Outcomes},
date-added = {2010-05-09 18:22:51 +0200},
date-modified = {2010-05-09 18:23:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reeve--_Applications%20of%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11578},
rating = {4}
}
@article{Wickham:2006p10902,
author = {H Wickham and D Caragea and D Cook},
title = {Exploring high-dimensional classification boundaries},
year = {2006},
date-added = {2010-04-11 13:48:37 +0200},
date-modified = {2010-04-11 13:49:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham-2006-_Exploring%20high-dimen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10902},
rating = {0}
}
@article{Woodruff:1997p11296,
author = {D Woodruff and B A Hanson},
journal = {Annual Meeting of the Psychometric Society},
title = {Estimation for Item Response Models using the EM Algorithm for Finite Mixtures},
abstract = {This paper presents a detailed description of maximum likelihood parameter estima- tion for item response models using the general EM algorithm. In this paper the models are specified using a univariate discrete latent ability variable. When the latent ability variable is discrete the distribution of the observed item responses is a finite mixture, and the EM algorithm for finite mixtures can be used. Maximum likelihood estimates of the item parameters and of the discrete probabilities of the latent ability distribution are given using the EM algorithm for finite mixtures. Results are presented in general for both di- chotomous and polytomous item response models. The relation between the EM estimates and Bock-Aitken marginal maximum likelihood estimates is discussed.},
year = {1997},
date-added = {2010-04-26 22:29:11 +0200},
date-modified = {2010-04-26 22:29:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Woodruff-1997-Annual%20Meeting%20of%20the%20Psychometric%20Society_Estimation%20for%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11296},
rating = {0}
}
@article{Park:2007p3889,
author = {Ae Kyung Park and Ho Kim},
journal = {Journal of preventive medicine and public health = Yebang {\u U}ihakhoe chi},
title = {[A review of power and sample size estimation in genomewide association studies.]},
abstract = {Power and sample size estimation is one of the crucially important steps in planning a genetic association study to achieve the ultimate goal, identifying candidate genes for disease susceptibility, by designing the study in such a way as to maximize the success possibility and minimize the cost. Here we review the optimal two-stage genotyping designs for genomewide association studies recently investigated by Wang et al(2006). We review two mathematical frameworks most commonly used to compute power in genetic association studies prior to the main study: Monte-Carlo and non-central chi-square estimates. Statistical powers are computed by these two approaches for case-control genotypic tests under one-stage direct association study design. Then we discuss how the linkage disequilibrium strength affects power and sample size, and how to use empirically-derived distributions of important parameters for power calculations. We provide useful information on publicly available software developed to compute power and sample size for various study designs.},
affiliation = {Graduate School of Public Health, Seoul National University, Korea.},
number = {2},
pages = {114--21},
volume = {40},
year = {2007},
month = {Mar},
language = {kor},
keywords = {Sample Size, Humans, Genetic Testing, Models: Statistical, Genome: Human, Research Design},
date-added = {2010-01-16 21:04:20 +0100},
date-modified = {2010-01-16 21:04:20 +0100},
pii = {200703114},
pmid = {17426422},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3889},
rating = {3}
}
@article{Fleischhacker:2005p5378,
author = {W Wolfgang Fleischhacker and Jonathan Rabinowitz and Georg Kemmler and Mari{\"e}lle Eerdekens and Angelika Mehnert},
journal = {Br J Psychiatry},
title = {Perceived functioning, well-being and psychiatric symptoms in patients with stable schizophrenia treated with long-acting risperidone for 1 year},
abstract = {BACKGROUND: The extent to which antipsychotics improve patients' well-being is uncertain. AIMS: To examine psychopathology and patient-rated functioning and well-being in patients treated with risperidone. METHOD: In a 1-year, open-label, international multicentre trial of long-acting risperidone in 615 stable adult patients with schizophrenia, self-rated functioning and well-being were measured every 3 months using the Short Form 36-item questionnaire (SF-36). Psychopathology was quantified using the Positive and Negative Syndrome Scale (PANSS). RESULTS: Significant improvements were found on the SF-36 mental component summary score and vitality and social functioning scales. PANSS and mental component summary scores were moderately correlated. CONCLUSIONS: Patient-reported functioning and well-being appear to differ from investigator-rated psychotic symptoms. Patient-rated well-being should be assessed with symptoms to help measure treatment outcomes.},
affiliation = {Department of Biological Psychiatry, Medical University Innsbruck, Anichstrasse 35, 6020 Innsbruck, Austria. wolfgang.fleischhacker@uibk.ac.at},
pages = {131--6},
volume = {187},
year = {2005},
month = {Aug},
language = {eng},
keywords = {Female, Schizophrenia, Male, Adult, Time Factors, Treatment Outcome, Health Status, Quality of Life, Aged, Patient Satisfaction, Humans, Adolescent, Schizophrenic Psychology, Aged: 80 and over, Antipsychotic Agents, Self Assessment (Psychology), Injections: Intramuscular, Depression, Middle Aged, Anxiety, Risperidone, Administration: Oral},
date-added = {2010-02-11 10:29:52 +0100},
date-modified = {2010-07-29 19:52:08 +0200},
doi = {10.1192/bjp.187.2.131},
pii = {187/2/131},
pmid = {16055823},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fleischhacker-2005-Br%20J%20Psychiatry_Perceived%20functionin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5378},
rating = {0}
}
@article{Stanfield:2008p11150,
author = {Andrew C Stanfield and Andrew M McIntosh and Michael D Spencer and Ruth Philip and Sonia Gaur and Stephen M Lawrie},
journal = {Eur Psychiatry},
title = {Towards a neuroanatomy of autism: a systematic review and meta-analysis of structural magnetic resonance imaging studies},
abstract = {BACKGROUND: Structural brain abnormalities have been described in autism but studies are often small and contradictory. We aimed to identify which brain regions can reliably be regarded as different in autism compared to healthy controls. METHOD: A systematic search was conducted for magnetic resonance imaging studies of regional brain size in autism. Data were extracted and combined using random effects meta-analysis. The modifying effects of age and IQ were investigated using meta-regression. RESULTS: The total brain, cerebral hemispheres, cerebellum and caudate nucleus were increased in volume, whereas the corpus callosum area was reduced. There was evidence for a modifying effect of age and IQ on the cerebellar vermal lobules VI-VII and for age on the amygdala. CONCLUSIONS: Autism may result from abnormalities in specific brain regions and a global lack of integration due to brain enlargement. Inconsistencies in the literature partly relate to differences in the age and IQ of study populations. Some regions may show abnormal growth trajectories.},
affiliation = {Division of Psychiatry, School of Molecular and Clinical Medicine, University of Edinburgh, Royal Edinburgh Hospital, Edinburgh, UK. andrew.stanfield@ed.ac.uk},
number = {4},
pages = {289--99},
volume = {23},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Sex Factors, Magnetic Resonance Imaging, Dominance: Cerebral, Cerebellum, Humans, Corpus Callosum, Autistic Disorder, Caudate Nucleus, Image Processing: Computer-Assisted, Intelligence, Age Factors, Amygdala, Brain},
date-added = {2010-04-14 13:59:22 +0200},
date-modified = {2010-04-14 13:59:23 +0200},
doi = {10.1016/j.eurpsy.2007.05.006},
pii = {S0924-9338(07)01334-X},
pmid = {17765485},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stanfield-2008-Eur%20Psychiatry_Towards%20a%20neuroanato.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11150},
rating = {0}
}
@article{Hwang:2007p2720,
author = {H Hwang and Y Takane and N Malhotra},
title = {Multilevel Generalized Structured Component Analysis},
abstract = {Generalized structured component analysis has been proposed as an alternative to partial least squares for path analysis with latent variables. In practice, observed and latent variables may often be hierarchically structured in that their individual-level scores are grouped within higher-level units. The observed and latent variable scores nested within the same higher-level group are likely to be more similar than those in different groups, thereby giving rise to the interdependence of the scores within the same group. Unless this interdependence is taken into account, obtained solutions are likely to be biased. In this paper, generalized structured component analysis is extended so as to account for the nested structures of both observed and latent variables. An alternating least-squares procedure is developed for parameter estimation. An empirical application concerning the measurements of customer-level customer satisfaction nested within different companies is presented to illustrate the usefulness of the proposed method.},
year = {2007},
date-added = {2010-01-13 14:06:35 +0100},
date-modified = {2010-01-13 14:07:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hwang-2007-_Multilevel%20Generaliz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2720},
rating = {0}
}
@article{Hedeker:1997p3614,
author = {D Hedeker and R D Gibbons},
journal = {Psychological Methods},
title = {Application of Random-Effects Pattern-Mixture Models for Missing Data in Longitudinal Studies},
abstract = {Random-effects regression models have become increasingly popular for analysis of longitudinal data. A key advantage of the random-effects approach is that it can be applied when subjects are not measured at the same number of timepoints. In this article we describe use of random-effects pattern-mixture models to further handle and describe the influence of missing data in longitudinal studies. For this ap- proach, subjects are first divided into groups depending on their missing-data pattern and then variables based on these groups are used as model covariates. In this way, researchers are able to examine the effect of missing-data patterns on the outcome (or outcomes) of interest. Furthermore, overall estimates can be obtained by averaging over the missing-data patterns. A psychiatric clinical trials data set is used to illustrate the random-effects pattern-mixture approach to longitudinal data analysis with missing data.},
number = {1},
pages = {64--78},
volume = {2},
year = {1997},
date-added = {2010-01-16 18:31:29 +0100},
date-modified = {2010-01-16 18:32:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hedeker-1997-Psychological%20Methods_Application%20of%20Rando.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3614},
rating = {0}
}
@article{Srensen:1997p5052,
author = {H T S{\o}rensen and S Sabroe and J Olsen and K J Rothman and M W Gillman and P Fischer},
journal = {BMJ},
title = {Birth weight and cognitive function in young adult life: historical cohort study},
abstract = {OBJECTIVE: To examine the relation between birth weight and cognitive function in young adult life. DESIGN: Retrospective cohort study based on birth registry data and cognitive function measured during evaluation for military service. SUBJECTS: 4300 Danish conscripts born between 1973 and 1975. MAIN OUTCOME MEASURES: Mean score in the Boerge Prien test of cognitive function; score is the number of correct answers to 78 questions and correlates with full scale intelligence quotient (IQ). RESULTS: Mean score in the Boerge Prien test increased from 39.9 at a birth weight of < or = 2500 g to 44.6 at a birth weight of 4200 g even after adjustment for gestational age and length at birth, maternal age and parity, and other variables. Above a birth weight of 4200 g the test score decreased slightly. CONCLUSION: Birth weight is associated with cognitive performance in young adult life. Interference with fetal growth may influence adult cognitive performance.},
affiliation = {Department of Internal Medicine V, Aarhus University Hospital, Denmark. HTS@soci.aau.dk},
number = {7105},
pages = {401--3},
volume = {315},
year = {1997},
month = {Aug},
language = {eng},
keywords = {Male, Infant: Newborn, Birth Weight, Retrospective Studies, Cognition, Humans, Cohort Studies, Adolescent, Intelligence Tests, Intelligence, Adult, Denmark},
date-added = {2010-02-05 20:01:41 +0100},
date-modified = {2010-02-05 20:01:41 +0100},
pmid = {9277604},
local-url = {file://localhost/Users/chl/Dropbox/Papers/S%C3%B8rensen-1997-BMJ_Birth%20weight%20and%20cog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5052},
rating = {0}
}
@article{Iacono:2009p6043,
author = {T Iacono and D West and K Bloomberg and H Johnson},
journal = {J Intellect Disabil Res},
title = {Reliability and validity of the revised Triple C: Checklist of Communicative Competencies for adults with severe and multiple disabilities},
abstract = {AIMS: Few tools are available to assess the communication skills of adults with severe and multiple disabilities functioning at unintentional to early symbolic levels. An exception is the Triple C: Checklist of Communicative Competencies. In this study, aspects of support worker and clinician agreement, internal consistency and construct validity of a revised version of the Triple C were explored. METHOD: Triple C checklists were completed for 72 adults with severe intellectual disabilities (ID) by 118 support workers and stages were assigned by the researchers. Two support workers completed checklists for each of 68 adults with ID. Three researchers also conducted direct observations of 20 adults with ID. RESULTS: The average support worker agreement for items across the five stages of the Triple C ranged from 81% to 87%; agreement for stage assignment based on first and second support worker checklists was moderate to high (k = 0.63). Internal consistency was high (KR20 = 0.97); the stages were found to tap one factor (accounting for approximately 74% of variance), interpreted to be unintentional to early symbolic communication. Agreements between stages based on researcher observations and support worker-completed checklists were 35% and 71% across first and second support workers. CONCLUSION: The revised Triple C provides a reliable means of gathering data on which to determine the communication skills of adults with severe and multiple disabilities. The results support a collaborative use of the Triple C, such that a speech-language pathologist or other communication specialist works with a support worker to ensure understanding of the skills observed and development of appropriate intervention strategies.},
affiliation = {Centre for Developmental Disability Health Victoria, Monash University, Melbourne, Victoria, Australia. teresa.iacono@med.monash.edu.au},
number = {1},
pages = {44--53},
volume = {53},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Caregivers, Reproducibility of Results, Aged, Autistic Disorder, Male, Questionnaires, Mental Retardation, Australia, Communication, Severity of Illness Index, Humans, Disabled Persons, Down Syndrome, Young Adult, Female, Comorbidity, Adult, Communication Disorders, Observer Variation, Middle Aged, Cerebral Palsy},
date-added = {2010-02-19 17:01:02 +0100},
date-modified = {2010-02-19 17:01:02 +0100},
doi = {10.1111/j.1365-2788.2008.01121.x},
pii = {JIR1121},
pmid = {18759959},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6043},
rating = {0}
}
@article{Cannon:2006p10210,
author = {Tyrone D Cannon and Matthew C Keller},
journal = {Annual review of clinical psychology},
title = {Endophenotypes in the genetic analyses of mental disorders},
abstract = {Common mental disorders such as schizophrenia, bipolar disorder, and severe major depression are highly heritable, but differ from single-gene (Mendelian) diseases in that they are the end products of multiple causes. Although this fact may help explain their prevalence from an evolutionary perspective, the complexity of the causes of these disorders makes identification of disease-promoting genes much more difficult. The "endophenotype" approach is an alternative method for measuring phenotypic variation that may facilitate the identification of susceptibility genes for complexly inherited traits. Here we examine the endophenotype construct in context of psychiatric genetics. We first develop an evolutionary theoretical framework for common mental disorders and differentiate them from simpler, single-gene disorders. We then provide a definition and description of endophenotypes, elucidating several features that will make a proposed endophenotype useful in psychiatric genetic research and evaluating the methods for detecting and validating such endophenotypes. We conclude with a review of recent results in the schizophrenia literature that illustrate the usefulness of endophenotypes in genetic analyses of mental disorders, and discuss implications of these findings for models of disease causation and nosology. Given that in mental disorders as in behavior generally, the pathways from genotypes to phenotypes are circuitous at best, discernment of endophenotypes more proximal to the effects of genetic variation will aid attempts to link genes to disorders.},
affiliation = {Department of Psychology, University of California, Los Angeles, California 90095, USA. cannon@psych.ucla.edu},
pages = {267--90},
volume = {2},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Mental Disorders, Chromosome Mapping, Genetic Predisposition to Disease, Models: Genetic, Genetic Techniques, Schizophrenia, Gene Expression, Genetic Markers, Social Environment, Genetic Variation, Humans, Phenotype, Family},
date-added = {2010-04-02 10:46:48 +0200},
date-modified = {2010-04-02 10:47:20 +0200},
doi = {10.1146/annurev.clinpsy.2.022305.095232},
pmid = {17716071},
url = {http://arjournals.annualreviews.org/doi/abs/10.1146/annurev.clinpsy.2.022305.095232?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%253dncbi.nlm.nih.gov},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cannon-2006-Annual%20review%20of%20clinical%20psychology_Endophenotypes%20in%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10210},
rating = {4}
}
@article{Newcomb:1981p8236,
author = {M D Newcomb and G J Huba and Peter M Bentler},
journal = {Journal of Health and Social Behavior},
title = {A Multidimensional Assessment of Stressful Life Events among Adolescents: Derivation and Correlates},
abstract = {A 39-item life-event questionnaire was administered to 1,018 adolescents, who indicated the perceived desirability of each event and whether rhe event had actually happened to them either during the past year or more than one year earlier. A multidimensional scaling revealed seven interpretable dimensions of stress: FamilylParents, Accidentllllness, Sexuality, Autonomy, Deviance, Relocation, and Distress. Each dimension was scored for desirability, and occur- rence was summed using unit weighting. Sex, race, and grade-level differences were evaluated for each item and scale score. The scales calculated for the two different time periods revealed that stress is correlated over time only for corresponding areas. Finally, the stress scales were related to measures of health and psychological functioning through canonical and product- moment correlation analyses; distinct patterns of association were revealed. Alternative methods of scoring life events are evaluated.},
note = {psytools},
number = {4},
pages = {400--415},
volume = {22},
year = {1981},
date-added = {2010-03-20 20:00:36 +0100},
date-modified = {2010-07-29 20:44:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newcomb-1981-Journal%20of%20Health%20and%20Social%20Behavior_A%20Multidimensional%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8236},
rating = {0}
}
@article{Zhao:2005p3942,
author = {Jinying Zhao and Eric Boerwinkle and Momiao Xiong},
journal = {Am J Hum Genet},
title = {An entropy-based statistic for genomewide association studies},
abstract = {Efficient genotyping methods and the availability of a large collection of single-nucleotide polymorphisms provide valuable tools for genetic studies of human disease. The standard chi2 statistic for case-control studies, which uses a linear function of allele frequencies, has limited power when the number of marker loci is large. We introduce a novel test statistic for genetic association studies that uses Shannon entropy and a nonlinear function of allele frequencies to amplify the differences in allele and haplotype frequencies to maintain statistical power with large numbers of marker loci. We investigate the relationship between the entropy-based test statistic and the standard chi2 statistic and show that, in most cases, the power of the entropy-based statistic is greater than that of the standard chi2 statistic. The distribution of the entropy-based statistic and the type I error rates are validated using simulation studies. Finally, we apply the new entropy-based test statistic to two real data sets, one for the COMT gene and schizophrenia and one for the MMP-2 gene and esophageal carcinoma, to evaluate the performance of the new method for genetic association studies. The results show that the entropy-based statistic obtained smaller P values than did the standard chi2 statistic.},
affiliation = {Human Genetic Center, University of Texas, Health Science Center at Houston, Houston, TX 77225, USA.},
number = {1},
pages = {27--40},
volume = {77},
year = {2005},
month = {Jul},
language = {eng},
keywords = {Genetic Markers, Statistics as Topic, Linkage Disequilibrium, Entropy, Humans, Gene Frequency, Haplotypes},
date-added = {2010-01-16 21:05:55 +0100},
date-modified = {2010-01-16 21:05:55 +0100},
doi = {10.1086/431243},
pii = {S0002-9297(07)60899-4},
pmid = {15931594},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3942},
rating = {0}
}
@article{Pollard:2004,
author = {K S Pollard and S Dudoit and M J van der Laan},
journal = {U.C. Berkeley Division of Biostatistics Working Paper Series},
title = {Multiple Testing Procedures R},
abstract = {The Bioconductor R package multtest implements widely applicable resampling-based single-step and stepwise multiple testing procedures (MTP) for controlling a broad class of Type I error rates, in testing problems involving general data generating distributions (with arbitrary dependence structures among variables), null hypotheses, and test statistics. The current version of multtest provides MTPs for tests concerning means, differences in means, and regression parameters in linear and Cox proportional hazards models. Procedures are provided to control Type I error rates defined as tail probabilities for arbitrary functions of the numbers of false positives and rejected hypotheses. These error rates include tail probabilities for the number of false positives (generalized family-wise error rate, gFWER) and the proportion of false positives among the rejected hypotheses (TPPFP). Single-step and step-down common-cut-off (maxT) and common-quantile (minP) procedures, that take into account the joint distribution of the test statistics, are proposed to control the family-wise error rate (FWER), or chance of at least one Type I error. In addition, augmentation multiple testing procedures are provided to control the gFWER and TPPFP, based on any initial FWER-controlling procedure. The results of a multiple testing procedure can be summarized using rejection regions for the test statistics, confidence regions for the parameters of interest, or adjusted p-values. A key ingredient of our proposed MTPs is the test statistics null distribution (and estimator thereof) used to derive rejection regions and corresponding confidence regions and adjusted p-values. Both bootstrap and permutation estimators of the test statistics null distribution are available. The S4 class/method object-oriented programming approach was adopted to summarize the results of a MTP. The modular design of multtest allows interested users to readily extend the package's functionality. Typical testing scenarios are illustrated by applying various MTPs implemented in multtest to the Acute Lymphoblastic Leukemia (ALL) dataset of Chiaretti et al. (2004), with the aim of identifying genes whose expression measures are associated with (possibly censored) biological and clinical outcomes.},
affiliation = {Center for Biomolecular Science and Engineering, University of California, Santa Cruz},
number = {Working Paper 164},
pages = {1--46},
year = {2004},
month = {Jul},
date-added = {2009-12-29 10:29:25 +0100},
date-modified = {2009-12-29 10:40:58 +0100},
url = {http://www.google.com/search?client=safari&rls=en-us&q=Multiple+Testing+Procedures+R&ie=UTF-8&oe=UTF-8},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pollard-2004-U.C.%20Berkeley%20Division%20of%20Biostatistics%20Working%20Paper%20Series_Multiple%20Testing%20Pro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p262},
read = {Yes},
rating = {0}
}
@article{Verschoor:2004aa,
author = {Angela J Verschoor},
title = {IRT Test Assembly Using Genetic Algorithms},
abstract = {This paper intro duces a new class of ptimisation methods in test assembly: Genetic Algorithms (GAs). In the first part an overview is given of the concepts and principles of GAs, in the second part they are applied to three commonly used test assembly models using Item Response Theory. Simulation studies are performed in order to find conditions under which GAs can be successfully used.},
year = {2004},
month = {Apr},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verschoor-2004-_IRT%20Test%20Assembly%20Us.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1194},
rating = {0}
}
@article{Hu:2009p2951,
author = {Jianhua Hu and Adarsh Joshi and Valen E Johnson},
journal = {JAMA},
title = {Log-Linear Models for Gene Association},
abstract = {We describe a class of log-linear models for the detection of interactions in high-dimensional genomic data. This class of models leads to a Bayesian model selection algorithm that can be applied to data that have been reduced to contingency tables using ranks of observations within subjects, and discretization of these ranks within gene/network components. Many normalization issues associated with the analysis of genomic data are thereby avoided. A prior density based on Ewens' sampling distribution is used to restrict the number of interacting components assigned high posterior probability, and the calculation of posterior model probabilities is expedited by approximations based on the likelihood ratio statistic. Simulation studies are used to evaluate the efficiency of the resulting algorithm for known interaction structures. Finally, the algorithm is validated in a microarray study for which it was possible to obtain biological confirmation of detected interactions.},
affiliation = {Jianhua Hu is Assistant Professor of Biostatistics, Department of Biostatistics, University of Texas M. D. Anderson Cancer Center, 1400 Pressler Street, Houston, TX 77030 (E-mail: jhu@mdanderson.org ). Adarsh Joshi is graduate student, Department of Statistics, Texas A{\&}M University, College Station, TX 77030 (E- mail: adarsh@stat.tamu.edu ). Valen E. Johnson is Professor of Biostatistics, Department of Biostatistics, University of Texas M. D. Anderson Cancer Center, 1515 Holcombe Boulevard, Unit 447, Houston, TX 77030 (E-mail: vejohnson@mdanderson.org ).},
number = {486},
pages = {597--607},
volume = {104},
year = {2009},
month = {Jan},
language = {ENG},
date-added = {2010-01-13 23:05:09 +0100},
date-modified = {2010-07-29 20:01:34 +0200},
doi = {10.1198/jasa.2009.0025},
pmid = {19655032},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hu-2009-JAMA_Log-Linear%20Models%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2951},
rating = {0}
}
@article{McGrath:2010p13500,
author = {Clare McGrath and Diana Rofail and Elizabeth Gargon and Linda Abetz},
journal = {Health Qual Life Outcomes},
title = {Using qualitative methods to inform the trade-off between content validity and consistency in utility assessment: the example of type 2 diabetes and Alzheimer's disease},
abstract = {BACKGROUND: Key stakeholders regard generic utility instruments as suitable tools to inform health technology assessment decision-making regarding allocation of resources across competing interventions. These instruments require a 'descriptor', a 'valuation' and a 'perspective' of the economic evaluation. There are various approaches that can be taken for each of these, offering a potential lack of consistency between instruments (a basic requirement for comparisons across diseases). The 'reference method' has been proposed as a way to address the limitations of the Quality-Adjusted Life Year (QALY). However, the degree to which generic measures can assess patients' specific experiences with their disease would remain unresolved. This has been neglected in the discussions on methods development and its impact on the QALY values obtained and resulting cost per QALY estimate underestimated. This study explored the content of utility instruments relevant to type 2 diabetes and Alzheimer's disease (AD) as examples, and the role of qualitative research in informing the trade-off between content coverage and consistency. METHOD: A literature review was performed to identify qualitative and quantitative studies regarding patients' experiences with type 2 diabetes or AD, and associated treatments. Conceptual models for each indication were developed. Generic- and disease-specific instruments were mapped to the conceptual models. RESULTS: Findings showed that published descriptions of relevant concepts important to patients with type 2 diabetes or AD are available for consideration in deciding on the most comprehensive approach to utility assessment. While the 15-dimensional health related quality of life measure (15D) seemed the most comprehensive measure for both diseases, the Health Utilities Index 3 (HUI 3) seemed to have the least coverage for type 2 diabetes and the EuroQol-5 Dimensions (EQ-5D) for AD. Furthermore, some of the utility instruments contained items that could not be mapped onto either of the proposed conceptual models. CONCLUSIONS: Content of the utility measure has a significant impact on the treatment effects that can be observed. This varies from one disease to the next and as such contributes to lack of consistency in observable utility effects and incremental utility scores. This observation appears to have been omitted from the method development considerations such as reference methods. As a result, we recommend that patients' perspectives obtained via qualitative methods are taken into consideration in the ongoing methods development in health state descriptions for generic utility instruments. Also, as a more immediate contribution to improving decision making, we propose that a content map of the chosen utility measure with patient-reported domains be provided as standard reporting in utility measurement in order to improve the transparency of the trade-offs in relation to patient relevance and consistency.},
affiliation = {Health Technology Assessment Policy, Medical Division, Worldwide Pharmaceutical Operations, 3-1-60 Walton Oaks, Tadworth, Surrey KT20 7NS, UK.},
pages = {23},
volume = {8},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-07-07 20:39:30 +0200},
date-modified = {2010-07-07 20:39:36 +0200},
doi = {10.1186/1477-7525-8-23},
pii = {1477-7525-8-23},
pmid = {20152041},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McGrath-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Using%20qualitative%20me.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13500},
rating = {5}
}
@article{Noortgate:2003,
author = {W Van den Noortgate and Paul De Boeck and M Meulders},
journal = {Journal of Educational and Behavioral Statistics},
title = {Cross-classification multilevel logistic models in psychometrics},
pages = {369--386},
volume = {28},
year = {2003},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Noortgate-2003-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Cross-classification.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2024},
rating = {0}
}
@article{Ponocny:2002p14104,
author = {I Ponocny},
journal = {Psychometrika},
title = {ERRATA FOR "NONPARAMETRIC GOODNESS-OF-FIT TESTS FOR THE RASCH MODEL"},
abstract = {A Monte Carlo-algorithm realizing a family of nonpaxametric tests for the Rasch model is intro- duced which are conditional on the item and subject marginals. The algorithmis based on random changes of elements of data matrices without changing the maxginals; most powerful tests against all alternative hypotheses are given for which a monotone characteristic may be computed from the data matrix; alterna- tives may also be composed. Computation times are long, but exact p-values are approximated with the quality of approximation only depending on calculation time, but not on the number of persons. The power and the flexibility of the procedure is demonstrated by means of an empirical example where, among oth- ers, indicators for increased item similarities, the existence of subscales, violations of sufficiency of the raw score as well as learning processes were found. Many of the features described are implemented in theprogramT-Rasch1.0byPonocnyandPonocny-Seliger (1999).},
number = {2},
pages = {315},
volume = {67},
year = {2002},
date-added = {2010-08-18 11:20:25 +0200},
date-modified = {2010-08-18 11:21:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ponocny-2002-Psychometrika_ERRATA%20FOR%20%22NONPARAM.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14104},
rating = {0}
}
@article{Bechger:2004p14017,
author = {Timo M Bechger and Gunter Maris},
journal = {Psicologica},
title = {Structural equation modelling of multiple facet data: Extending models for multitrait-multimethod data},
number = {2},
volume = {25},
year = {2004},
date-added = {2010-08-04 09:45:55 +0200},
date-modified = {2010-08-04 09:47:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2004-Psicologica_Structural%20equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14017},
rating = {0}
}
@article{Zou2006,
author = {H Zou and T Hastie and R Tibshirani},
journal = {Journal of Computational and Graphical Statistics},
title = {Sparse principal component analysis},
pages = {265--286},
volume = {15},
year = {2006},
date-added = {2010-01-12 14:26:48 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2521},
rating = {0}
}
@article{DelPino:1989p3605,
author = {G Del Pino},
journal = {Statistical Science},
title = {The unifying role of iterative generalized least squares in statistical algorithms},
number = {4},
pages = {394--408},
volume = {4},
year = {1989},
date-added = {2010-01-15 21:46:33 +0100},
date-modified = {2010-01-15 21:47:43 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Del%20Pino-1989-Statistical%20Science_The%20unifying%20role%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3605},
rating = {0}
}
@article{deZubicaray:2008p3006,
author = {Greig I de Zubicaray and Ming-Chang Chiang and Katie L McMahon and David W Shattuck and Arthur W Toga and Nicholas G Martin and Margaret J Wright and Paul M Thompson},
journal = {Brain imaging and behavior},
title = {Meeting the Challenges of Neuroimaging Genetics},
abstract = {As research encompassing neuroimaging and genetics gains momentum, extraordinary information will be uncovered on the genetic architecture of the human brain. However, there are significant challenges to be addressed first. Not the least of these challenges is to accomplish the sample size necessary to detect subtle genetic influences on the morphometry and function of the healthy brain. Aside from sample size, image acquisition and analysis methods need to be refined in order to ensure optimum sensitivity to genetic and complementary environmental influences. Then there is the vexing issue of interpreting the resulting data. We describe how researchers from the east coast of Australia and the west coast of America have embarked upon a collaboration to meet these challenges using data currently being collected from a large-scale twin study, and offer some opinions about future directions in the field.},
affiliation = {Centre for Magnetic Resonance, University of Queensland, Brisbane, Australia.},
number = {4},
pages = {258--263},
volume = {2},
year = {2008},
month = {Dec},
language = {ENG},
date-added = {2010-01-13 23:15:51 +0100},
date-modified = {2010-01-13 23:15:54 +0100},
doi = {10.1007/s11682-008-9029-0},
pmid = {20016769},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Zubicaray-2008-Brain%20imaging%20and%20behavior_Meeting%20the%20Challeng.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3006},
read = {Yes},
rating = {4}
}
@article{Schwarz:2006,
author = {N Schwarz and H Bless and G Bohner and U Harlacher and M Kellenbenz},
journal = {Applied Cognitive Psychology},
title = {Response scales as frames of reference: The impact of frequency range on diagnostic judgements},
abstract = {In social and psychological research, respondents are often asked to report the frequency of a behaviour by checking the appropriate alternative from a list of response categories provided to them. Previous research indicated that respondents extract comparison information from the range of the response alternatives, assuming that the average respondent is represented by values in the middle range of the scale, and that the extremes of the scale represent the extremes of the distribution. Extending this line of research, the present studies demonstrate that the users of a respondent's report are also likely to use the range of the response alternatives as a frame of reference in evaluating the implications of the report. Specifically, subjects are found to draw different conclusions about the respondent's personality (Experiment l ), or the severity of his or her medical condition (Experiment 21, from the same absolute frequency report, depending upon the range of the response scale on which the frequency was checked. Moreover, experienced medical doctors were as likely to be influenced by scale range as first-year medical students, suggesting that the phenomenon is of considerable applied importance. Implications for the use of response alternatives in psychological research and diagnostic judgement are discussed.},
number = {1},
pages = {37--49},
volume = {5},
year = {2006},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:15:39 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p983},
rating = {0}
}
@article{Barrowman:2002p2907,
author = {Nicholas J Barrowman},
journal = {CMAJ},
title = {Missing the point (estimate)? Confidence intervals for the number needed to treat},
affiliation = {Chalmers Research Group, Children's Hospital of Eastern Ontario Research Institute, Ottawa. nbarrowman@exchange.cheo.on.ca},
number = {13},
pages = {1676--7},
volume = {166},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Fibrinolytic Agents, Stroke, Confidence Intervals, Sample Size, Severity of Illness Index, Clinical Trials as Topic, Humans, Tissue Plasminogen Activator},
date-added = {2010-01-13 15:02:06 +0100},
date-modified = {2010-01-13 15:02:06 +0100},
pmid = {12126323},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barrowman-2002-CMAJ_Missing%20the%20point%20(e.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2907},
rating = {0}
}
@article{Ludlow:1986p2691,
author = {L H Ludlow},
journal = {Applied Psychological Measurement},
title = {Graphical Analysis of Item Response Theory Residuals},
number = {3},
pages = {217--229},
volume = {10},
year = {1986},
date-added = {2010-01-13 10:11:41 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ludlow-1986-Applied%20Psychological%20Measurement_Graphical%20Analysis%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2691},
rating = {0}
}
@article{Conneely:2007p1371,
author = {Karen N Conneely and Michael Boehnke},
journal = {Am J Hum Genet},
title = {So Many Correlated Tests, So Little Time! Rapid Adjustment of P Values for Multiple Correlated Tests},
abstract = {Contemporary genetic association studies may test hundreds of thousands of genetic variants for association, often with multiple binary and continuous traits or under more than one model of inheritance. Many of these association tests may be correlated with one another because of linkage disequilibrium between nearby markers and correlation between traits and models. Permutation tests and simulation-based methods are often employed to adjust groups of correlated tests for multiple testing, since conventional methods such as Bonferroni correction are overly conservative when tests are correlated. We present here a method of computing P values adjusted for correlated tests (P(ACT)) that attains the accuracy of permutation or simulation-based tests in much less computation time, and we show that our method applies to many common association tests that are based on multiple traits, markers, and genetic models. Simulation demonstrates that P(ACT) attains the power of permutation testing and provides a valid adjustment for hundreds of correlated association tests. In data analyzed as part of the Finland-United States Investigation of NIDDM Genetics (FUSION) study, we observe a near one-to-one relationship (r2>.999) between P(ACT) and the corresponding permutation-based P values, achieving the same precision as permutation testing but thousands of times faster.},
affiliation = {Department of Human Genetics, Emory University School of Medicine, 615 Michael Street, Suite 301, Atlanta, GA 30322, USA. kconneely@genetics.emory.edu.},
number = {6},
pages = {},
volume = {81},
year = {2007},
month = {Oct},
language = {ENG},
date-added = {2010-01-07 12:15:49 +0100},
date-modified = {2010-07-29 19:13:31 +0200},
doi = {10.1086/522036},
pii = {S0002929707637665},
pmid = {17966093},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Conneely-2007-Am%20J%20Hum%20Genet_So%20Many%20Correlated%20T.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1371},
rating = {0}
}
@article{Simon:2008p12088,
author = {M K Simon},
title = {Comparison of concurrent and separate multidimensional irt linking of item parameters},
year = {2008},
date-added = {2010-05-24 12:32:31 +0200},
date-modified = {2010-05-24 12:33:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Simon-2008-_Comparison%20of%20concur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12088},
rating = {0}
}
@article{Daniel:2009p12789,
author = {D B Daniel and D A Poole},
journal = {Perspectives on Psychological Science},
title = {Learning for Life. An Ecological Approach to Pedagogical Research},
abstract = {The trend to convert laboratory findings on the conditions associated with optimal memory into recom- mendations for teaching strategies and learning aids will harm students if findings fail to generalize to students' usual learning environments. Moreover, it is likely that pedagogies function differently for students with different degrees of background knowledge, time, and interest in the subject matter; that some support activities will prevent students from honing their ability learn from narrative material without guided learning; and that an overuse of learning aids will tax students' ability to use them effectively. We contrast two approaches to developing pedagogy---memory first and pedagogical ecology---and explain how the human factors approach of pedagogical ecology could be a more satisfying model for the scholar- ship of teaching and learning.},
number = {1},
pages = {91--96},
volume = {4},
year = {2009},
date-added = {2010-06-18 21:04:55 +0200},
date-modified = {2010-06-18 21:07:15 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Daniel-2009-Perspectives%20on%20Psychological%20Science_Learning%20for%20Life.%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12789},
rating = {0}
}
@article{Rushton:2010p13804,
author = {J P Rushton and A R Jensen},
journal = {Intelligence},
title = {The rise and fall of the Flynn Effect as a reason to expect a narrowing of the Black--White IQ gap},
abstract = {In this Editorial we correct the false claim that g loadings and inbreeding depression scores correlate with the secular gains in IQ. This claim has been used to render the logic of heritable g a ``red herring'' and an ``absurdity'' as an explanation of Black--White differences because secular gains are environmental in origin. In point of fact, while g loadings and inbreeding depression scores on the 11 subtests of the Wechsler Intelligence Scale for Children correlate significantly positively with Black--White differences (0.61 and 0.48, Pb0.001), they correlate significantly negatively (or not at all) with the secular gains (mean r=−0.33, Pb0.001; and 0.13, ns, respectively). Moreover, heritabilities calculated from twins also correlate with the g loadings (r=0.99, Pb0.001 for the estimated true correlation), providing biological evidence for a true genetic g, as opposed to a mere statistical g. While the secular gains are on g-loaded tests (such as the Wechsler), they are negatively correlated with the most g-loaded components of those tests. Also, the tests lose their g loadedness over time with training, retesting, and familiarity. In an analysis of mathematics and reading scores from tests such as the NAEP and Coleman Report over the last 54 years, we show that there has been no narrowing of the gap in either IQ scores or in educational achievement. From 1954 to 2008, Black 17-year-olds have consistently scored at about the level of White 14-year-olds, yielding IQ equivalents of 85 for 1954, 82 for 1965, 70 for 1975, and 81 for 2008. We conclude that predictions about the Black--White IQ gap narrowing as a result of the secular rise are unsupported. The (mostly heritable) cause of the one is not the (mostly environmental) cause of the other. The Flynn Effect (the secular rise in IQ) is not a Jensen Effect (because it does not occur on g).},
pages = {213--219},
volume = {38},
year = {2010},
date-added = {2010-07-29 12:20:19 +0200},
date-modified = {2010-07-29 19:29:16 +0200},
doi = {10.1016/j.intell.2009.12.002},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rushton-2010-Intelligence_The%20rise%20and%20fall%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13804},
rating = {0}
}
@book{Quinlan1993,
author = {R Quinlan},
journal = {Book},
title = {C4.5: Programs for Machine Learning},
year = {1993},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2534},
rating = {0}
}
@article{Wang:2006p3419,
author = {L Wang and J Zhu and H Zou},
journal = {Statistica Sinica},
title = {The doubly regularized support vector machine},
abstract = {The standard L2-norm support vector machine (SVM) is a widely used tool for classification problems. The L1-norm SVM is a variant of the standard L2- norm SVM, that constrains the L1-norm of the fitted coefficients. Due to the nature of the L1-norm, the L1-norm SVM has the property of automatically selecting variables, not shared by the standard L2-norm SVM. It has been argued that the L1-norm SVM may have some advantage over the L2-norm SVM, especially with high dimensional problems and when there are redundant noise variables. On the other hand, the L1-norm SVM has two drawbacks: (1) when there are several highly correlated variables, the L1-norm SVM tends to pick only a few of them, and remove the rest; (2) the number of selected variables is upper bounded by the size of the training data. A typical example where these occur is in gene microarray analysis. In this paper, we propose a doubly regularized support vector machine (DrSVM). The DrSVM uses the elastic-net penalty, a mixture of the L2-norm and the L1-norm penalties. By doing so, the DrSVM performs automatic variable selection in a way similar to the L1-norm SVM. In addition, the DrSVM encourages highly correlated variables to be selected (or removed) together. We illustrate how the DrSVM can be particularly useful when the number of variables is much larger than the size of the training data (p ≫ n). We also develop efficient algorithms to compute the whole solution paths of the DrSVM.},
pages = {589--615},
volume = {16},
year = {2006},
date-added = {2010-01-15 14:54:47 +0100},
date-modified = {2010-01-15 14:55:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2006-Statistica%20Sinica_The%20doubly%20regulariz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3419},
rating = {0}
}
@article{Isaacs:2009p5013,
author = {Elizabeth B Isaacs and Bruce R Fischl and Brian T Quinn and Wui K Chong and David G Gadian and Alan Lucas},
journal = {Pediatric research},
title = {Impact of breast milk on IQ, brain size and white matter development},
abstract = {Although observational findings linking breast milk to higher scores on cognitive tests may be confounded by factors associated with mothers' choice to breastfeed, it has been suggested that one or more constituents of breast milk facilitate cognitive development, particularly in preterms. Because cognitive scores are related to head size, we hypothesised that breast milk mediates cognitive effects by affecting brain growth. We used detailed data from a randomized feeding trial to calculate percentage of breast milk (%EBM) in the infant diet of 50 adolescents. MRI scans were obtained (mean age=15y9m), allowing volumes of total brain (TBV), white and grey matter (WMV, GMV) to be calculated. In the total group %EBM correlated significantly with Verbal IQ (VIQ); in boys, with all IQ scores, TBV and WMV. VIQ was, in turn, correlated with WMV and, in boys only, additionally with TBV. No significant relationships were seen in girls or with grey matter. These data support the hypothesis that breast milk promotes brain development, particularly white matter growth. The selective effect in males accords with animal and human evidence regarding gender effects of early diet. Our data have important neurobiological and public health implications and identify areas for future mechanistic study.},
affiliation = {Childhood Nutrition Research Centre [E.B.I., A.L.], Radiology and Physics Unit [D.G.G.], University College London Institute of Child Health, London WC1N 1EH, United Kingdom; Athinoula A. Martinos Center for Biomedical Imaging [B.R.F., B.T.Q.], Harvard Medical School, Charlestown, MA 02129; Computer Science and Artificial Intelligence Laboratory [B.R.F.], Massachusetts Institute of Technology, Charlestown, MA 02129; New York University Center for Neural Science [B.T.Q.], New York, NY 10003; Department of Radiology [W.K.C.], Great Ormond Street Hospital for Children NHS Trust, London WC1N 3JH, United Kingdom.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-02-05 19:57:35 +0100},
date-modified = {2010-02-05 19:57:35 +0100},
doi = {10.1203/PDR.0b013e3181d026da},
pmid = {20035247},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5013},
rating = {0}
}
@article{Rush:2003p12763,
author = {A John Rush and Madhukar H Trivedi and Hicham M Ibrahim and Thomas J Carmody and Bruce Arnow and Daniel N Klein and John C Markowitz and Philip T Ninan and Susan Kornstein and Rachel Manber and Michael E Thase and James H Kocsis and Martin B Keller},
journal = {Biol Psychiatry},
title = {The 16-Item Quick Inventory of Depressive Symptomatology (QIDS), clinician rating (QIDS-C), and self-report (QIDS-SR): a psychometric evaluation in patients with chronic major depression},
abstract = {The 16-item Quick Inventory of Depressive Symptomatology (QIDS), a new measure of depressive symptom severity derived from the 30-item Inventory of Depressive Symptomatology (IDS), is available in both self-report (QIDS-SR(16)) and clinician-rated (QIDS-C(16)) formats. This report evaluates and compares the psychometric properties of the QIDS-SR(16) in relation to the IDS-SR(30) and the 24-item Hamilton Rating Scale for Depression (HAM-D(24)) in 596 adult outpatients treated for chronic nonpsychotic, major depressive disorder. Internal consistency was high for the QIDS-SR(16) (Cronbach's alpha =.86), the IDS-SR(30) (Cronbach's alpha =.92), and the HAM-D(24) (Cronbach's alpha =.88). QIDS-SR(16) total scores were highly correlated with IDS-SR(30) (.96) and HAM-D(24) (.86) total scores. Item-total correlations revealed that several similar items were highly correlated with both QIDS-SR(16) and IDS-SR(30) total scores. Roughly 1.3 times the QIDS-SR(16) total score is predictive of the HAM-D(17) (17-item version of the HAM-D) total score. The QIDS-SR(16) was as sensitive to symptom change as the IDS-SR(30) and HAM-D(24), indicating high concurrent validity for all three scales. The QIDS-SR(16) has highly acceptable psychometric properties, which supports the usefulness of this brief rating of depressive symptom severity in both clinical and research settings.},
affiliation = {Department of Psychiatry, University of Texas Southwestern Medical Center, Dallas, Texas 75390-9086, USA.},
number = {5},
pages = {573--83},
volume = {54},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Female, Chronic Disease, Adult, Psychiatric Status Rating Scales, Male, Middle Aged, Depressive Disorder: Major, Self Assessment (Psychology), Psychometrics, Severity of Illness Index, Aged, Humans, Treatment Outcome, Adolescent},
date-added = {2010-06-15 22:53:12 +0200},
date-modified = {2010-06-15 22:53:12 +0200},
pii = {S0006322302018668},
pmid = {12946886},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rush-2003-Biol%20Psychiatry_The%2016-Item%20Quick%20In.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12763},
rating = {0}
}
@article{Fiorillo:2003,
author = {Christopher D Fiorillo and Philippe N Tobler and Wolfram Schultz},
journal = {Science},
title = {Discrete coding of reward probability and uncertainty by dopamine neurons.},
abstract = {Uncertainty is critical in the measure of information and in assessing the accuracy of predictions. It is determined by probability P, being maximal at P = 0.5 and decreasing at higher and lower probabilities. Using distinct stimuli to indicate the probability of reward, we found that the phasic activation of dopamine neurons varied monotonically across the full range of probabilities, supporting past claims that this response codes the discrepancy between predicted and actual reward. In contrast, a previously unobserved response covaried with uncertainty and consisted of a gradual increase in activity until the potential time of reward. The coding of uncertainty suggests a possible role for dopamine signals in attention-based learning and risk-taking behavior.},
affiliation = {Institute of Physiology, University of Fribourg, CH-1700 Fribourg, Switzerland. cdf28@cam.ac.uk},
number = {5614},
pages = {1898--1902},
volume = {299},
year = {2003},
month = {Mar},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1077349},
pii = {299/5614/1898},
pmid = {12649484},
url = {http://dx.doi.org/10.1126/science.1077349},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1182},
rating = {0}
}
@article{Hardigan:2007p5886,
author = {P Hardigan and M Carvajal},
journal = {IJAHSP},
title = {Job Satisfaction Among Practicing Pharmacists: A Rasch Analysis},
abstract = {Purpose: through the application of a Rasch rating scale model, the researchers investigated the effect of gender, ethnicity, practice site, income, and age on levels of job satisfaction among practicing pharmacists. Method: The data consist of responses to a survey questionnaire mailed to a random sample of 5,000 registered pharmacists throughout the United States. A total of 820 individuals mailed back their completed form for a response rate of 16.4 percent. Results: Older, higher-wage earning pharmacists working at independent practice sites experience the greatest amount of job satisfaction. Conclusion: The most significant finding from this study is that age, income, and practice site can predict job satisfaction among practicing pharmacists. Additionally, the results provide empirical evidence for the variables inclusion in future models and they demonstrate the usefulness of Rasch techniques.},
number = {4},
volume = {5},
year = {2007},
date-added = {2010-02-17 15:16:34 +0100},
date-modified = {2010-02-17 15:17:51 +0100},
url = {http://ijahsp.nova.edu},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardigan-2007-IJAHSP_Job%20Satisfaction%20Amo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5886},
rating = {0}
}
@article{Wu:2008p2934,
author = {L Y Wu and X Zhou and C C Chang and S T C Wong},
journal = {The Second International Symposium on Optimization and Systems Biology (OSB'08)},
title = {Model Based Probe Fitting and Selection for SNP Array},
abstract = {Recent advances of high-throughput SNP arrays such as Affymetrix's GeneChip Human Mapping 500K array set have made it possible to genotype large samples in a fast and cheap manner. A lot of algorithms were developed to call the genotypes from SNP array. When considering the low level preprocessing of SNP array, most algorithms just borrow the techniques from the gene expression microarray. As in the analysis of gene expression microarray, the low level preprocessing of SNP array, e.g. probe summarization, is very important in the analysis of SNP array such as genotyping, loss of heterozygous (LOH) inference, and copy number inference. In this paper, we present a model based method for probe fitting and selection of SNP array. This method exploits the abundant high quality genotypes such as HapMap data, which were genotyped and validated by several independent genotyping techniques. The new probe summarization method can be used with the existing genotyping methods to improve the accuracy.},
year = {2008},
date-added = {2010-01-13 22:55:26 +0100},
date-modified = {2010-01-13 22:56:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2008-The%20Second%20International%20Symposium%20on%20Optimization%20and%20Systems%20Biology%20(OSB%E2%80%9908)_Model%20Based%20Probe%20Fi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2934},
rating = {0}
}
@article{Wang:2010p12806,
author = {X Wang and S Baldwin and H Wainer and E T Bradlow and B B Reeve and A W Smith and K M Bellizzi and K B Baumgartner},
journal = {Stat Med},
title = {Using Testlet Response Theory to analyze data from a survey of attitude change among breast cancer survivors},
abstract = {In this paper we examine alternative measurement models for fitting data from health surveys. We show why a testlet-based latent trait model that includes covariate information, embedded within a fully Bayesian framework, can allow multiple simultaneous inferences and aid interpretation. We illustrate our approach with a survey of breast cancer survivors that reveals how the attitudes of those patients change after diagnosis toward a focus on appreciating the here-and-now, and away from consideration of longer-term goals. Using the covariate information, we also show the extent to which individual-level variables such as race, age and Tamoxifen treatment are related to a patient's change in attitude.
The major contribution of this research is to demonstrate the use of a hierarchical Bayesian IRT model with covariates in this application area; hence a novel case study, and one that is certainly closely aligned with but distinct from the educational testing applications that have made IRT the dominant test scoring model.},
year = {2010},
date-added = {2010-06-18 22:50:36 +0200},
date-modified = {2010-06-18 22:52:00 +0200},
doi = {10.1002/sim.3945},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2010-Stat%20Med_Using%20Testlet%20Respon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12806},
rating = {0}
}
@article{Hennig:2006p3550,
author = {C Hennig},
title = {Cluster-wise assessment of cluster stability},
abstract = {Stability in cluster analysis is strongly dependent on the data set, especially on how well separated and how homogeneous the clusters are. In the same clustering, some clusters may be very stable and others may be extremely unstable.
The Jaccard coefficient, a similarity measure between sets, is used as a cluster- wise measure of cluster stability, which is assessed by the bootstrap distribution of the Jaccard coefficient for every single cluster of a clustering compared to the most similar cluster in the bootstrapped data sets. This can be applied to very general cluster analysis methods.
Some alternative resampling methods are investigated as well, namely subsetting, jittering the data points and replacing some data points by artificial noise points. The different methods are compared by means of a simulation study.
A data example illustrates the use of the cluster-wise stability assessment to distinguish between meaningful stable and spurious clusters, but it is also shown that clusters are sometimes only stable because of the inflexibility of certain clustering methods.},
year = {2006},
date-added = {2010-01-15 21:02:41 +0100},
date-modified = {2010-01-15 21:03:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hennig-2006-_Cluster-wise%20assessm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3550},
rating = {0}
}
@article{Waaijenborg:2008p2588,
author = {Sandra Waaijenborg and Philip C Verselewel de Witt Hamer and Aeilko H Zwinderman},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Quantifying the association between gene expressions and DNA-markers by penalized canonical correlation analysis},
abstract = {Multiple changes at the DNA level are at the basis of complex diseases. Identifying the genetic networks that are influenced by these changes might help in understanding the development of these diseases. Canonical correlation analysis is used to associate gene expressions with DNA-markers and thus reveals sets of co-expressed and co-regulated genes and their associating DNA-markers. However, when the number of variables gets high, e.g. in the case of microarray studies, interpretation of these results can be difficult. By adapting the elastic net to canonical correlation analysis the number of variables reduces, and interpretation becomes easier, moreover, due to the grouping effect of the elastic net co-regulated and co-expressed genes cluster. Additionally, our adaptation works well in situations where the number of variables exceeds by far the number of subjects.},
affiliation = {Academic Medical Center / University of Amsterdam. s.waaijenborg@amc.uva.nl},
number = {1},
pages = {Article3},
volume = {7},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Cluster Analysis, Genetic Markers, Gene Expression, DNA},
date-added = {2010-01-12 22:29:12 +0100},
date-modified = {2010-07-29 19:50:47 +0200},
doi = {10.2202/1544-6115.1329},
pmid = {18241193},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Waaijenborg-2008-Statistical%20Applications%20in%20Genetics%20and%20Molecular%20Biology_Quantifying%20the%20asso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2588},
rating = {0}
}
@article{Grosbras:2006p4872,
author = {Marie-H{\'e}l{\`e}ne Grosbras and Tom{\'a}s Paus},
journal = {Cereb Cortex},
title = {Brain networks involved in viewing angry hands or faces},
abstract = {Most neuropsychological research on the perception of emotion concerns the perception of faces. Yet in everyday life, hand actions are also modulated by our affective state, revealing it, in turn, to the observer. We used functional magnetic resonance imaging (fMRI) to identify brain regions engaged during the observation of hand actions performed either in a neutral or an angry way. We also asked whether these are the same regions as those involved in perceiving expressive faces. During the passive observation of emotionally neutral hand movements, the fMRI signal increased significantly in dorsal and ventral premotor cortices, with the exact location of the 'peaks' distinct from those induced by face observation. Various areas in the extrastriate visual cortex were also engaged, overlapping with the face-related activity. When the observed hand action was performed with emotion, additional regions were recruited including the right dorsal premotor, the right medial prefrontal cortex, the left anterior insula and a region in the rostral part of the supramarginal gyrus bilaterally. These regions, except for the supramarginal gyrus, were also activated during the perception of angry faces. These results complement the wealth of studies on the perception of affect from faces and provide further insights into the processes involved in the perception of others underlying, perhaps, social constructs such as empathy.},
affiliation = {Cognitive Neuroscience Unit, Montreal Neurological Institute, McGill University, Montreal, Canada.},
number = {8},
pages = {1087--96},
volume = {16},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Visual Cortex, Gestures, Anger, Hand, Visual Pathways, Female, Middle Aged, Emotions, Adult, Empathy, Nerve Net, Facial Expression, Male, Humans, Visual Perception},
date-added = {2010-02-01 20:27:39 +0100},
date-modified = {2010-07-29 19:22:58 +0200},
doi = {10.1093/cercor/bhj050},
pii = {bhj050},
pmid = {16221928},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grosbras-2006-Cereb%20Cortex_Brain%20networks%20invol.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4872},
rating = {0}
}
@article{Candes:2008p14225,
author = {E J Cand{\`e}s and Y Plan},
title = {Near-ideal model selection by l1 minimization},
abstract = {We consider the fundamental problem of estimating the mean of a vector y = Xβ+z, where X is an n × p design matrix in which one can have far more variables than observations and z is a stochastic error term---the so-called `p > n' setup. When β is sparse, or more generally, when there is a sparse subset of covariates providing a close approximation to the unknown mean vector, we ask whether or not it is possible to accurately estimate Xβ using a computationally tractable algorithm.
We show that in a surprisingly wide range of situations, the lasso happens to nearly select the best subset of variables. Quantitatively speaking, we prove that solving a simple quadratic program achieves a squared error within a logarithmic factor of the ideal mean squared error one would achieve with an oracle supplying perfect information about which variables should be included in the model and which variables should not. Interestingly, our results describe the average performance of the lasso; that is, the performance one can expect in an vast majority of cases where Xβ is a sparse or nearly sparse superposition of variables, but not in all cases.
Our results are nonasymptotic and widely applicable since they simply require that pairs of predictor variables are not too collinear.},
year = {2008},
date-added = {2010-08-22 21:09:04 +0200},
date-modified = {2010-08-22 21:09:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cand%C3%A8s-2008-_Near-ideal%20model%20sel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14225},
rating = {0}
}
@article{Finch:2007p2686,
author = {H Finch and B Habing},
journal = {Applied Psychological Measurement},
title = {Performance of DIMTEST- and NOHARM-Based Statistics for Testing Unidimensionality},
abstract = {This Monte Carlo study compares the ability of the parametric bootstrap version of DIMTEST with three goodness-of-fit tests calculated from a fitted NOHARM model to detect violations of the assumption of unidimensionality in testing data. The effectiveness of the procedures was evaluated for different numbers of items, numbers of examinees, correlations between underlying ability dimensions, skewness of underlying ability distributions, and the presence or absence of a guessing parameter. In the absence of guessing, DIMTEST and the NOHARM-based statistics had similar power, with the w2 statistic having a very low Type I error rate. In the presence of guessing, however, two of the NOHARM-based statistics had unacceptably high Type I error rates, while the third performed similarly to DIMTEST. Given this inflated error rate, the study compares the empirical powers after adjusting for the discrepancy in Type I error rates.},
number = {4},
pages = {292--307},
volume = {31},
year = {2007},
date-added = {2010-01-13 10:03:22 +0100},
date-modified = {2010-07-29 19:16:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finch-2007-Applied%20Psychological%20Measurement_Performance%20of%20DIMTE.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2686},
rating = {0}
}
@article{Thirion:2007p2325,
author = {B Thirion and P Pinel and A Tucholka and A Roche and P Ciuciu and J F Mangin and Poline J B},
journal = {IEEE Transactions on Medical Imaging},
title = {Structural Analysis of fMRI Data Revisited:
Improving the Sensitivity and Reliability of
fMRI Group Studies},
abstract = {Group studies of functional MRI datasets are usually based on the computation of the mean signal across subjects at each voxel (Random Effects Analyses), assuming that all subjects have been set in the same anatomical space (normalization). Although this approach allows for a correct specificity (rate of false detections), it is not very efficient, for three reasons: i) its underlying hypotheses, perfect coregistration of the individual datasets and normality of the measured signal at the group level, are frequently violated ; ii) the group size is small in general, so that asymptotic approximations on the parameters distributions do not hold ; iii) the large size of the images requires some conservative strategies to control the false detection rate, at the risk of increasing the number of false negatives. Given that it is still very challenging to build generative or parametric models of inter-subject variability, we rely on a rule based, bottom-up approach: we present a set of procedures that detect structures of interest from each subject's data, then search for correspondences across subjects and outline the most reproducible activation regions in the group studied. This framework enables a strict control on the number of false detections. It is shown here that this analysis demonstrates increased validity and improves both the sensitivity and reliability of group analyses compared with standard methods. Moreover, it directly provides information on the spatial position correspondence or variability of the activated regions across subjects, which is difficult to obtain in standard voxel-based analyses.},
number = {9},
pages = {1256--1269},
volume = {26},
year = {2007},
date-added = {2010-01-10 12:51:19 +0100},
date-modified = {2010-01-19 23:09:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thirion-2007-IEEE%20Transactions%20on%20Medical%20Imaging_Structural%20Analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2325},
read = {Yes},
rating = {0}
}
@article{Jansen:1986p5951,
author = {P G W Jansen and E E Roskam},
journal = {Psychometrika},
title = {Latent trait models and dichotomization of graded responses},
abstract = {This paper discusses the compatibility of the polychotomous Rasch model with dichot$\,^{\circ}$ omization of the response continuum. It is argued that in the case of graded responses, the re- sponse categories presented to the subject are essentially an arbitrary polychotomization of the response continuum, ranging for example from total rejection or disagreement to total acceptance or agreement of an item or statement. Because of this arbitrariness, the measurement outcome should be independent of the specificpolychotomization applied, for example, presenting a specif- ic multicategory response format should not affect the measurement outcome. When such is the case, the original polychotomous model is called "compatible" with dichotomization.
A distinction is made between polychotomization or dichotomization "before the fact," that is, in constructing the response format, and polycho- or dichotomization "after the fact," for examplein dichotomizingexistinggraded responsedata.
It isshownthat, at leastineaseofdichotomizationafter-the-fact,the polychotomousRasch model is not compatible with dichotomization, unless a rather special condition of the model parameters is met. Insofar as it may be argued that dichotomization before the fact is not essen- tially different from dichotomization after the fact, the value of the unidimensional poly- chotomous Rasch model is consequently questionable. The impact of our conclusion on related models is also discussed.},
number = {1},
pages = {69--91},
volume = {51},
year = {1986},
date-added = {2010-02-18 23:21:18 +0100},
date-modified = {2010-07-11 09:49:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jansen-1986-Psychometrika_Latent%20trait%20models-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5951},
rating = {0}
}
@article{Cremeens:2006p8492,
author = {Joanne Cremeens and Christine Eiser and Mark Blades},
journal = {Qual Life Res},
title = {Characteristics of health-related self-report measures for children aged three to eight years: a review of the literature},
abstract = {AIMS: To review and make recommendations about the format and quality of health-related self-report measures for children aged 3-8 years. METHODS: Literature searches used to identify measures of QOL, self-esteem, self-concept and mental health. The format (i.e., scale type, presentation style) and quality (i.e., item generation, reliability, validity, responsiveness) of measures were compared and evaluated. RESULTS: Fifty three measures were identified: QOL (n = 25, 47%), self-esteem/concept (n = 15, 28%), mental health (n = 13, 25%). Likert scales were used most frequently to represent response choices (n = 34, 64%). The authors of 11 (21%) measures provided justification for their scale choice. Items were most commonly presented in written format (n = 24, 45%). Item content was generated from the respondent population in only 21 (40%) measures. Twenty-seven (51%) measures reported internal reliability between 0.70 and 0.90, and 12 (23%) reported reproducibility in this range. Although validity was reported for 48 (91%) measures, evidence for three or more aspects occurred for only 9 (17%). Eleven (21%) measures evidenced responsiveness to change. CONCLUSION: Authors should provide clearer evidence for reliability and responsiveness. Newly developed instruments need to meet established standards, and further studies should assess the impact of scale and presentation types on the psychometrics of measures.},
affiliation = {Division of Behavioral Medicine, St. Jude Children's Research Hospital, Memphis, TN 38105-2794, USA. Joanne.Cremeens@stjude.org},
number = {4},
pages = {739--54},
volume = {15},
year = {2006},
month = {May},
language = {eng},
keywords = {Attitude to Health, Reproducibility of Results, Child: Preschool, Humans, Mental Health, Child, Self Efficacy, Quality of Life, Psychometrics, Health Status Indicators},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
doi = {10.1007/s11136-005-4184-x},
pmid = {16688506},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8492},
rating = {0}
}
@article{Ioannidis:2009p3190,
author = {John P A Ioannidis and Gilles Thomas and Mark J Daly},
journal = {Nat Rev Genet},
title = {Validating, augmenting and refining genome-wide association signals},
abstract = {Studies using genome-wide platforms have yielded an unprecedented number of promising signals of association between genomic variants and human traits. This Review addresses the steps required to validate, augment and refine such signals to identify underlying causal variants for well-defined phenotypes. These steps include: large-scale exact replication across both similar and diverse populations; fine mapping and resequencing; determination of the most informative markers and multiple independent informative loci; incorporation of functional information; and improved phenotype mapping of the implicated genetic effects. Even in cases for which replication proves that an effect exists, confident localization of the causal variant often remains elusive.},
affiliation = {Department of Hygiene and Epidemiology, University of Ioannina School of Medicine and Biomedical Research Institute, Foundation for Research and Technology - Hellas, Ioannina 45110, Greece. jioannid@cc.uoi.gr},
number = {5},
pages = {318--29},
volume = {10},
year = {2009},
month = {May},
language = {eng},
keywords = {Reproducibility of Results, Genome, Humans, Linkage (Genetics), Animals, Genome-Wide Association Study, Genetic Heterogeneity, Phenotype},
date-added = {2010-01-14 20:49:17 +0100},
date-modified = {2010-07-29 19:40:47 +0200},
doi = {10.1038/nrg2544},
pii = {nrg2544},
pmid = {19373277},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ioannidis-2009-Nat%20Rev%20Genet_Validating%20augmenti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3190},
rating = {4}
}
@article{Henoch:2010p8677,
author = {Ingela Henoch and Bertil Axelsson and Bengt Bergman},
journal = {Qual Life Res},
title = {The Assessment of Quality of life at the End of Life (AQEL) questionnaire: a brief but comprehensive instrument for use in patients with cancer in palliative care},
abstract = {PURPOSE: The aim of the study was to further validate the Assessment of Quality of life at the End of Life (AQEL) questionnaire, to explore whether conceptually consistent scales could be confirmed and how the instrument relates to other widely used and validated HRQL instruments. METHODS: A total of 106 patients with lung cancer in palliative care completed the 20-item AQEL, the EORTC QLQ-C30, Hospital Anxiety and Depression Scale (HADS), Sense of Coherence (SOC-13) and Social Support Survey (SSS). Construct validity of the AQEL was tested by multitrait scaling, principal components analysis, inter-scale correlations and known-groups comparisons. RESULTS: Five scales were supported by multitrait scaling: Basic function, Activity, Emotional function, Cognitive function and Existential needs, with satisfactory (>.7) internal consistency for the latter three and intermediate (>.5) for the remaining two. A Social support scale was supported by principal components analysis, but exhibited a low internal consistency. Items on health care issues and physical symptoms worked best as individual items. Expected correlations with other instruments were found for all scales. Activity was sensitive to different levels of functioning as defined by performance status. CONCLUSIONS: This study provided some evidence for the validity of the AQEL and its feasibility in patients with cancer in palliative care.},
affiliation = {Br{\"a}cke Diakoni Foundation, Research Unit, Box 210 62, 418 04, G{\"o}teborg, Sweden, ihh_gbg@hotmail.com.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-22 11:59:38 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-010-9623-7},
pmid = {20229190},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8677},
rating = {0}
}
@article{Gernsbacher:2005p11055,
author = {Morton A Gernsbacher and Cheryl Dissanayake and H Hill Goldsmith and Peter C Mundy and Sally J Rogers and Marian Sigman},
journal = {Science},
title = {Autism and deficits in attachment behavior},
number = {5713},
pages = {1201-3; author reply 1201--3},
volume = {307},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Mice, Humans, Autistic Disorder, Object Attachment, Mothers, Animals, Receptors: Opioid: mu, Child, Caregivers},
date-added = {2010-04-14 13:46:54 +0200},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.307.5713.1201},
pii = {307/5713/1201},
pmid = {15731426},
url = {http://www.sciencemag.org/cgi/content/full/307/5713/1201},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gernsbacher-2005-Science_Autism%20and%20deficits.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11055},
rating = {0}
}
@article{Kieffer:2002,
author = {K M Kieffer and R J Reese},
journal = {Educational and Psychological Measurement},
title = {A Reliability Generalization study of the Geriatric Depression Scale (GDS)},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2022},
rating = {0}
}
@article{Smits:2007p12893,
author = {D J M Smits and Paul De Boeck},
journal = {Personality and Individual Differences},
title = {From anger to verbal aggression: Inhibition at different levels},
abstract = {A factor-analytic-based method to measure the inhibition of three verbally aggressive behaviours was inves- tigated in two studies on self-report data. Inhibition was subdivided into two types: inhibition of the tendency to become verbally aggressive and inhibition of the verbally aggressive behaviour. In Study 1, it was investigated whether both kinds can be separated and measured by using a factor-analytic model. In Study 2, the approach was validated by relating both types of inhibition to broad and specific trait measures, either related to behav- iour regulation or not. Inhibition of the tendency to become verbally aggressive was negatively related to Extra- version and Anger Out, and positively to hostility and a general inhibition measure. The inhibition of verbally aggressive behaviour was positively related to Agreeableness, Anger In (keeping anger inside) and anger out control (control of outward expression of anger), and negatively to Verbal Aggression and Anger Out.},
pages = {47--57},
volume = {43},
year = {2007},
date-added = {2010-06-24 13:30:29 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
doi = {10.1016/j.paid.2006.11.006},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smits-2007-Personality%20and%20Individual%20Differences_From%20anger%20to%20verbal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12893},
rating = {0}
}
@article{Timko:2009p11975,
author = {Christine Timko and Bernice S Moos and Rudolf H Moos},
journal = {Addict Behav},
title = {Gender differences in 16-year trends in assault- and police-related problems due to drinking},
abstract = {This study examined the frequency and predictors of physical assault and having trouble with the police due to drinking over 16 years among women and men who, at baseline, were untreated for their alcohol use disorder. Predictors examined were the personal characteristics of impulsivity, self-efficacy, and problem-solving and emotional-discharge coping, as well as outpatient treatment and Alcoholics Anonymous (AA) participation. Women and men were similar on rates of perpetrating assault due to drinking, but men were more likely to have had trouble with the police due to drinking. Respondents who, at baseline, were more impulsive and relied more on emotional discharge coping, and less on problem-solving coping, assaulted others more frequently during the first year of follow-up. Similarly, less problem-solving coping at baseline was related to having had trouble with the police more often at one and 16 years due to drinking. The association between impulsivity and more frequent assault was stronger for women, whereas associations of self-efficacy and problem-solving coping with less frequent assault and police trouble were stronger for men. Participation in AA was also associated with a lower likelihood of having trouble with the police at one year, especially for men. Interventions aimed at decreasing impulsivity and emotional discharge coping, and bolstering self-efficacy and problem-solving coping, during substance abuse treatment, and encouragement to become involved in AA, may be helpful in reducing assaultive and other illegal behaviors.},
affiliation = {Center for Health Care Evaluation, Department of Veterans Affairs Health Care System (152-MPD), 795 Willow Road, Menlo Park, CA 94025, USA. ctimko@stanford.edu},
number = {9},
pages = {744--50},
volume = {34},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Violence, Follow-Up Studies, Alcohol Drinking, Adaptation: Psychological, Humans, Alcohol-Related Disorders, Police, Adult, Impulsive Behavior, Male, Self Efficacy, California, Sex Factors, Alcoholics Anonymous, Female, Aged, Young Adult, Problem Solving, Adolescent, Middle Aged},
date-added = {2010-05-23 17:20:28 +0200},
date-modified = {2010-05-23 17:20:28 +0200},
doi = {10.1016/j.addbeh.2009.04.013},
pii = {S0306-4603(09)00095-1},
pmid = {19446963},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11975},
rating = {0}
}
@article{Linden:2000,
author = {W J van der Linden and C A W Glas},
journal = {Applied Measurement in Education},
title = {Capitalization on item calibration error in adaptive testing},
pages = {35--53},
volume = {13},
year = {2000},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Linden-2000-Applied%20Measurement%20in%20Education_Capitalization%20on%20it.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2006},
rating = {0}
}
@article{Cai:2010p11307,
author = {B Cai and D B Dunson},
title = {Bayesian Covariance Selection in Generalized Linear Mixed Models},
abstract = {The generalized linear mixed model (GLMM), which extends the generalized linear model (GLM) to incorporate random effects characterizing heterogeneity among subjects, is widely used in analyzing correlated and longitudinal data. Although there is often interest in identify- ing the subset of predictors that have random effects, random effects selection can be challenging, particularly when outcome distributions are non-normal. This article proposes a fully Bayesian approach to the problem of simultaneous selection of fixed and random effects in GLMMs. Inte- grating out the random effects induces a covariance structure on the multivariate outcome data, and an important problem which we also consider is that of covariance selection. Our approach relies on variable selection-type mixture priors for the components in a special LDU decomposition of the random effects covariance. A stochastic search MCMC algorithm is developed, which relies on Gibbs sampling, with Taylor series expansions used to approximate intractable integrals. Simu- lated data examples are presented for different exponential family distributions, and the approach is applied to discrete survival data from a time-to-pregnancy study.},
date-added = {2010-04-26 23:04:29 +0200},
date-modified = {2010-04-26 23:05:17 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cai--_Bayesian%20Covariance.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11307},
rating = {0}
}
@article{Rannou:2007p5879,
author = {F Rannou and I Boutron and M Jardinaud-Lopez and G Meric and M Revel and J Fermanian and S Poiraudeau},
journal = {Osteoarthr Cartil},
title = {Should aggregate scores of the Medical Outcomes Study 36-item Short Form Health Survey be used to assess quality of life in knee and hip osteoarthritis? A national survey in primary care},
abstract = {OBJECTIVE: To assess the relevance of using the aggregate physical component score (PCS) and mental component score (MCS) of the Medical Outcomes Study 36-item Short Form Health Survey (SF-36) for patients with knee and hip osteoarthritis (OA). METHODS: We conducted a cross-sectional national survey in a primary care setting in France. A total of 1474 general practitioners enrolled 4183 patients with hip or knee OA. Construct validity of PCS and MCS was assessed by convergent and divergent validity and factor analysis. RESULTS: Records of 4133 patients (98.8%) were analyzed (2540 knee, 1593 hip OA). PCS mean scores were 32.0+/-8.4 and 31.8+/-8.4 and MCS scores 47.1+/-11.0 and 46.8+/-11.1, for knee and hip OA, respectively. Acceptable convergent and divergent validity was observed, and correlation between PCS and MCS mean scores was low (r=0.14). However, factor analysis performed on the eight subscale scores failed to support the use of PCS and MCS aggregate scores. It extracted two factors which were similar for both OA types and differed from the a priori stratification. Scores for two subscales usually attributed to MCS - emotional role and social functioning - were shared between factors, and scores for another subscale - general health perception - usually belonging to the PCS was in the mental component factor. CONCLUSIONS: Our results suggest that aggregate scores from the PCS and MCS of the SF-36 as they are currently defined may not be optimal for used in hip and knee OA patients to assess health-related quality of life.},
affiliation = {Service de M{\'e}decine Physique et R{\'e}adaptation, H{\^o}pital Cochin (AP-HP), Universit{\'e} Paris 5, Institut F{\'e}d{\'e}ratif de Recherche sur le Handicap (IFR 25) INSERM, Paris, France.},
number = {9},
pages = {1013--8},
volume = {15},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Quality of Life, Female, Osteoarthritis: Hip, Outcome Assessment (Health Care), Health Status, Middle Aged, Health Surveys, Osteoarthritis: Knee, Humans, Cross-Sectional Studies, Factor Analysis: Statistical, Family Practice, Male, Aged},
date-added = {2010-02-17 15:05:54 +0100},
date-modified = {2010-07-29 19:42:29 +0200},
doi = {10.1016/j.joca.2007.02.012},
pii = {S1063-4584(07)00078-7},
pmid = {17387025},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rannou-2007-Osteoarthr%20Cartil_Should%20aggregate%20sco.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5879},
rating = {0}
}
@article{Macgregor:2006p7514,
author = {Stuart Macgregor and Imtiaz A Khan},
journal = {BMC Med Genet},
title = {GAIA: an easy-to-use web-based application for interaction analysis of case-control data},
abstract = {BACKGROUND: The advent of cheap, large scale genotyping has led to widespread adoption of genetic association mapping as the tool of choice in the search for loci underlying susceptibility to common complex disease. Whilst simple single locus analysis is relatively trivial to conduct, this is not true of more complex analysis such as those involving interactions between loci. The importance of testing for interactions between loci in association analysis has been highlighted in a number of recent high profile publications. RESULTS: Genetic Association Interaction Analysis (GAIA) is a web-based application for testing for statistical interactions between loci. It is based upon the widely used case-control study design for genetic association analysis and is designed so that non-specialists may routinely apply tests for interaction. GAIA allows simple testing of both additive and additive plus dominance interaction models and includes permutation testing to appropriately correct for multiple testing. The application will find use both in candidate gene based studies and in genome-wide association studies. For large scale studies GAIA includes a screening approach which prioritizes loci (based on the significance of main effects at one or both loci) for further interaction analysis. CONCLUSION: GAIA is available at http://www.bbu.cf.ac.uk/html/research/biostats.htm.},
affiliation = {Genetic Epidemiology, Queensland Institute of Medical Research, Brisbane, Australia. stuart.macgregor@qimr.edu.au},
pages = {34},
volume = {7},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Polymorphism: Single Nucleotide, Genetic Techniques, Humans, Internet, Logistic Models, Schizophrenia, Case-Control Studies, Epistasis: Genetic},
date-added = {2010-03-10 20:53:52 +0100},
date-modified = {2010-03-10 20:53:52 +0100},
doi = {10.1186/1471-2350-7-34},
pii = {1471-2350-7-34},
pmid = {16595019},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Macgregor-2006-BMC%20Med%20Genet_GAIA%20an%20easy-to-use.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7514},
rating = {0}
}
@article{BelMufti:2005p11915,
author = {G Bel Mufti and P Bertrand and L El Moubarki},
journal = {ASMDA Proceedings},
title = {Determining the number of groups from measures of cluster stability},
abstract = {Animportantlineofinquiryinclustervalidationinvolvesmeasuringthe stability of a partition with respect to perturbations of the data set. Several authors have recently suggested that the `correct' number of clusters in a partition can be determined simply by examining the partition stability measures for different values of numbers of clusters. In this paper, we consider the clustering stability measures that were recently proposed in [Bertrand and Bel Mufti, 2005], and we present experiments that compare the method for predicting the number of clusters that is derived from these stability measures with two of the most successful methods reported in recent surveys.},
year = {2005},
date-added = {2010-05-23 16:39:01 +0200},
date-modified = {2010-05-23 16:40:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bel%20Mufti-2005-ASMDA%20Proceedings_Determining%20the%20numb.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11915},
rating = {5}
}
@article{Meng:2009p4361,
author = {Yan A Meng and Yi Yu and L Adrienne Cupples and Lindsay A Farrer and Kathryn L Lunetta},
journal = {BMC Bioinformatics},
title = {Performance of random forest when SNPs are in linkage disequilibrium},
abstract = {BACKGROUND: Single nucleotide polymorphisms (SNPs) may be correlated due to linkage disequilibrium (LD). Association studies look for both direct and indirect associations with disease loci. In a Random Forest (RF) analysis, correlation between a true risk SNP and SNPs in LD may lead to diminished variable importance for the true risk SNP. One approach to address this problem is to select SNPs in linkage equilibrium (LE) for analysis. Here, we explore alternative methods for dealing with SNPs in LD: change the tree-building algorithm by building each tree in an RF only with SNPs in LE, modify the importance measure (IM), and use haplotypes instead of SNPs to build a RF. RESULTS: We evaluated the performance of our alternative methods by simulation of a spectrum of complex genetics models. When a haplotype rather than an individual SNP is the risk factor, we find that the original Random Forest method performed on SNPs provides good performance. When individual, genotyped SNPs are the risk factors, we find that the stronger the genetic effect, the stronger the effect LD has on the performance of the original RF. A revised importance measure used with the original RF is relatively robust to LD among SNPs; this revised importance measure used with the revised RF is sometimes inflated. Overall, we find that the revised importance measure used with the original RF is the best choice when the genetic model and the number of SNPs in LD with risk SNPs are unknown. For the haplotype-based method, under a multiplicative heterogeneity model, we observed a decrease in the performance of RF with increasing LD among the SNPs in the haplotype. CONCLUSION: Our results suggest that by strategically revising the Random Forest method tree-building or importance measure calculation, power can increase when LD exists between SNPs. We conclude that the revised Random Forest method performed on SNPs offers an advantage of not requiring genotype phase, making it a viable tool for use in the context of thousands of SNPs, such as candidate gene studies and follow-up of top candidates from genome wide association studies.},
affiliation = {Department of Medicine, Boston University, MA, USA. ymeng@broad.mit.edu},
pages = {78},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Computer Simulation, Haplotypes, Algorithms, Alzheimer Disease, Models: Genetic, Genome-Wide Association Study, Linkage Disequilibrium},
date-added = {2010-01-28 13:29:01 +0100},
date-modified = {2010-01-28 13:29:01 +0100},
doi = {10.1186/1471-2105-10-78},
pii = {1471-2105-10-78},
pmid = {19265542},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meng-2009-BMC%20Bioinformatics_Performance%20of%20rando.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4361},
read = {Yes},
rating = {0}
}
@article{Upton:2008p8495,
author = {Penney Upton and Joanne Lawford and Christine Eiser},
journal = {Qual Life Res},
title = {Parent-child agreement across child health-related quality of life instruments: a review of the literature},
abstract = {AIM: To systematically review the literature published since 1999 on paediatric health-related quality of life (HRQL) in relation to parent-child agreement. METHODS: Literature searches used to identify studies which evaluated parent-child agreement for child HRQL measures. RESULTS: Nineteen studies were identified, including four HRQL instruments. The Pediatric Quality of Life Inventory (PedsQL) was most commonly used. Differences in parent-child agreement were noted between domains for different measures. The impact of child and parent characteristics were not consistently considered; however parents of children in a nonclinical sample tended to report higher child HRQL scores than children themselves, while parents of children with health conditions tended to underestimate child HRQL. CONCLUSION: Despite increasing numbers of studies considering children's HRQL, information about variables contributing to parent-child agreement levels remains limited. Authors need to consistently provide evidence for reliability and validity of measures, and design studies to systematically investigate variables that impact on levels of parent-child agreement.},
affiliation = {Department of Psychology and Health Sciences, University of Worcester, Worcester WR2 6AJ, UK. p.upton@worc.ac.uk},
number = {6},
pages = {895--913},
volume = {17},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Child Welfare, Reproducibility of Results, Child, Humans, Parent-Child Relations, Quality of Life, Psychometrics, Child: Preschool},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-008-9350-5},
pmid = {18521721},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8495},
rating = {0}
}
@article{Zyphur:2009p5236,
author = {M J Zyphur and J Narayanan and R D Arvey and G J Alexander},
journal = {Journal of Behavioral Decision Making},
title = {The Genetics of Economic Risk Preferences},
abstract = {We examine the influence of genetics on economic risk preferences by administering a measure of these preferences to monozygotic (MZ) (i.e., identical) and dizygotic (DZ) (i.e., non-identical) twin pairs. Our analysis supports a dominant genetic effect and virtually no additive genetic effect on economic risk preferences, with the heritability of preferences estimated at 0.63. These findings suggest that over half of the variation in such preferences can be explained by genetic factors, with the remainder of the variance explained by environmental influences not shared among sibling twins. We discuss the implications of our findings for the study of individual differences in economic risk preferences.},
pages = {367--377},
volume = {22},
year = {2009},
date-added = {2010-02-08 19:34:07 +0100},
date-modified = {2010-02-08 19:34:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zyphur-2009-Journal%20of%20Behavioral%20Decision%20Making_The%20Genetics%20of%20Econ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5236},
rating = {0}
}
@article{Korn:2001p1523,
author = {E L Korn and J F Troendle and L M McShane and R Simon},
title = {Controlling the number of false discoveries: Application to high-dimensional genomic data},
abstract = {Detailed genetic characterizations of specimens from healthy or diseased individuals may hold the key to predicting which healthy individuals will develop disease or which diseased individuals will respond to therapy. For example, cDNA microarrays allow simultaneous measurement of expression levels of thousands of genes on a single specimen, producing a ``gene expression profile''. Frequently an objective of such a study is to identify which genes among the thousands measured are differentially expressed in one group as compared to another. Statistically, this presents an enormous multiple comparisons problem. Here we propose two new statistical procedures for controlling the number of spurious findings.
We analyze a microarray data set consisting of measurements on approximately 9000 genes in paired tumor specimens, collected both before and after chemotherapy on 20 breast cancer patients. Our interest was to identify genes that were differentially expressed after chemotherapy as compared to before chemotherapy. A straightforward approach to the identification of differentially expressed genes is to perform a univariate analysis of group mean differences for each gene, and then identify those genes that are most statistically significant. Using nominal significance levels (unadjusted for the multiple comparisons) will lead to the identification of many genes that truly are not differentially expressed, ``false discoveries''. However, control of the familywise error rate (e.g., using the Bonferonni inequality) seems too extreme. Since the identified genes will be further studied for biologic relevance, a reasonable strategy is to allow a small number of false discoveries, or a small proportion of the identified genes to be false discoveries. Although previous work has considered control for the expected proportion of false discoveries, we show these methods may be inadequate. We propose two stepwise permutation-based procedures designed to control the actual number or proportion of false discoveries with specified confidence. Applying these new methods to the breast tumor microarray example, we were able to identify 28 genes (more than twice the number identified by a Bonferroni procedure) that we can state with high confidence are differentially expressed comparing before to after chemotherapy. In addition, simulation studies evaluate the procedures and demonstrate that their use results in substantial gain in sensitivity to detect truly differentially expressed genes even when allowing as few as one or two false discoveries. The methods described are broadly applicable to the problem of identifying which variables of any large set of measured variables differ between pre-specified groups.},
affiliation = {Biometric Research Branch, National Cancer Institute, Bethesda, Maryland 20892, USA},
year = {2001},
keywords = {Stepwise procedure, Microarray, Gene expression, Multiple comparisons, Permutation method, False discovery},
date-added = {2010-01-07 15:55:14 +0100},
date-modified = {2010-01-07 15:57:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Korn-2001-_Controlling%20the%20numb.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1523},
rating = {0}
}
@article{Whelan:2008p10851,
author = {R Whelan},
journal = {The Psychological Record},
title = {Effective analysis of reaction time data},
year = {2008},
date-added = {2010-04-10 03:30:52 +0200},
date-modified = {2010-04-10 03:31:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Whelan-2008-The%20Psychological%20Record_Effective%20analysis%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10851},
read = {Yes},
rating = {0}
}
@article{Kranzler:1995,
author = {HR Kranzler and JA Burleson and P et al Korner},
journal = {American Journal of Psychiatry},
title = {Placebo-controlled trial of fluoxetine as an adjunct to relapse prevention in alcoholics},
abstract = {OBJECTIVE: The authors tested the hypothesis that fluoxetine, when used in combination with relapse prevention psychotherapy, directly reduces relapse frequency and severity for alcoholics. METHOD: The authors conducted a randomized, placebo-controlled trial of fluoxetine (up to a maximum of 60 mg/day) for 12 weeks in combination with weekly psychotherapy for 101 alcohol-dependent subjects who were not selected on the basis of comorbid major depression. Outcomes were measured at the end of treatment and 6 months after treatment. RESULTS: Placebo- treated subjects were more complaint with the medication regimen and remained in the study longer than fluoxetine-treated subjects. There was significantly less alcohol consumption in both groups during treatment than before treatment. These effects persisted during the posttreatment period. Although fluoxetine treatment had no significant effects on alcohol consumption, it reduced Hamilton Depression Rating Scale scores more than placebo treatment among subjects with current major depression. CONCLUSIONS: Fluoxetine at a dose of 60 mg/day is probably not of use for relapse prevention in alcoholics with mild to moderate alcohol dependence and no comorbid depression. In alcoholics with major depression, the drug may reduce depressive symptoms. Subsequent studies with fluoxetine should probably focus on more severely alcohol-dependent subjects or those with comorbid depression.},
pages = {391--397},
volume = {152},
year = {1995},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 19:13:59 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1081},
rating = {0}
}
@article{Devouche:2000p4642,
author = {E Devouche},
title = {La situation d'imitation {\`a} 8 et 12 mois. Aspects sociaux et cognitifs},
year = {2000},
date-added = {2010-01-30 15:51:42 +0100},
date-modified = {2010-01-30 15:52:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Devouche-2000-_La%20situation%20d'imita.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4642},
rating = {0}
}
@article{Iacoboni:1999p14145,
author = {M Iacoboni and E Zaidel},
journal = {Exp Brain Res},
title = {The crossed-uncrossed difference in simple reaction times to lateralized auditory stimuli is not a measure of interhemispheric transmission time: evidence from the split brain},
abstract = {In a complete commissurotomy patient, the difference in simple (detection) reaction times between responses to contralateral and ipsilateral auditory stimuli was found to be small (less than 5 ms) and not reliable, whereas the difference between contralateral and ipsilateral responses to lateralized visual stimuli was found to be large (ranging from 25 ms to 45 ms in different previous studies) and always reliable. This suggests that the reaction times difference in detecting lateralized auditory stimuli is not a valid estimate of interhemispheric transmission time.},
affiliation = {Ahmanson-Lovelace Brain Mapping Center, Room 265, Neuropsychiatric Institute, UCLA School of Medicine, 660 Charles E. Young Drive, Los Angeles, CA 90095, USA, iacoboni@loni.ucla.edu},
number = {3},
pages = {421--4},
volume = {128},
year = {1999},
month = {Oct},
language = {eng},
keywords = {Reaction Time, Adolescent, Male, Corpus Callosum, Acoustic Stimulation, Humans, Analysis of Variance},
date-added = {2010-08-18 17:04:59 +0200},
date-modified = {2010-08-18 17:04:59 +0200},
pii = {91280421.221},
pmid = {10501816},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Iacoboni-1999-Exp%20Brain%20Res_The%20crossed-uncrosse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14145},
rating = {0}
}
@article{Carver:2009p344,
author = {Tim Carver and Nick Thomson and Alan Bleasby and Matthew Berriman and Julian Parkhill},
journal = {Bioinformatics},
title = {DNAPlotter: circular and linear interactive genome visualization},
abstract = {DNAPlotter is an interactive Java application for generating circular and linear representations of genomes. Making use of the Artemis libraries to provide a user-friendly method of loading in sequence files (EMBL, GenBank, GFF) as well as data from relational databases, it filters features of interest to display on separate user-definable tracks. It can be used to produce publication quality images for papers or web pages. AVAILABILITY: DNAPlotter is freely available (under a GPL licence) for download (for MacOSX, UNIX and Windows) at the Wellcome Trust Sanger Institute web sites: http://www.sanger.ac.uk/Software/Artemis/circular/},
affiliation = {Wellcome Trust Sanger Institute, CB10 1SA and European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK. artemis@sanger.ac.uk},
number = {1},
pages = {119--20},
volume = {25},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Software, Computational Biology, Genome, Salmonella typhi},
date-added = {2010-01-03 11:47:13 +0100},
date-modified = {2010-01-03 11:47:13 +0100},
doi = {10.1093/bioinformatics/btn578},
pii = {btn578},
pmid = {18990721},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carver-2009-Bioinformatics_DNAPlotter%20circular.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p344},
rating = {0}
}
@misc{Yeh:2007,
author = {S-T Yeh},
journal = {Miscellaneous},
title = {Using Trapezoidal Rule for the Area Under a Curve Calculation},
year = {2007},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yeh-2007-Miscellaneous_Using%20Trapezoidal%20Ru.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2065},
rating = {0}
}
@article{Hedecker:1999p13478,
author = {D Hedecker and R D Gibbons and C Waternaux},
journal = {Journal of Educational and Behavioral Statistics},
title = {Sample size estimation for longitudinal designs with attrition: Comparing time-related contrasts between two groups},
number = {1},
pages = {70--93},
volume = {24},
year = {1999},
date-added = {2010-07-01 20:40:48 +0200},
date-modified = {2010-07-01 20:42:01 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hedecker-1999-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Sample%20size%20estimati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13478},
rating = {0}
}
@article{Coromina:2004p5172,
author = {L Coromina and G Coenders and T Kogovsek},
journal = {Metodolo{\v s}ki zvezki},
title = {Multilevel Multitrait Multimethod Model. Application to the Measurement of Egocentered Social Networks},
abstract = {Our goal in this paper is to assess reliability and validity of egocentered network data using multilevel analysis (Muth{\'e}n, 1989, Hox, 1993) under the multitrait-multimethod approach. The confirmatory factor analysis model for multitrait-multimethod data (Werts {\&} Linn, 1970; Andrews, 1984) is used for our analyses.
In this study we reanalyse a part of data of another study (Kogov{\v s}ek et al., 2002) done on a representative sample of the inhabitants of Ljubljana. The traits used in our article are the name interpreters. We consider egocentered network data as hierarchical; therefore a multilevel analysis is required. We use Muth{\'e}n's partial maximum likelihood approach, called pseudobalanced solution (Muth{\'e}n, 1989, 1990, 1994) which produces estimations close to maximum likelihood for large ego sample sizes (Hox {\&} Mass, 2001).
Several analyses will be done in order to compare this multilevel analysis to classic methods of analysis such as the ones made in Kogov{\v s}ek et al. (2002), who analysed the data only at group (ego) level considering averages of all alters within the ego.
We show that some of the results obtained by classic methods are biased and that multilevel analysis provides more detailed information that much enriches the interpretation of reliability and validity of hierarchical data. Within and between-ego reliabilities and validities and other related quality measures are defined, computed and interpreted.},
number = {2},
pages = {323--349},
volume = {1},
year = {2004},
date-added = {2010-02-07 12:38:28 +0100},
date-modified = {2010-02-07 12:39:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Coromina-2004-Metodolos%CC%8Cki%20zvezki_Multilevel%20Multitrai.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5172},
rating = {0}
}
@article{Quinn:2004p6293,
author = {K M Quinn},
journal = {Political Analysis},
title = {Bayesian Factor Analysis for Mixed Ordinal and Continuous Responses},
abstract = {Many situations exist in which a latent construct has both ordinal and continuous indicators. This presents a problem for the applied researcher because standard measurement models are not designed to accommodate mixed ordinal and continuous data. I address this problem by formulating a measurement model that is appropriate for such mixed multivariate responses. This model unifies standard normal theory factor analysis and item response theory models for ordinal data. I detail a Markov chain Monte Carlo algorithm for model fitting. I apply the model to cross-national data on political-economic risk and find that the model works well. Software for fitting this model is publicly available in the MCMCpack (Martin and Quinn 2004, ``MCMCpack 0.4--8'') R package.},
pages = {338--353},
volume = {12},
year = {2004},
date-added = {2010-02-20 20:04:39 +0100},
date-modified = {2010-02-20 20:05:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Quinn-2004-Political%20Analysis_Bayesian%20Factor%20Anal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6293},
rating = {0}
}
@article{Barrett:2007p11430,
author = {P Barrett},
journal = {Personality and Individual Differences},
title = {Structural equation modelling: Adjudging model fit},
abstract = {For journal editors, reviewers, and readers of research articles, structural equation model (SEM) fit has recently become a confusing and contentious area of evaluative methodology. Proponents of two kinds of approaches to model fit can be identified: those who adhere strictly to the result from a null hypothesis sig- nificance test, and those who ignore this and instead index model fit as an approximation function. Both have principled reasons for their respective course of action. This paper argues that the chi-square exact- fit test is the only substantive test of fit for SEM, but, its sensitivity to discrepancies from expected values at increasing sample sizes can be highly problematic if those discrepancies are considered trivial from an explanatory-theory perspective. On the other hand, suitably scaled indices of approximate fit do not possess this sensitivity to sample size, but neither are they ``tests'' of model fit. The proposed solution to this dilemma is to consider the substantive ``consequences'' of accepting one explanatory model over another in terms of the predictive accuracy of theory-relevant-criteria. If there are none to be evaluated, then it is proposed that no scientifically worthwhile distinction between ``competing'' models can thus be made, which of course begs the question as to why such a SEM application was undertaken in the first place.},
pages = {815--824},
volume = {42},
year = {2007},
date-added = {2010-05-01 17:11:46 +0200},
date-modified = {2010-05-01 17:12:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barrett-2007-Personality%20and%20Individual%20Differences_Structural%20equation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11430},
rating = {0}
}
@article{Goodman:2000p8277,
author = {R Goodman and T Ford and H Richards and R Gatward and H Meltzer},
journal = {J Child Psychol Psychiatry},
title = {The Development and Well-Being Assessment: description and initial validation of an integrated assessment of child and adolescent psychopathology},
abstract = {The Development and Well-Being Assessment (DAWBA) is a novel package of questionnaires, interviews, and rating techniques designed to generate ICD-10 and DSM-IV psychiatric diagnoses on 5-16-year-olds. Nonclinical interviewers administer a structured interview to parents about psychiatric symptoms and resultant impact. When definite symptoms are identified by the structured questions, interviewers use open-ended questions and supplementary prompts to get parents to describe the problems in their own words. These descriptions are transcribed verbatim by the interviewers but are not rated by them. A similar interview is administered to 11-16-year-olds. Teachers complete a brief questionnaire covering the main conduct, emotional, and hyperactivity symptoms and any resultant impairment. The different sorts of information are brought together by a computer program that also predicts likely diagnoses. These computer-generated summary sheets and diagnoses form a convenient starting point for experienced clinical raters, who decide whether to accept or overturn the computer diagnosis (or lack of diagnosis) in the light of their review of all the data, including transcripts. In the present study, the DAWBA was administered to community (N = 491) and clinic (N = 39) samples. There was excellent discrimination between community and clinic samples in rates of diagnosed disorder. Within the community sample, subjects with and without diagnosed disorders differed markedly in external characteristics and prognosis. In the clinic sample, there was substantial agreement between DAWBA and case note diagnoses, though the DAWBA diagnosed more comorbid disorders. The use of screening questions and skip rules greatly reduced interview length by allowing many sections to be omitted with very little loss of positive information. Overall, the DAWBA successfully combined the cheapness and simplicity of respondent-based measures with the clinical persuasiveness of investigator-based diagnoses. The DAWBA has considerable potential as an epidemiological measure, and may prove to be of clinical value too.},
affiliation = {Department of Child and Adolescent Psychiatry, Institute of Psychiatry, De Crespigny Park, London, UK.},
note = {psytools},
number = {5},
pages = {645--55},
volume = {41},
year = {2000},
month = {Jul},
language = {eng},
keywords = {Sampling Studies, Diagnosis: Computer-Assisted, Psychometrics, London, Psychiatric Status Rating Scales, Interview: Psychological, Follow-Up Studies, Mental Disorders, Questionnaires, Diagnosis: Differential, Humans, Male, Reproducibility of Results, Adolescent, Female, Child, Child: Preschool},
date-added = {2010-03-20 20:03:53 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
pmid = {10946756},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goodman-2000-J%20Child%20Psychol%20Psychiatry_The%20Development%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8277},
read = {Yes},
rating = {0}
}
@article{Jobe:1991,
author = {JB Jobe and DJ Mingay},
journal = {Applied Cognitive Psychology},
title = {Cognition and survey measurement: History and overview},
abstract = {In 1978 a small group of cognitive psychologists and survey methodologists initiated research in a new and exciting interdisciplinary field. This research applies the methods and theories of cognitive science to the study of respondents' answers to autobiographical and attitude surveys. This article describes the events that led up to the initiation of research, describes the history of the field, and overviews the cutting edge of research. Finally, the article offers perspectives on the benefits of collaborative research to both cognitive science and survey research, and the prospects for future research.},
pages = {175--192},
volume = {5},
year = {1991},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:15:39 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p977},
rating = {0}
}
@article{Hipwell:2010p11977,
author = {Alison E Hipwell and Stephanie D Stepp and Kate Keenan and Tammy Chung and Rolf Loeber},
journal = {J Adolesc},
title = {Brief report: Parsing the heterogeneity of adolescent girls' sexual behavior: Relationships to individual and interpersonal factors},
abstract = {Clusters of pre-sexual and sexual behaviors were identified in an urban US sample of 546 mid-adolescent girls. No distinct group of girls engaging in sexually risky behavior was revealed. Sexually active girls were older, lived with a single parent, and reported more substance use and depression, but similar levels of conduct problems, impulsivity and deviant peers to girls engaging in pre-sexual behavior.},
affiliation = {Western Psychiatric Institute {\&} Clinic, University of Pittsburgh Medical Center, 3811 O'Hara Street, Pittsburgh, PA 15213, United States.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-05-23 17:20:35 +0200},
date-modified = {2010-05-23 17:20:35 +0200},
doi = {10.1016/j.adolescence.2010.03.002},
pii = {S0140-1971(10)00041-2},
pmid = {20359740},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11977},
rating = {0}
}
@article{Kelly:2008p7288,
author = {Brendan D Kelly},
journal = {Health Policy},
title = {The emerging mental health strategy of the European Union: a multi-level work-in-progress},
abstract = {Policy-making in the European Union (EU) is a complex process that can appear impenetrable and opaque. This paper examines the ongoing process of mental health policy-making in the EU. In 2005, the Health and Consumer Protectorate Director-General of the European Commission published a Green Paper and launched a consultation process aimed at mental health service-users, advocates, providers, business, social services and governments. While there were varying levels of participation between member states, a range of trans-national, national and infra-national actors made contributions. Based on these consultations, a 'Consultative Platform' was created and made 10 recommendations centered on the principles of partnership; establishing policy competencies; integrating mental health into national policies; involving stakeholders; and protecting human rights. This ongoing process illustrates many features of EU policy-making: (a) the European Commission generates an initiative; (b) policy focuses on EU standardization, with member states remaining central actors in service-delivery; (c) policy focuses on social inclusion; (d) the European Commission coordinates diverse networks of actors; and (e) there is 'multi-level' involvement, with direct interaction between trans-national, national and infra-national actors. An enhanced focus on epidemiological data and 'evidence-based policy' would increase rigor and focus further attention on this relatively neglected policy area.},
affiliation = {Department of Adult Psychiatry, University College Dublin, Mater Misericordiae University Hospital, 62/63 Eccles Street, Dublin 7, Ireland. brendankelly35@gmail.com},
number = {1},
pages = {60--70},
volume = {85},
year = {2008},
month = {Jan},
language = {eng},
keywords = {European Union, Europe, Politics, Social Values, Decision Making: Organizational, Mental Health Services, Humans, Policy Making, Health Policy, Models: Organizational},
date-added = {2010-03-10 20:18:22 +0100},
date-modified = {2010-03-10 20:18:22 +0100},
doi = {10.1016/j.healthpol.2007.06.005},
pii = {S0168-8510(07)00144-3},
pmid = {17643547},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kelly-2008-Health%20Policy_The%20emerging%20mental.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7288},
rating = {0}
}
@article{Pepe:2009p5901,
author = {M S Pepe and J W Gu and D E Morris},
journal = {CEBP},
title = {The Potential of Genes and other Markers to Inform about Risk},
abstract = {Background Advances in biotechnology have raised expectations that biomarkers, including genetic profiles, will yield information to accurately predict outcomes for individuals. However, results to date have been disappointing. In addition, statistical methods to quantify the predictive information in markers have not been standardized. Methods We discuss statistical techniques to summarize predictive information including risk distribution curves, receiver operating characteristic curves, R-squared, percent reclassification and net reclassification index. Data are generated from simple models of risk conferred by genetic profiles for individuals in a population. Statistical techniques are illustrated and the risk prediction capacities of different risk models are quantified. Results Risk distribution curves are most informative and relevant to clinical practice. They show proportions of subjects classified into clinically relevant risk categories. In a population in which 10% have the outcome event and subjects are categorized as high risk if their risk exceeds 20%, we found that to identify as high risk more than half of those destined to have an event, either 150 genes each with odds ratio of 1.5 or 250 genes each with odds ratio of 1.25 was required when the minor allele frequencies are 10%. When minor allele frequencies are 30%, either 150 genes with odds ratios equal to 1.25 or 50 genes with odds ratios equal to 1.5 are required.
Conclusions Many highly predictive genes will be required in order to correctly identify substantial numbers of subjects at high risk. A free program is available to calculate risk distributions for alternative scenarios.},
year = {2009},
date-added = {2010-02-17 21:32:47 +0100},
date-modified = {2010-02-17 21:33:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pepe-2009-CEBP_The%20Potential%20of%20Gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5901},
rating = {0}
}
@article{Maris:2003aa,
author = {Gunter Maris},
title = {Are attitude items monotone or single peaked? An analysis using bayesian methods},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2003-_Are%20attitude%20items%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1225},
rating = {0}
}
@article{Hesse:2008p8351,
author = {Morten Hesse and Joachim Rasmussen and Mads Kjaer Pedersen},
journal = {BMC Psychiatry},
title = {Standardised assessment of personality - a study of validity and reliability in substance abusers},
abstract = {BACKGROUND: Brief screening instruments for co-morbid personality disorders could potentially have great value in substance abuse treatment settings. METHODS: We assessed the psychometric properties of the 8-item Standardised Assessment of Personality - Abbreviated Scale (SAPAS) in a sample of 58 methadone maintenance patients. RESULTS: Internal consistency was modest, but similar to the original value (alpha = 0.62), and test-retest correlation at four months follow-up was moderately encouraging for a short instrument such as this (n = 31, test retest intraclass correlation = 0.58), and change at the mean level was minimal, but marginally significant (from an average of 3.3 to 3.8, p = 0.06). Analyses of nurse ratings of patients' behaviour at the clinic showed that SAPAS was significantly correlated with nurse ratings of externalizing behaviour (r = 0.42, p = 0.001), and Global Assessment of Functioning (r = -0.36, p = 0.006), but unrelated to intoxication (r = 0.02, NS), or withdrawal (r = 0.20, NS). CONCLUSION: There is evidence that the SAPAS is a modestly valid and relatively reliable brief screening measure of personality disorders in patients with ongoing substance abuse undergoing methadone maintenance. It can be used in situations where limited resources are available, and researchers or others wish to get an impression of the degree of personality pathology in a clinical population, as well as for screening purposes.},
affiliation = {Aarhus University, Centre for Alcohol and Drug Research, Copenhagen Division, K{\o}bmagergade 26E, 1150 Copenhagen C, Denmark. mortenhesse@crf.dk},
pages = {7},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Comorbidity, Male, Middle Aged, Opioid-Related Disorders, Psychometrics, Female, Denmark, Regression Analysis, Reproducibility of Results, Humans, Personality Disorders, Personality Assessment, Interview: Psychological, Substance-Related Disorders, Adult, Multivariate Analysis},
date-added = {2010-03-21 12:53:42 +0100},
date-modified = {2010-03-21 12:53:42 +0100},
doi = {10.1186/1471-244X-8-7},
pii = {1471-244X-8-7},
pmid = {18221511},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hesse-2008-BMC%20Psychiatry_Standardised%20assessm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8351},
rating = {4}
}
@misc{Komarek:2007,
author = {Arnost Komarek and Emmanuel Lesaffre},
journal = {Miscellaneous},
title = {Generalized linear mixed model with a penalized gaussian mixture as a random effects distribution},
year = {2007},
month = {Jun},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:40:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Komarek-2007-Miscellaneous_Generalized%20linear%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1116},
rating = {0}
}
@article{Held:2010p8164,
author = {Leonhard Held},
journal = {BMC Med Res Methodol},
title = {A nomogram for P values},
abstract = {ABSTRACT: BACKGROUND: P values are the most commonly used tool to measure evidence against a hypothesis. Several attempts have been made to transform P values to minimum Bayes factors and minimum posterior probabilities of the hypothesis under consideration. However, the acceptance of such calibrations in clinical fields is low due to inexperience in interpreting Bayes factors and the need to specify a prior probability to derive a lower bound on the posterior probability. METHODS: I propose a graphical approach which easily translates any prior probability and P value to minimum posterior probabilities. The approach allows to visually inspect the dependence of the minimum posterior probability on the prior probability of the null hypothesis. Likewise, the tool can be used to read off, for fixed posterior probability, the maximum prior probability compatible with a given P value. The maximum P value compatible with a given prior and posterior probability is also available. RESULTS: Use of the nomogram is illustrated based on results from a randomized trial for lung cancer patients comparing a new radiotherapy technique with conventional radiotherapy. CONCLUSION: The graphical device proposed in this paper will enhance the understanding of P values as measures of evidence among non-specialists.},
number = {1},
pages = {21},
volume = {10},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-20 19:50:32 +0100},
date-modified = {2010-03-20 19:50:32 +0100},
doi = {10.1186/1471-2288-10-21},
pii = {1471-2288-10-21},
pmid = {20233437},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Held-2010-BMC%20Med%20Res%20Methodol_A%20nomogram%20for%20P%20val.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8164},
rating = {0}
}
@article{Takane:2007p1533,
author = {Y Takane and H Hwang},
journal = {Computational Statistics},
title = {Regularized linear and kernel redundancy analysis},
abstract = {Redundancy analysis (RA) is a versatile technique used to predict multivariate criterion variables from multivariate predictor variables. The reduced-rank feature of RA captures redundant information in the criterion variables in a most parsimonious way. A ridge type of regularization was introduced in RA to deal with the multicollinearity problem among the predictor variables. The regularized linear RA was extended to nonlinear RA using a kernel method to enhance the predictability. The usefulness of the proposed procedures was demonstrated by a Monte Carlo study and through the analysis of two real data sets.},
affiliation = {Department of Psychology, McGill University, 1205 Dr. Penfield Avenue, Montreal, Que., Canada H3A 1B1},
pages = {394--405},
volume = {52},
year = {2007},
keywords = {Bootstrap method, Kernel methods, Permutation tests, Generalized singular value decomposition (GSVD), Reduced rank approximation, J-fold cross validation, Ridge regression, Gaussian kernel},
date-added = {2010-01-07 16:10:25 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
doi = {10.1016/j.csda.2007.02.014},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-2007-Computational%20Statistics_Regularized%20linear%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1533},
rating = {0}
}
@article{Falush:2003p4352,
author = {Daniel Falush and Matthew Stephens and Jonathan K Pritchard},
journal = {Genetics},
title = {Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies},
abstract = {We describe extensions to the method of Pritchard et al. for inferring population structure from multilocus genotype data. Most importantly, we develop methods that allow for linkage between loci. The new model accounts for the correlations between linked loci that arise in admixed populations ("admixture linkage disequilibium"). This modification has several advantages, allowing (1) detection of admixture events farther back into the past, (2) inference of the population of origin of chromosomal regions, and (3) more accurate estimates of statistical uncertainty when linked loci are used. It is also of potential use for admixture mapping. In addition, we describe a new prior model for the allele frequencies within each population, which allows identification of subtle population subdivisions that were not detectable using the existing method. We present results applying the new methods to study admixture in African-Americans, recombination in Helicobacter pylori, and drift in populations of Drosophila melanogaster. The methods are implemented in a program, structure, version 2.0, which is available at http://pritch.bsd.uchicago.edu.},
affiliation = {Department of Molecular Biology, Max-Planck Institut f{\"u}r Infektionsbiologie, Schumann Strasse 21/22, 10117 Berlin, Germany. falush@mpiib-berlin.mpg.de},
number = {4},
pages = {1567--87},
volume = {164},
year = {2003},
month = {Aug},
language = {eng},
keywords = {Animals, African Continental Ancestry Group, Chromosomes, Algorithms, Markov Chains, Genotype, Drosophila melanogaster, Genetic Drift, Evolution: Molecular, Male, Recombination: Genetic, Monte Carlo Method, Models: Genetic, Humans, Linkage (Genetics), Genetic Markers, Alleles, Helicobacter pylori, Computer Simulation, Female, Genetics: Population, Bayes Theorem, Gene Frequency},
date-added = {2010-01-26 13:57:31 +0100},
date-modified = {2010-01-26 13:57:31 +0100},
pmid = {12930761},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Falush-2003-Genetics_Inference%20of%20populat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4352},
rating = {0}
}
@article{Snapinn:2000p6460,
author = {Steven M Snapinn},
journal = {Curr Control Trials Cardiovasc Med},
title = {Noninferiority trials},
abstract = {Noninferiority trials are intended to show that the effect of a new treatment is not worse than that of an active control by more than a specified margin. These trials have a number of inherent weaknesses that superiority trials do not: no internal demonstration of assay sensitivity, no single conservative analysis approach, lack of protection from bias by blinding, and difficulty in specifying the noninferiority margin. Noninferiority trials may sometimes be necessary when a placebo group can not be ethically included, but it should be recognized that the results of such trials are not as credible as those from a superiority trial.},
affiliation = {Merck Research Laboratories, West Point, Pennsylvania, USA. snapinns@merck.com},
number = {1},
pages = {19--21},
volume = {1},
year = {2000},
month = {Jan},
language = {ENG},
date-added = {2010-02-23 08:31:18 +0100},
date-modified = {2010-02-23 08:31:18 +0100},
pmid = {11714400},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Snapinn-2000-Curr%20Control%20Trials%20Cardiovasc%20Med_Noninferiority%20trial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6460},
read = {Yes},
rating = {0}
}
@article{Pihur:2007p12246,
author = {Vasyl Pihur and Susmita Datta and Somnath Datta},
journal = {Bioinformatics},
title = {Weighted rank aggregation of cluster validation measures: a Monte Carlo cross-entropy approach},
abstract = {MOTIVATION: Biologists often employ clustering techniques in the explorative phase of microarray data analysis to discover relevant biological groupings. Given the availability of numerous clustering algorithms in the machine-learning literature, an user might want to select one that performs the best for his/her data set or application. While various validation measures have been proposed over the years to judge the quality of clusters produced by a given clustering algorithm including their biological relevance, unfortunately, a given clustering algorithm can perform poorly under one validation measure while outperforming many other algorithms under another validation measure. A manual synthesis of results from multiple validation measures is nearly impossible in practice, especially, when a large number of clustering algorithms are to be compared using several measures. An automated and objective way of reconciling the rankings is needed. RESULTS: Using a Monte Carlo cross-entropy algorithm, we successfully combine the ranks of a set of clustering algorithms under consideration via a weighted aggregation that optimizes a distance criterion. The proposed weighted rank aggregation allows for a far more objective and automated assessment of clustering results than a simple visual inspection. We illustrate our procedure using one simulated as well as three real gene expression data sets from various platforms where we rank a total of eleven clustering algorithms using a combined examination of 10 different validation measures. The aggregate rankings were found for a given number of clusters k and also for an entire range of k. AVAILABILITY: R code for all validation measures and rank aggregation is available from the authors upon request. SUPPLEMENTARY INFORMATION: Supplementary information are available at http://www.somnathdatta.org/Supp/RankCluster/supp.htm.},
affiliation = {Department of Bioinformatics and Biostatistics, University of Louisville, Louisville, KY 40202, USA.},
number = {13},
pages = {1607--15},
volume = {23},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Artificial Intelligence, Oligonucleotide Array Sequence Analysis, Pattern Recognition: Automated, Monte Carlo Method, Gene Expression Profiling, Entropy, Algorithms, Cluster Analysis},
date-added = {2010-06-09 20:08:10 +0200},
date-modified = {2010-06-25 21:45:16 +0200},
doi = {10.1093/bioinformatics/btm158},
pii = {btm158},
pmid = {17483500},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pihur-2007-Bioinformatics_Weighted%20rank%20aggreg.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12246},
rating = {4}
}
@article{Clarke:2008p4072,
author = {Robert Clarke and Habtom W Ressom and Antai Wang and Jianhua Xuan and Minetta C Liu and Edmund A Gehan and Yue Wang},
journal = {Nat Rev Cancer},
title = {The properties of high-dimensional data spaces: implications for exploring gene and protein expression data},
abstract = {High-throughput genomic and proteomic technologies are widely used in cancer research to build better predictive models of diagnosis, prognosis and therapy, to identify and characterize key signalling networks and to find new targets for drug development. These technologies present investigators with the task of extracting meaningful statistical and biological information from high-dimensional data spaces, wherein each sample is defined by hundreds or thousands of measurements, usually concurrently obtained. The properties of high dimensionality are often poorly understood or overlooked in data modelling and analysis. From the perspective of translational science, this Review discusses the properties of high-dimensional data spaces that arise in genomic and proteomic studies and the challenges they can pose for data analysis and interpretation.},
affiliation = {Department of Oncology and Lombardi Comprehensive Cancer Center, Georgetown University School of Medicine, 3970 Reservoir Road NW, Washington, DC 20057, USA.},
number = {1},
pages = {37--49},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Prognosis, Proteins, Models: Genetic, Proteome, Neoplasms, Genome, Models: Statistical, Humans, Genes, Gene Expression Regulation, Transcription: Genetic},
date-added = {2010-01-19 15:50:42 +0100},
date-modified = {2010-01-19 15:50:42 +0100},
doi = {10.1038/nrc2294},
pii = {nrc2294},
pmid = {18097463},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clarke-2008-Nat%20Rev%20Cancer_The%20properties%20of%20hi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4072},
rating = {0}
}
@article{Acar:2007p11617,
author = {E Acar and B Yener},
title = {Unsupervised Multiway Data Analysis: A Literature Survey},
abstract = {Multiway data analysis captures multilinear structures in higher-order datasets, where data have more than two modes. Standard two-way methods commonly applied on matrices often fail to find the underlying structures in multiway ar- rays. With increasing number of application areas, multiway data analysis has become popular as an exploratory analy- sis tool. We provide a review of significant contributions in literature on multiway models, algorithms as well as their applications in diverse disciplines including chemometrics, neuroscience, computer vision, and social network analysis.},
year = {2007},
date-added = {2010-05-11 21:46:44 +0200},
date-modified = {2010-05-11 21:47:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Acar-2007-_Unsupervised%20Multiwa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11617},
rating = {4}
}
@article{DeBoeck:2008p1779,
author = {Paul De Boeck},
journal = {Psychometrika},
title = {Random item IRT models},
abstract = {It is common practice in IRT to consider items as fixed and persons as random. Both, continuous and categorical person parameters are most often random variables, whereas for items only continuous parameters are used and they are commonly of the fixed type, although exceptions occur. It is shown in the present article that random item parameters make sense theoretically, and that in practice the random item approach is promising to handle several issues, such as the measurement of persons, the explanation of item difficulties, and trouble shooting with respect to DIF. In correspondence with these issues, three parts are included. All three rely on the Rasch model as the simplest model to study, and the same data set is used for all applications. First, it is shown that the Rasch model with fixed persons and random items is an interesting measurement model, both, in theory, and for its goodness of fit. Second, the linear logistic test model with an error term is introduced, so that the explanation of the item difficulties based on the item properties does not need to be perfect. Finally, two more models are presented: the random item profile model (RIP) and the random item mixture model (RIM). In the RIP, DIF is not considered a discrete phenomenon, and when a robust regression approach based on the RIP difficulties is applied, quite good DIF identification results are obtained. In the RIM, no prior anchor sets are defined, but instead a latent DIF class of items is used, so that posterior anchoring is realized (anchoring based on the item mixture). It is shown that both approaches are promising for the identification of DIF.},
number = {4},
pages = {533--559},
volume = {73},
year = {2008},
keywords = {measurement, DIF, generalizability, LLTM, random effects},
date-added = {2010-01-09 21:46:05 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
doi = {10.1007/S11336-008-9092-X},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20Boeck-2008-Psychometrika_Random%20item%20IRT%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1779},
rating = {4}
}
@article{Beguin:2001,
author = {A A B{\'e}guin and C A W Glas},
journal = {Psychometrika},
title = {MCMC estimation and some fit analysis of multidimensional IRT models},
pages = {471--488},
volume = {66},
year = {2001},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/B%C3%A9guin-2001-Psychometrika_MCMC%20estimation%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1880},
rating = {0}
}
@article{Horvitz:1952p6324,
author = {D G Horvitz and D J Thompson},
journal = {JAMA},
title = {A Generalization of Sampling Without Replacement From a Finite Universe},
number = {260},
pages = {663--685},
volume = {47},
year = {1952},
date-added = {2010-02-20 21:18:07 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Horvitz-1952-JAMA_A%20Generalization%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6324},
rating = {3}
}
@article{Albert:1993p6278,
author = {J H Albert and S Chib},
journal = {JAMA},
title = {Bayesian Analysis of Binary and Polychotomous Response Data},
number = {422},
pages = {669--679},
volume = {88},
year = {1993},
date-added = {2010-02-20 17:56:34 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Albert-1993-JAMA_Bayesian%20Analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6278},
read = {Yes},
rating = {0}
}
@article{Lee:2007p2946,
author = {Seung Yeoun Lee and Yujin Chung and Robert C Elston and Youngchul Kim and Taesung Park},
journal = {Bioinformatics},
title = {Log-linear model-based multifactor dimensionality reduction method to detect gene gene interactions},
abstract = {MOTIVATION: The identification and characterization of susceptibility genes that influence the risk of common and complex diseases remains a statistical and computational challenge in genetic association studies. This is partly because the effect of any single genetic variant for a common and complex disease may be dependent on other genetic variants (gene-gene interaction) and environmental factors (gene-environment interaction). To address this problem, the multifactor dimensionality reduction (MDR) method has been proposed by Ritchie et al. to detect gene-gene interactions or gene-environment interactions. The MDR method identifies polymorphism combinations associated with the common and complex multifactorial diseases by collapsing high-dimensional genetic factors into a single dimension. That is, the MDR method classifies the combination of multilocus genotypes into high-risk and low-risk groups based on a comparison of the ratios of the numbers of cases and controls. When a high-order interaction model is considered with multi-dimensional factors, however, there may be many sparse or empty cells in the contingency tables. The MDR method cannot classify an empty cell as high risk or low risk and leaves it as undetermined. RESULTS: In this article, we propose the log-linear model-based multifactor dimensionality reduction (LM MDR) method to improve the MDR in classifying sparse or empty cells. The LM MDR method estimates frequencies for empty cells from a parsimonious log-linear model so that they can be assigned to high-and low-risk groups. In addition, LM MDR includes MDR as a special case when the saturated log-linear model is fitted. Simulation studies show that the LM MDR method has greater power and smaller error rates than the MDR method. The LM MDR method is also compared with the MDR method using as an example sporadic Alzheimer's disease.},
affiliation = {Department of Applied Mathematics, Sejong University, 98 Gunja-Dong Kwangjin-Gu, Seoul 143-747, Korea.},
number = {19},
pages = {2589--95},
volume = {23},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Multigene Family, Models: Genetic, Computer Simulation, Risk Assessment, Alzheimer Disease, Algorithms, Protein Interaction Mapping, Genetic Predisposition to Disease, Humans, Statistics as Topic, Nerve Tissue Proteins},
date-added = {2010-01-13 23:05:37 +0100},
date-modified = {2010-01-13 23:05:37 +0100},
doi = {10.1093/bioinformatics/btm396},
pii = {btm396},
pmid = {17872915},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2946},
rating = {0}
}
@article{Vermunt:2009p6243,
author = {J K Vermunt},
title = {Longitudinal Research Using Mixture Models},
abstract = {This chapter provides a state-of-the-art overview of the use of mixture and latent class models for the analysis of longitudinal data. It first describes the three basic types mixture models for longitudinal data: the mixture growth, mixture Markov, and latent Markov model. Subsequently, it presents an integrating frame- work merging various recent developments in software and algorithms, yielding mixture models for longitudinal data that can (1) not only be used with categorical, but also with continuous response variables (as well as combinations of these), (2) be used with very long time series, (3) include covariates (which can be numeric or categorical, as well as time-constant or time-varying), (4) include parameter restric- tions yielding interesting measurement models, and (5) deal with missing values (which is very important in longitudinal research). Moreover, it discusses other ad- vanced models, such as latent Markov models with dependent classification errors across time points, mixture growth and latent Markov models with random effects, and latent Markov models for multilevel data and multiple processes. The appendix shows how the presented models can be defined using the Latent GOLD syntax system (Vermunt and Magidson, 2005, 2008).},
year = {2009},
date-added = {2010-02-19 21:19:37 +0100},
date-modified = {2010-02-19 21:20:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2009-_Longitudinal%20Researc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6243},
rating = {0}
}
@article{Saavalainen:2008p7897,
author = {Pia M Saavalainen and Laila Luoma and Eila Laukkanen and Dermot M Bowler and Sara M{\"a}{\"a}tt{\"a} and Vesa Kiviniemi and Eila Herrg{\aa}rd},
journal = {Eur J Paediatr Neurol},
title = {School performance of adolescents born preterm: neuropsychological and background correlates},
abstract = {In this longitudinal study the development of preterm and control children was followed from infancy until adolescence. School performance at the age of 16 in subjects born very preterm with a gestational age (GA) of
@article{Pfeifle:1999p4484,
author = {W G Pfeifle and D E Gussak and C A Keegan},
journal = {J Allied Health},
title = {Perspectives on clinical outcomes assessment: a view for the allied health professions},
abstract = {The purpose of clinical outcomes assessment is well recognized by allied health professionals, but several obstacles have impeded the conduct of such research in the allied health professions. Many professionals have difficulty in determining how to begin. To explore the research possibilities already available within the health care environment, a way to visualize and organize the potential variables is needed. In light of a taxonomy of patient outcomes, an effort is made here to summarize and portray the characteristics of the delivery system, the environmental and structural factors, and both patient and provider attributes. Many of these aspects of outcomes investigations are within the purview and capabilities of allied health professionals. Through a division of labor among the professions, a mosaic can be collectively created that validates what they do and the value they add to patient care.},
affiliation = {College of Allied Health Professionals, University of Kentucky, Lexington 40536-0003, USA.},
number = {4},
pages = {240--6},
volume = {28},
year = {1999},
month = {Dec},
language = {eng},
keywords = {Job Description, Terminology as Topic, Health Services Research, Models: Organizational, Allied Health Personnel, Outcome Assessment (Health Care), Attitude of Health Personnel, Patient Participation, Humans, Health Knowledge: Attitudes: Practice},
date-added = {2010-01-29 21:38:47 +0100},
date-modified = {2010-01-29 21:38:47 +0100},
pmid = {10614557},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pfeifle-1999-J%20Allied%20Health_Perspectives%20on%20clin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4484},
rating = {0}
}
@article{Husain:2006p8234,
author = {N Husain and I Bevc and M Husain and I B Chaudhry and N Atif and A Rahman},
journal = {Arch Womens Ment Health},
title = {Prevalence and social correlates of postnatal depression in a low income country},
abstract = {BACKGROUND: Postnatal depression is an important public health problem worldwide. Recent evidence suggests that rates may be relatively higher in developing countries. We aimed to explore the prevalence of postnatal depression and its association with social support and other risk factors in a sample of Pakistani women. METHODS: Population-based survey of 149 women at 12 weeks postnatal using the Edinburgh Postnatal Depression Scale (EPDS), Multidimensional Scale of Perceived Social Support (MSPSS) and Personal Information Questionnaire (PIQ). RESULTS: Thirty six percent women scored > or =12 on EPDS. High depression score was associated with lower social support, increased stressful life events in the preceding year and higher levels of psychological distress in the antenatal period. CONCLUSIONS: There is a high prevalence of postnatal depression in Pakistani women. Early interventions should be developed that target the antenatal period and strengthen social support networks in women at risk.},
affiliation = {Centre for Addiction and Mental Health, Toronto, Canada.},
number = {4},
pages = {197--202},
volume = {9},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Depression: Postpartum, Pregnancy, Poverty, Social Support, Adult, Depression, Questionnaires, Prevalence, Pakistan, Social Class, Humans, Maternal Health Services, Adolescent, Female, Mothers, Risk Assessment},
date-added = {2010-03-20 20:00:30 +0100},
date-modified = {2010-03-20 20:00:31 +0100},
doi = {10.1007/s00737-006-0129-9},
pmid = {16633740},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8234},
rating = {0}
}
@article{Stephens:2009p9933,
author = {Matthew Stephens and David J Balding},
journal = {Nat Rev Genet},
title = {Bayesian statistical methods for genetic association studies},
abstract = {Bayesian statistical methods have recently made great inroads into many areas of science, and this advance is now extending to the assessment of association between genetic variants and disease or other phenotypes. We review these methods, focusing on single-SNP tests in genome-wide association studies. We discuss the advantages of the Bayesian approach over classical (frequentist) approaches in this setting and provide a tutorial on basic analysis steps, including practical guidelines for appropriate prior specification. We demonstrate the use of Bayesian methods for fine mapping in candidate regions, discuss meta-analyses and provide guidance for refereeing manuscripts that contain Bayesian analyses.},
affiliation = {Departments of Statistics and Human Genetics, University of Chicago, Chicago, IL 60637, USA. mstephens@uchicago.edu},
number = {10},
pages = {681--90},
volume = {10},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Genome-Wide Association Study, Polymorphism: Single Nucleotide, Humans, Bayes Theorem},
date-added = {2010-03-31 16:08:58 +0200},
date-modified = {2010-03-31 16:08:58 +0200},
doi = {10.1038/nrg2615},
pii = {nrg2615},
pmid = {19763151},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stephens-2009-Nat%20Rev%20Genet_Bayesian%20statistical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9933},
read = {Yes},
rating = {0}
}
@article{Breiman1996,
author = {L Breiman},
journal = {Machine Learning},
title = {Bagging predictors},
number = {2},
pages = {123--140},
volume = {24},
year = {1996},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-07-29 19:38:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Breiman-1996-Machine%20Learning_Bagging%20predictors.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2539},
rating = {0}
}
@article{Maris:2003ac,
author = {Gunter Maris},
title = {Concerning the identification of the 3PL model},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2003-_Concerning%20the%20ident.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1216},
rating = {0}
}
@article{Stegle:2010p6661,
author = {O Stegle and K Sharp and M Rattray and J Winn},
title = {A Comparison of Inference Methods for Sparse Factor Analysis Models},
date-added = {2010-03-03 20:42:47 +0100},
date-modified = {2010-03-03 20:43:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stegle--_A%20Comparison%20of%20Infe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6661},
rating = {0}
}
@article{Neale:2008p9581,
author = {Benjamin M Neale and Shaun Purcell},
journal = {Am J Med Genet B Neuropsychiatr Genet},
title = {The positives, protocols, and perils of genome-wide association},
abstract = {Genome-wide association aims to comprehensively survey genetic variation for the purposes of disease and trait mapping. We provide a brief history of the development of genetic technology necessary to realize genome-wide association. From there we identify and review the publicly available resources for conducting such work including the molecular technologies, genomic databases, and analytic tools. Following on from the analytic tools, we highlight common analytic considerations, ranging from study design, quality control, and data cleaning to association analysis and replication. We conclude with a look toward future developments such as the analysis of copy number variation and integration of expression and epigenetic phenomenon into genome-wide association.},
affiliation = {Social, Genetic, and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, De Crespigny Park, London, UK. b.neale@iop.kcl.ac.uk},
number = {7},
pages = {1288--94},
volume = {147B},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Genetic Research, Genetic Techniques, Humans, Genome: Human, Genetic Predisposition to Disease, Biotechnology},
date-added = {2010-03-24 22:26:50 +0100},
date-modified = {2010-03-24 22:26:50 +0100},
doi = {10.1002/ajmg.b.30747},
pmid = {18500721},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Neale-2008-Am%20J%20Med%20Genet%20B%20Neuropsychiatr%20Genet_The%20positives%20proto.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9581},
read = {Yes},
rating = {0}
}
@article{Sohn:2008p3402,
author = {I Sohn and S Kim and C Hwang and J W Lee and J Shim},
journal = {Methods Inf Med},
title = {Support vector machine quantile regression for detecting differentially expressed genes in microarray analysis},
abstract = {OBJECTIVES: One of the main objectives of microarray analysis is to identify genes differentially expressed under two distinct experimental conditions. This task is complicated by the noisiness of data and the large number of genes that are examined. Fold change (FC) based gene selection often misleads because error variability for each gene is heterogeneous in different intensity ranges. Several statistical methods have been suggested, but some of them result in high false positive rates because they make very strong parametric assumptions. METHODS: We present support vector quantile regression (SVMQR) using iterative reweighted least squares (IRWLS) procedure based on the Newton method instead of usual quadratic programming algorithms. This procedure makes it possible to derive the generalized approximate cross validation (GACV) method for choosing the parameters which affect the performance of SVMAR. We propose SVMQR based on a novel method for identifying differentially expressed genes with a small number of replicated microarrays. RESULTS: We applied SVMQR to both three biological dataset and simulated dataset and showed that it performed more reliably and consistently than FC-based gene selection, Newton's method based on the posterior odds of change, or the nonparametric t-test variant implemented in significance analysis of microarrays (SAM). CONCLUSIONS: The SVMQR method was an exploratory method for cDNA microarray experiments to identify genes with different expression levels between two types of samples (e.g., tumor versus normal tissue). The SVMQR method performed well in the situation where error variability for each gene was heterogeneous in intensity ranges.},
affiliation = {Skin Research Institute, AmorePacific R{\&}D Center, 314-1 Sanggal-dong, Kiheung-gu, Yongin-si, Kyounggi-do 449-729, Korea. sundance@amorepacific.com},
number = {5},
pages = {459--67},
volume = {47},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genetic Variation, Gene Expression Profiling, Pattern Recognition: Automated, Algorithms, Humans, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-15 14:43:18 +0100},
date-modified = {2010-01-15 14:43:18 +0100},
pii = {08050459},
pmid = {18852921},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3402},
rating = {0}
}
@article{Hanmer:2009p11769,
author = {Janel Hanmer},
journal = {Value Health},
title = {Predicting an SF-6D preference-based score using MCS and PCS scores from the SF-12 or SF-36},
abstract = {BACKGROUND: The SF-6D preference-based scoring system was developed several years after the SF-12 and SF-36 instruments. A method to predict SF-6D scores from information in previous reports would facilitate backwards comparisons and the use of these reports in cost-effectiveness analyses. METHODS: This report uses data from the 2001-2003 Medical Expenditures Panel Survey (MEPS), the Beaver Dam Health Outcomes Survey, and the National Health Measurement Study. SF-6D scores were modeled using age, sex, mental component summary (MCS) score, and physical component summary (PCS) score from the 2002 MEPS. The resulting SF-6D prediction equation was tested with the other datasets for groups of different sizes and groups stratified by age, MCS score, PCS score, sum of MCS and PCS scores, and SF-6D score. RESULTS: The equation can be used to predict an average SF-6D score using average age, proportion female, average MCS score, and average PCS score. Mean differences between actual and predicted average SF-6D scores in out-of-sample tests was -0.001 (SF-12 version 1), -0.013 (SF-12 version 2), -0.007 (SF-36 version 1), and -0.010 (SF-36 version 2). Ninety-five percent credible intervals around these point estimates range from +/-0.045 for groups with 10 subjects to +/-0.008 for groups with more than 300 subjects. These results were consistent for a wide range of ages, MCS scores, PCS scores, sum of MCS and PCS scores, and SF-6D scores. SF-6D scores from the SF-36 and SF-12 from the same data set were found to be substantially different. CONCLUSIONS: Simple equation predicts an average SF-6D preference-based score from widely published information.},
affiliation = {Department of Population Health Sciences, University of Wisconsin-Madison, Madison, WI 53726, USA. jehanmer@wisc.edu},
number = {6},
pages = {958--66},
volume = {12},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Aged, Female, Cost-Benefit Analysis, Middle Aged, Young Adult, United States, Adult, Aged: 80 and over, Models: Statistical, Questionnaires, Humans, Male, Health Status Indicators, Sex Factors, Health Surveys},
date-added = {2010-05-23 10:39:11 +0200},
date-modified = {2010-05-23 10:39:11 +0200},
doi = {10.1111/j.1524-4733.2009.00535.x},
pii = {VHE535},
pmid = {19490549},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hanmer-2009-Value%20Health_Predicting%20an%20SF-6D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11769},
rating = {0}
}
@article{Grossman:2010p5371,
author = {Sharon R Grossman and Ilya Shylakhter and Elinor K Karlsson and Elizabeth H Byrne and Shannon Morales and Gabriel Frieden and Elizabeth Hostetter and Elaine Angelino and Manuel Garber and Or Zuk and Eric S Lander and Stephen F Schaffner and Pardis C Sabeti},
journal = {Science},
title = {A Composite of Multiple Signals Distinguishes Causal Variants in Regions of Positive Selection},
abstract = {The human genome contains hundreds of regions whose patterns of genetic variation indicate recent positive natural selection, yet for most the underlying gene and the advantageous mutation remain unknown. We developed a method, Composite of Multiple Signals (CMS), that combines tests for multiple signals of selection and increases resolution by up to 100-fold. Applying CMS to candidate regions from the International Haplotype Map, we localized population-specific selective signals to 55 kb (median), identifying known and novel causal variants. CMS can identify not just individual loci but implicates precise variants selected by evolution.},
affiliation = {Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-11 09:31:30 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1183863},
pii = {science.1183863},
pmid = {20056855},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5371},
rating = {0}
}
@article{Krosnick:1991,
author = {JA Krosnick},
journal = {Applied Cognitive Psychology},
title = {Response strategies for coping with the cognitive demands on attitude measures in surveys},
abstract = {This paper proposes that when optimally answering a survey question would require substantial cognitive effort, some repondents simply provide a satisfactory answer instead. This behaviour, called satisficing, can take the form of either (1) incomplete or biased information retrieval and/or information integration, or (2) no information retrieval or integration at all. Satisficing may lead respondents to employ a variety of response strategies, including choosing the first response alternative that seems to constitute a reasonable answer, agreeing with an assertion made by a question, endorsing the status quo instead of endorsing social change, failing to differentiate among a set of diverse objects in ratings, saying don't knowinstead of reporting an opinion, and randomly choosing among the response alternatives offered. This paper specifies a wide range of factors that are likely to encourage satisficing, and reviews relevant evidence evaluating these speculations. Many useful directions for future research are suggested.},
pages = {213--236},
volume = {5},
year = {1991},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:15:39 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p970},
rating = {0}
}
@article{Trochesset:2004p13481,
author = {M Trochesset and A Bonner},
title = {Clustering Labeled Data and Cross-Validation for Classification with Few Positives in Yeast},
year = {2004},
date-added = {2010-07-01 20:51:37 +0200},
date-modified = {2010-07-01 20:52:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Trochesset-2004-_Clustering%20Labeled%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13481},
rating = {0}
}
@article{Frie:2009p5483,
author = {Kirstin Grosse Frie and Christian Janssen},
journal = {International journal of public health},
title = {Social inequality, lifestyles and health - a non-linear canonical correlation analysis based on the approach of Pierre Bourdieu},
abstract = {OBJECTIVES: Based on the theoretical and empirical approach of Pierre Bourdieu, a multivariate non-linear method is introduced as an alternative way to analyse the complex relationships between social determinants and health. METHODS: The analysis is based on face-to-face interviews with 695 randomly selected respondents aged 30 to 59. Variables regarding socio-economic status, life circumstances, lifestyles, health-related behaviour and health were chosen for the analysis. In order to determine whether the respondents can be differentiated and described based on these variables, a non-linear canonical correlation analysis (OVERALS) was performed. RESULTS: The results can be described on three dimensions; Eigenvalues add up to the fit of 1.444, which can be interpreted as approximately 50 % of explained variance. The three-dimensional space illustrates correspondences between variables and provides a framework for interpretation based on latent dimensions, which can be described by age, education, income and gender. CONCLUSION: Using non-linear canonical correlation analysis, health characteristics can be analysed in conjunction with socio-economic conditions and lifestyles. Based on Bourdieus theoretical approach, the complex correlations between these variables can be more substantially interpreted and presented.},
affiliation = {Department of Medical Sociology, Center of Psychosocial Medicine, University Medical Center Hamburg-Eppendorf, Martinistr. 52, 20246 Hamburg, Germany. k.grosse-frie@uke.uni-hamburg.de},
number = {4},
pages = {213--21},
volume = {54},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Female, Middle Aged, Adult, Germany, Life Style, Humans, Multivariate Analysis, Interviews as Topic, Nonlinear Dynamics, Social Class, Health Status, Sociology: Medical, Male},
date-added = {2010-02-12 14:43:56 +0100},
date-modified = {2010-02-12 14:43:56 +0100},
doi = {10.1007/s00038-009-8017-5},
pmid = {19418020},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5483},
rating = {0}
}
@article{Shi:2006p12866,
author = {T Shi and S Horvath},
journal = {Journal of Computational and Graphical Statistics},
title = {Unsupervised Learning With Random Forest Predictors},
abstract = {A random forest (RF) predictor is an ensemble of individual tree predictors. As part of their construction, RF predictors naturally lead to a dissimilarity measure between the observations. One can also define an RF dissimilarity measure between unlabeled data: the idea is to construct an RF predictor that distinguishes the ``observed'' data from suitably generated synthetic data. The observed data are the original unlabeled data and the synthetic data are drawn from a reference distribution. Here we describe the properties of the RF dissimilarity and make recommendations on how to use it in practice.
An RF dissimilarity can be attractive because it handles mixed variable types well, is invariant to monotonic transformations of the input variables, and is robust to outlying observations. The RF dissimilarity easily deals with a large number of variables due to its in- trinsic variable selection; for example, the Addcl1 RF dissimilarity weighs the contribution of each variable according to how dependent it is on other variables.
We find that the RF dissimilarity is useful for detecting tumor sample clusters on the basis of tumor marker expressions. In this application, biologically meaningful clusters can often be described with simple thresholding rules.},
number = {1},
pages = {118--138},
volume = {15},
year = {2006},
date-added = {2010-06-24 12:47:23 +0200},
date-modified = {2010-06-24 12:49:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shi-2006-Journal%20of%20Computational%20and%20Graphical%20Statistics_Unsupervised%20Learnin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12866},
rating = {0}
}
@article{Kissita:2010p12004,
author = {G Kissita and R A Makany and D Miz{\`e}re},
journal = {Afrika Statistika},
title = {L'analyse CONCORG Simultan{\'e}e : La M{\'e}thode CONCORGS},
abstract = {The analysis CONCORG is a method that investigates the link between two multi-tables (partitioned sets of variables measured on the same individuals). It allows to detail the contributions of partial sub-tables form- ing the two tables. CONCORG is an extension of Concor, which itself is an extension of the inter-battery analysis. This new method performs successive determinations of the solution. In this article, we propose three criteria that enables to simultaneously identify solutions. It happens that the three cri- teria are equivalent to the solution. In this sense, our method, denoted as CONCORGS, is a generalization of CONCORG. Finally, we establish a fun- damental property checked at the optimum these three criteria.},
year = {2010},
date-added = {2010-05-23 17:31:46 +0200},
date-modified = {2010-05-23 17:33:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kissita-2010-Afrika%20Statistika_L%E2%80%99analyse%20CONCORG%20Si.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12004},
rating = {0}
}
@article{Regier:2007p10724,
author = {Terry Regier and Paul Kay and Naveen Khetarpal},
journal = {Proc Natl Acad Sci USA},
title = {Color naming reflects optimal partitions of color space},
abstract = {The nature of color categories in the world's languages is contested. One major view holds that color categories are organized around universal focal colors, whereas an opposing view holds instead that categories are defined at their boundaries by linguistic convention. Both of these standardly opposed views are challenged by existing data. Here, we argue for a third view based on a proposal by Jameson and D'Andrade [Jameson KA, D'Andrade RG (1997) in Color Categories in Thought and Language, eds Hardin CL, Maffi L (Cambridge Univ Press, Cambridge, U.K.), pp 295-319]: that color naming across languages reflects optimal or near-optimal divisions of an irregularly shaped perceptual color space. We formalize this idea, test it against color-naming data from a broad range of languages and show that it accounts for universal tendencies in color naming while also accommodating some observed cross-language variation.},
affiliation = {Department of Psychology, University of Chicago, 5848 South University Avenue, Chicago, IL 60637, USA. regier@uchicago.edu},
number = {4},
pages = {1436--41},
volume = {104},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Color, Language},
date-added = {2010-04-10 03:26:16 +0200},
date-modified = {2010-04-10 03:26:16 +0200},
doi = {10.1073/pnas.0610341104},
pii = {0610341104},
pmid = {17229840},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Regier-2007-Proc%20Natl%20Acad%20Sci%20USA_Color%20naming%20reflect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10724},
rating = {0}
}
@article{DiazUriarte:2007p2577,
author = {Ram{\'o}n Diaz-Uriarte},
journal = {BMC Bioinformatics},
title = {GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest},
abstract = {BACKGROUND: Microarray data are often used for patient classification and gene selection. An appropriate tool for end users and biomedical researchers should combine user friendliness with statistical rigor, including carefully avoiding selection biases and allowing analysis of multiple solutions, together with access to additional functional information of selected genes. Methodologically, such a tool would be of greater use if it incorporates state-of-the-art computational approaches and makes source code available. RESULTS: We have developed GeneSrF, a web-based tool, and varSelRF, an R package, that implement, in the context of patient classification, a validated method for selecting very small sets of genes while preserving classification accuracy. Computation is parallelized, allowing to take advantage of multicore CPUs and clusters of workstations. Output includes bootstrapped estimates of prediction error rate, and assessments of the stability of the solutions. Clickable tables link to additional information for each gene (GO terms, PubMed citations, KEGG pathways), and output can be sent to PaLS for examination of PubMed references, GO terms, KEGG and and Reactome pathways characteristic of sets of genes selected for class prediction. The full source code is available, allowing to extend the software. The web-based application is available from http://genesrf2.bioinfo.cnio.es. All source code is available from Bioinformatics.org or The Launchpad. The R package is also available from CRAN. CONCLUSION: varSelRF and GeneSrF implement a validated method for gene selection including bootstrap estimates of classification error rate. They are valuable tools for applied biomedical researchers, specially for exploratory work with microarray data. Because of the underlying technology used (combination of parallelization with web-based application) they are also of methodological interest to bioinformaticians and biostatisticians.},
affiliation = {Statistical Computing Team, Structural Biology and Biocomputing Programme, Spanish National Cancer Center (CNIO), Melchor Fern{\'a}ndez Almagro 3, Madrid, 28029, Spain. rdiaz02@gmail.com},
pages = {328},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Gene Expression Profiling, User-Computer Interface, Algorithms, Internet, Oligonucleotide Array Sequence Analysis, Software, Data Interpretation: Statistical},
date-added = {2010-01-12 22:23:46 +0100},
date-modified = {2010-01-12 22:23:47 +0100},
doi = {10.1186/1471-2105-8-328},
pii = {1471-2105-8-328},
pmid = {17767709},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2577},
rating = {0}
}
@article{Adair:2001p8804,
author = {L S Adair},
journal = {Pediatrics},
title = {Size at birth predicts age at menarche},
abstract = {OBJECTIVE: This study examines the relationship of intrauterine growth, measured by size and maturity at birth, to age at menarche, while also considering a wide range of other factors that may affect maturation. The research is motivated by the current debate about the importance of the prenatal environment as a determinant of later disease risk. METHODS: Data were collected during the Cebu Longitudinal Health and Nutrition Survey. This community-based study has followed a cohort of several thousand Filipino infants since their birth in 1983 to 1984. Participants live in urban and rural communities of Metro Cebu, the second largest metropolitan area of the Philippines. The analysis sample includes 997 girls 14 to 15 years of age. The main outcome measure is age at menarche, determined from girls' self-report of the month and year of first menses. Factors that influenced age at menarche were identified using Weibull parametric survival time models. The main exposure variables of interest included weight and length (measured by trained field staff) and gestational age (assessed from mother's reported date of last menstrual period, augmented by clinical assessments at birth). The analysis also takes into account a wide range of other factors that are likely to affect age at menarche. These include the girls' early postnatal growth rates, premenarcheal body composition (body mass index and skinfold thicknesses measured at 8 years), current diet (measured by two 24-hour dietary recalls), and socioeconomic conditions of the household in which they live. We also assessed the contribution of maternal characteristics, including age at menarche, height, and nutritional status while pregnant with the study child. RESULTS: The median age at menarche calculated from the hazard model is 13.1 years, with 50% of girls attaining menarche between 12.4 and 13.9 years. Earlier menarche is characteristic of girls who live in urban, higher socioeconomic status households, as indicated by higher maternal education, better housing quality, and possession of assets, such as a TV or refrigerator. Age at menarche is significantly associated with birth characteristics. Although birth weight alone was not significantly related to age at menarche, girls who were relatively long and thin at birth (>49 cm, <3 kg) attained menarche ~6 months earlier than did girls who were short and light (<49 cm, <3 kg). This effect of thinness at birth is most pronounced among girls with greater than average growth increments in 6 months of life. The effects of birth size are not modified when body mass index and skinfold thicknesses at 8 years are taken into account. Effects of birth size on age at menarche also remain significant when maternal nutritional status during pregnancy and the girl's current diet and socioeconomic indicators are taken into account. CONCLUSIONS: The study provides additional evidence of fetal programming of later health outcomes by showing that future growth and maturation trajectories are established in utero. Furthermore, rapid postnatal growth potentiates the effects of size at birth and is related independently to earlier pubertal maturation.},
affiliation = {Department of Nutrition, University of North Carolina, Schools of Medicine and Public Health, Chapel Hill, North Carolina 27516-3997, USA. linda_adair@unc.edu},
number = {4},
pages = {E59},
volume = {107},
year = {2001},
month = {Apr},
language = {eng},
keywords = {Sexual Maturation, Embryonic and Fetal Development, Seasons, Anthropometry, Infant, Birth Weight, Pregnancy, Adult, Infant: Newborn, Health Surveys, Female, Body Mass Index, Mothers, Age Factors, Adolescent, Child: Preschool, Humans, Menarche, Proportional Hazards Models, Cohort Studies, Skinfold Thickness, Child},
date-added = {2010-03-22 12:08:17 +0100},
date-modified = {2010-03-22 12:08:17 +0100},
pmid = {11335780},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8804},
rating = {0}
}
@article{Ridolfi:2002p4108,
author = {A Ridolfi and J Idier},
title = {Penalized Maximum Likelihood Estimation for Normal Mixture Distributions},
abstract = {Mixture models form the essential basis of data clustering within a statistical framework. Here, the estimation of the parameters of a mixture of Gaussian densities is considered. In this particular context, it is well known that the maximum likelihood approach is statistically ill posed, i.e. the likelihood function is not bounded above, because of singularities at the boundary of the parameter domain. We show that such a degeneracy can be avoided by penalizing the likelihood function using a suited type of penalty function. Recently, the resulting penalized maximum likelihood estimator has been proved to be asymptotically well- behaved. Local maximization of the likelihood function can be performed by mean of Green's modified EM algorithm: provided that an inverse gamma is chosen as penalty function, EM re-estimation equations are still explicit and automatically ensure that the estimates are not singular. Numerical examples are provided in the finite data case, showing the performances of the penalized estimator compared to the standard one. Our penalized approach is also compared to a constrained approach, which, up to the authors knowledge, represents the only alternate solution to likelihood degeneracy. Our contribution mainly addresses the case of an independent, identically distributed mixture of Gaussian densities, but the more general case of dependent classes is also tackled, with a particular reference to the important case of hidden Markov models.},
year = {2002},
date-added = {2010-01-19 23:48:08 +0100},
date-modified = {2010-01-19 23:48:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ridolfi-2002-_Penalized%20Maximum%20Li.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4108},
rating = {0}
}
@article{Pilla:2005p3609,
author = {R S Pilla and D J Kitska and C Loader},
journal = {Journal of Experimental Biology},
title = {STATISTICAL ANALYSIS OF MODIFIED COMPLETE RANDOMIZED DESIGNS: APPLICATIONS TO CHEMO-ORIENTATION STUDIES},
abstract = {Often experimental scientists employ a randomized complete block de- sign (RCBD) to study the effect of treatments on different subjects. Under a complete randomization, the order of the apparatus setups within each block, including all replications of each treatment across all subjects, is completely randomized. However, in many experimental settings complete randomization is impractical due to the cost involved in re-adjusting the devise to administer a new treatment. One typically resorts to a type of restricted randomization in which multiple subjects are tested under each treatment before the devise is re-adjusted. The order of the treatments as well as the assignment of subjects to each block are random. If the data ob- tained under any type of restricted randomization are treated as if the data were collected under an RCBD with complete randomization within each block, then there is potential to increase the risk of false positives (Type I error). This is of concern to animal orientation studies and other areas such as chemical ecology where it is impractical to reset the experimental devise for each subject tested. The goal of the research presented in this article is two fold. First is to demonstrate the consequences of construct- ing an F-statistic based on a mean square error for testing the significance of treatment effects under the restricted randomization. Second is to de- scribe an alternative method, based on split-plot analysis of variance, to analyse designed experiments that yield better power under the restricted randomization. The data analyses from simulated experiments and that in- volving virgin male Periplaneta americana substantiate the benefits of the alternative approach under the restricted randomization. The methodology and analysis employed for the simulated experiment is equally applicable to any organism or artificial agent tested under a restricted randomization protocol.},
pages = {1267--1276},
volume = {208},
year = {2005},
date-added = {2010-01-16 18:23:42 +0100},
date-modified = {2010-01-16 18:26:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pilla-2005-Journal%20of%20Experimental%20Biology_STATISTICAL%20ANALYSIS.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3609},
rating = {0}
}
@misc{Hermann:1999,
author = {Margaret G Hermann},
journal = {Miscellaneous},
title = {Assessing leadership style: A trait analysis},
year = {1999},
month = {Nov},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hermann-1999-Miscellaneous_Assessing%20leadership.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2079},
rating = {0}
}
@article{Passamonti:2009p8931,
author = {Luca Passamonti and James B Rowe and Christian Schwarzbauer and Michael P Ewbank and Elisabeth von dem Hagen and Andrew J Calder},
journal = {J Neurosci},
title = {Personality predicts the brain's response to viewing appetizing foods: the neural basis of a risk factor for overeating},
abstract = {Eating is not only triggered by hunger but also by the sight of foods. Viewing appetizing foods alone can induce food craving and eating, although there is considerable variation in this "external food sensitivity" (EFS). Because increased EFS is associated with overeating, identifying its neural correlates is important for understanding the current epidemic of obesity. Animal research has identified the ventral striatum, amygdala, hypothalamus, medial prefrontal and premotor cortices as key interacting structures for feeding. However, it is unclear whether a similar network exists in humans and how it is affected by EFS. Using functional magnetic resonance imaging, we showed that viewing appetizing compared with bland foods produced changes in connectivity among the human ventral striatum, amygdala, anterior cingulate and premotor cortex that were strongly correlated with EFS. Differences in the dynamic interactions within the human appetitive network in response to pictures of appetizing foods may determine an individual's risk of obesity.},
affiliation = {Cognition and Brain Sciences Unit, Medical Research Council, Cambridge CB2 7EF, United Kingdom. l.passamonti@isn.cnr.it},
number = {1},
pages = {43--51},
volume = {29},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Young Adult, Brain, Image Processing: Computer-Assisted, Adult, Oxygen, Personality, Food, Male, Pattern Recognition: Visual, Magnetic Resonance Imaging, Hyperphagia, Risk Factors, Appetite, Brain Mapping, Photic Stimulation, Female, Humans},
date-added = {2010-03-22 13:04:12 +0100},
date-modified = {2010-07-29 19:52:28 +0200},
doi = {10.1523/JNEUROSCI.4966-08.2009},
pii = {29/1/43},
pmid = {19129383},
url = {http://www.jneurosci.org/cgi/content/full/29/1/43},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Passamonti-2009-J%20Neurosci_Personality%20predicts.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8931},
rating = {0}
}
@article{Chen:2010p13423,
author = {Yea-Hung Chen and H Fisher Raymond and Willi McFarland and Hong-Ha M Truong},
journal = {AIDS Behav},
title = {HIV risk behaviors in heterosexual partnerships: female knowledge and male behavior},
abstract = {We initiated a study of high-risk heterosexual females and their male partners. The goal was to characterize the partnerships, quantify the prevalence of high-risk male behaviors and characteristics, and to assess whether females in these partnerships would be able to accurately and consistently describe their partners' risk conditions. Seventy-four percent (73.6%) of partnerships reported frequent unprotected sex (condom use during fewer than half their sexual encounters) and 55.9% reported frequent drug or alcohol use during sex (drug or alcohol use during more than half their sexual encounters). Two-thirds (66.7%) of men reported concurrent sexual partnerships and 40.8% reported a history of STDs. The women's assessments of their partners' behaviors often differed from the behaviors and characteristics reported by the women's male partners.},
affiliation = {HIV Epidemiology Section, San Francisco Department of Public Health, San Francisco, CA 94102-6033, USA.},
number = {1},
pages = {87--91},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Adult, Heterosexuality, Sexual Behavior, Awareness, Humans, Sex Factors, Prevalence, Ethnic Groups, Male, Middle Aged, HIV Infections, Risk-Taking, Attitude to Health, Sexually Transmitted Diseases, Adolescent, Young Adult, Female},
date-added = {2010-07-01 19:35:31 +0200},
date-modified = {2010-07-01 19:35:31 +0200},
doi = {10.1007/s10461-009-9558-6},
pmid = {19365720},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2010-AIDS%20Behav_HIV%20risk%20behaviors%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13423},
rating = {0}
}
@article{Mislevy:2003p4251,
author = {R Mislevy},
journal = {Conference on Inference, Culture, and Ordinary Thinking in Dispute Resolution},
title = {Argument Substance and Argument Structure in Educational Assessment},
abstract = {Educational assessment is reasoning from observations of what students do or make in a handful of particular circumstances, to what they know or can do more broadly. Practice has changed a great deal over the past century, in response to evolving conceptions of knowledge and its acquisition, views of schooling and its purposes, and technologies for gathering and evaluating response data. Conceptions of what constitutes assessment data, how it should be interpreted, and what kind of inferences are to be drawn differ radically when cast under different psychological perspectives. If we distinguish the structure of assessment arguments from their substance, we see greater continuity. Developments here have been more in the nature of extension, elaboration, refinement, and explication of argument structures, as they have been prompted by more radically changes in culture and substance.},
year = {2003},
date-added = {2010-01-23 20:54:47 +0100},
date-modified = {2010-01-23 20:55:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-2003-Conference%20on%20Inference%20Culture%20and%20Ordinary%20Thinking%20in%20Dispute%20Resolution_Argument%20Substance%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4251},
rating = {0}
}
@article{Helms:1999,
author = {J E Helms},
journal = {Measurement and Evaluation in Counseling and Development},
title = {Another meta-analysis of the White Racial Identity Attitude Scale's Cronbach alphas: Implications for validity},
pages = {122--137},
volume = {32},
year = {1999},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2050},
rating = {0}
}
@article{Ehlers:2010p7874,
author = {Cindy L Ehlers and Ian R Gizer and Evelyn Phillips and Kirk C Wilhelmsen},
journal = {BMC Med Genet},
title = {EEG alpha phenotypes: linkage analysis and relation to alcohol dependence in an American Indian community study},
abstract = {ABSTRACT: BACKGROUND: Evidence for a high degree of heritability of EEG alpha phenotypes has been demonstrated in twin and family studies in a number of populations. However, information on linkage of this phenotype to specific chromosome locations is still limited. This study's aims were to map loci linked to EEG alpha phenotypes and to determine if there was overlap with loci previously mapped for alcohol dependence in an American Indian community at high risk for substance dependence. METHODS: Each participant gave a blood sample and completed a structured diagnostic interview using the Semi Structured Assessment for the Genetics of Alcoholism. Bipolar EEGs were collected and spectral power determined in the alpha (7.5-12.0 Hz) frequency band for two composite scalp locations previously identified by principal components analyses (bilateral fronto-central and bilateral centro-parietal-occipital). Genotypes were determined for a panel of 791 micro-satellite polymorphisms in 410 members of multiplex families using SOLAR. RESULTS: Sixty percent of this study population had a lifetime diagnosis of alcohol dependence. Analyses of multipoint variance component LOD scores, for the EEG alpha power phenotype, revealed two loci that had a LOD score of 3.0 or above for the fronto-central scalp region on chromosomes 1 and 6. Additionally, 4 locations were identified with LOD scores above 2.0 on chromosomes 4, 11, 14, 16 for the fronto-central location and one on chromosome 2 for the centro-parietal-occipital location. CONCLUSION: These results corroborate the importance of regions on chromosome 4 and 6 highlighted in prior segregation studies in this and other populations for alcohol dependence-related phenotypes, as well as other areas that overlap with other substance dependence phenotypes identified in previous linkage studies in other populations. These studies additionally support the construct that EEG alpha recorded from fronto-central scalp areas may represent an important endophenotype associated with alcohol and other substance dependence.},
number = {1},
pages = {43},
volume = {11},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-20 19:14:31 +0100},
date-modified = {2010-03-20 19:14:31 +0100},
doi = {10.1186/1471-2350-11-43},
pii = {1471-2350-11-43},
pmid = {20298578},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ehlers-2010-BMC%20Med%20Genet_EEG%20alpha%20phenotypes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7874},
rating = {0}
}
@article{Dunn:2003p7402,
author = {Kate M Dunn and Kelvin Jordan and Peter R Croft},
journal = {Journal of Clinical Epidemiology},
title = {Does questionnaire structure influence response in postal surveys?},
abstract = {This study tested the effect of questionnaire structure on response, speed of return, and content of answers in a postal survey. All 259 patients aged 30-59 years who consulted with back pain at four UK general practices from March to June 2001 were randomly allocated to receive either a traditionally or chronologically structured self-completion questionnaire. The response was higher and the returns quicker (P =.05) for the chronologic questionnaire. There were no statistically significant differences in completion rates or scores on the SF-36, Chronic Pain Grade, Hospital Anxiety and Depression Scale, or Roland-Morris Disability Questionnaire between the two types of questionnaire, and test-retest reliability was high for all scales. Changing questionnaire structure to make questions chronologic does not substantially affect the answers given, but may make a questionnaire more acceptable and easier to complete and speed up returns.},
affiliation = {Keele University, Primary Care Sciences Research Centre, Hornbeam Building, Keele, Staffordshire ST5 5BG, UK. k.m.dunn@cphc.keele.ac.uk},
number = {1},
pages = {10--6},
volume = {56},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Reproducibility of Results, Time Factors, Female, Health Status, Adult, Back Pain, Humans, Pilot Projects, Male, Longitudinal Studies, Patient Participation, Sensitivity and Specificity, Health Surveys, Middle Aged},
date-added = {2010-03-10 20:36:28 +0100},
date-modified = {2010-03-10 20:36:28 +0100},
pii = {S089543560200567X},
pmid = {12589865},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dunn-2003-Journal%20of%20Clinical%20Epidemiology_Does%20questionnaire%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7402},
rating = {0}
}
@article{Rodriguez:2003p14016,
author = {G Rodriguez and I Elo},
journal = {The Stata Joumal},
title = {Intra-class correlation in random-effects models for binary data},
abstract = {We review the concept of intra-class correlation in random-effects mod- els for binary outcomes as estimated by Stata's xtprobit, xtlogit, and xtclog. We consider the usual measures of correlation based on a latent variable formu- lation of these models and note corrections to the last two procedures. We also discuss alternative measures of association based on manifest variables or actual outcomes and introduce a new command xtrho for computing these measures for all three types of models.},
number = {1},
pages = {32--46},
volume = {3},
year = {2003},
date-added = {2010-08-04 09:44:24 +0200},
date-modified = {2010-08-04 09:45:25 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rodriguez-2003-The%20Stata%20Joumal_Intra-class%20correlat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14016},
rating = {0}
}
@article{Kirwan:2009p6346,
author = {John R Kirwan and Stanton Newman and Peter S Tugwell and George A Wells and Sarah Hewlett and Leanne Idzera and Britta Laslo and Lyn M March and Patricia Minnock and Pam Montie and Jo Nicklin and Tamara Rader and Pamela Richards and Tessa C Sanderson and Maria Suarez-Almazor and Elizabeth Tanjong-Ghogomu and Erin Ueffing and Vivian Welch},
journal = {J Rheumatol},
title = {Progress on incorporating the patient perspective in outcome assessment in rheumatology and the emergence of life impact measures at OMERACT 9},
abstract = {The Patient Perspective Workshop included over 100 researchers and 18 patient participants from 8 countries. Following preconference reading and short plenary presentations, breakout groups considered work undertaken on measurement of sleep, assessing interventions to develop the effective consumer, and assessing psychological and educational interventions. The workshop explored the best way to identify other outcome domains (and instruments) that should be measured in observational or interventional studies with broader intentions than simply altering outcomes captured in the traditional "core set" plus fatigue. Four sleep questionnaires showed promise and will be the subject of further study. The Effective Consumer scale (EC-17) was reviewed and the concept Effective Consumer was well received. Participants thought it worthwhile to measure the skills and attributes of an effective consumer and develop an intervention that would include education in all of the scale's categories. Assessment of educational and psychological interventions requires a wider set of instruments than is currently used; these should relate to the purpose of the intervention. This principle was extended to include wider measures of the impact of disease on life, as indicated in the International Classification of Functioning, Disability and Health. Life impact measure sets covering domains appropriate to different rheumatic conditions and focused on different interventions might be defined by future OMERACT consensus. Measurement instruments within these domains that are valid for use in rheumatic conditions can then be identified and, in the case of psychological and educational interventions, chosen to fit with the purpose of the intervention.},
affiliation = {University of Bristol Academic Rheumatology Unit, Bristol Royal Infirmary, Bristol, UK. John.Kirwan@Bristol.ac.uk},
number = {9},
pages = {2071--6},
volume = {36},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Humans, Self Concept, Outcome Assessment (Health Care), Rheumatic Diseases, Sleep, Patient Education as Topic},
date-added = {2010-02-23 08:21:10 +0100},
date-modified = {2010-07-29 19:52:38 +0200},
doi = {10.3899/jrheum.090360},
pii = {36/9/2071},
pmid = {19738216},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6346},
rating = {0}
}
@article{Blair:1987,
author = {EA Blair and S Burton},
journal = {Journal of Consumer Research},
title = {Cognitive processes used by survey respondents in answering behavioral frequency questions},
pages = {280--288},
volume = {14},
year = {1987},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p929},
rating = {0}
}
@article{Vermunt:2008p1526,
author = {J K Vermunt and J R van Ginkel and L Andries van der Ark and K Sijstma},
title = {Multiple imputation of incomplete categorical data using latent class analysis},
abstract = {We propose using latent class analysis as an alternative to log- linear analysis for the multiple imputation of incomplete categorical data. Similar to log-linear models, latent class models can be used to describe complex association structures between the variables used in the imputation model. However, unlike log- linear models, latent class models can be used to build large imputation models containing more than a few categorical variables. To obtain imputations reflecting uncertainty about the unknown model parameters, we use a nonparametric bootstrap procedure as an alternative to the more common full Bayesian approach. The proposed multiple imputation method, which is implemented in Latent GOLD software for latent class analysis, is illustrated with two examples. In a simulated data example, we compare the new method to well-established methods such as maximum likelihood estimation with incomplete data and multiple imputation using a saturated log-linear model. This example shows that the proposed method yields unbiased parameter estimates and standard errors. The second example concerns an application using a typical social sciences data set. It contains 79 variables that are all included in the imputation model. The proposed method is especially useful for such large data sets because standard methods for dealing with missing data in categorical variables break down when the number of variables is so large.},
year = {2008},
date-added = {2010-01-07 16:00:44 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2008-_Multiple%20imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1526},
rating = {0}
}
@article{Kramer:2002p4551,
author = {Ludwig Kramer and Edith Bauer and Georg Funk and Harald Hofer and Wolfgang Jessner and Petra Steindl-Munda and Friedrich Wrba and Christian Madl and Alfred Gangl and Peter Ferenci},
journal = {J Hepatol},
title = {Subclinical impairment of brain function in chronic hepatitis C infection},
abstract = {BACKGROUND/AIMS: Central nervous system abnormalities such as fatigue and depression occur more frequently in chronic hepatitis C virus (HCV) infection than in many other causes of chronic liver disease. The finding that fatigue is unrelated to activity of hepatitis or mode of infection could indicate an independent effect of HCV on brain function. This study tested the hypothesis of a subclinical cognitive dysfunction in HCV-infected patients. METHODS: One-hundred untreated HCV-RNA positive biopsy-proven patients were investigated by P300 event-related potentials, a sensitive electrophysiologic test of cognitive processing. Health-related quality of life and fatigue were assessed using the SF-36 questionnaire and the Fatigue Impact Scale, respectively. RESULTS: Cognitive brain function was subclinically impaired in the cohort of HCV-infected patients as indicated by significantly prolonged P300 latencies (P=0.01 for comparison to matched healthy subjects) and reduced P300 amplitudes (P<0.001, respectively). Seventeen of the 100 HCV-infected patients had P300 latencies outside the age-adjusted normal range. Abnormal P300 characteristics were not related to the degree of histologic or biochemical activity of hepatitis, severity of fatigue or mental health impairment. CONCLUSIONS: This study demonstrates that patients with HCV infection showed a slight but significant neurocognitive impairment, possibly indicating a further extrahepatic manifestation of chronic hepatitis C.},
affiliation = {Department of Medicine IV, University Hospital Vienna, W{\"a}hringer G{\"u}rtel 18-20, Vienna, Austria. ludwig.kramer@akh-wien.ac.at},
number = {3},
pages = {349--54},
volume = {37},
year = {2002},
month = {Sep},
language = {eng},
keywords = {Hepatitis C: Chronic, Male, Brain Diseases, Female, Liver Cirrhosis, Cognition Disorders, Event-Related Potentials: P300, Aged, Fatigue, Humans, Substance-Related Disorders, Middle Aged, Adult, Alcoholism},
date-added = {2010-01-29 22:29:11 +0100},
date-modified = {2010-01-29 22:29:11 +0100},
pii = {S0168827802001721},
pmid = {12175630},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4551},
rating = {0}
}
@article{Coolidge:2004p12583,
author = {Frederick L Coolidge and Linda L Thede and Kerry L Jang},
journal = {Behav Genet},
title = {Are personality disorders psychological manifestations of executive function deficits? Bivariate heritability evidence from a twin study},
abstract = {This study tested whether personality disorders may be the psychological manifestations of executive function deficits by examining their bivariate heritability in a community sample of 314 twins (ages 5-17 years; M age = 9.7; 96 monozygotic pairs and 61 dizygotic pairs). The parents of the twins completed the Coolidge Personality and Neuropsychological Inventory (Coolidge, 1998; Coolidge et al., 2002). Heritability was estimated by structural equation modeling. Executive function deficits and personality disorders were significantly heritable (executive function deficits,.77; 11 out of 12 personality disorders, median =.69). The proportion of the observed correlation attributable to heritable factors or bivariate heritability between executive function deficits and the personality disorder scales ranged from.27 for schizoid to.64 for histrionic. These findings may provide some insight as to why individuals diagnosed with specific personality disorders frequently exhibit chronic difficulties with everyday decisions, selective attention and inhibition, judgments, choices, planning, and flexibility.},
affiliation = {University of Colorado, Colorado Springs, CO 80933-7150, USA. fcoolidg@uccs.edu},
number = {1},
pages = {75--84},
volume = {34},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Child: Preschool, Statistics as Topic, Comorbidity, Models: Genetic, Twins: Dizygotic, Twins: Monozygotic, Diseases in Twins, Personality Inventory, Problem Solving, Female, Cognition Disorders, Child, Social Environment, Phenotype, Adolescent, Humans, Personality Disorders, Genetic Predisposition to Disease, Psychometrics, Male},
date-added = {2010-06-15 22:35:59 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1023/B:BEGE.0000009486.97375.53},
pii = {481117},
pmid = {14739698},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Coolidge-2004-Behav%20Genet_Are%20personality%20diso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12583},
rating = {0}
}
@article{Hays:2007p5962,
author = {Ron D Hays and Honghu Liu and Karen Spritzer and David Cella},
journal = {Med Care},
title = {Item response theory analyses of physical functioning items in the medical outcomes study},
abstract = {BACKGROUND: Constructing and evaluating item pools that measure a single domain of health-related quality of life (HRQOL) is one of the fundamental objectives of the Patient Reported Outcome Measurement and Information System (PROMIS) project. The initial focus of PROMIS is on 5 HRQOL domains: physical function, fatigue, pain, emotional distress, and social/role participation. Analysis of related, available data can inform construction of these new banks. OBJECTIVE: We sought to inform the building of the PROMIS physical function item bank by evaluating physical functioning items administered to participants in the Medical Outcomes Study. RESEARCH DESIGN: Secondary analyses of physical functioning items administered at baseline (Fall, 1986) to 3223 individuals in the Medical Outcomes Study. SUBJECTS: The mean age of participants was 54 years old; 15% had less than a high school education, 30% had a high school education, 27% had some but <4 years of college, and 28% had 4 or more years of college. Sixty-one percent were female; 80% were non-Hispanic white, 14% non-Hispanic black, 3% Hispanic, 1% Asian, and 2% other race/ethnicity. MEASURES: Fifteen physical functioning items were selected for analyses including the 10 SF-36 physical functioning items, an item assessing limitations in everyday physical activities because of health problems, an item measuring satisfaction with physical ability, and 3 mobility items. RESULTS: Cronbach's alpha was 0.94 for the 15-item scale and item-total correlations ranged from 0.51 (limited in bathing or dressing) to 0.80 (limited walking several blocks). A one-factor confirmatory categorical model fit the data well according to practical fit indices (comparative fit index = 0.95), but the Root Mean Square Error of Approximation was 0.12. Estimated factor loadings were all large (0.72 to 0.96) and statistically significant. We fit the graded response model with freely estimated and fixed slope estimates to compare 2-PL and 1-PL models. The difference between these 2 goodness of fit statistics for the 2 models was statistically significant: chi (df = 14) = 772.9, P < 0.001. Slope estimates for some of the items in the 2-PL model varied from the 1-PL common slope to a noteworthy extent (eg, items 2, 5, 7, 8, and 9). Category threshold estimates generally were similar for the 2 models. Threshold estimates for the 2-PL model ranged from -2.90 (item 14: between no, never, and yes, occasionally in bed or in a chair most or all of the day because of health) to 1.55 (item 12: between very satisfied and completely satisfied with physical ability to do what you want to do). Information peaked at -1.0 theta (information = 33.60) for the 2-PL model. Information was only 7.43 at 0.8 theta (2-PL) and decreased with increasing theta. CONCLUSIONS: The 15 physical functioning items provide reasonably good fit to a unidimensional item response theory model that provides satisfactory coverage of the lower levels of physical functioning but does not provide very much information at higher levels of functioning.},
affiliation = {UCLA Division of General Internal Medicine {\&} Health Services Research, Los Angeles, California 90024, USA. drhays@ucla.edu},
number = {5 Suppl 1},
pages = {S32--8},
volume = {45},
year = {2007},
month = {May},
language = {eng},
keywords = {Models: Theoretical, Outcome Assessment (Health Care), Humans, United States, Questionnaires, Male, Activities of Daily Living, Female, Health Status, Chronic Disease, Middle Aged},
date-added = {2010-02-18 23:28:33 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000246649.43232.82},
pii = {00005650-200705001-00005},
pmid = {17443117},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hays-2007-Med%20Care_Item%20response%20theory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5962},
rating = {5}
}
@article{Fort:2005p338,
author = {Gersende Fort and Sophie Lambert-Lacroix},
journal = {Bioinformatics},
title = {Classification using partial least squares with penalized logistic regression},
abstract = {MOTIVATION: One important aspect of data-mining of microarray data is to discover the molecular variation among cancers. In microarray studies, the number n of samples is relatively small compared to the number p of genes per sample (usually in thousands). It is known that standard statistical methods in classification are efficient (i.e. in the present case, yield successful classifiers) particularly when n is (far) larger than p. This naturally calls for the use of a dimension reduction procedure together with the classification one. RESULTS: In this paper, the question of classification in such a high-dimensional setting is addressed. We view the classification problem as a regression one with few observations and many predictor variables. We propose a new method combining partial least squares (PLS) and Ridge penalized logistic regression. We review the existing methods based on PLS and/or penalized likelihood techniques, outline their interest in some cases and theoretically explain their sometimes poor behavior. Our procedure is compared with these other classifiers. The predictive performance of the resulting classification rule is illustrated on three data sets: Leukemia, Colon and Prostate.},
affiliation = {CNRS/LMC-IMAG BP 53, 38041 Grenoble cedex 9, France.},
number = {7},
pages = {1104--11},
volume = {21},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Humans, Diagnosis: Computer-Assisted, Sensitivity and Specificity, Models: Genetic, Regression Analysis, Oligonucleotide Array Sequence Analysis, Least-Squares Analysis, Neoplasm Proteins, Reproducibility of Results, Tumor Markers: Biological, Pattern Recognition: Automated, Algorithms, Neoplasms, Gene Expression Profiling, Models: Statistical},
date-added = {2010-01-03 11:45:24 +0100},
date-modified = {2010-01-03 11:45:24 +0100},
doi = {10.1093/bioinformatics/bti114},
pii = {bti114},
pmid = {15531609},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p338},
rating = {0}
}
@article{Abbott:1988p9736,
author = {A V Abbott and R K Peters and M E Vogel},
journal = {Psychosom Med},
title = {Temporal stability and overlap of behavioral and questionnaire assessments of type A behavior in coronary patients},
abstract = {To examine the temporal stability of the Type A behavior pattern (TABP) after a cardiac event, both a Videotaped Clinical Interview (VCI) (formerly known as the Videotaped Structured Interview) and the Jenkins Activity Survey (JAS) were administered to 81 male and 19 female patients three times during the first year after hospitalization for an initial myocardial infarction, coronary artery bypass graft, or both. There was no intervention other than the usual treatment provided by the medical care system. The test-retest reliability coefficients were moderately high for all measures of TABP. The JAS provided the most reliable scores in both sexes. The Hard Driving and Competitive component of the JAS decreased significantly throughout the year in both men (p less than 0.001) and women (p less than 0.01), but in men all three overall indices of TABP and their components (other than Hard Driving and Competitive) decreased spontaneously between 1 and 3 months, and then increased again by 1 year to nearly the original levels. In women, there were no consistent changes over time among the indices other than that for the Hard Driving and Competitive component of the JAS. Intercorrelations among the indices demonstrate the failure of the JAS to assess the Hostility component of the TABP and the possibility that the Speed and Impatience subscale of the JAS measures different things in men and women. The newest method of scoring the VCI appeared to provide the best index for measuring TABP in male coronary patients, while the original scoring was more reliable for women.},
affiliation = {Department of Family Medicine, University of Southern California School of Medicine, Los Angeles 90033.},
number = {2},
pages = {123--38},
volume = {50},
year = {1988},
month = {Jan},
language = {eng},
keywords = {Aged, Adult, Middle Aged, Psychometrics, Type A Personality, Male, Coronary Disease, Female, Coronary Artery Bypass, Follow-Up Studies, Humans, Postoperative Complications, Personality Tests, Aged: 80 and over},
date-added = {2010-03-25 15:18:09 +0100},
date-modified = {2010-07-29 19:47:44 +0200},
pmid = {3259703},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abbott-1988-Psychosom%20Med_Temporal%20stability%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9736},
rating = {0}
}
@article{Montana:2005p14038,
author = {Giovanni Montana},
journal = {Bioinformatics},
title = {HapSim: a simulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients},
abstract = {We have developed a simulation tool HapSim for the generation of haplotype data. The simulated haplotypes are such that their allele frequencies and linkage disequilibrium coefficients match exactly those estimated in a real sample. AVAILABILITY: The program is available as an R package and can be downloaded from http://cran.r-project.org/.},
affiliation = {Department of Mathematics, Imperial College London, UK. g.montana@imperial.ac.uk},
number = {23},
pages = {4309--11},
volume = {21},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Linkage (Genetics), Algorithms, Humans, Gene Frequency, Computer Graphics, Genetic Markers, Alleles, DNA, Sequence Analysis: DNA, Polymorphism: Genetic, Chromosome Mapping, Linkage Disequilibrium, Computer Simulation, Software, Computational Biology, Models: Genetic, Haplotypes, Peptidyl-Dipeptidase A},
date-added = {2010-08-10 12:34:50 +0200},
date-modified = {2010-08-10 12:34:50 +0200},
doi = {10.1093/bioinformatics/bti689},
pii = {bti689},
pmid = {16188927},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Montana-2005-Bioinformatics_HapSim%20a%20simulation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14038},
rating = {0}
}
@article{Riikonen:2001p6115,
author = {R Riikonen},
journal = {Brain Dev},
title = {Long-term outcome of patients with West syndrome},
abstract = {The long-term outcome of Finnish children with West syndrome was evaluated. Two hundred and fourteen patients were followed up for 20-35 years or until death. A third of the patients died before the age of 3 years. The most common cause of death was infection. Autopsy revealed brain anomalies in 25 of 38 (66%) autopsied patients. Intellectual outcome was normal or slightly impaired in a quarter of the patients. All of them completed their education at a normal school or in a school for the educationally impaired children. Another fourth were taught in special training schools. Specific cognitive deficits were seen in some patients with normal intelligence. Nine attended secondary schools and seven of them had a professional occupation. Ten were married and five had children. One third of the patients were seizure-free, another third had seizures daily or monthly, and the remaining patients had seizures less frequently. Factors associated with a good prognosis were cryptogenic etiology, normal development before the onset of the spasms, a short treatment lag, and a good response to adrenocorticotropic hormone; this was seen in both the symptomatic and the cryptogenic group, and there were no relapses. In this study, the late appearance of focal abnormalities in electroencephalography was not associated with an unfavorable outcome. Focal abnormalities in temporal region were often seen in patients with autism. The location of an abnormality may be of importance for the prognosis. In this study, all the patients (100%) could be followed, which may be due to the special circumstances characteristic of Finland. The outcome in children with West syndrome seems to be better than is generally believed.},
affiliation = {Department of Child Neurology, Kuopio University Hospital, P.O. Box 1777, 70211 Kuopio, Finland.raili.riikonen@uku.fi},
number = {7},
pages = {683--7},
volume = {23},
year = {2001},
month = {Nov},
language = {eng},
keywords = {Finland, Survival Analysis, Treatment Outcome, Cause of Death, Spasms: Infantile, Adrenocorticotropic Hormone, Child, Infant, Adult, Humans},
date-added = {2010-02-19 17:07:30 +0100},
date-modified = {2010-02-19 17:07:30 +0100},
pii = {S0387760401003072},
pmid = {11701277},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6115},
rating = {0}
}
@article{Menze:2009p14306,
author = {Bjoern H Menze and B Michael Kelm and Ralf Masuch and Uwe Himmelreich and Peter Bachert and Wolfgang Petrich and Fred A Hamprecht},
journal = {BMC Bioinformatics},
title = {A comparison of random forest and its Gini importance with standard chemometric methods for the feature selection and classification of spectral data},
abstract = {BACKGROUND: Regularized regression methods such as principal component or partial least squares regression perform well in learning tasks on high dimensional spectral data, but cannot explicitly eliminate irrelevant features. The random forest classifier with its associated Gini feature importance, on the other hand, allows for an explicit feature elimination, but may not be optimally adapted to spectral data due to the topology of its constituent classification trees which are based on orthogonal splits in feature space. RESULTS: We propose to combine the best of both approaches, and evaluated the joint use of a feature selection based on a recursive feature elimination using the Gini importance of random forests' together with regularized classification methods on spectral data sets from medical diagnostics, chemotaxonomy, biomedical analytics, food science, and synthetically modified spectral data. Here, a feature selection using the Gini feature importance with a regularized classification by discriminant partial least squares regression performed as well as or better than a filtering according to different univariate statistical tests, or using regression coefficients in a backward feature elimination. It outperformed the direct application of the random forest classifier, or the direct application of the regularized classifiers on the full set of features. CONCLUSION: The Gini importance of the random forest provided superior means for measuring feature relevance on spectral data, but - on an optimal subset of features - the regularized classifiers might be preferable over the random forest classifier, in spite of their limitation to model linear dependencies only. A feature selection based on Gini importance, however, may precede a regularized linear classification to identify this optimal subset of features, and to earn a double benefit of both dimensionality reduction and the elimination of noise from the classification task.},
affiliation = {Interdisciplinary Center for Scientific Computing (IWR), University of Heidelberg, Heidelberg, Germany. bjoern.menze@iwr.uni-heidelberg.de},
pages = {213},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Spectrophotometry: Infrared, Regression Analysis, Pattern Recognition: Automated, Models: Statistical, Computational Biology, Magnetic Resonance Spectroscopy, Classification},
date-added = {2010-08-24 14:27:07 +0200},
date-modified = {2010-08-24 14:27:08 +0200},
doi = {10.1186/1471-2105-10-213},
pii = {1471-2105-10-213},
pmid = {19591666},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Menze-2009-BMC%20Bioinformatics_A%20comparison%20of%20rand.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14306},
rating = {0}
}
@article{Lystig:2003p4027,
author = {Theodore C Lystig},
journal = {Genetics},
title = {Adjusted P values for genome-wide scans},
abstract = {Genome-wide scans for quantitative trait loci (QTL) have traditionally been summarized with plots of logarithm of odds (LOD) scores. A valuable modification is to supplement such plots with an additional vertical axis displaying quantiles of adjusted P values and labeling local maxima of the LOD scores with location-specific adjusted P values. This provides a visible gradation of genome-wide significance for the LOD score curve, instead of the stark dichotomy that a single threshold yields. Adjusted P values give genome-wide significance of individual LOD scores and are obtained through a straightforward modification of the familiar algorithm for generating permutation-based thresholds.},
affiliation = {Department of Mathematical Statistics, Chalmers University of Technology, Eklandagatan 86, 412 96 G{\"o}teborg, Sweden. lystig@math.chalmers.se},
number = {4},
pages = {1683--7},
volume = {164},
year = {2003},
month = {Aug},
language = {eng},
keywords = {Computer Simulation, Genetic Variation, Rats, Animals, Chromosome Mapping, Quantitative Trait: Heritable, Probability, Crosses: Genetic, Epistasis: Genetic, Lod Score, Algorithms, Genome, Chromosomes, Genetic Markers},
date-added = {2010-01-19 08:23:18 +0100},
date-modified = {2010-01-19 08:23:18 +0100},
pmid = {12930772},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lystig-2003-Genetics_Adjusted%20P%20values%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4027},
rating = {0}
}
@article{Abdi:2009p11864,
author = {Herv{\'e} Abdi and Joseph P Dunlop and Lynne J Williams},
journal = {Neuroimage},
title = {How to compute reliability estimates and display confidence and tolerance intervals for pattern classifiers using the Bootstrap and 3-way multidimensional scaling (DISTATIS)},
abstract = {When used to analyze brain imaging data, pattern classifiers typically produce results that can be interpreted as a measure of discriminability or as a distance between some experimental categories. These results can be analyzed with techniques such as multidimensional scaling (MDS), which represent the experimental categories as points on a map. While such a map reveals the configuration of the categories, it does not provide a reliability estimate of the position of the experimental categories, and therefore cannot be used for inferential purposes. In this paper, we present a procedure that provides reliability estimates for pattern classifiers. This procedure combines bootstrap estimation (to estimate the variability of the experimental conditions) and a new 3-way extension of MDS, called DISTATIS, that can be used to integrate the distance matrices generated by the bootstrap procedure and to represent the results as MDS-like maps. Reliability estimates are expressed as (1) tolerance intervals which reflect the accuracy of the assignment of scans to experimental categories and as (2) confidence intervals which generalize standard hypothesis testing. When more than two categories are involved in the application of a pattern classifier, the use of confidence intervals for null hypothesis testing inflates Type I error. We address this problem with a Bonferonni-like correction. Our methodology is illustrated with the results of a pattern classifier described by O'Toole et al. (O'Toole, A., Jiang, F., Abdi, H., Haxby, J., 2005. Partially distributed representations of objects and faces in ventral temporal cortex. J. Cogn. Neurosci. 17, 580-590) who re-analyzed data originally collected by Haxby et al. (Haxby, J., Gobbini, M., Furey, M., Ishai, A., Schouten, J., Pietrini, P., 2001. Distributed and overlapping representation of faces and objects in ventral temporal cortex. Science 293, 2425-2430).},
affiliation = {The University of Texas at Dallas, Richardson, 75080-3021, USA. herve@utdallas.edu},
number = {1},
pages = {89--95},
volume = {45},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Artificial Intelligence, Brain Mapping, Sensitivity and Specificity, Image Enhancement, Pattern Recognition: Automated, Image Interpretation: Computer-Assisted, Imaging: Three-Dimensional, Evoked Potentials, Humans, Algorithms, Reproducibility of Results, Brain, Magnetic Resonance Imaging},
date-added = {2010-05-23 11:48:15 +0200},
date-modified = {2010-07-29 20:14:08 +0200},
doi = {10.1016/j.neuroimage.2008.11.008},
pii = {S1053-8119(08)01208-1},
pmid = {19084072},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abdi-2009-Neuroimage_How%20to%20compute%20relia.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11864},
rating = {4}
}
@article{Goodman:2003p863,
author = {Robert Goodman and Julia Gledhill and Tamsin Ford},
journal = {BMJ},
title = {Child psychiatric disorder and relative age within school year: cross sectional survey of large population sample},
abstract = {OBJECTIVE: To test the hypothesis that younger children in a school year are at greater risk of emotional and behavioural problems. DESIGN: Cross sectional survey. SETTING: Community sample from England, Scotland, and Wales. PARTICIPANTS: 10 438 British 5-15 year olds. MAIN OUTCOME MEASURES: Total symptom scores on psychopathology questionnaires completed by parents, teachers, and 11-15 year olds; psychiatric diagnoses based on a clinical review of detailed interview data. RESULTS: Younger children in a school year were significantly more likely to have higher symptom scores and psychiatric disorder. The adjusted regression coefficients for relative age were 0.51 (95% confidence interval 0.36 to 0.65, P < 0.0001) according to teacher report and 0.35 (0.23 to 0.47, P = 0.0001) for parental report. The adjusted odds ratio for psychiatric diagnoses for decreasing relative age was 1.14 (1.03 to 1.25, P = 0.009). The effect was evident across different measures, raters, and age bands. Cross national comparisons supported a "relative age" explanation based on the disadvantages of immaturity rather than a "season of birth" explanation based on seasonal variation in biological risk. CONCLUSIONS: The younger children in a school year are at slightly greater psychiatric risk than older children. Increased awareness by teachers of the relative age of their pupils and a more flexible approach to children's progression through school might reduce the number of children with impairing psychiatric disorders in the general population.},
affiliation = {Department of Child and Adolescent Psychiatry, Institute of Psychiatry, King's College London, London SE5 8AF. r.goodman@iop.kcl.ac.uk},
number = {7413},
pages = {472},
volume = {327},
year = {2003},
month = {Aug},
language = {eng},
keywords = {Cross-Sectional Studies, Great Britain, Risk Factors, Odds Ratio, Child: Preschool, Child, Adolescent, Child Behavior Disorders, Humans, Age Factors, Affective Symptoms, Multivariate Analysis},
date-added = {2010-01-03 18:05:23 +0100},
date-modified = {2010-01-03 18:05:23 +0100},
doi = {10.1136/bmj.327.7413.472},
pii = {327/7413/472},
pmid = {12946967},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goodman-2003-BMJ_Child%20psychiatric%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p863},
rating = {0}
}
@article{Solans:2008p7948,
author = {Maite Solans and Sabrina Pane and Maria-Dolors Estrada and Vicky Serra-Sutton and Silvina Berra and Michael Herdman and Jordi Alonso and Luis Rajmil},
journal = {Value Health},
title = {Health-related quality of life measurement in children and adolescents: a systematic review of generic and disease-specific instruments},
abstract = {OBJECTIVE: To identify currently available generic and disease-specific health-related quality of life (HRQOL) instruments for children and adolescents up to 19 years old, to describe their content, and to review their psychometric properties. STUDY DESIGN: Previous reviews on the subject and a new literature review from 2001 to December 2006 (MEDLINE, the ISI Science Citation Index, HealthSTAR and PsycLit) were used to identify measures of HRQOL for children and adolescents. The characteristics (country of origin, age range, type of respondent, number of dimensions and items, name of the dimensions and condition) and psychometric properties (reliability, validity, and sensitivity to change) of the instruments were assessed following international guidelines published by the Scientific Committee of the Medical Outcomes Trust. RESULTS: In total, 30 generic and 64 disease-specific instruments were identified, 51 of which were published between 2001 and 2005. Many generic measures cover a core set of basic concepts related to physical, mental and social health, although the number and name of dimensions varies substantially. The lower age limit for self-reported instruments was 5-6 years old. Generic measures developed recently focused on both child self-report and parent-proxy report, although 26% of the disease-specific questionnaires were exclusively addressed to proxy-respondents. Most questionnaires had tested internal consistency (67%) and to a lesser extent test-retest stability (44.7%). Most questionnaires reported construct validity, but few instruments analyzed criterion validity (n = 5), structural validity (n = 15) or sensitivity to change (n = 14). CONCLUSIONS: The development of HRQOL instruments for children and adolescents has continued apace in recent years, particularly with regard to disease-specific questionnaires. Many of the instruments meet accepted standards for psychometric properties, although instrument developers should include children from the beginning of the development process and need to pay particular attention to testing sensitivity to change.},
affiliation = {Agency for Quality, Research and Assessment in Health (AQuRAHealth), formerly Catalan Agency for Health Technology Assessment and Research, Barcelona, Spain.},
number = {4},
pages = {742--64},
volume = {11},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Humans, Child, Adolescent, Infant, Sickness Impact Profile, Infant: Newborn, Questionnaires, Child: Preschool},
date-added = {2010-03-20 19:30:44 +0100},
date-modified = {2010-03-21 21:22:39 +0100},
doi = {10.1111/j.1524-4733.2007.00293.x},
pii = {VHE293},
pmid = {18179668},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Solans-2008-Value%20Health_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7948},
rating = {5}
}
@article{Humphrey:2006p10993,
author = {Ayla Humphrey and Brian G R Neville and Antonia Clarke and Patrick F Bolton},
journal = {Dev Med Child Neurol},
title = {Autistic regression associated with seizure onset in an infant with tuberous sclerosis},
abstract = {We report here on a male diagnosed with tuberous sclerosis at 6 months of age. The child was treated with vigabatrin at age 6 months after an abnormal electroencephalogram but before onset of seizures. Vigabatrin was discontinued at age 13 months to avoid possible visual field defects. At 21 months, the child developed partial seizures with secondary generalization and infantile spasms. Standardized developmental assessments were performed at 12, 18, 24, 30, and 36 months of age. Cognitive and social development were normal until age 21 months and the onset of seizures. When assessed at 24 months, the child met criteria for autism and learning disability. This case indicates that the onset of epilepsy during an early stage in brain development can be associated with autistic regression and persistent developmental disorder. The case suggests the need to consider if possible visual field defects with vigabatrin outweigh the potentially deleterious effects of uncontrolled seizures.},
affiliation = {Developmental Psychiatry Section, University of Cambridge, UK. ah290@cam.ac.uk},
number = {7},
pages = {609--11},
volume = {48},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Tuberous Sclerosis, Male, Regression (Psychology), Epilepsy, Developmental Disabilities, Treatment Outcome, Autistic Disorder, Infant, Vigabatrin, Anticonvulsants, Visual Fields, Humans, Seizures},
date-added = {2010-04-13 16:28:55 +0200},
date-modified = {2010-04-13 16:28:55 +0200},
doi = {10.1017/S0012162206001277},
pii = {S0012162206001277},
pmid = {16780633},
url = {http://www3.interscience.wiley.com/journal/118559141/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Humphrey-2006-Developmental%20medicine%20and%20child%20neurology_Autistic%20regression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10993},
rating = {0}
}
@article{Doig:2006,
author = {B Doig and S Groves},
journal = {Mathematics Education Research Journal},
title = {Easier Analysis and Better Reporting: Modelling Ordinal Data in MEducation Research},
number = {2},
pages = {56--76},
volume = {18},
year = {2006},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 19:39:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Doig-2006-Mathematics%20Education%20Research%20Journal_Easier%20Analysis%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1990},
rating = {0}
}
@article{Basiaux:2001p10137,
author = {P Basiaux and O le Bon and M Dramaix and I Massat and D Souery and J Mendlewicz and I Pelc and P Verbanck},
journal = {Alcohol Alcohol},
title = {Temperament and Character Inventory (TCI) personality profile and sub-typing in alcoholic patients: a controlled study},
abstract = {Cloninger's Temperament and Character Inventory (TCI) personality profile was used to compare alcohol-dependent patients with non-psychiatric control subjects, and a search made for sub-types of alcoholics with different TCI profiles, using the criteria age of onset of alcohol-related problems, paternal dependence on alcohol and familial antecedents of alcohol dependence. Alcohol-dependent patients (n = 38) were characterized by higher Novelty-Seeking [corresponding to Diagnostic and Statistical Manual of Mental Disorders (4th edition) group B personality type] and lower Self-Directedness than non-psychiatric control subjects (n = 47). Lower Self-Directedness indicates a higher probability of personality disorder in the alcohol-dependent population. Only age of onset of alcohol-related problems delineated the two sub-populations with different TCI profiles: early-onset alcoholics (< or =25 years of age, n = 19), but not late-onset ones (n = 16), in comparison with control subjects, were associated with higher Novelty-Seeking. Both early and late-onset patients scored lower on Self-Directedness than control subjects. Self-Directedness and Cooperation scores were lower in early-onset than in late-onset patients. These results in part support Cloninger's typology, and the TCI data add to evidence concerning a higher probability of personality disorder in alcohol-dependent patients, particularly those with early-onset.},
affiliation = {Free University of Brussels, Brugmann University Hospital, Psychiatry and Medical Psychology Department, Place Van Gehuchten 4, 1020 Brussels, Belgium.},
number = {6},
pages = {584--7},
volume = {36},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Personality Inventory, Adult, Severity of Illness Index, Exploratory Behavior, Temperament, Female, Personality Disorders, Humans, Male, Alcoholism},
date-added = {2010-03-31 20:39:42 +0200},
date-modified = {2010-07-29 19:12:56 +0200},
pmid = {11704626},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Basiaux-2001-Alcohol%20Alcohol_Temperament%20and%20Char.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10137},
rating = {4}
}
@article{Conrad:2009p10189,
author = {Donald F Conrad and Dalila Pinto and Richard Redon and Lars Feuk and Omer Gokcumen and Yujun Zhang and Jan Aerts and T Daniel Andrews and Chris Barnes and Peter Campbell and Tomas Fitzgerald and Min Hu and Chun Hwa Ihm and Kati Kristiansson and Daniel G Macarthur and Jeffrey R Macdonald and Ifejinelo Onyiah and Andy Wing Chun Pang and Sam Robson and Kathy Stirrups and Armand Valsesia and Klaudia Walter and John Wei and The Wellcome Trust Case Control Consortium and Chris Tyler-Smith and Nigel P Carter and Charles Lee and Stephen W Scherer and Matthew E Hurles},
journal = {Nature},
title = {Origins and functional impact of copy number variation in the human genome},
abstract = {Structural variations of DNA greater than 1 kilobase in size account for most bases that vary among human genomes, but are still relatively under-ascertained. Here we use tiling oligonucleotide microarrays, comprising 42 million probes, to generate a comprehensive map of 11,700 copy number variations (CNVs) greater than 443 base pairs, of which most (8,599) have been validated independently. For 4,978 of these CNVs, we generated reference genotypes from 450 individuals of European, African or East Asian ancestry. The predominant mutational mechanisms differ among CNV size classes. Retrotransposition has duplicated and inserted some coding and non-coding DNA segments randomly around the genome. Furthermore, by correlation with known trait-associated single nucleotide polymorphisms (SNPs), we identified 30 loci with CNVs that are candidates for influencing disease susceptibility. Despite this, having assessed the completeness of our map and the patterns of linkage disequilibrium between CNVs and SNPs, we conclude that, for complex traits, the heritability void left by genome-wide association studies will not be accounted for by common CNVs.},
affiliation = {[1] The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA UK [2] These authors contributed equally to this work.},
pages = {},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-04-01 11:41:10 +0200},
date-modified = {2010-04-01 11:41:11 +0200},
doi = {10.1038/nature08516},
pii = {nature08516},
pmid = {19812545},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Conrad-2009-Nature_Origins%20and%20function.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10189},
rating = {0}
}
@article{Jacob:2009p9055,
author = {Christian P Jacob and Thuy Trang Nguyen and Astrid Dempfle and Monika Heine and Christine Windemuth-Kieselbach and Katarina Baumann and Florian Jacob and Julian Prechtl and Maike Wittlich and Martin J Herrmann and Silke Gross-Lesch and Klaus-Peter Lesch and Andreas Reif},
journal = {European archives of psychiatry and clinical neuroscience},
title = {A gene-environment investigation on personality traits in two independent clinical sets of adult patients with personality disorder and attention deficit/hyperactive disorder},
abstract = {While an interactive effect of genes with adverse life events is increasingly appreciated in current concepts of depression etiology, no data are presently available on interactions between genetic and environmental (G x E) factors with respect to personality and related disorders. The present study therefore aimed to detect main effects as well as interactions of serotonergic candidate genes (coding for the serotonin transporter, 5-HTT; the serotonin autoreceptor, HTR1A; and the enzyme which synthesizes serotonin in the brain, TPH2) with the burden of life events ({\#}LE) in two independent samples consisting of 183 patients suffering from personality disorders and 123 patients suffering from adult attention deficit/hyperactivity disorder (aADHD). Simple analyses ignoring possible G x E interactions revealed no evidence for associations of either {\#}LE or of the considered polymorphisms in 5-HTT and TPH2. Only the G allele of HTR1A rs6295 seemed to increase the risk of emotional-dramatic cluster B personality disorders (p = 0.019, in the personality disorder sample) and to decrease the risk of anxious-fearful cluster C personality disorders (p = 0.016, in the aADHD sample). We extended the initial simple model by taking a G x E interaction term into account, since this approach may better fit the data indicating that the effect of a gene is modified by stressful life events or, vice versa, that stressful life events only have an effect in the presence of a susceptibility genotype. By doing so, we observed nominal evidence for G x E effects as well as main effects of 5-HTT-LPR and the TPH2 SNP rs4570625 on the occurrence of personality disorders. Further replication studies, however, are necessary to validate the apparent complexity of G x E interactions in disorders of human personality.},
affiliation = {Department of Psychiatry and Psychotherapy, Clinical and Molecular Psychobiology, University of W{\"u}rzburg, F{\"u}chsleinstrasse 15, 97080, W{\"u}rzburg, Germany, psychpol@mail.uni-wuerzburg.de.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-03-22 13:17:46 +0100},
date-modified = {2010-03-22 13:17:46 +0100},
doi = {10.1007/s00406-009-0079-0},
pmid = {19894072},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacob-2009-European%20archives%20of%20psychiatry%20and%20clinical%20neuroscience_A%20gene-environment%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9055},
rating = {0}
}
@article{Flieller:1994p2676,
author = {A Flieller},
journal = {Math{\'e}matiques {\&} Sciences Humaines},
title = {M{\'e}thodes d'{\'e}tude de l'ad{\'e}quation au mod{\`e}le logistique {\`a} un param{\`e}tre (mod{\`e}le de Rasch)},
pages = {19--47},
volume = {127},
year = {1994},
date-added = {2010-01-13 09:35:28 +0100},
date-modified = {2010-07-29 19:39:20 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Flieller-1994-Math%C3%A9matiques%20&%20Sciences%20Humaines_M%C3%A9thodes%20d'%C3%A9tude%20de.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2676},
rating = {0}
}
@article{Purcell:2002p1622,
author = {Shaun Purcell and Pak Sham},
journal = {Twin Res},
title = {Variance components models for gene-environment interaction in quantitative trait locus linkage analysis},
abstract = {Gene-environment interaction (G x E) is likely to be a common and important source of variation for complex behavioral traits. Gene-environment interaction, or genetic control of sensitivity to the environment, can be incorporated into variance components twin and sib-pair analyses by partitioning genetic effects into a mean part, which is independent of the environment, and a part that is a linear function of the environment. An approach described in a companion paper (Purcell, 2002) is applied to sib-pair variance components linkage analysis in two ways: allowing for quantitative trait locus by environment interaction and utilizing information on any residual interactions detected prior to analysis. As well as elucidating environmental pathways, consideration of G x E in quantitative and molecular studies will potentially direct and enhance gene-mapping efforts.},
affiliation = {Social, Genetic and Developmental Psychiatry Research Centre, Institute of Psychiatry, King's College, London, UK. s.purcell@iop.kcl.ac.uk},
number = {6},
pages = {572--6},
volume = {5},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Environment, Models: Genetic, Twins, Humans, Quantitative Trait Loci, Genetics: Behavioral, Computer Simulation, Linkage (Genetics)},
date-added = {2010-01-08 21:51:14 +0100},
date-modified = {2010-01-08 21:51:14 +0100},
doi = {10.1375/136905202762342035},
pmid = {12573188},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1622},
rating = {0}
}
@article{OHare:2002p12930,
author = {Anne O'Hare and Shabana Khalid},
journal = {Dyslexia},
title = {The association of abnormal cerebellar function in children with developmental coordination disorder and reading difficulties},
abstract = {Children with developmental coordination disorder/dyspraxia (DCD) are at high risk of reading and writing delay. The difficulties with motor skills are heterogeneous and many children have features of poor cerebellar function, reflected in problems with posture, balance and fast accurate control of movement. This study confirmed a high level of parental reporting of reading and writing delay in a clinical group of 23 children with DCD, defined on the basis of both clinical examination and standardized testing of motor function. Direct measurement of reading delay, identified still further children in the group. Those children with reading delay had associated findings typical of phonological awareness difficulties. The children also underwent a standardized test of neurological function and although they all had difficulties with cerebellar function, no distinctive pattern emerged for those whose presentation was complicated by delayed reading and writing. Both the children with DCD and 136 typically developing children, completed the pilot parental questionnaire on gross motor skills. The three skills of catching a ball, jumping on a moving playground roundabout and handwriting, distinguished the children with DCD. This study therefore confirms that children with DCD should be assessed for difficulties in phonological awareness. Additionally, children aged between 7 and 12 years are on the whole, highly competent in a range of gross motor skills and further study might determine whether a simple parental questionnaire might detect children who would benefit from further assessment. The study also suggests that all the children with DCD have cerebellar dysfunction and further work with a larger group might determine particular patterns associated with reading delay.},
affiliation = {Reproductive and Developmental Sciences, Child Life and Health, Community Child Health, Royal Hospital for Sick Children, 10 Chalmers Crescent, Edinburgh EH9 ITS, UK. A.O'Hare@ed.ac.uk},
number = {4},
pages = {234--48},
volume = {8},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Mainstreaming (Education), Cerebellum, Male, Visual Perception, Motor Skills Disorders, Phonetics, Female, Memory, Child, Humans, Questionnaires, Dyslexia},
date-added = {2010-06-25 21:47:08 +0200},
date-modified = {2010-06-25 21:47:08 +0200},
doi = {10.1002/dys.230},
pmid = {12455853},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12930},
rating = {0}
}
@article{Grove:2005p13779,
author = {W M Grove},
journal = {J Clin Psychol},
title = {Clinical Versus Statistical Prediction: The Contribution of Paul E. Meehl},
abstract = {The background of Paul E. Meehl's work on clinical versus statistical pre- diction is reviewed, with detailed analyses of his arguments. Meehl's four main contributions were the following: (a) he put the question, of whether clinical or statistical combinations of psychological data yielded better predictions, at center stage in applied psychology; (b) he convincingly argued, against an array of objections, that clinical versus statistical pre- diction was a real (not concocted) problem needing thorough study; (c) he meticulously and even-handedly dissected the logic of clinical inference from theoretical and probabilistic standpoints; and (c) he reviewed the studies available in 1954 and thereafter, which tested the validity of clin- ical versus statistical predictions. His early conclusion that the literature strongly favors statistical prediction has stood up extremely well, and his conceptual analyses of the prediction problem (especially his defense of applying aggregate-based probability statements to individual cases) have not been significantly improved since 1954.},
number = {10},
pages = {1233--1243},
volume = {61},
year = {2005},
date-added = {2010-07-28 23:08:15 +0200},
date-modified = {2010-07-28 23:09:36 +0200},
doi = {10.1002/jclp.20179},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grove-2005-J%20Clin%20Psychol_Clinical%20Versus%20Stat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13779},
rating = {0}
}
@article{Anonymous:2010p4121,
title = {Etude de patients atteints de troubles du comportement alimentaire pris en charge a la cmme entre fevrier 1988 et juillet 2004},
date-added = {2010-01-20 00:08:39 +0100},
date-modified = {2010-07-24 11:42:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Etude%20de%20patients%20at-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4121},
read = {Yes},
rating = {0}
}
@article{Taylor:2008p5380,
author = {Jessica L Taylor and Patrick J Smith and Michael A Babyak and Krista A Barbour and Benson M Hoffman and Deborah L Sebring and R Duane Davis and Scott M Palmer and Francis J Keefe and Robert M Carney and Iris Csik and Kenneth E Freedland and James A Blumenthal},
journal = {J Psychosom Res},
title = {Coping and quality of life in patients awaiting lung transplantation},
abstract = {OBJECTIVE: Patients with end-stage lung disease (ESLD) experience significant decrements in quality of life (QOL). Although coping strategies are related to QOL in patients with ESLD, the extent to which specific native lung disease moderates this relationship is unknown. METHODS: We investigated the relationship between coping, native lung disease, and QOL among 187 patients awaiting lung transplantation, including 139 patients with chronic obstructive pulmonary disease (COPD) and 48 with cystic fibrosis (CF). Participants completed a psychosocial battery assessing psychological QOL, physical QOL, and coping strategies. RESULTS: For both COPD and CF patients, higher levels of Active Coping (P< .0001) and lower levels of Disengagement (P< .0001) were associated with better psychological QOL. For physical QOL, we observed a Native Disease x Coping interaction (P=.01) such that Active Coping was associated with better physical QOL in patients with COPD but not in patients with CF. CONCLUSIONS: The relationship between coping and QOL may vary as a function of native lung disease. Patients' native disease may need to be considered in order to develop effective interventions to help patients cope successfully with ESLD.},
affiliation = {Department of Psychiatry and Behavioral Sciences, Duke University, Durham, NC 27710, USA.},
number = {1},
pages = {71--9},
volume = {65},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Emotions, Adult, Principal Component Analysis, Quality of Life, Adaptation: Psychological, Female, Sickness Impact Profile, Questionnaires, Pulmonary Disease: Chronic Obstructive, Humans, Internal-External Control, Cystic Fibrosis, Male, Personality Inventory, Health Status, Stress: Psychological, Middle Aged, Lung Transplantation},
date-added = {2010-02-11 10:30:48 +0100},
date-modified = {2010-07-29 19:36:02 +0200},
doi = {10.1016/j.jpsychores.2008.04.009},
pii = {S0022-3999(08)00213-4},
pmid = {18582615},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5380},
rating = {0}
}
@article{Birkner:2005p4692,
author = {M D Birkner and K S Pollard and M J van der Laan and S Dudoit},
journal = {U.C. Berkeley Division of Biostatistics Working Paper Series},
title = {Multiple Testing Procedures and Applications to Genomics},
abstract = {This chapter proposes widely applicable resampling-based single-step and step- wise multiple testing procedures (MTP) for controlling a broad class of Type I er- ror rates, in testing problems involving general data generating distributions (with arbitrary dependence structures among variables), null hypotheses, and test statis- tics (Dudoit and van der Laan, 2005; Dudoit et al., 2004a,b; van der Laan et al., 2004a,b; Pollard and van der Laan, 2004; Pollard et al., 2005). Procedures are pro- vided to control Type I error rates defined as tail probabilities for arbitrary func- tions of the numbers of Type I errors, V n, and rejected hypotheses, R n. These error rates include: the generalized family-wise error rate, gFWER(k) = Pr(V n > k), or chance of at least (k+1) false positives (the special case k=0 corresponds to the usual family-wise error rate, FWER), and tail probabilities for the propor- tion of false positives among the rejected hypotheses, TPPFP(q) = Pr(V n/R n > q). Single-step and step-down common-cut-off (maxT) and common-quantile (minP) procedures, that take into account the joint distribution of the test statis- tics, are proposed to control the FWER. In addition, augmentation multiple testing procedures are provided to control the gFWER and TPPFP, based on any initial FWER-controlling procedure. The results of a multiple testing procedure can be summarized using rejection regions for the test statistics, confidence regions for the parameters of interest, or adjusted p-values. A key ingredient of our proposed MTPs is the test statistics null distribution (and consistent bootstrap estimator thereof) used to derive rejection regions and corresponding confidence regions and adjusted p-values. This chapter illustrates an implementation in SAS (Ver- sion 9) of the bootstrap-based single-step maxT procedure and of the gFWER- and TPPFP-controlling augmentation procedures. These multiple testing procedures are applied to an HIV-1 sequence dataset to identify codon positions associated with viral replication capacity.},
number = {168},
year = {2005},
date-added = {2010-01-30 16:13:18 +0100},
date-modified = {2010-01-30 16:14:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Birkner-2005-U.C.%20Berkeley%20Division%20of%20Biostatistics%20Working%20Paper%20Series_Multiple%20Testing%20Pro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4692},
rating = {0}
}
@article{Carter:2008p813,
author = {Kim W Carter and Pamela A McCaskie and Lyle J Palmer},
journal = {BMC Bioinformatics},
title = {SimHap GUI: an intuitive graphical user interface for genetic association analysis},
abstract = {BACKGROUND: Researchers wishing to conduct genetic association analysis involving single nucleotide polymorphisms (SNPs) or haplotypes are often confronted with the lack of user-friendly graphical analysis tools, requiring sophisticated statistical and informatics expertise to perform relatively straightforward tasks. Tools, such as the SimHap package for the R statistics language, provide the necessary statistical operations to conduct sophisticated genetic analysis, but lacks a graphical user interface that allows anyone but a professional statistician to effectively utilise the tool. RESULTS: We have developed SimHap GUI, a cross-platform integrated graphical analysis tool for conducting epidemiological, single SNP and haplotype-based association analysis. SimHap GUI features a novel workflow interface that guides the user through each logical step of the analysis process, making it accessible to both novice and advanced users. This tool provides a seamless interface to the SimHap R package, while providing enhanced functionality such as sophisticated data checking, automated data conversion, and real-time estimations of haplotype simulation progress. CONCLUSION: SimHap GUI provides a novel, easy-to-use, cross-platform solution for conducting a range of genetic and non-genetic association analyses. This provides a free alternative to commercial statistics packages that is specifically designed for genetic association analysis.},
affiliation = {Western Australian Institute for Medical Research and UWA Centre for Medical Research, University of Western Australia, Perth, Australia. kcarter@ichr.uwa.edu.au},
pages = {557},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Software, Haplotypes, Algorithms, Programming Languages, Genome-Wide Association Study, Computer Graphics, Polymorphism: Single Nucleotide, User-Computer Interface},
date-added = {2010-01-03 17:24:07 +0100},
date-modified = {2010-01-03 17:24:07 +0100},
doi = {10.1186/1471-2105-9-557},
pii = {1471-2105-9-557},
pmid = {19109877},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carter-2008-BMC%20Bioinformatics_SimHap%20GUI%20an%20intui.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p813},
rating = {0}
}
@article{Siroky:2009p12877,
author = {DS Siroky},
journal = {Statistics Surveys},
title = {Navigating Random Forests and related
advances in algorithmic modeling},
abstract = {This article addresses current methodological research on non- parametric Random Forests. It provides a brief intellectual history of Ran- dom Forests that covers CART, boosting and bagging methods. It then introduces the primary methods by which researchers can visualize results, the relationships between covariates and responses, and the out-of-bag test set error. In addition, the article considers current research on universal consistency and importance tests in Random Forests. Finally, several uses for Random Forests are discussed, and available software is identified.},
pages = {147--163},
volume = {3},
year = {2009},
date-added = {2010-06-24 12:59:51 +0200},
date-modified = {2010-06-24 13:01:46 +0200},
doi = {10.1214/07-SS033},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Siroky-2009-Statistics%20Surveys_Navigating%20Random%20Fo-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12877},
rating = {5}
}
@article{Farmer:2001p3627,
author = {W L Farmer and R C Thompson and S K R Heil and M C Heil},
title = {Latent Trait Theory Analysis of Changes in Item Response Anchors},
abstract = {The purpose of this study was to evaluate the effect that modifications in item response anchors have on responses to survey items. Twenty-nine items were administered in 1993 and 1995 as part of more extensive attitude surveys to two random samples of Federal Aviation Administration employees. Changes in the response scales (5-point Likert) between the two survey administrations ranged from no change at all to extensive re-anchoring of the response categories. Item responses were modeled via two-parameter graded response models based on item response theory. Changes in the way the item responses functioned between both years were assessed using the differential item functioning (DIF) method recommended by Muraki (1997). Twenty-four of the 29 items displayed significant levels of DIF, indicating that the response categories did not measure the constructs of interest in a similar fashion across the two administrations. Items whose response anchors had been changed substantially exhibited significant DIF more frequently than those where the change in anchors was less drastic. These results suggest that researchers and practitioners take a conservative approach when considering the revision of measuring scales for a particular set of items.},
year = {2001},
date-added = {2010-01-16 19:13:18 +0100},
date-modified = {2010-01-16 19:15:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Farmer-2001-_Latent%20Trait%20Theory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3627},
rating = {0}
}
@article{Solli:2010p8724,
author = {Oddvar Solli and Knut Stavem and I S Kristiansen},
journal = {Health Qual Life Outcomes},
title = {Health-related quality of life in diabetes: The associations of complications with EQ-5D scores},
abstract = {BACKGROUND: The aim of this study was to describe how diabetes complications influence the health-related quality of life of individuals with diabetes using the individual EQ-5D dimensions and the EQ-5D index. METHODS: We mailed a questionnaire to 1,000 individuals with diabetes type 1 and 2 in Norway. The questionnaire had questions about socio-demographic characteristics, use of health care, diabetes complications and finally the EQ-5D descriptive system. Logistic regressions were used to explore determinants of responses in the EQ-5D dimensions, and robust linear regression was used to explore determinants of the EQ-5D index. RESULTS: In multivariate analyses the strongest determinants of reduced MOBILITY were neuropathy and ischemic heart disease. In the ANXIETY/DEPRESSION dimension of the EQ-5D, "fear of hypoglycaemia" was a strong determinant. For those without complications, the EQ-5D index was 0.90 (type 1 diabetes) and 0.85 (type 2 diabetes). For those with complications, the EQ-5D index was 0.68 (type 1 diabetes) and 0.73 (type 2 diabetes). In the linear regression the factors with the greatest negative impact on the EQ-5D index were ischemic heart disease (type 1 diabetes), stroke (both diabetes types), neuropathy (both diabetes types), and fear of hypoglycaemia (type 2 diabetes). CONCLUSIONS: The EQ-5D dimensions and the EQ-5D seem capable of capturing the consequences of diabetes-related complications, and such complications may have substantial impact on several dimensions of health-related quality of life (HRQoL). The strongest determinants of reduced HRQoL in people with diabetes were ischemic heart disease, stroke and neuropathy.},
affiliation = {Institute of Health Management and Health Economics, Blindern, N-0317 Oslo, Norway. oddvar.solli@medisin.uio.no},
pages = {18},
volume = {8},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-22 12:05:14 +0100},
date-modified = {2010-03-22 12:05:14 +0100},
doi = {10.1186/1477-7525-8-18},
pii = {1477-7525-8-18},
pmid = {20132542},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Solli-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8724},
rating = {0}
}
@article{Tuerlinckx:2005,
author = {Francis Tuerlinckx and Paul De Boeck},
journal = {Psychometrika},
title = {Two interpretations of the discrimination parameter},
abstract = {In this paper we propose two interpretations for the discrimination parameter in the two-parameter logistic model (2PLM). The interpretations are based on the relation between the 2PLM and two stochastic models. In the first interpretation, the 2PLM is linked to a diffusion model so that the probability of absorption equals the 2PLM. The discrimination parameter is the distance between the two absorbing boundaries and therefore the amount of information that has to be collected before a response to an item can be given. For the second interpretation, the 2PLM is connected to a specific type of race model. In the race model, the discrimination parameter is inversely related to the dependency of the information used in the decision process. Extended versions of both models with person-to-person variability in the difficulty parameter are considered. When fitted to a data set, it is shown that a generalization of the race model that allows for dependency between choices and response times (RTs) is the best-fitting model.},
pages = {629--650},
volume = {70},
year = {2005},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tuerlinckx-2005-Psychometrika_Two%20interpretations.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2106},
rating = {0}
}
@article{Anderson:2007,
author = {C J Anderson and Z Li and J K Vermunt},
journal = {Journal of Statistical Software},
title = {Estimation of models in a Rasch family for polytomous items and multiple latent variables},
abstract = {The Rasch family of models considered in this paper includes models for polytomous items and multiple correlated latent traits, as well as for dichotomous items and a single latent variable. An R package is described that computes estimates of parameters and robust standard errors of a class of log-linear-by-linear association (LLLA) models, which are derived from a Rasch family of models. The LLLA models are special cases of log-linear models with bivariate interactions. Maximum likelihood estimation of LLLA models in this form is limited to relatively small problems; however, pseudo-likelihood estimation overcomes this limitation. Maximizing the pseudo-likelihood function is achieved by maximizing the likelihood of a single conditional multinomial logistic regression model. The parameter estimates are asymptotically normal and consistent. Based on our simulation studies, the pseudo-likelihood and maximum likelihood estimates of the parameters of LLLA models are nearly identical and the loss of efficiency is negligible. Recovery of parameters of Rasch models fit to simulated data is excellent.},
number = {6},
volume = {20},
year = {2007},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
url = {http://www.jstatsoft.org/v20/i06/paper},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1163},
read = {Yes},
rating = {0}
}
@article{Bergsma:2010p13781,
author = {W P Bergsma and T Rudas},
title = {Marginal models for categorical data},
abstract = {Statistical models defined by imposing restrictions on marginal distri- butions of contingency tables have received considerable attention recently. This paper introduces a general definition of marginal log-linear param- eters and describes conditions for a marginal log-linear parameter to be a smooth parameterization of the distribution, and to be variation inde- pendent. Statistical models defined by imposing affine restrictions on the marginal log-linear parameters are investigated. These models generalize ordinary log-linear and multivariate logistic models. Sufficient conditions for a log-affine marginal model to be nonempty, and to be a curved expo- nential family are given. Standard large sample theory is shown to apply to maximum likelihood estimation of log-affine marginal models for a variety of sampling procedures.},
date-added = {2010-07-28 23:12:45 +0200},
date-modified = {2010-08-22 21:16:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bergsma--_Marginal%20models%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13781},
read = {Yes},
rating = {4}
}
@article{Dilba:2006p6466,
author = {Gemechis Dilba and Frank Bretz and Ludwig A Hothorn and Volker Guiard},
journal = {Stat Med},
title = {Power and sample size computations in simultaneous tests for non-inferiority based on relative margins},
abstract = {In this paper, we address the problem of calculating power and sample sizes associated with simultaneous tests for non-inferiority. We consider the case of comparing several experimental treatments with an active control. The approach is based on the ratio view, where the common non-inferiority margin is chosen to be some percentage of the mean of the control treatment. Two power definitions in multiple hypothesis testing, namely, complete power and minimal power, are used in the computations. The sample sizes associated with the ratio-based inference are also compared with that of a comparable inference based on the difference of means for various scenarios. It is found that the sample size required for ratio-based inferences is smaller than that of difference-based inferences when the relative non-inferiority margin is less than one and when large response values indicate better treatment effects. The results are illustrated with examples.},
affiliation = {Bioinformatics Unit, University of Hannover, Germany. dilba@biounf.uni-hannover.de},
number = {7},
pages = {1131--47},
volume = {25},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Sample Size, Research Design, Randomized Controlled Trials as Topic, Models: Statistical, Data Interpretation: Statistical, Drug Evaluation, Humans},
date-added = {2010-02-23 08:33:40 +0100},
date-modified = {2010-02-23 08:33:40 +0100},
doi = {10.1002/sim.2359},
pmid = {16217842},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dilba-2006-Stat%20Med_Power%20and%20sample%20siz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6466},
rating = {0}
}
@article{Sacks:1982,
author = {H Sacks and TC Chalmers and H Smith},
journal = {American Journal of Medicine},
title = {Randomized versus historical controls for clinical trials},
abstract = {To compare the use of randomized controls (RCTs) and historical controls (HCTs) for clinical trials, we searched the literature for therapies studied by both methods. We found six therapies for which 50 RCTs and 56 HCTs were reported. Forty-four of 56 HCTs (79 percent) found the therapy better than the control regimen, but only 10 of 50 RCTs (20 percent) agreed. For each therapy, the treated patients in RCTs and HCTs of the same therapy was largely due to differences in outcome for the control groups, with HCT control patients generally doing worse than the RCT control groups. Adjustment of the outcomes of the HCTs for prognostic factors, when possible, did not appreciably change the results. The data suggest that biases in patient selection may irretrievably weight the outcome of HCts in favor of new therapies. RCTs may miss clinically important benefits because of inadequate attention to sample size. The predictive value of each might be improved by reconsidering the use of p less than 0.05 as the significance level for all types of clinical trials, and by the use of confidence intervals around estimates of treatment effects.},
pages = {233--240},
volume = {72},
year = {1982},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1042},
rating = {0}
}
@article{Nasrallah:2005p8326,
author = {Henry A Nasrallah and Steven D Targum and Rajiv Tandon and Jeffrey S McCombs and Ruth Ross},
journal = {Psychiatr Serv},
title = {Defining and measuring clinical effectiveness in the treatment of schizophrenia},
abstract = {OBJECTIVES: Expectations in treating schizophrenia are expanding beyond just controlling psychotic symptoms to include functional recovery. This report describes an approach to define and measure the clinical effectiveness of treatment in achieving these objectives. METHODS: A comprehensive literature review established that there is limited information about the meaning of the term "clinical effectiveness." To address this gap a consensus conference of schizophrenia researchers was held to consider the components of clinical effectiveness in real-world community practice and how these components can best be measured. RESULTS: The consensus of the researchers was that effective clinical treatment is characterized by four outcome domains: symptoms of disease, treatment burden, disease burden, and health and wellness. A clinical instrument to measure these four domains was constructed: Global Outcome Assessment of Life in Schizophrenia (GOALS). In using GOALS, clinicians rate each of the four domains on a scale of 1, very much improved, to 7, very much worse. Field-testing of this instrument is planned. CONCLUSIONS: Effective treatment interventions that combine optimal pharmacotherapy and targeted psychosocial treatments are raising expectations about the prospects of functional recovery among patients with schizophrenia. GOALS is proposed as one tool that can provide busy clinicians with a simple, objective measure of the effectiveness and outcomes of the clinical treatment they provide to patients with schizophrenia.},
affiliation = {Department of Psychiatry, University of Cincinnati Medical Center, Cincinnati, Ohio 45267-0559, USA. henry.nasrallah@uc.edu},
number = {3},
pages = {273--82},
volume = {56},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Cost of Illness, Outcome Assessment (Health Care), Combined Modality Therapy, Recovery of Function, Affect, Health Status, Humans, United States, Drug Therapy, Cognition Disorders, Basal Ganglia Diseases, Schizophrenia, Psychotic Disorders, Psychotherapy},
date-added = {2010-03-21 12:29:05 +0100},
date-modified = {2010-07-29 19:45:23 +0200},
doi = {10.1176/appi.ps.56.3.273},
pii = {56/3/273},
pmid = {15746501},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nasrallah-2005-Psychiatr%20Serv_Defining%20and%20measuri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8326},
rating = {0}
}
@misc{Jehangir:2005,
author = {K Jehangir},
journal = {Miscellaneous},
title = {Evaluation of Relations between Scales in an IRT Framework},
year = {2005},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jehangir-2005-Miscellaneous_Evaluation%20of%20Relati.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2025},
rating = {0}
}
@article{Skuse:2001p13303,
author = {D H Skuse},
journal = {Br J Psychiatry},
title = {Endophenotypes and child psychiatry},
pages = {395--6},
volume = {178},
year = {2001},
month = {May},
language = {eng},
keywords = {Longitudinal Studies, Phenotype, Mental Disorders, Genetic Predisposition to Disease, Child, Humans},
date-added = {2010-07-01 18:24:31 +0200},
date-modified = {2010-07-01 18:24:36 +0200},
pmid = {11331550},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Skuse-2001-Br%20J%20Psychiatry_Endophenotypes%20and%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13303},
rating = {4}
}
@article{James:2007p9642,
author = {Lisa M James and Jeanette Taylor},
journal = {Addict Behav},
title = {Impulsivity and negative emotionality associated with substance use problems and Cluster B personality in college students},
abstract = {The co-occurrence of personality disorders (PDs) and substance use disorders (SUDs) can be partially attributed to shared underlying personality traits. This study examined the role of negative emotionality (NEM) and impulsivity in 617 university students with self-reported substance use problems and Cluster B PD symptoms. Results indicated that NEM was significantly associated with drug and alcohol use problems, antisocial PD, borderline PD, and narcissistic PD. Impulsivity was significantly associated with drug use problems, antisocial PD, and histrionic PD. Only NEM mediated the relationship between alcohol use problems and symptoms of each of the Cluster B PDs while impulsivity mediated only the relationship between drug use problems and histrionic PD. These results suggest that NEM may be more relevant than impulsivity to our understanding of the co-occurrence between substance use problems and Cluster B PD features.},
affiliation = {Department of Psychology, Florida State University, Tallahassee, FL 32306-1270, USA. james@psy.fsu.edu},
number = {4},
pages = {714--27},
volume = {32},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Students, Adult, Personality Disorders, Adolescent, Personality Inventory, Male, Female, Social Environment, Comorbidity, Humans, Impulsive Behavior, Analysis of Variance, Diagnosis: Dual (Psychiatry), Substance-Related Disorders},
date-added = {2010-03-25 14:52:19 +0100},
date-modified = {2010-07-29 19:12:35 +0200},
doi = {10.1016/j.addbeh.2006.06.012},
pii = {S0306-4603(06)00192-4},
pmid = {16842928},
local-url = {file://localhost/Users/chl/Dropbox/Papers/James-2007-Addict%20Behav_Impulsivity%20and%20nega.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9642},
rating = {0}
}
@article{vanWidenfelt:2005p5357,
author = {Brigit M van Widenfelt and Philip D A Treffers and Edwin de Beurs and Bart M Siebelink and Els Koudijs},
journal = {Clin Child Fam Psychol Rev},
title = {Translation and cross-cultural adaptation of assessment instruments used in psychological research with children and families},
abstract = {With the increased globalization of psychology and related fields, having reliable and valid measures that can be used in a number of languages and cultures is critical. Few guidelines or standards have been established in psychology for the translation and cultural adaptation of instruments. Usually little is reported in research publications about the translation and adaptation process thus making it difficult for journal readers and reviewers to adequately evaluate the equivalency and quality of an instrument. In this study, issues related to the translation and adaptation of assessment instruments for use in other cultures and/or languages are addressed. Existing literature on translation is reviewed and examples from the clinical child and family psychology field are given to illustrate relevant issues. Suggestions are made for avoiding common translation errors.},
affiliation = {Department of Child and Adolescent Psychiatry, Leiden University Medical Center, Leiden, The Netherlands. b.m.van.widenfelt@umail.leidenuniv.nl},
number = {2},
pages = {135--47},
volume = {8},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Language, Family, Humans, Adaptation: Psychological, Cross-Cultural Comparison, Child, Translations},
date-added = {2010-02-11 09:10:44 +0100},
date-modified = {2010-02-11 09:10:44 +0100},
pmid = {15981582},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5357},
rating = {0}
}
@article{Finch:2005p13238,
author = {H Finch},
journal = {Journal of Data Science},
title = {Comparison of Distance Measures in Cluster Analysis with Dichotomous Data},
abstract = {The current study examines the performance of cluster analysis with dichotomous data using distance measures based on response pattern similarity. In many contexts, such as educational and psychological testing, cluster analysis is a useful means for exploring datasets and identifying un- derlying groups among individuals. However, standard approaches to cluster analysis assume that the variables used to group observations are continu- ous in nature. This paper focuses on four methods for calculating distance between individuals using dichotomous data, and the subsequent introduc- tion of these distances to a clustering algorithm such as Ward's. The four methods in question, are potentially useful for practitioners because they are relatively easy to carry out using standard statistical software such as SAS and SPSS, and have been shown to have potential for correctly grouping ob- servations based on dichotomous data. Results of both a simulation study and application to a set of binary survey responses show that three of the four measures behave similarly, and can yield correct cluster recovery rates of between 60% and 90%. Furthermore, these methods were found to work better, in nearly all cases, than using the raw data with Ward's clustering algorithm.},
pages = {85--100},
volume = {3},
year = {2005},
date-added = {2010-07-01 17:52:59 +0200},
date-modified = {2010-07-01 17:53:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finch-2005-Journal%20of%20Data%20Science_Comparison%20of%20Distan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13238},
rating = {0}
}
@article{Tugwell:2010p6569,
author = {Peter Tugwell and J Andre Knottnerus and George Wells and Leanne Idzerda},
journal = {Journal of Clinical Epidemiology},
title = {Debate on measures of outcome},
number = {1},
pages = {1},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:37:17 +0100},
date-modified = {2010-02-24 20:37:17 +0100},
doi = {10.1016/j.jclinepi.2009.11.001},
pii = {S0895-4356(09)00335-7},
pmid = {19958999},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tugwell-2010-Journal%20of%20Clinical%20Epidemiology_Debate%20on%20measures%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6569},
rating = {0}
}
@article{Bruce:2003p8721,
author = {Bonnie Bruce and James F Fries},
journal = {Health Qual Life Outcomes},
title = {The Stanford Health Assessment Questionnaire: dimensions and practical applications},
abstract = {The ability to effectively measure health-related quality-of-life longitudinally is central to describing the impacts of disease, treatment, or other insults, including normal aging, upon the patient. Over the last two decades, assessment of patient health status has undergone a dramatic paradigm shift, evolving from a predominant reliance on biochemical and physical measurements, such as erythrocyte sedimentation rate, lipid profiles, or radiographs, to an emphasis upon health outcomes based on the patient's personal appreciation of their illness. The Health Assessment Questionnaire (HAQ), published in 1980, was among the first instruments based on generic, patient-centered dimensions. The HAQ was designed to represent a model of patient-oriented outcome assessment and has played a major role in many diverse areas such as prediction of successful aging, inversion of the therapeutic pyramid in rheumatoid arthritis (RA), quantification of NSAID gastropathy, development of risk factor models for osteoarthrosis, and examination of mortality risks in RA. Evidenced by its use over the past two decades in diverse settings, the HAQ has established itself as a valuable, effective, and sensitive tool for measurement of health status. It is available in more than 60 languages and is supported by a bibliography of more than 500 references. It has increased the credibility and use of validated self-report measurement techniques as a quantifiable set of hard data endpoints and has contributed to a new appreciation of outcome assessment. In this article, information regarding the HAQ's development, content, dissemination and reference sources for its uses, translations, and validations are provided.},
affiliation = {School of Medicine, Division of Immunology {\&} Rheumatology Stanford University, USA. bbruce@stanford.edu},
pages = {20},
volume = {1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Disability Evaluation, Health Status, Rheumatic Diseases, Outcome Assessment (Health Care), Activities of Daily Living, Severity of Illness Index, Humans, Questionnaires},
date-added = {2010-03-22 12:01:13 +0100},
date-modified = {2010-03-22 12:01:13 +0100},
doi = {10.1186/1477-7525-1-20},
pmid = {12831398},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bruce-2003-Health%20and%20Quality%20of%20Life%20Outcomes_The%20Stanford%20Health.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8721},
rating = {0}
}
@article{Way:1998p2675,
author = {B B Way and M H Allen and J L Mumpower and T R Stewart and S M Banks},
journal = {Am J Psychiatry},
title = {Interrater agreement among psychiatrist in psychiatric emergency assessments},
abstract = {OBJECTIVE: The authors' purpose in this study was to investigate the interrater agreement among psychiatrists in psychiatric emergency service settings. The interrater reliability of many of the key concepts in psychiatric emergency service settings has not been studied. METHOD: Videotapes of 30 psychiatric emergency service patient assessment interviews conducted by psychiatrists were shown to eight experienced psychiatric emergency service psychiatrists. The eight psychiatrists rated each videotape on dimensions such as severity of depression and psychosis and recommended a disposition for each patient. Interrater reliability was then explored. RESULTS: The level of agreement (intraclass correlation coefficient) among the reviewing psychiatrists was higher for psychosis and substance abuse but lower for psychopathology, impulse control problems, danger to self, and disposition. The reviewers' disposition recommendations did not match well with the assessing psychiatrist's actual disposition, but comparisons with actual practice should be considered only suggestive. CONCLUSIONS: Psychiatric emergency service assessments need improvement. This may be accomplished by exploring the underlying structure of psychiatric emergency service concepts, the creation and validation of structured assessment tools, and the creation of practice guidelines.},
affiliation = {Center for the Study of Issues in Public Mental Health, Albany, NY, USA. Way@iris.rfmh.org},
number = {10},
pages = {1423--8},
volume = {155},
year = {1998},
month = {Oct},
language = {eng},
keywords = {Emergency Services: Psychiatric, Psychiatry, Male, Mental Disorders, Analysis of Variance, Videotape Recording, Psychiatric Status Rating Scales, Humans, Female, Adult, Reproducibility of Results, Referral and Consultation, Attitude of Health Personnel, Commitment of Mentally Ill, Patient Admission},
date-added = {2010-01-13 09:34:42 +0100},
date-modified = {2010-07-29 19:51:28 +0200},
pmid = {9766775},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Way-1998-Am%20J%20Psychiatry_Interrater%20agreement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2675},
rating = {0}
}
@article{Comings:2000p4217,
author = {D E Comings and J P Johnson and N S Gonzalez and M Huss and G Saucier and M McGue and J MacMurray},
journal = {Psychiatr Genet},
title = {Association between the adrenergic alpha 2A receptor gene (ADRA2A) and measures of irritability, hostility, impulsivity and memory in normal subjects},
abstract = {The noradrenergic system has been implicated in arousal, vigilance, irritability hostility, and memory. This suggests the hypothesis that genetic variants at noradrenergic receptors may be risk factors of these behaviors. To test this hypothesis, the potential association between measures of these traits and genetic variation at the adrenergic2A receptor gene (ADRA2A), using a common single nucleotide polymorphism (SNP) polymorphism of the promoter region, were examined in two independent sets of subjects: university students (student group), and parents of twins in the Minnesota Twin Study (twin group). In the student group, there was a significant linear association by genotype (11 > 12 > 22) for the total Brown ADD score (BADD), and BADD subscores of memory and irritability, and with the total Buss-Durkee Hostility Inventory (BDHI) score and BDHI subscores of indirect hostility, irritability, negativity, and verbal aggression. A multiple analysis of variance (MANOVA) of all the BADD and BDHI subscores was significant at P < or = 0.009. For the twin group, the same genotype associations were significant for the Multidimensional Personality Questionnaire (MPQ) impulsivity scores but not for the MPQ aggression or harm avoidance scores. The ADRA2A gene accounted for 1.8-8.3% of the variance of these scores.},
affiliation = {Department of Medical Genetics, City of Hope Medical Center, Duarte, California, USA.},
number = {1},
pages = {39--42},
volume = {10},
year = {2000},
month = {Mar},
language = {eng},
keywords = {Memory, Locus Coeruleus, Reference Values, European Continental Ancestry Group, Humans, Male, Arousal, Impulsive Behavior, Middle Aged, Temperament, Genotype, Norepinephrine, Adult, Hostility, Deoxyribonuclease HpaII, Aggression, Female, Irritable Mood, Twins, Personality Tests, Receptors: Adrenergic: alpha-2, Polymorphism: Restriction Fragment Length},
date-added = {2010-01-21 08:02:02 +0100},
date-modified = {2010-07-29 19:45:11 +0200},
pmid = {10909127},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4217},
rating = {0}
}
@article{Murphy:2001p6305,
author = {K P Murphy},
title = {An introduction to graphical models},
year = {2001},
date-added = {2010-02-20 20:17:53 +0100},
date-modified = {2010-02-20 20:18:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Murphy-2001-_An%20introduction%20to%20g.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6305},
rating = {0}
}
@article{Balding:2006p9531,
author = {David J Balding},
journal = {Nat Rev Genet},
title = {A tutorial on statistical methods for population association studies},
abstract = {Although genetic association studies have been with us for many years, even for the simplest analyses there is little consensus on the most appropriate statistical procedures. Here I give an overview of statistical approaches to population association studies, including preliminary analyses (Hardy-Weinberg equilibrium testing, inference of phase and missing data, and SNP tagging), and single-SNP and multipoint tests for association. My goal is to outline the key methods with a brief discussion of problems (population structure and multiple testing), avenues for solutions and some ongoing developments.},
affiliation = {Department of Epidemiology and Public Health, Imperial College, St Marys Campus, Norfolk Place, London W2 1PG, UK. d.balding@imperial.ac.uk},
number = {10},
pages = {781--91},
volume = {7},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Genetics: Population, Genome: Human, Polymorphism: Single Nucleotide, Haplotypes, Genotype, Genetics: Medical, Statistics as Topic, Humans},
date-added = {2010-03-23 20:25:29 +0100},
date-modified = {2010-03-23 20:25:29 +0100},
doi = {10.1038/nrg1916},
pii = {nrg1916},
pmid = {16983374},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Balding-2006-Nat%20Rev%20Genet_A%20tutorial%20on%20statis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9531},
read = {Yes},
rating = {0}
}
@article{Khoury:2003p5564,
author = {Muin J Khoury and Linda L McCabe and Edward R B McCabe},
journal = {N Engl J Med},
title = {Population screening in the age of genomic medicine},
affiliation = {Office of Genomics and Disease Prevention, Centers for Disease Control and Prevention, Atlanta, USA.},
number = {1},
pages = {50--8},
volume = {348},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Cystic Fibrosis, Female, Neonatal Screening, Adult, Genetic Testing, Heterozygote, Child, Factor V, Humans, Point Mutation, Hemochromatosis, Infant: Newborn, Genomics, Tay-Sachs Disease},
date-added = {2010-02-12 15:32:24 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
doi = {10.1056/NEJMra013182},
pii = {348/1/50},
pmid = {12510043},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Khoury-2003-N%20Engl%20J%20Med_Population%20screening.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5564},
rating = {0}
}
@article{Costas:2010p4289,
author = {Javier Costas and M{\`o}nica Gratac{\`o}s and Ge{\`o}rgia Escaram{\'\i}s and Roc{\'\i}o Mart{\'\i}n-Santos and Yolanda de Diego and Enrique Baca-Garc{\'\i}a and Francesca Canellas and Xavier Estivill and Roser Guillamat and Miriam Guitart and Alfonso Guti{\'e}rrez-Zotes and Luisa Garc{\'\i}a-Esteve and Ferm{\'\i}n Mayoral and Mar{\'\i}a Dolores Molt{\'o} and Christopher Phillips and Miquel Roca and Angel Carracedo and Elisabet Vilella and Julio Sanju{\'a}n},
journal = {J Psychiatr Res},
title = {Association study of 44 candidate genes with depressive and anxiety symptoms in post-partum women},
abstract = {The post-partum period is a time of extreme vulnerability for a whole spectrum of psychiatric disorders. Delivery may be considered an important risk factor in genetically susceptible women. Five hundred and eight SNPs in 44 genes at candidate pathways putatively related to mood changes after delivery were genotyped in a multicenter cohort of 1804 women from Spain. Participants completed two scales at 2-3days, 8weeks, and 32weeks post-partum, the Edinburgh Post-partum Depression Scale (EPDS) and the Spielberger State-Trait Anxiety Inventory (STAI). Those women who scored 9 or more on EPDS were evaluated for major depression using the Diagnostic Interview for Genetics Studies (DIGS) adapted for post-partum depression. Association with major depression was assessed using likelihood ratio tests under a codominant genotype model. Association with scale scores was tested using linear mixed models to take into account repeated measures over time. Two intronic SNPs, one at the serotonin transporter gene (SLC6A4) and another at dopa decarboxylase (DDC), were significantly associated to STAI anxiety scores after multiple testing correction (nominal P=0.0000513 and 0.000097, respectively). In addition, post hoc analysis at the unphased haplotype level using nominal significant SNPs revealed an association with a combination of three SNPs at protein kinase C, beta (PRKCB) with major depression, significant after multiple testing correction (nominal global P=0.0001596). In conclusion, we detected a role of SLC6A4 in mood changes after stressful events, and revealed new putative associations involving DDC and PRKCB. Therefore, these genes deserve further investigation to confirm these results.},
affiliation = {Fundaci{\'o}n P{\'u}blica Galega de Medicina Xen{\'o}mica-SERGAS, Hospital Cl{\'\i}nico Universitario, Santiago de Compostela, Spain.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-25 20:29:47 +0100},
date-modified = {2010-01-25 20:29:47 +0100},
doi = {10.1016/j.jpsychires.2009.12.012},
pii = {S0022-3956(09)00287-8},
pmid = {20092830},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Costas-2010-J%20Psychiatr%20Res_Association%20study%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4289},
rating = {0}
}
@article{Meinshausen:2010p12324,
author = {N Meinshausen and P B{\"u}hlmann},
journal = {The Annals of Statistics},
title = {High dimensional graphs and variable selection with the lasso},
abstract = {The pattern of zero entries in the inverse covariance matrix of a multivariate normal distribution corresponds to conditional inde- pendence restrictions between variables. Covariance selection aims at estimating those structural zeros from data. We show that neighbor- hood selection with the Lasso is a computationally attractive alter- native to standard covariance selection for sparse high-dimensional graphs. Neighborhood selection estimates the conditional indepen- dence restrictions separately for each node in the graph and is hence equivalent to variable selection for Gaussian linear models. We show that the proposed neighborhood selection scheme is consistent for sparse high-dimensional graphs. Consistency hinges on the choice of the penalty parameter. The oracle value for optimal prediction does not lead to a consistent neighborhood estimate. Controlling instead the probability of falsely joining some distinct connectivity compo- nents of the graph, consistent estimation for sparse graphs is achieved (with exponential rates), even when the number of variables grows like the number of observations raised to an arbitrary power.},
date-added = {2010-06-12 09:42:57 +0200},
date-modified = {2010-06-12 09:43:51 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meinshausen--The%20Annals%20of%20Statistics_High%20dimensional%20gra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12324},
rating = {0}
}
@article{Carter:2009p12853,
author = {N J Carter and N C Scwertman and T L Kiser},
journal = {Statistical Methodology},
title = {A comparison of two boxplot methods for detecting univariate outliers which adjust for sample size and asymmetry},
abstract = {It is important to identify outliers since inclusion, especially when using parametric methods, can cause distortion in the analysis and lead to erroneous conclusions. One of the easiest and most useful methods is based on the boxplot. This method is particularly appealing since it does not use any outliers in computing spread. Two methods, one by Carling and another by Schwertman and de Silva, adjust the boxplot method for sample size and skewness. In this paper, the two procedures are compared both theoretically and by Monte Carlo simulations. Simulations using both a symmetric distribution and an asymmetric distribution were performed on data sets with none, one, and several outliers. Based on the simulations, the Carling approach is superior in avoiding masking outliers, that is, the Carling method is less likely to overlook an outlier while the Schwertman and de Silva procedure is much better at reducing swamping, that is, misclassifying an observation as an outlier. Carling's method is to the Schwertman and de Silva procedure as comparisonwise versus experimentwise error rate is for multiple comparisons. The two methods, rather than being competitors, appear to complement each other. Used in tandem they provide the data analyst a more complete prospective for identifying possible outliers.},
pages = {604--621},
volume = {6},
year = {2009},
date-added = {2010-06-21 20:18:01 +0200},
date-modified = {2010-07-29 20:06:22 +0200},
doi = {10.1016/j.stamet.2009.07.001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carter-2009-Statistical%20Methodology_A%20comparison%20of%20two.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12853},
rating = {0}
}
@article{Nye:2008p11656,
author = {C D Nye and B W Roberts and G Saucier and X Zhou},
journal = {Journal of Research in Personality},
title = {Testing the measurement equivalence of personality adjective items across cultures},
abstract = {Although previous research has examined cross-cultural differences in personality, many of these studies neglected to first establish that the measures being used were equivalent in meaning across cultures. Using samples of Chinese, Greek, and American respondents, the measurement equivalence of the Big Five Mini-Markers [Saucier, G. (1994). Mini-mark- ers: A brief version of Goldberg's unipolar Big-Five markers. Journal of Personality assess- ment, 63, 506--516] was assessed using confirmatory factor analysis. The results indicate that all of the scales demonstrate configural invariance, but fail to show metric or scalar invariance. Several adjectives from these scales were found to exhibit bias at the item- level. The practical implications of these results are discussed and future research is suggested.},
pages = {1524--1536},
volume = {42},
year = {2008},
date-added = {2010-05-11 22:52:43 +0200},
date-modified = {2010-07-29 19:36:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nye-2008-Journal%20of%20Research%20in%20Personality_Testing%20the%20measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11656},
rating = {5}
}
@article{Via:2007p1563,
author = {Javier V{\'\i}a and Ignacio Santamar{\'\i}a and Jes{\'u}s P{\'e}rez},
journal = {Neural Netw},
title = {A learning algorithm for adaptive canonical correlation analysis of several data sets},
abstract = {Canonical correlation analysis (CCA) is a classical tool in statistical analysis to find the projections that maximize the correlation between two data sets. In this work we propose a generalization of CCA to several data sets, which is shown to be equivalent to the classical maximum variance (MAXVAR) generalization proposed by Kettenring. The reformulation of this generalization as a set of coupled least squares regression problems is exploited to develop a neural structure for CCA. In particular, the proposed CCA model is a two layer feedforward neural network with lateral connections in the output layer to achieve the simultaneous extraction of all the CCA eigenvectors through deflation. The CCA neural model is trained using a recursive least squares (RLS) algorithm. Finally, the convergence of the proposed learning rule is proved by means of stochastic approximation techniques and their performance is analyzed through simulations.},
affiliation = {Department of Communications Engineering, University of Cantabria, 39005 Santander, Cantabria, Spain. jvia@gtas.dicom.unican.es},
number = {1},
pages = {139--52},
volume = {20},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Multivariate Analysis, Learning, Humans, Algorithms, Neural Networks (Computer)},
date-added = {2010-01-07 16:50:01 +0100},
date-modified = {2010-07-29 19:41:07 +0200},
doi = {10.1016/j.neunet.2006.09.011},
pii = {S0893-6080(06)00213-9},
pmid = {17113263},
local-url = {file://localhost/Users/chl/Dropbox/Papers/V%C3%ADa-2007-Neural%20Netw_A%20learning%20algorithm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1563},
rating = {0}
}
@article{Hedeker:2007p13445,
author = {D Hedeker},
title = {Multilevel Models for Ordinal and Nominal Variables},
year = {2007},
date-added = {2010-07-01 20:30:14 +0200},
date-modified = {2010-07-01 20:30:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hedeker-2007-_Multilevel%20Models%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13445},
rating = {0}
}
@article{Penttila:2009p4972,
author = {Jani Penttil{\"a} and Arnaud Cachia and Jean-Luc Martinot and Damien Ringuenet and Mich{\`e}le Wessa and Josselin Houenou and Andr{\'e} Galinowski and Frank Bellivier and Thierry Gallarda and Edouard Duchesnay and Eric Artiges and Marion Leboyer and Jean-Pierre Oli{\'e} and Jean-Fran{\c c}ois Mangin and Marie-Laure Paill{\`e}re-Martinot},
journal = {Bipolar Disord},
title = {Cortical folding difference between patients with early-onset and patients with intermediate-onset bipolar disorder},
abstract = {OBJECTIVES: Cerebral abnormalities have been detected in patients with bipolar disorder (BD). In comparison to BD with a later onset, early-onset BD has been found to have a poorer outcome. However, it is yet unknown whether neuroanatomical abnormalities differ between age-at-onset subgroups of the illness. We searched for cortical folding differences between early-onset (before 25 years) and intermediate-onset (between 25 and 45 years) BD patients. METHODS: Magnetic resonance images of 22 early-onset BD patients, 14 intermediate-onset BD patients, and 50 healthy participants were analyzed using a fully automated method to extract, label, and measure the sulcal area in the whole cortex. Cortical folding was assessed by computing global sulcal indices (the ratio between total sulcal area and total outer cortex area) for each hemisphere, and local sulcal indices for 12 predefined regions in both hemispheres. RESULTS: Intermediate-onset BD patients had a significantly reduced local sulcal index in the right dorsolateral prefrontal cortex in comparison to both early-onset BD patients and healthy subjects, and lower global sulcal indices in both hemispheres in comparison to healthy subjects (p < 0.05, Bonferroni corrected). Brain tissue volumes did not differ between groups. CONCLUSIONS: This study provided the first evidence of a neuroanatomic difference between intermediate-onset and early-onset BD, which lends further support to the existence of different age-at-onset subgroups of BD.},
affiliation = {INSERM, U797 Research Unit Neuroimaging and Psychiatry, France. japepe@utu.fi},
number = {4},
pages = {361--70},
volume = {11},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Brain Mapping, Bipolar Disorder, Functional Laterality, Suicide: Attempted, Imaging: Three-Dimensional, Age of Onset, Cerebral Cortex, Age Factors, Male, Adult, Female, Middle Aged, Humans},
date-added = {2010-02-05 00:06:20 +0100},
date-modified = {2010-02-05 00:06:20 +0100},
doi = {10.1111/j.1399-5618.2009.00683.x},
pii = {BDI683},
pmid = {19500089},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Penttil%C3%A4-2009-Bipolar%20Disord_Cortical%20folding%20dif.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4972},
rating = {0}
}
@misc{Ark:2005a,
author = {L Andries van der Ark and M A Croon and K Sijtsma},
journal = {Miscellaneous},
title = {Statistical Models for Categorical Variables},
year = {2005},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andries%20van%20der%20Ark-2005-Miscellaneous_Statistical%20Models%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1994},
rating = {0}
}
@article{Bolger:1990p13968,
author = {N Bolger},
journal = {J Pers Soc Psychol},
title = {Coping as a personality process: a prospective study},
abstract = {The study tested the proposition that coping is personality in action under stress. Using a stressful medical school entrance examination, the study examined (a) whether neuroticism emerged in coping patterns over time and (b) whether the influence of neuroticism on coping accounted for changes in anxiety and examination performance. Fifty premedical students reported their coping efforts at 35 days before, 10 days before, and 17 days after the examination. They provided daily reports of anxiety for 35 days surrounding the examination. Neuroticism influenced coping efforts and increases in daily anxiety under stress. Two types of coping, wishful thinking and self-blame, explained over half the relationship between neuroticism and increases in preexamination anxiety. Consistent with previous research, neither neuroticism nor specific coping efforts influenced examination performance.},
affiliation = {Department of Psychology, University of Denver, Colorado 80208.},
number = {3},
pages = {525--37},
volume = {59},
year = {1990},
month = {Sep},
language = {eng},
keywords = {Neurotic Disorders, Arousal, Achievement, Male, Prospective Studies, Internal-External Control, Anxiety, Female, Adult, Personality Development, Educational Measurement, Personality Inventory, Adaptation: Psychological, Humans},
date-added = {2010-07-29 19:05:57 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
pmid = {2231283},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bolger-1990-J%20Pers%20Soc%20Psychol_Coping%20as%20a%20personal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13968},
rating = {0}
}
@misc{Zoanetti:2006,
author = {N Zoanetti and P Griffin and R J Adams},
journal = {Miscellaneous},
title = {APPLICATIONS OF ITEM RESPONSE THEORY TO IDENTIFY AND ACCOUNT FOR SUSPECT RATER DATA},
year = {2006},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-07-29 20:16:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zoanetti-2006-Miscellaneous_APPLICATIONS%20OF%20ITEM.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2046},
rating = {0}
}
@article{Muller:2001,
author = {K R Muller and S Mika and G Ratsch and K Tsuda and B Scholkopf},
journal = {IEEE Trans Neural Netw},
title = {An introduction to kernel-based learning algorithms.},
abstract = {This paper provides an introduction to support vector machines, kernel Fisher discriminant analysis, and kernel principal component analysis, as examples for successful kernel-based learning methods. We first give a short background about Vapnik-Chervonenkis theory and kernel feature spaces and then proceed to kernel based learning in supervised and unsupervised scenarios including practical and algorithmic considerations. We illustrate the usefulness of kernel algorithms by discussing applications such as optical character recognition and DNA analysis.},
affiliation = {GMD FIRST, Berlin.},
number = {2},
pages = {181--201},
volume = {12},
year = {2001},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1109/72.914517},
pmid = {18244377},
url = {http://dx.doi.org/10.1109/72.914517},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1170},
read = {Yes},
rating = {0}
}
@article{Doehring:2009p3095,
author = {Alexandra Doehring and Nils von Hentig and Jochen Graff and Syavash Salamat and Michael Schmidt and Gerd Geisslinger and Sebastian Harder and J{\"o}rn L{\"o}tsch},
journal = {Pharmacogenet Genomics},
title = {Genetic variants altering dopamine D2 receptor expression or function modulate the risk of opiate addiction and the dosage requirements of methadone substitution},
abstract = {AIM: Addictive behavior is importantly mediated by mesolimbic dopaminergic signaling. Here, we comprehensively analyzed the DRD2 gene locus, and in addition, the ANKK1 rs1800497C>T single nucleotide polymorphism (SNP), formerly known as 'dopamine D2 receptor Taq1A C>T polymorphism', for associations with the risk of opiate addiction and the methadone dosage requirements. METHODS: Allelic frequencies of DRD2/ANKK1 polymorphisms were compared between 85 methadone-substituted Caucasian patients and a random sample of 99 healthy Caucasian controls. Within patients, the average and maximum daily methadone dose during the first year of treatment and the time when that maximum dose was reached were analyzed for an association with DRD2/ANKK1 genetics. RESULTS: Compared with the control group, drug users carried more frequently the minor allele of DRD2 SNP rs1076560G>T SNP (P=0.022, odds ratio 2.343) or the ATCT haplotype of DRD2 rs1799978A>G, rs1076560G>T, rs6277C>T, ANKK1 rs1800497C>T (P=0.048, odds ratio 2.23), with similar tendencies for ANKK1 rs1800497C>T (P=0.056, odds ratio 2.12) and the TCCTCTT haplotype of DRD2 rs12364283T>C, rs1799732C del, rs4648317C>T, rs1076560G>T, rs6275C>T, rs6277C>T, and ANKK1 rs1800497C>T (P=0.059, odds ratio 2.31). The average and maximum daily methadone doses were significantly associated with the DRD2 rs6275C>T SNP (P=0.016 and 0.005 for average and maximum dose, respectively). Carriers of the variant rs6275T allele needed higher methadone doses than noncarriers. In addition, this variant was associated with a longer time to reach the maximum methadone dose (P=0.025). CONCLUSION: On the basis of an analysis spanning the whole gene locus, from the DRD2 promoter to the ANKK1 rs1800497C>T polymorphism, DRD2 genetic polymorphisms modulate both the risk of opiate addiction, leading to the necessity of methadone substitution therapy, and the course of this therapy in terms of dosage requirements.},
affiliation = {Pharmazentrum Frankfurt/ZAFES, Institute of Clinical Pharmacology, Goethe-University, Frankfurt am Main, Germany.},
number = {6},
pages = {407--14},
volume = {19},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Receptors: Dopamine D2, Humans, Methadone, Male, Protein-Serine-Threonine Kinases, Polymorphism: Single Nucleotide, Middle Aged, Female, Adult, Opioid-Related Disorders, Time Factors, Models: Genetic, Narcotics, Genetic Variation},
date-added = {2010-01-14 19:55:50 +0100},
date-modified = {2010-01-14 19:55:50 +0100},
doi = {10.1097/FPC.0b013e328320a3fd},
pmid = {19373123},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3095},
rating = {0}
}
@article{Cohen:2005p10480,
author = {Michael X Cohen and Jennifer Young and Jong-Min Baek and Christopher Kessler and Charan Ranganath},
journal = {Brain Res Cogn Brain Res},
title = {Individual differences in extraversion and dopamine genetics predict neural reward responses},
abstract = {Psychologists have linked the personality trait extraversion both to differences in reward sensitivity and to dopamine functioning, but little is known about how these differences are reflected in the functioning of the brain's dopaminergic neural reward system. Here, we show that individual differences in extraversion and the presence of the A1 allele on the dopamine D2 receptor gene predict activation magnitudes in the brain's reward system during a gambling task. In two functional MRI experiments, participants probabilistically received rewards either immediately following a behavioral response (Study 1) or after a 7.5 s anticipation period (Study 2). Although group activation maps revealed anticipation- and reward-related activations in the reward system, individual differences in extraversion and the presence of the D2 Taq1A allele predicted a significant amount of inter-subject variability in the magnitudes of reward-related, but not anticipation-related, activations. These results demonstrate a link between stable differences in personality, genetics, and brain functioning.},
affiliation = {Department of Epileptology, University of Bonn, 53115 Bonn, Germany; Center for Neuroscience, University of California, Davis, CA 95616, USA. mcohen@ucdavis.edu},
number = {3},
pages = {851--61},
volume = {25},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Cues, Reward, Dopamine, Gambling, Personality Tests, Alleles, Extraversion (Psychology), Data Interpretation: Statistical, Predictive Value of Tests, Models: Statistical, Decision Making, Receptors: Dopamine D2, Risk-Taking, Individuality, Humans, Magnetic Resonance Imaging},
date-added = {2010-04-07 11:18:21 +0200},
date-modified = {2010-07-29 19:21:59 +0200},
doi = {10.1016/j.cogbrainres.2005.09.018},
pii = {S0926-6410(05)00288-0},
pmid = {16289773},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6SYV-4HJ47S0-1&_user=2432700&_coverDate=12%252F31%252F2005&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=1bb6e7e2e7100304c01f15db4860e6c4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-2005-Brain%20Res%20Cogn%20Brain%20Res_Individual%20differenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10480},
rating = {0}
}
@article{Han:2002p9561,
author = {Cong Han and Christopher C Pulling and Susan E Telke and Katherine Huppler Hullsiek and Terry Beirn Community Programs for Clinical Research on AIDS},
journal = {AIDS},
title = {Assessing the utility of five domains in SF-12 Health Status Questionnaire in an AIDS clinical trial},
abstract = {OBJECTIVE: To assess a shortened quality-of-life (QoL) measurement tool in a population with advanced HIV infection. DESIGN: Five domains (seven items) in a 12-item questionnaire (SF-12) were compared with those same domains in a 39-item questionnaire (SF-39). Data were collected using SF-39 in a randomized clinical trial for the prevention of cytomegalovirus disease. METHODS: The performance of SF-12 relative to SF-39 was evaluated within each domain by comparing QoL scores at baseline and over time, assessing the reliability and validity for both instruments, assessing item consistency and discrimination within instruments, and implementing event-time analyses that quantified dependence of the hazard for death and progression of disease (POD) on baseline values. RESULTS: Baseline measures are similar for both instruments, with high correlation within each domain. The slopes over time for the SF-12 and SF-39 domains are also similar. Both the SF-12 and SF-39 domains have satisfactory reliabilities and perfect discrimination. The hazard ratios for death and POD are similar for both instruments within a domain. All SF-12 and most SF-39 domains are highly predictive for death but are not highly predictive for POD. CONCLUSIONS: For the domains considered, SF-12 is a reasonable and effective replacement for SF-39 in studies of patients with advanced HIV disease. SF-12 reduces item redundancy and the burden of data requirements for both investigators and patients; consequently, it may improve compliance with form completion.},
affiliation = {Division of Biostatistics, School of Public Health, University of Minnesota, 2221 University Avenue SE, Minneapolis, MN 55414, USA.},
number = {3},
pages = {431--9},
volume = {16},
year = {2002},
month = {Feb},
language = {eng},
keywords = {Female, Acquired Immunodeficiency Syndrome, Quality of Life, Adult, AIDS-Related Opportunistic Infections, Middle Aged, Antiviral Agents, Ganciclovir, Humans, Questionnaires, Health Status, Cytomegalovirus Infections, Male},
date-added = {2010-03-23 20:54:28 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {11834955},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Han-2002-AIDS_Assessing%20the%20utilit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9561},
rating = {0}
}
@article{Goldberg:2006p13885,
author = {L R Goldberg and W F Velicer},
title = {Principles of Exploratory Factor Analysis},
year = {2006},
date-added = {2010-07-29 18:04:37 +0200},
date-modified = {2010-07-29 18:05:20 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-2006-_Principles%20of%20Explor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13885},
rating = {0}
}
@article{Miyahara:1995p12942,
author = {M Miyahara and I M{\"o}bs},
journal = {Neuropsychol Rev},
title = {Developmental dyspraxia and developmental coordination disorder},
abstract = {This article discusses the role developmental dyspraxia plays in developmental coordination disorder (DCD), based upon a review of literature on apraxia, developmental dyspraxia, and DCD. Apraxia and dyspraxia have often been equated with DCD. However, it is argued that apraxia and dyspraxia primarily refer to the problems of motor sequencing and selection, which not all children with DCD exhibit. The author proposes to distinguish developmental dyspraxia from DCD. Other issues discussed include the assessment, etiology, and treatment of developmental dyspraxia and DCD, and the relationship between DCD and learning disabilities. A research agenda is offered regarding future directions to overcome current limitation.},
affiliation = {Movement Development Clinic, University of Otago, Dunedin, New Zealand.},
number = {4},
pages = {245--68},
volume = {5},
year = {1995},
month = {Dec},
language = {eng},
keywords = {Psychiatric Status Rating Scales, Apraxias, Psychomotor Disorders, Humans, Learning Disorders},
date-added = {2010-06-25 21:46:21 +0200},
date-modified = {2010-06-25 21:46:21 +0200},
pmid = {8866511},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miyahara-1995-Neuropsychol%20Rev_Developmental%20dyspra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12942},
rating = {0}
}
@article{Ellis:2008p13806,
author = {M E Ellis and MI Aguirre-Urreta and W N Sun and G M Marakas},
title = {Establishing the need for measurement invariance in information systems research: A step-by-step example using technology acceptance research},
abstract = {Group comparisons must measure identical concepts across groups to be valid. To this end we provide a measurement invariance (MI) framework and an example of MI calculations, along with reasons for adoption by IS researchers.},
year = {2008},
date-added = {2010-07-29 12:22:33 +0200},
date-modified = {2010-07-29 12:23:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ellis-2008-_Establishing%20the%20nee.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13806},
rating = {0}
}
@manual{Partchev:2004,
author = {Ivailo Partchev},
journal = {Manual},
title = {A visual guide to item response theory},
year = {2004},
month = {Feb},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Partchev-2004-Manual_A%20visual%20guide%20to%20it.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1914},
rating = {0}
}
@article{Fuente:2009p537,
author = {EIDl Fuente and Gustavo R Canadas and Joan Guardia and Luis M Lozano},
journal = {Methodology},
title = {Hypothesis Probability or Statistical Significance? Inference for the Mean in a Normal Distribution},
abstract = {After almost a century of debate among renowned statisticians, 21st century traditional Statistical Inference is marked by controversy over the application of the procedures for hypothesis estimation and contrast. The aim of this paper is twofold: First, to present various debatable issues that arise when the mean in a Normal distribution of known precision is contrasted and second, to argue the suitability of Bayesian philosophy for the analysis of research data.},
affiliation = {University of Granada, Spain},
number = {1},
pages = {35--39},
volume = {5},
year = {2009},
keywords = {Bayesian estimation, Bayesian hypothesis test},
date-added = {2010-01-03 13:56:21 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
doi = {10.1027/1614-2241.5.1.35},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fuente-2009-Methodology_Hypothesis%20Probabili.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p537},
read = {Yes},
rating = {0}
}
@article{Zalsman:2006p7520,
author = {Gil Zalsman and Yung-Yu Huang and Maria A Oquendo and Ainsley K Burke and Xian-Zhang Hu and David A Brent and Steven P Ellis and David Goldman and J John Mann},
journal = {Am J Psychiatry},
title = {Association of a triallelic serotonin transporter gene promoter region (5-HTTLPR) polymorphism with stressful life events and severity of depression},
abstract = {OBJECTIVE: The lower expressing allele of the serotonin transporter gene 5' promoter region (5-HTTLPR) polymorphism is reported to be associated with susceptibility to depression and suicidality in response to stressful life events. The authors examined the relationship of a triallelic 5-HTTLPR polymorphism to stressful life events, severity of major depression, and suicidality. METHOD: Mood disorder subjects (N=191) and healthy volunteers (N=125), all Caucasian subjects of European origin, were genotyped for the triallelic 5-HTTLPR polymorphism (higher expressing allele: L(A); lower expressing alleles: L(G), S). All subjects underwent structured clinical interviews to determine DSM-IV diagnoses, ratings of psychopathology, stressful life events, developmental history, and suicidal behavior. CSF 5-HIAA was assayed in a subgroup of subjects. RESULTS: Lower expressing alleles independently predicted greater depression severity and predicted greater severity of major depression with moderate to severe life events compared with the higher expressing L(A) allele. No associations with suicidal behavior and CSF 5-HIAA were found. CONCLUSIONS: Lower expressing transporter alleles, directly and by increasing the impact of stressful life events on severity, explain 31% of the variance in major depression severity. The biological phenotype responsible for these effects remains to be elucidated.},
affiliation = {Department of Neuroscience, New York State Psychiatric Institute, 1051 Riverside Dr., Box 42, New York, NY 10032, USA.},
number = {9},
pages = {1588--93},
volume = {163},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Hydroxyindoleacetic Acid, Adult, Male, Serotonin Plasma Membrane Transport Proteins, Suicide, Phenotype, Polymorphism: Genetic, Life Change Events, Genetic Predisposition to Disease, Female, Gene Frequency, Humans, Alleles, Depressive Disorder: Major, Severity of Illness Index, Gene Expression, Psychiatric Status Rating Scales, Genotype, Diagnostic and Statistical Manual of Mental Disorders, Promoter Regions: Genetic},
date-added = {2010-03-14 10:51:56 +0100},
date-modified = {2010-03-14 10:51:57 +0100},
doi = {10.1176/appi.ajp.163.9.1588},
pii = {163/9/1588},
pmid = {16946185},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zalsman-2006-Am%20J%20Psychiatry_Association%20of%20a%20tri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7520},
read = {Yes},
rating = {0}
}
@article{Geurts:2006p14297,
author = {Pierre Geurts and Damien Ernst and Louis Wehenkel},
journal = {Machine Learning},
title = {Extremely randomized trees},
abstract = {This paper proposes a new tree-based ensemble method for supervised classifica- tion and regression problems. It essentially consists of randomizing strongly both attribute and cut-point choice while splitting a tree node. In the extreme case, it builds totally random- ized trees whose structures are independent of the output values of the learning sample. The strength of the randomization can be tuned to problem specifics by the appropriate choice of a parameter. We evaluate the robustness of the default choice of this parameter, and we also provide insight on how to adjust it in particular situations. Besides accuracy, the main strength of the resulting algorithm is computational efficiency. A bias/variance analysis of the Extra-Trees algorithm is also provided as well as a geometrical and a kernel characterization of the models induced.},
pages = {3--42},
volume = {63},
year = {2006},
date-added = {2010-08-24 14:15:40 +0200},
date-modified = {2010-08-24 14:16:48 +0200},
doi = {10.1007/s10994-006-6226-1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Geurts-2006-Machine%20Learning_Extremely%20randomized.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14297},
rating = {0}
}
@article{Ferrando:2009p494,
author = {Pere J Ferrando and Cristina Anguiano-Carrasco},
journal = {Multivariate Behavioral Research},
title = {Assessing the Impact of Faking on Binary Personality Measures: An IRT-Based
Multiple-Group Factor Analytic Procedure},
abstract = {This article proposes a model-based multiple-group procedure for assessing the impact of faking on personality measures and the scores derived from these measures. The assessment is at the item level and the base model, which is intended for binary items, can be parameterized both as an Item Response Theory (IRT) model and as an Item Factor-Analytic (FA) model. The specific solution proposed is bidimensional, and the propensity to fake is specifically modeled as a second factor. The approach we propose allows (a) previous separate results obtained either from IRT-based or from FA-based studies to be related and (b) some hypotheses on measurement invariance and structural changes to be assessed in more detail. The procedure was used in a study based on 2 personality scales that were administered in 1 group under standard instructions and in another group under faking-good instructions. For both scales, results suggested that strong measurement invariance was attained. Also, for both scales substantial mean changes were obtained in the propensity-to-fake factor but not in the content factors. The implications of the results and future research directions are discussed.},
pages = {497--524},
volume = {44},
year = {2009},
date-added = {2010-01-03 12:59:54 +0100},
date-modified = {2010-01-03 13:01:32 +0100},
doi = {10.1080/00273170903103340},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ferrando-2009-Multivariate%20Behavioral%20Research_Assessing%20the%20Impact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p494},
rating = {0}
}
@article{Handl:2006p13157,
author = {J Handl and J Knowles},
journal = {International Journal of Computational Intelligence Research},
title = {Feature Subset Selection in Unsupervised Learning via Multiobjective Optimization},
abstract = {selection and its formulation as a multiobjective optimization problem are investigated. Two existing multiobjective methods from the literature are revisited and used as the basis for an algorithmic framework, encompassing both wrapper and filter methods of feature selection. A number of alternative algorithms implemented within this framework are then evaluated using an extensive data test suite; the main effect investigated is that of the choice of a primary objective function (a secondary objective function is used only to militate against an inherent cardinality bias affecting all methods of feature subset evaluation). Partic- ular attention is paid in the study to high-dimensional data sets in which the number of features is much larger than the number of data items.},
number = {3},
pages = {217--238},
volume = {2},
year = {2006},
date-added = {2010-06-26 11:15:31 +0200},
date-modified = {2010-06-26 11:16:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Handl-2006-International%20Journal%20of%20Computational%20Intelligence%20Research_Feature%20Subset%20Selec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13157},
rating = {0}
}
@article{Kolevzon:2006p9969,
author = {Alexander Kolevzon and Mark Weiser and Raz Gross and Gad Lubin and Haim Y Knobler and James Schmeidler and Jeremy M Silverman and Abraham Reichenberg},
journal = {Am J Psychiatry},
title = {Effects of season of birth on autism spectrum disorders: fact or fiction?},
abstract = {OBJECTIVE: This study attempted to examine the relationship between month and season of birth and risk for autism spectrum disorders. METHOD: The cohort included all Jewish individuals born in Israel over 5 consecutive years (N=311,169) and assessed by the Israeli Draft Board as part of the mandatory assessment of eligibility for military service conducted at age 17. The outcome of autism spectrum disorders was ascertained from the Draft Board Medical Registry, which contains information about medical and psychiatric disorders for this population of adolescents. RESULTS: There was no association between month or season of birth and the prevalence of autistic spectrum disorders. CONCLUSIONS: The findings from this historical, population-based cohort study do not support an association between season of birth and autistic spectrum disorders.},
affiliation = {Department of Psychiatry, Mount Sinai School of Medicine, One Gustave L. Levy Place, Box 1230, New York, NY 10029, USA.},
number = {7},
pages = {1288--90},
volume = {163},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Adolescent, Female, Male, Humans, Seasons, Birth Rate, Registries, Israel, Cohort Studies, Military Personnel, Risk Factors, Prevalence, Autistic Disorder},
date-added = {2010-03-31 19:44:22 +0200},
date-modified = {2010-07-29 19:51:28 +0200},
doi = {10.1176/appi.ajp.163.7.1288},
pii = {163/7/1288},
pmid = {16816239},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kolevzon-2006-Am%20J%20Psychiatry_Effects%20of%20season%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9969},
rating = {0}
}
@article{Pickard:2009p7226,
author = {A Simon Pickard and James W Shaw and Hsiang-Wen Lin and Peter C Trask and Neil K Aaronson and Todd A Lee and David Cella},
journal = {Value Health},
title = {A patient-based utility measure of health for clinical trials of cancer therapy based on the European Organization for the Research and Treatment of Cancer Quality of Life Questionnaire},
abstract = {BACKGROUND: The European Organization for the Research and Treatment of Cancer Quality of Life Questionnaire (QLQ-C30) is a widely used quality-of-life measure in oncology. The ability to translate QLQ-C30 responses into utility scores would further expand its use in medical decision-making. The aims of this study were to: 1) map QLQ-C30 responses onto patient time trade-off utility scores; and 2) compare a multiattribute approach to a global evaluation approach to modeling utility scores. METHODS: Two distinct approaches were applied to data from 1432 cancer patients. The multiattribute approach used psychometric analysis and expert input to select a subset of functioning and symptom scale items for modeling. The second approach focused on global health and quality-of-life items based on a conceptual model. Model selection criteria included parsimony, statistical significance and logical consistency of parameter estimates, predictive accuracy, number of states described, and scale range. RESULTS: The optimal multiattribute model included nine variables for five items from different scales, described 144 unique states, predicted values ranging from 0.63 to 1.00, but it had poor predictive accuracy (cross-validation pseudo-R(2) = 0.056). The best-fitting global approach-based model described 24 unique states using eight indicators for two items from one scale (plus a constant) and predicted values ranging from 0.17 to 1.00 (cross-validation pseudo-R(2) = 0.127). CONCLUSIONS: Multiattribute models produced a greater number of unique predicted values, while global models exhibited more desirable statistical properties and a wider range of values. The recommended models will enable users to predict cancer patients' utilities from existing and future QLQ-C30 data sets.},
affiliation = {Center for Pharmacoeconomic Research, College of Pharmacy, University of Illinois at Chicago, Chicago, IL 60612-7230, USA. pickard1@uic.edu},
number = {6},
pages = {977--88},
volume = {12},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Sickness Impact Profile, Male, Humans, Regression Analysis, Quality of Life, Questionnaires, Europe, Academic Medical Centers, Female, Psychometrics, Middle Aged, Neoplasms, Adult, United States, Activities of Daily Living, Aged, Algorithms, Clinical Trials as Topic},
date-added = {2010-03-08 19:33:30 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
doi = {10.1111/j.1524-4733.2009.00545.x},
pii = {VHE545},
pmid = {19402850},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7226},
rating = {0}
}
@article{Vezina:1999p13998,
author = {J V{\'e}zina and P Landreville and P Bourque and L Blanchard},
title = {Questionnaire de D{\'e}pression de Beck
Etude psychom{\'e}trique aupr{\`e}s d'une population {\^a}g{\'e}e francophone},
abstract = {Psychometrics propreties of the Beck Depression Inventory are questionable for elderly francophones. Consequently, the aim of this study is to assess the reliability and the validity of the French version of the BDI (Questionnaire de D{\'e}pression de Beck: Bourque {\&} Beaudette, 1982) for this group. Six hundred and forty-three French-speaking elders from Quebec and New-Brunswick answered the BDI. The reliability coefficients showed satisfactory internal consistency (.85), split-half reliability (.76) and test-retest correlation (.74). A principal-components analysis yielded three factors (somatic complaints, negative view of the self, and helplessness) accounting for 46.9% of the total variance. The choice of an optimal cut-off scores and the use of the BDI with the elderly are also discussed in this study.},
year = {1999},
date-added = {2010-08-04 09:24:30 +0200},
date-modified = {2010-08-04 09:25:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/V%C3%A9zina-1999-_Questionnaire%20de%20De%CC%81.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13998},
rating = {0}
}
@article{Cawley:2006p14224,
author = {G C Cawley},
title = {Leave-One-Out Cross-Validation Based Model Selection Criteria for Weighted LS-SVMs},
abstract = {While the model parameters of many kernel learn- ing methods are given by the solution of a convex optimisation problem, the selection of good values for the kernel and regularisation parameters, i.e. model selection, is much less straight-forward. This paper describes a simple and efficient approach to model selection for weighted least-squares support vector machines, and compares a variety of model selection criteria based on leave-one-out cross-validation. An external cross-validation procedure is used for performance estimation, with model selection performed independently in each fold to avoid selection bias. The best entry based on these methods was ranked in joint first place in the WCCI-2006 performance prediction challenge, demonstrating the effectiveness of this approach.},
year = {2006},
date-added = {2010-08-22 21:08:03 +0200},
date-modified = {2010-08-22 21:08:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cawley-2006-_Leave-One-Out%20Cross.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14224},
rating = {0}
}
@article{B:2002p543,
author = {Trond B{\o} and Inge Jonassen},
journal = {Genome Biol},
title = {New feature subset selection procedures for classification of expression profiles},
abstract = {BACKGROUND: Methods for extracting useful information from the datasets produced by microarray experiments are at present of much interest. Here we present new methods for finding gene sets that are well suited for distinguishing experiment classes, such as healthy versus diseased tissues. Our methods are based on evaluating genes in pairs and evaluating how well a pair in combination distinguishes two experiment classes. We tested the ability of our pair-based methods to select gene sets that generalize the differences between experiment classes and compared the performance relative to two standard methods. To assess the ability to generalize class differences, we studied how well the gene sets we select are suited for learning a classifier. RESULTS: We show that the gene sets selected by our methods outperform the standard methods, in some cases by a large margin, in terms of cross-validation prediction accuracy of the learned classifier. We show that on two public datasets, accurate diagnoses can be made using only 15-30 genes. Our results have implications for how to select marker genes and how many gene measurements are needed for diagnostic purposes. CONCLUSION: When looking for differential expression between experiment classes, it may not be sufficient to look at each gene in a separate universe. Evaluating combinations of genes reveals interesting information that will not be discovered otherwise. Our results show that class prediction can be improved by taking advantage of this extra information.},
affiliation = {Department of Informatics, University of Bergen, N-5020 Bergen, Norway. trondb@ii.uib.no},
number = {4},
pages = {RESEARCH0017},
volume = {3},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Colonic Neoplasms, Colon, Humans, Reproducibility of Results, Leukemia, Sensitivity and Specificity, Gene Expression Profiling, Oligonucleotide Array Sequence Analysis, RNA: Messenger, Molecular Diagnostic Techniques},
date-added = {2010-01-03 14:14:09 +0100},
date-modified = {2010-01-03 14:14:09 +0100},
pmid = {11983058},
local-url = {file://localhost/Users/chl/Dropbox/Papers/B%C3%B8-2002-Genome%20Biol_New%20feature%20subset%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p543},
rating = {0}
}
@article{Bruce:2003p13509,
author = {Bonnie Bruce and James F Fries},
journal = {J Rheumatol},
title = {The Stanford Health Assessment Questionnaire: a review of its history, issues, progress, and documentation},
abstract = {Over the last 2 decades, assessment of patient health status has undergone a dramatic paradigm shift, evolving from a predominant reliance on biochemical and physical measurements to an emphasis upon health outcomes based on the patient's personal appreciation of their illness. The Health Assessment Questionnaire (HAQ), published in 1980, was among the first instruments based on patient centered dimensions. The HAQ was designed to represent a model of patient oriented outcome assessment and has played a major role in diverse areas such as prediction of successful aging, inversion of the therapeutic pyramid in rheumatoid arthritis (RA), quantification of nonsteroidal antiinflammatory drug gastropathy, development of risk factor models for osteoarthrosis, and examination of mortality risks in RA. The HAQ has established itself as a valuable, effective, and sensitive tool for measurement of health status. It has increased the credibility and use of validated self-report measurement techniques as a quantifiable set of hard data endpoints and has contributed to a new appreciation of outcome assessment. We review the development, content, and dissemination of the HAQ and provide reference sources for its uses, translations, and validations. We discuss contemporary issues regarding outcome assessment instruments relative to the HAQ's identity and utility. These include: (1) the issue of labeling instruments as generic versus disease-specific; (2) floor and ceiling effects in scales such as "disability"; (3) distances between values on scales; and (4) the continuing introduction of new measurement instruments and their potential effects.},
affiliation = {Division of Immunology and Rheumatology, Stanford University School of Medicine, Palo Alto, California, USA. bbruce@Stanford.edu},
number = {1},
pages = {167--78},
volume = {30},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Outcome Assessment (Health Care), Humans, Health Status, Osteoarthritis, Disability Evaluation, Arthritis: Rheumatoid, History: 20th Century},
date-added = {2010-07-07 21:02:35 +0200},
date-modified = {2010-07-29 19:52:38 +0200},
pii = {0315162X-30-167},
pmid = {12508408},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bruce-2003-J%20Rheumatol_The%20Stanford%20Health.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13509},
rating = {0}
}
@article{Sladden:1998p4525,
author = {T J Sladden and A R Hickey and T M Dunn and J R Beard},
journal = {Aust N Z J Public Health},
title = {Hepatitis C virus infection: impacts on behaviour and lifestyle},
abstract = {A cross-sectional study was conducted of persons notified with hepatitis C virus (HCV) infection on the NSW North Coast during 1993 and 1994. The personal impact of infection was investigated using a self-administered questionnaire. Many cases were currently well, however nearly half reported fatigue and other adverse physical/mental/social outcomes were noted. Tobacco use by subjects was high. People with HCV infection require continued support via appropriate screening, referral and treatment services; access to information; and countering community discrimination, stereotyping and concern about HCV.},
affiliation = {Northern Rivers Institute of Health and Research, Northern Rivers Area Health Service, New South Wales. tslad@doh.health.nsw.gov.au},
number = {4},
pages = {509--11},
volume = {22},
year = {1998},
month = {Jun},
language = {eng},
keywords = {Male, Female, Australia, Adaptation: Psychological, Prognosis, Cross-Sectional Studies, Questionnaires, Hepatitis C, Humans, Risk Factors, Life Style, Health Knowledge: Attitudes: Practice},
date-added = {2010-01-29 22:13:34 +0100},
date-modified = {2010-01-29 22:13:34 +0100},
pmid = {9659782},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4525},
rating = {0}
}
@article{Savitz:2006p13188,
author = {J Savitz and M Solms and R Ramesar},
journal = {Genes Brain Behav},
title = {The molecular genetics of cognition: dopamine, COMT and BDNF},
abstract = {The important contribution of genetic factors to the development of cognition and intelligence is widely acknowledged, but identification of these genes has proven to be difficult. Given a variety of evidence implicating the prefrontal cortex and its dopaminergic circuits in cognition, most of the research conducted to date has focused on genes regulating dopaminergic function. Here we review the genetic association studies carried out on catechol-O-methyltransferase (COMT) and the dopamine receptor genes, D1, D2 and D4. In addition, the evidence implicating another promising candidate gene, brain-derived neurotrophic factor (BDNF) in neuropsychological function, is assessed. Both the COMT val158met polymorphism and the BDNF val66met variant appear to influence cognitive function, but the specific neurocognitive processes involved continue to be a matter of debate. Part of the difficulty is distinguishing between false positives, pleiotropy and the influence of a general intelligence factor, g. Also at issue is the complexity of the relevant neuromolecular pathways, which make the inference of simple causal relationships difficult. The implications of molecular genetic cognitive research for psychiatry are discussed in light of these data.},
affiliation = {MRC/UCT Human Genetics Research Unit, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa. js@cormack.uct.ac.za},
number = {4},
pages = {311--28},
volume = {5},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Molecular Biology, Humans, Cognition Disorders, Prefrontal Cortex, Dopamine, Gene Expression Regulation, Animals, Polymorphism: Genetic, Catechol O-Methyltransferase, Cognition, Receptors: Dopamine, Brain-Derived Neurotrophic Factor},
date-added = {2010-07-01 15:19:32 +0200},
date-modified = {2010-07-01 15:19:32 +0200},
doi = {10.1111/j.1601-183X.2005.00163.x},
pii = {GBB163},
pmid = {16716201},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Savitz-2006-Genes%20Brain%20Behav_The%20molecular%20geneti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13188},
read = {Yes},
rating = {0}
}
@article{Belvedere:2010p12843,
author = {S L Belvedere and N A de Morton},
journal = {Journal of Clinical Epidemiology},
title = {Application of Rasch analysis in health care is increasing and is applied for variable reasons in mobility instruments},
abstract = {Objective: To identify the frequency of Rasch analysis use in health instrument development or refinement and the characteristics of Rasch application in mobility scales.
Study Design and Setting: The entire databases of Medline, CINAHL, PEDro, EMBASE, Cochrane Central Register of Controlled Trials, and Cochrane Database of Systematic Reviews were searched until January 2009. Articles that reported the development or refine- ment of health instruments using Rasch analysis were included. Of the 234 articles that met inclusion, 10 were categorized as ``mobility'' instruments. Data were extracted relating to each instrument and the use of Rasch analysis in the development or refinement of the instruments.
Results: The number of articles reporting the use of Rasch analysis of health instruments is increasing, from 1 article in 1987 to 48 articles in 2007. Of the 10 mobility instruments examined, the primary reason Rasch was used varied. Reasons included assessing instru- ment unidimensionality, differential item functioning, rating categories, item hierarchy, and redundant items.
Conclusion: The application of Rasch analysis in health instrument development has markedly increased in recent years. However, few mobility instruments have been developed or refined using Rasch analysis. The reasons that the Rasch model was used varied across mobility instruments.},
year = {2010},
date-added = {2010-06-21 20:09:35 +0200},
date-modified = {2010-06-21 20:10:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Belvedere-2010-Journal%20of%20Clinical%20Epidemiology_Application%20of%20Rasch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12843},
rating = {0}
}
@article{Maus:2010p12915,
author = {B Maus and G J P van Breukelen and R Goebel and M P F Berger},
journal = {Psychometrika},
title = {Optimization of blocked designs in fmri studies},
abstract = {Blocked designs in functional magnetic resonance imaging (fMRI) are useful to localize functional brain areas. A blocked design consists of different blocks of trials of the same stimulus type and is charac- terized by three factors: the length of blocks, i.e., number of trials per blocks, the ordering of task and rest blocks, and the time between trials within one block. Optimal design theory was applied to find the opti- mal combination of these three design factors. Furthermore, different error structures were used within a general linear model for the analysis of fMRI data, and the maximin criterion was applied to find designs which are robust against misspecification of model parameters.},
number = {2},
pages = {373--390},
volume = {75},
year = {2010},
date-added = {2010-06-24 17:50:10 +0200},
date-modified = {2010-06-24 17:51:24 +0200},
doi = {10.1007/S11336-010-9159-3},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maus-2010-Psychometrika_Optimization%20of%20bloc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12915},
rating = {0}
}
@article{Parekh:2003p5383,
author = {Priti I Parekh and James A Blumenthal and Michael A Babyak and Kari Merrill and Robert M Carney and R Duane Davis and Scott M Palmer and INSPIRE Investigators},
journal = {Chest},
title = {Psychiatric disorder and quality of life in patients awaiting lung transplantation},
abstract = {STUDY OBJECTIVE: To examine the relationship between psychiatric comorbidity and quality of life in patients awaiting lung transplantation. SETTING: Duke University Medical Center/Lung Transplantation Program. PARTICIPANTS: One hundred patients with end-stage pulmonary disease listed for lung transplantation. MEASUREMENTS AND RESULTS: Twenty-five percent (n = 25) of the sample met diagnostic criteria for at least one current mood or anxiety disorder. Controlling for age, gender, ethnicity, percentage of predicted FEV, and lung disease diagnosis, patients with a current psychiatric diagnosis reported poorer general quality of life (p < 0.0001), poorer disease-specific quality of life (p < 0.0001), greater shortness of breath (p = 0.01), more symptoms of psychological distress (p < 0.0001), lower levels of social support (p < 0.0001), and fewer positive health habits (p < 0.04) than their counterparts without a psychiatric diagnosis. CONCLUSIONS: Psychiatric comorbidity affects a significant portion of patients awaiting lung transplantation and is associated with decreased health-related quality of life.},
affiliation = {Department of Psychiatry and Behavioral Sciences, Duke University Medical Center, Durham, NC 27710, USA.},
number = {5},
pages = {1682--8},
volume = {124},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Female, Waiting Lists, Quality of Life, Mental Disorders, Humans, Mood Disorders, Anxiety Disorders, Questionnaires, Male, Health Status, Stress: Psychological, Psychiatric Status Rating Scales, Middle Aged, Lung Diseases, Lung Transplantation},
date-added = {2010-02-11 10:30:37 +0100},
date-modified = {2010-02-11 10:30:37 +0100},
pmid = {14605035},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parekh-2003-Chest_Psychiatric%20disorder.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5383},
rating = {0}
}
@article{London:2009p8905,
author = {Edythe D London and Steven M Berman and Parvenah Mohammadian and Terrie Ritchie and Mark A Mandelkern and Mary K W Susselman and Florian Schlagenhauf and Ernest P Noble},
journal = {Psychiatry Res},
title = {Effect of the TaqIA polymorphism on ethanol response in the brain},
abstract = {Acute ethanol administration increases striatal dopamine release and decreases cerebral glucose metabolism. The A1 allele of the ANKK1 TaqIa polymorphism is associated with lower dopaminergic tone and greater risk for alcoholism, but the mechanisms are unclear. We hypothesized that ethanol would be more reinforcing in men with the A1 allele (A1+) than in men without it (A1-), as indicated by decreased anxiety and fatigue and altered activity in associated brain regions. In a pilot study, A1+ and A1- men (6/group) drank ethanol (0.75 ml/kg) or placebo beverages on each of 2 days. Positron emission tomography with [F-18]fluorodeoxyglucose (FDG) was used to assess regional cerebral glucose metabolism as a measure of relative brain activity while participants performed a vigilance task. Significant findings were as follows: Ethanol decreased anxiety and fatigue in A1+ men but increased them in A1- men. Ethanol increased activity in the striatum and insula of A1+ men, but reduced activity in the anterior cingulate of A1- men. Reduced anxiety and fatigue in A1+ men were significantly associated with greater activity within a right orbitofrontal region previously implicated in cognitive control, and less activity in structures associated with anxiety (amygdala), fatigue (thalamus), and craving/reinforcement (striatum). In contrast, anxiety and fatigue changes were unrelated to brain activity in A1- men. Although these results require replication in a larger sample, alcohol-induced negative reinforcement may explain the greater risk for alcoholism associated with the A1 allele.},
affiliation = {Department of Psychiatry and Biobehavioral Sciences, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA 90095, United States. Elondon@mednet.ucla.edu},
number = {3},
pages = {163--70},
volume = {174},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Central Nervous System Depressants, Reaction Time, Brain Mapping, Brain, Young Adult, Fluorodeoxyglucose F18, Protein-Serine-Threonine Kinases, Adult, Alleles, Self Concept, Ethanol, Glucose, Fatigue, Gene Frequency, Male, Humans, Arousal, Neuropsychological Tests, Positron-Emission Tomography, Polymorphism: Genetic, Anxiety, Cerebrovascular Circulation},
date-added = {2010-03-22 12:55:37 +0100},
date-modified = {2010-07-29 19:45:28 +0200},
doi = {10.1016/j.pscychresns.2009.07.008},
pii = {S0925-4927(09)00173-5},
pmid = {19914044},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0925-4927(09)00173-5},
local-url = {file://localhost/Users/chl/Dropbox/Papers/London-2009-Psychiatry%20Res_Effect%20of%20the%20TaqIA.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8905},
rating = {0}
}
@article{Lippa:2010p13902,
author = {Richard A Lippa},
journal = {Arch Sex Behav},
title = {Sex differences in personality traits and gender-related occupational preferences across 53 nations: testing evolutionary and social-environmental theories},
abstract = {Using data from over 200,000 participants from 53 nations, I examined the cross-cultural consistency of sex differences for four traits: extraversion, agreeableness, neuroticism, and male-versus-female-typical occupational preferences. Across nations, men and women differed significantly on all four traits (mean ds = -.15, -.56, -.41, and 1.40, respectively, with negative values indicating women scoring higher). The strongest evidence for sex differences in SDs was for extraversion (women more variable) and for agreeableness (men more variable). United Nations indices of gender equality and economic development were associated with larger sex differences in agreeableness, but not with sex differences in other traits. Gender equality and economic development were negatively associated with mean national levels of neuroticism, suggesting that economic stress was associated with higher neuroticism. Regression analyses explored the power of sex, gender equality, and their interaction to predict men's and women's 106 national trait means for each of the four traits. Only sex predicted means for all four traits, and sex predicted trait means much more strongly than did gender equality or the interaction between sex and gender equality. These results suggest that biological factors may contribute to sex differences in personality and that culture plays a negligible to small role in moderating sex differences in personality.},
affiliation = {Department of Psychology, California State University, Fullerton, Fullerton, CA 92834, USA. rlippa@fullerton.edu},
number = {3},
pages = {619--36},
volume = {39},
year = {2010},
month = {Jun},
language = {eng},
keywords = {Male, Female, Models: Psychological, Cross-Cultural Comparison, Environment, Evolution, Social Behavior, Personality, Economic Development, Sex Characteristics, Culture, Adult, Occupations, Regression Analysis, Humans},
date-added = {2010-07-29 18:35:22 +0200},
date-modified = {2010-07-29 18:35:22 +0200},
doi = {10.1007/s10508-008-9380-7},
pmid = {18712468},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13902},
rating = {0}
}
@article{Stewart:2010p10199,
author = {Jennifer L Stewart and Rebecca Levin Silton and Sarah M Sass and Joscelyn E Fisher and J Christopher Edgar and Wendy Heller and Gregory A Miller},
journal = {Int J Psychophysiol},
title = {Attentional bias to negative emotion as a function of approach and withdrawal anger styles: an ERP investigation},
abstract = {Although models of emotion have focused on the relationship between anger and approach motivation associated with aggression, anger is also related to withdrawal motivation. Anger-out and anger-in styles are associated with psychopathology and may disrupt the control of attention within the context of negatively valenced information. The present study used event-related brain potentials (ERPs) to examine whether anger styles uniquely predict attentional bias to negative stimuli during an emotion-word Stroop task. High anger-out predicted larger N200, P300, and N400 to negative words, suggesting that aggressive individuals exert more effort to override attention to negative information. In contrast, high anger-in predicted smaller N400 amplitude to negative words, indicating that negative information may be readily available (primed) for anger suppressors, requiring fewer resources. Individuals with an anger-out style might benefit from being directed away from provocative stimuli that might otherwise consume their attention and foster overt aggression. Findings indicating that anger-out and anger-in were associated with divergent patterns of brain activity provide support for distinguishing approach- and withdrawal-related anger styles.},
affiliation = {Department of Psychology, University of Arizona, Tucson, AZ 85721, USA. jlstewar@email.arizona.edu},
number = {1},
pages = {9--18},
volume = {76},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-04-01 18:18:11 +0200},
date-modified = {2010-04-01 18:18:11 +0200},
doi = {10.1016/j.ijpsycho.2010.01.008},
pii = {S0167-8760(10)00015-2},
pmid = {20109502},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10199},
rating = {0}
}
@article{Christensen:2009p3382,
author = {G B Christensen and S Knight and N J Camp},
journal = {Genet Epidemiol},
title = {The sumLINK statistic for genetic linkage analysis in the presence of heterogeneity},
abstract = {We present the "sumLINK" statistic--the sum of multipoint LOD scores for the subset of pedigrees with nominally significant linkage evidence at a given locus--as an alternative to common methods to identify susceptibility loci in the presence of heterogeneity. We also suggest the "sumLOD" statistic (the sum of positive multipoint LOD scores) as a companion to the sumLINK. sumLINK analysis identifies genetic regions of extreme consistency across pedigrees without regard to negative evidence from unlinked or uninformative pedigrees. Significance is determined by an innovative permutation procedure based on genome shuffling that randomizes linkage information across pedigrees. This procedure for generating the empirical null distribution may be useful for other linkage-based statistics as well. Using 500 genome-wide analyses of simulated null data, we show that the genome shuffling procedure results in the correct type 1 error rates for both the sumLINK and sumLOD. The power of the statistics was tested using 100 sets of simulated genome-wide data from the alternative hypothesis from GAW13. Finally, we illustrate the statistics in an analysis of 190 aggressive prostate cancer pedigrees from the International Consortium for Prostate Cancer Genetics, where we identified a new susceptibility locus. We propose that the sumLINK and sumLOD are ideal for collaborative projects and meta-analyses, as they do not require any sharing of identifiable data between contributing institutions. Further, loci identified with the sumLINK have good potential for gene localization via statistical recombinant mapping, as, by definition, several linked pedigrees contribute to each peak.},
affiliation = {Department of Biomedical Informatics, University of Utah School of Medicine, Salt Lake City, Utah 84108-1266, USA. bryce.christensen@utah.edu},
number = {7},
pages = {628--36},
volume = {33},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Molecular Epidemiology, Humans, Computer Simulation, Linkage (Genetics), Pedigree, Statistics as Topic, Male, Research Design, Models: Genetic, Lod Score, False Positive Reactions, Prostatic Neoplasms, Genome-Wide Association Study, Genome, Models: Statistical},
date-added = {2010-01-15 14:41:40 +0100},
date-modified = {2010-01-15 14:41:40 +0100},
doi = {10.1002/gepi.20414},
pmid = {19217022},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3382},
rating = {0}
}
@article{Hartley:1968p6320,
author = {H O Hartley and J N K Rao},
journal = {Biometrika},
title = {A New Estimation Theory for Sample Surveys},
number = {3},
pages = {547--557},
volume = {55},
year = {1968},
date-added = {2010-02-20 21:14:55 +0100},
date-modified = {2010-02-20 21:15:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hartley-1968-Biometrika_A%20New%20Estimation%20The.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6320},
rating = {0}
}
@article{Tang:2010p1710,
author = {Man-Lai Tang and Man-Ho Ling and Leevan Ling and Guoliang Tian},
journal = {Stat Med},
title = {Confidence intervals for a difference between proportions based on paired data},
abstract = {We construct several explicit asymptotic two-sided confidence intervals (CIs) for the difference between two correlated proportions using the method of variance of estimates recovery (MOVER). The basic idea is to recover variance estimates required for the proportion difference from the confidence limits for single proportions. The CI estimators for a single proportion, which are incorporated with the MOVER, include the Agresti-Coull, the Wilson, and the Jeffreys CIs. Our simulation results show that the MOVER-type CIs based on the continuity corrected Phi coefficient and the Tango score CI perform satisfactory in small sample designs and spare data structures. We illustrate the proposed CIs with several real examples.},
affiliation = {Department of Mathematics, Hong Kong Baptist University, Hong Kong, People's Republic of China. mltang@math.hkbu.edu.hk},
number = {1},
pages = {86--96},
volume = {29},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-09 19:25:56 +0100},
date-modified = {2010-01-09 19:25:56 +0100},
doi = {10.1002/sim.3738},
pmid = {19823977},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tang-2010-Stat%20Med_Confidence%20intervals.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1710},
rating = {0}
}
@article{Ziegler:2008p4075,
author = {Andreas Ziegler and Inke R K{\"o}nig and John R Thompson},
journal = {Biom J},
title = {Biostatistical aspects of genome-wide association studies},
abstract = {To search the entire human genome for association is a novel and promising approach to unravelling the genetic basis of complex genetic diseases. In these genome-wide association studies (GWAs), several hundreds of thousands of single nucleotide polymorphisms (SNPs) are analyzed at the same time, posing substantial biostatistical and computational challenges. In this paper, we discuss a number of biostatistical aspects of GWAs in detail. We specifically consider quality control issues and show that signal intensity plots are a sine qua condition non in today's GWAs. Approaches to detect and adjust for population stratification are briefly examined. We discuss different strategies aimed at tackling the problem of multiple testing, including adjustment of p -values, the false positive report probability and the false discovery rate. Another aspect of GWAs requiring special attention is the search for gene-gene and gene-environment interactions. We finally describe multistage approaches to GWAs.},
affiliation = {Institut f{\"u}r Medizinische Biometrie und Statistik, Universit{\"a}t zu L{\"u}beck, Ratzeburger Allee 160, 23538 L{\"u}beck, Germany. ziegler@imbs.uni-luebeck.de},
number = {1},
pages = {8--28},
volume = {50},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Data Interpretation: Statistical, Biometry, Polymorphism: Single Nucleotide, Genome: Human, Humans, Quality Control, Genotype, Oligonucleotide Array Sequence Analysis, Linkage (Genetics), Genetic Predisposition to Disease},
date-added = {2010-01-19 15:53:21 +0100},
date-modified = {2010-07-29 19:19:18 +0200},
doi = {10.1002/bimj.200710398},
pmid = {18217698},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ziegler-2008-Biom%20J_Biostatistical%20aspec.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4075},
read = {Yes},
rating = {4}
}
@article{Paul:2006p8375,
author = {Isabella Paul and Christof Bott and Christian Wienbruch and Thomas R Elbert},
journal = {BMC Psychiatry},
title = {Word Processing differences between dyslexic and control children},
abstract = {BACKGROUND: The aim of this study was to investigate brain responses triggered by different wordclasses in dyslexic and control children. The majority of dyslexic children have difficulties to phonologically assemble a word from sublexical parts following grapheme-to-phoneme correspondences. Therefore, we hypothesised that dyslexic children should mainly differ from controls processing low frequent words that are unfamiliar to the reader. METHODS: We presented different wordclasses (high and low frequent words, pseudowords) in a rapid serial visual word (RSVP) design and performed wavelet analysis on the evoked activity. RESULTS: Dyslexic children had lower evoked power amplitudes and a higher spectral frequency for low frequent words compared to control children. No group differences were found for high frequent words and pseudowords. Control children had higher evoked power amplitudes and a lower spectral frequency for low frequent words compared to high frequent words and pseudowords. This pattern was not present in the dyslexic group. CONCLUSION: Dyslexic children differed from control children only in their brain responses to low frequent words while showing no modulated brain activity in response to the three word types. This might support the hypothesis that dyslexic children are selectively impaired reading words that require sublexical processing. However, the lacking differences between word types raise the question if dyslexic children were able to process the words presented in rapid serial fashion in an adequate way. Therefore the present results should only be interpreted as evidence for a specific sublexical processing deficit with caution.},
affiliation = {Department of Psychology, University of Konstanz, PO-Box D 25, 78457 Konstanz, Germany. Isabella.Paul@uni-konstanz.de},
pages = {5},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Vocabulary, Male, Form Perception, Psycholinguistics, Dyslexia, Phonetics, Female, Brain, Reading, Child, Humans, Temporal Lobe, Verbal Behavior, Frontal Lobe, Evoked Potentials: Visual, Semantics},
date-added = {2010-03-21 13:05:48 +0100},
date-modified = {2010-03-21 13:05:48 +0100},
doi = {10.1186/1471-244X-6-5},
pii = {1471-244X-6-5},
pmid = {16441886},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Paul-2006-BMC%20Psychiatry_Word%20Processing%20diff.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8375},
rating = {0}
}
@techreport{Verhelst:1993,
author = {N D Verhelst},
journal = {Techreport},
title = {On the standard errors of parameter estimators in the Rasch model},
affiliation = {Cito},
year = {1993},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1169},
read = {Yes},
rating = {0}
}
@article{Wetterslev:2009p6393,
author = {J{\o}rn Wetterslev and Kristian Thorlund and Jesper Brok and Christian Gluud},
journal = {BMC Med Res Methodol},
title = {Estimating required information size by quantifying diversity in random-effects model meta-analyses},
abstract = {BACKGROUND: There is increasing awareness that meta-analyses require a sufficiently large information size to detect or reject an anticipated intervention effect. The required information size in a meta-analysis may be calculated from an anticipated a priori intervention effect or from an intervention effect suggested by trials with low-risk of bias. METHODS: Information size calculations need to consider the total model variance in a meta-analysis to control type I and type II errors. Here, we derive an adjusting factor for the required information size under any random-effects model meta-analysis. RESULTS: We devise a measure of diversity (D2) in a meta-analysis, which is the relative variance reduction when the meta-analysis model is changed from a random-effects into a fixed-effect model. D2 is the percentage that the between-trial variability constitutes of the sum of the between-trial variability and a sampling error estimate considering the required information size. D2 is different from the intuitively obvious adjusting factor based on the common quantification of heterogeneity, the inconsistency (I2), which may underestimate the required information size. Thus, D2 and I2 are compared and interpreted using several simulations and clinical examples. In addition we show mathematically that diversity is equal to or greater than inconsistency, that is D2 >or= I2, for all meta-analyses. CONCLUSION: We conclude that D2 seems a better alternative than I2 to consider model variation in any random-effects meta-analysis despite the choice of the between trial variance estimator that constitutes the model. Furthermore, D2 can readily adjust the required information size in any random-effects model meta-analysis.},
affiliation = {Copenhagen Trial Unit, Centre for Clinical Intervention Research, Department 3344, Rigshospitalet, Copenhagen University Hospital, Blegdamsvej 9, DK-2100 Copenhagen {\O}, Denmark. Wetterslev@ctu.rh.dk},
pages = {86},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Meta-Analysis as Topic, Statistics as Topic, Sample Size, Randomized Controlled Trials as Topic},
date-added = {2010-02-23 08:25:56 +0100},
date-modified = {2010-02-23 08:25:56 +0100},
doi = {10.1186/1471-2288-9-86},
pii = {1471-2288-9-86},
pmid = {20042080},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6393},
rating = {0}
}
@article{Copeland:2009p6815,
author = {William Copeland and Lilly Shanahan and E Jane Costello and Adrian Angold},
journal = {J Child Psychol Psychiatry},
title = {Configurations of common childhood psychosocial risk factors},
abstract = {BACKGROUND: Co-occurrence of psychosocial risk factors is commonplace, but little is known about psychiatrically-predictive configurations of psychosocial risk factors. METHODS: Latent class analysis (LCA) was applied to 17 putative psychosocial risk factors in a representative population sample of 920 children ages 9 to 17. The resultant class structure was retested in a representative population sample of 1420 children aged 9 to 13. In each sample, the child and one parent were interviewed with the Child and Adolescent Psychiatric Assessment. Concurrent psychiatric status was used to validate class membership. RESULTS: LCA identified five latent classes in both samples: two low risk classes; two moderate risk classes both involving family poverty configured with various other risk factors; and a high risk class characterized by family relational dysfunction and parental risk characteristics. Of the primary sample, 48.6% were categorized as low risk, 42.8% as moderate risk, and 8.6% as high risk. Moderate risk classes differed in their prediction of disruptive and emotional disorders depending on their specific risk factor configurations. High risk youth had the highest levels of both emotional and disruptive disorders. Combining our latent classes with a cumulative risk approach best accounted for the effects of risk factors on psychopathology in our primary sample. CONCLUSIONS: Particular risk configurations have specific associations with psychiatric disorders. Configurational approaches are an important asset for large-scale epidemiological studies that integrate information about patterns of risk and disorders.},
affiliation = {Developmental Epidemiology Program, Duke University Medical Center, Durham, NC 27710, USA. william.copeland@duke.edu},
number = {4},
pages = {451--9},
volume = {50},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Child Behavior Disorders, Female, Parents, Risk Assessment, Mood Disorders, Humans, North Carolina, Adolescent, Socioeconomic Factors, Social Environment, Child, Attention Deficit and Disruptive Behavior Disorders, Stress: Psychological, Questionnaires, Risk Factors, Mental Disorders},
date-added = {2010-03-05 22:31:32 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
doi = {10.1111/j.1469-7610.2008.02005.x},
pii = {JCPP2005},
pmid = {19220623},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6815},
rating = {0}
}
@article{Steiger:1992,
author = {J H Steiger and R T Fouladi},
journal = {Behavior research methods},
title = {R2: A computer program for interval estimation, power calculation, and hypothesis testing for the squared multiple correlation},
pages = {581--582},
volume = {4},
year = {1992},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-07-29 19:18:35 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2180},
rating = {0}
}
@article{Schwarz:1990,
author = {N Schwarz and J Bienias},
journal = {Applied Cognitive Psychology},
title = {What mediates the impact of response alternatives on frequency reports of mundane behaviors},
abstract = {Previous research demonstrated that respondents assume that the range of precoded response alternatives reflects the researcher's knowledge of the distribution of opinions or behaviours in the population. This assumption may influence respondents' reports in two ways: respondents may either use the range of the response alternatives as a frame of reference in estimating their own behavioural frequencies, or they may be reluctant to report frequencies that appear extreme in the context of the scale. Three experiments using reports of mundane behaviours, namely watching TV and drinking beer, were conducted to differentiate between the frame of reference and the self-presentation hypothesis. The results of all studies favour the frame of reference hypothesis, and suggest that the impact of response alternatives is the more pronounced the less episodic information about the behaviour is accessible in memory. Specifically, proxy-reports were found to be more affected by the range of response alternatives than self-reports (Experiments 1 and 2), and respondents with dispositionally low access to self-related information were found to be more affected than respondents with dispositionally high access to self-related information (Experiment 3). Implications for questionnaire construction are discussed.},
pages = {61--72},
volume = {4},
year = {1990},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p994},
rating = {0}
}
@article{Lin:1986p2912,
author = {C Y Lin and A J Lee},
journal = {Journal of Dairy Science},
title = {Sequential estimation of genetic and phenotypic parameters in multitrait mixed model analysis},
pages = {2696--2703},
volume = {69},
year = {1986},
date-added = {2010-01-13 21:33:26 +0100},
date-modified = {2010-01-13 21:34:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lin-1986-Journal%20of%20Dairy%20Science_Sequential%20estimatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2912},
rating = {0}
}
@article{Kelly:2009p531,
author = {Yvonne Kelly and Amanda Sacker and Ron Gray and John Kelly and Dieter Wolke and Maria A Quigley},
journal = {Int J Epidemiol},
title = {Light drinking in pregnancy, a risk for behavioural problems and cognitive deficits at 3 years of age?},
abstract = {BACKGROUND: The objective of this study was to determine whether there was an association between mothers' light drinking during pregnancy and risk of behavioural problems, and cognitive deficits in their children at age 3 years. METHODS: Data from the first two sweeps of the nationally representative prospective UK Millennium Cohort study were used. Drinking patterns during pregnancy and behavioural and cognitive outcomes were assessed during interviews and home visits. Behavioural problems were indicated by scores falling above defined clinically relevant cut-offs on the parent-report version of the Strengths and Difficulties Questionnaire (SDQ). Cognitive ability was assessed using the naming vocabulary subscale from the British Ability Scale (BAS) and the Bracken School Readiness Assessment (BSRA). RESULTS: There was a J-shaped relationship between mothers drinking during pregnancy and the likelihood of high scores (above the cut-off) on the total difficulties scale of the SDQ and the conduct problems, hyperactivity and emotional symptom SDQ subscales. Children born to light drinkers were less likely to score above the cut-offs compared with children of abstinent mothers. Children born to heavy drinkers were more likely to score above the cut-offs compared with children of abstinent mothers. Boys born to mothers who had up to 1-2 drinks per week or per occasion were less likely to have conduct problems (OR 0.59, 95% CI 0.45-0.77) and hyperactivity (OR 0.71, 95% CI 0.54-0.94). These effects remained in fully adjusted models. Girls were less likely to have emotional symptoms (OR 0.72, 95% CI 0.51-1.01) and peer problems (OR 0.68, 95% CI 0.52-0.92) compared with those born to abstainers. These effects were attenuated in fully adjusted models. Boys born to light drinkers had higher cognitive ability test scores [standard deviations, (95% CI)] BAS 0.15 (0.08-0.23) BSRA 0.24 (0.16-0.32) compared with boys born to abstainers. The difference for BAS was attenuated on adjustment for socio-economic factors, whilst the difference for BSRA remained statistically significant. CONCLUSIONS: Children born to mothers who drank up to 1-2 drinks per week or per occasion during pregnancy were not at increased risk of clinically relevant behavioural difficulties or cognitive deficits compared with children of abstinent mothers. Heavy drinking during pregnancy appears to be associated with behavioural problems and cognitive deficits in offspring at age 3 years whereas light drinking does not.},
affiliation = {Department of Epidemiology and Public Health, University College London, London, WC1E 6BT, UK. y.kelly@ucl.ac.uk},
number = {1},
pages = {129--40},
volume = {38},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Adult, Humans, Adolescent, Epidemiologic Methods, Female, Child Behavior Disorders, Socioeconomic Factors, Developmental Disabilities, Prenatal Exposure Delayed Effects, Alcohol Drinking, Great Britain, Temperance, Child: Preschool, Pregnancy, Cognition Disorders, Sex Factors},
date-added = {2010-01-03 13:44:32 +0100},
date-modified = {2010-01-03 13:44:32 +0100},
doi = {10.1093/ije/dyn230},
pii = {dyn230},
pmid = {18974425},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kelly-2009-Int%20J%20Epidemiol_Light%20drinking%20in%20pr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p531},
read = {Yes},
rating = {0}
}
@article{Miles:2005p2726,
author = {J N V Miles},
journal = {Behavior research methods},
title = {Confirmatory factor analysis using Microsoft Excel},
abstract = {This article presents a method for using Microsoft (MS) Excel for confirmatory factor analysis (CFA). CFA is often seen as an impenetrable technique, and thus, when it is taught, there is frequently little explanation of the mechanisms or underlying calculations. The aim of this article is to demon- strate that this is not the case; it is relatively straightforward to produce a spreadsheet in MS Excel that can carry out simple CFA. It is possible, with few or no programming skills, to effectively program a CFA analysis and, thus, to gain insight into the workings of the procedure.},
number = {4},
pages = {672--676},
volume = {37},
year = {2005},
date-added = {2010-01-13 14:15:59 +0100},
date-modified = {2010-07-29 19:18:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miles-2005-Behavior%20research%20methods_Confirmatory%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2726},
rating = {0}
}
@article{Dobcsanyi:2010p3654,
author = {P Dobcsanyi and D A Preece and L H Soicher},
title = {On balanced incomplete-block designs with repeated blocks},
abstract = {Balanced incomplete-block designs (BIBDs) with repeated blocks are studied and constructed. We continue work initiated by van Lint and Ryser in 1972 and pursued by van Lint in 1973. We concentrate on constructing (v,b,r,k,λ)-BIBDs with repeated blocks, especially those with gcd(b,r,λ) = 1 and r ≤ 20. We obtain new bounds for the multiplicity of a block in terms of the parameters of a BIBD, and improvements to these bounds for a resolvable BIBD. This allows us to answer a question of van Lint about the sufficiency of certain conditions for the existence of a BIBD with repeated blocks.},
date-added = {2010-01-16 20:05:26 +0100},
date-modified = {2010-01-16 20:06:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dobcsanyi--_On%20balanced%20incomple.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3654},
rating = {0}
}
@article{Fehnel:2009p11805,
author = {Sheri Fehnel},
journal = {Value Health},
title = {Establishing Optimal Requirements for Content Validity: A Work in Progress},
affiliation = {RTI Health Solutions, Research Triangle Park, NC, USA.},
pages = {},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-05-23 10:42:12 +0200},
date-modified = {2010-05-23 10:42:13 +0200},
doi = {10.1111/j.1524-4733.2009.00654.x},
pii = {VHE654},
pmid = {19818060},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fehnel-2009-Value%20Health_Establishing%20Optimal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11805},
rating = {0}
}
@article{Jin:2010p11302,
author = {Man Jin and Yixin Fang},
journal = {Biometrics},
title = {Variable Selection in Canonical Discriminant Analysis for Family Studies},
abstract = {Summary. In family studies, canonical discriminant analysis can be used to find linear combinations of phenotypes that exhibit high ratios of between-family to within-family variabilities. But with large numbers of phenotypes, canonical discriminant analysis may overfit. To estimate the predicted ratios associated with the coefficients obtained from canonical discriminant analysis, two methods are developed; one is based on bias correction and the other based on cross-validation. Because the cross-validation is computationally intensive, an approximation to the cross-validation is also developed. Furthermore, these methods can be applied to perform variable selection in canonical discriminant analysis. The proposed methods are illustrated with simulation studies and applications to two real examples.},
affiliation = {Statistics and Evaluation Center, American Cancer Society, Atlanta, Georgia 30303, U.S.A.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-04-26 22:38:19 +0200},
date-modified = {2010-04-26 22:38:21 +0200},
doi = {10.1111/j.1541-0420.2010.01414.x},
pii = {BIOM1414},
pmid = {20374240},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jin-2010-Biometrics_Variable%20Selection%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11302},
rating = {4}
}
@article{Blanchard:2007p5467,
author = {Chris M Blanchard and Janet Kupperman and Phil Sparling and Eric Nehl and Ryan E Rhodes and Kerry S Courneya and Frank Baker and Tiffany Hunt},
journal = {Res Q Exerc Sport},
title = {Ethnicity as a moderator of the theory of planned behavior and physical activity in college students},
abstract = {Most college students do not meet physical activity (PA) guidelines, and ethnic disparities exist. The present study examined the utility of the theory of planned behavior (TPB) in explaining PA intentions and behavior in black and white college students and whether any TPB relationships were moderated by ethnicity. Black (n=170) and white (n=180) students completed a baseline TPB questionnaire and PA assessment 2 weeks later Hierarchical latent variable regression analyses showed that affective attitude, subjective norm, and perceived behavioral control (PBC) were significant predictors of intention for both ethnic groups, whereas the PBC-intention relationship was significantly stronger for white students. Intention significantly predicted PA for both ethnic groups. Furthermore, common and ethnic-specific beliefs were identified.},
affiliation = {Department of Medicine, Dalhousie University, Halifax, Nova Scotia. chris.blanchard@dal.ca},
number = {5},
pages = {531--41},
volume = {78},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Universities, African Americans, European Continental Ancestry Group, Adult, Models: Theoretical, Exercise, Adolescent, Health Behavior, Questionnaires, Intention, Humans, Southeastern United States, Students},
date-added = {2010-02-12 14:09:44 +0100},
date-modified = {2010-02-12 14:09:44 +0100},
pmid = {18274224},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5467},
rating = {0}
}
@article{Pang:2008p12874,
author = {Herbert Pang and Hongyu Zhao},
journal = {BMC Bioinformatics},
title = {Building pathway clusters from Random Forests classification using class votes},
abstract = {BACKGROUND: Recent years have seen the development of various pathway-based methods for the analysis of microarray gene expression data. These approaches have the potential to bring biological insights into microarray studies. A variety of methods have been proposed to construct networks using gene expression data. Because individual pathways do not act in isolation, it is important to understand how different pathways coordinate to perform cellular functions. However, there are no published methods describing how to build pathway clusters that are closely related to traits of interest. RESULTS: We propose to build pathway clusters from pathway-based classification methods. The proposed methods allow researchers to identify clusters of pathways sharing similar functions. These pathways may or may not share genes. As an illustration, our approach is applied to three human breast cancer microarray data sets. We found that our methods yielded consistent and interpretable results for these three data sets. We further investigated one of the pathway clusters found using PubMatrix. We found that informative genes in the pathway clusters do have more publications with keywords, like estrogen receptor, compared with informative genes in other top pathways. In addition, using the shortest path analysis in GeneGo's MetaCore and Human Protein Reference Database, we were able to identify the links which connect the pathways without shared genes within the pathway cluster. CONCLUSION: Our proposed pathway clustering methods allow bioinformaticians and biologists to investigate how informative genes within pathways are related to each other and understand possible crosstalk between pathways in a cluster. Therefore, building pathway clusters may lead to a better understanding of molecular mechanisms affecting a trait of interest, and help generate further biological hypotheses from gene expression data.},
affiliation = {Division of Biostatistics, Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT 06520, USA. herbert.pang@yale.edu},
pages = {87},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Models: Biological, Signal Transduction, Algorithms, Computer Simulation, Proteome, Oligonucleotide Array Sequence Analysis, Models: Statistical, Multigene Family, Data Interpretation: Statistical, Gene Expression Profiling},
date-added = {2010-06-24 12:57:20 +0200},
date-modified = {2010-06-24 12:57:23 +0200},
doi = {10.1186/1471-2105-9-87},
pii = {1471-2105-9-87},
pmid = {18254968},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pang-2008-BMC%20Bioinformatics_Building%20pathway%20clu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12874},
rating = {4}
}
@article{Pattij:2008p11820,
author = {Tommy Pattij and Louk J M J Vanderschuren},
journal = {Trends Pharmacol Sci},
title = {The neuropharmacology of impulsive behaviour},
abstract = {Impulsivity is a heterogenous phenomenon encompassing several behavioural phenomena that can be dissociated neuroanatomically as well as pharmacologically. Impulsivity is pathological in several psychiatric disorders including attention-deficit/hyperactivity disorder (ADHD), drug addiction and personality disorders. Pharmacological agents alleviating impulsivity therefore might substantially aid the treatment of these disorders. The availability of preclinical models that measure various forms of impulsivity has greatly increased our understanding of its neuropharmacological substrates. Historically, deficits in central serotonin neurotransmission are thought to underlie impulsivity. Accumulating evidence also points towards an important role of brain dopamine and noradrenaline systems in impulsive behaviour, consistent with the therapeutic efficacy of amphetamine, methylphenidate and atomoxetine in ADHD. However, recent findings also implicate glutamate and cannabinoid neurotransmission in impulsivity. In this review, we will discuss some of the recent developments in the neuropharmacological manipulation of impulsive behaviour.},
affiliation = {Department of Anatomy and Neurosciences, Center for Neurogenomics and Cognitive Research, VU University Medical Center, Van der Boechorststraat 7, 1081 BT Amsterdam, The Netherlands. t.pattij@vumc.nl },
number = {4},
pages = {192--9},
volume = {29},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Impulsive Behavior, Receptors: N-Methyl-D-Aspartate, Serotonin, Norepinephrine, Receptor: Cannabinoid: CB1, Humans, Neurotransmitter Agents, Dopamine},
date-added = {2010-05-23 10:46:19 +0200},
date-modified = {2010-05-23 10:46:22 +0200},
doi = {10.1016/j.tips.2008.01.002},
pii = {S0165-6147(08)00026-6},
pmid = {18304658},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pattij-2008-Trends%20Pharmacol%20Sci_The%20neuropharmacolog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11820},
rating = {4}
}
@article{Burton:1991,
author = {S Burton and E Blair},
journal = {Public Opinion Quarterly},
title = {Task conditions, response formulation processes, and response accuracy for behavioral frequency questions in surveys},
pages = {50--79},
volume = {55},
year = {1991},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-07-29 19:47:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p987},
rating = {0}
}
@article{Fellay:2009p3049,
author = {Jacques Fellay and Dongliang Ge and Kevin V Shianna and Sara Colombo and Bruno Ledergerber and Elizabeth T Cirulli and Thomas J Urban and Kunlin Zhang and Curtis E Gumbs and Jason P Smith and Antonella Castagna and Alessandro Cozzi-Lepri and Andrea De Luca and Philippa Easterbrook and Huldrych F G{\"u}nthard and Simon Mallal and Cristina Mussini and Judith Dalmau and Javier Martinez-Picado and Jos{\'e} M Miro and Niels Obel and Steven M Wolinsky and Jeremy J Martinson and Roger Detels and Joseph B Margolick and Lisa P Jacobson and Patrick Descombes and Stylianos E Antonarakis and Jacques S Beckmann and Stephen J O'Brien and Norman L Letvin and Andrew J McMichael and Barton F Haynes and Mary Carrington and Sheng Feng and Amalio Telenti and David B Goldstein and NIAID Center for HIV/AIDS Vaccine Immunology (CHAVI)},
journal = {PLoS Genet},
title = {Common genetic variation and the control of HIV-1 in humans},
abstract = {To extend the understanding of host genetic determinants of HIV-1 control, we performed a genome-wide association study in a cohort of 2,554 infected Caucasian subjects. The study was powered to detect common genetic variants explaining down to 1.3% of the variability in viral load at set point. We provide overwhelming confirmation of three associations previously reported in a genome-wide study and show further independent effects of both common and rare variants in the Major Histocompatibility Complex region (MHC). We also examined the polymorphisms reported in previous candidate gene studies and fail to support a role for any variant outside of the MHC or the chemokine receptor cluster on chromosome 3. In addition, we evaluated functional variants, copy-number polymorphisms, epistatic interactions, and biological pathways. This study thus represents a comprehensive assessment of common human genetic variation in HIV-1 control in Caucasians.},
affiliation = {Center for Human Genome Variation, Duke Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina, USA.},
number = {12},
pages = {e1000791},
volume = {5},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-14 11:24:26 +0100},
date-modified = {2010-01-14 11:24:26 +0100},
doi = {10.1371/journal.pgen.1000791},
pmid = {20041166},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3049},
rating = {0}
}
@article{Goldberg:1978p13829,
author = {L R Goldberg},
journal = {Applied Psychological Measurement},
title = {The reliability of reliability: The generality and correlates of intra-individual consistency in responses to structured personality inventories},
number = {2},
pages = {269--291},
volume = {2},
year = {1978},
date-added = {2010-07-29 17:09:20 +0200},
date-modified = {2010-07-29 17:10:40 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1978-Applied%20Psychological%20Measurement_The%20reliability%20of%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13829},
rating = {0}
}
@article{Mislevy:2001p4253,
author = {R J Mislevy and L S Steinberg and R G Almond},
title = {Leverage points for improving educational assessment},
year = {2001},
date-added = {2010-01-23 20:58:43 +0100},
date-modified = {2010-01-23 20:59:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-2001-_Leverage%20points%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4253},
rating = {0}
}
@article{Zhong:2010p3703,
author = {Hua Zhong and Ross L Prentice},
journal = {Genet Epidemiol},
title = {Correcting "winner's curse" in odds ratios from genomewide association findings for major complex human diseases},
abstract = {Genome-wide association studies (GWAS) provide an important approach for identifying common genetic variants that predispose to human disease. However, odds ratio (OR) estimates for the reported findings from GWAS discovery data are typically affected by a bias away from the null sometimes referred to the "winner's curse". Also standard confidence intervals (CIs) may have far from the desired coverage rates. We applied a bias reduction method to GWAS findings from several major complex human diseases, including breast cancer, colorectal cancer, lung cancer, prostate cancer, type I diabetes, and type II diabetes. We found the simple bias correction procedure allows one to estimate bias-adjusted ORs that have substantial consistency with ORs from subsequent replication studies, and that corresponding selection-adjusted CIs appear to help quantify the uncertainty of the findings. Selection-adjusted ORs and CIs can provide a reliable summary of GWAS data, and can help to choose single nucleotide polymorphisms for subsequent validation studies.},
affiliation = {Department of Genetics, Rosetta Inpharmatics, LLC, 401 Terry Ave North, Seattle, WA 98109, USA. zhh@u.washington.edu},
number = {1},
pages = {78--91},
volume = {34},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-16 20:56:24 +0100},
date-modified = {2010-01-16 20:56:24 +0100},
doi = {10.1002/gepi.20437},
pmid = {19639606},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3703},
rating = {0}
}
@article{Mechelen:2000p1531,
author = {Iven Van Mechelen and Paul De Boeck and Jeroen Poblome},
title = {Bridges Between Deterministic and Probabilistic Models for Binary Data},
abstract = {For the analysis of binary data, various deterministic models have been proposed, whichare generally simpler to fit and easier to understand than probabilistic models. We claimthat corresponding to any deterministic model is an implicit stochastic model in which thedeterministic model fits imperfectly, with errors occurring at random. In the context of binarydata, we consider two error models: in the first model, all predictions are equally likely to be inerror; in the second model, the probability of error depends on the model prediction. We showhow to fit these models using a stochastic modification of deterministic optimization schemes.The advantages of fitting the stochastic models explicitly (rather than implicitly, by simplyfitting a deterministic model and accepting the occurrence of errors) include quantification ofuncertainty in the deterministic model's parameter estimates, better estimation of the truemodel error rate, and the ability to check the fit of ...},
affiliation = {Psychology Department},
year = {2000},
month = {May},
language = {eng},
date-added = {2010-01-07 16:08:17 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
pmid = {429042},
url = {http://citeseer.ist.psu.edu/429042},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mechelen-2000-_Bridges%20Between%20Dete.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1531},
rating = {0}
}
@article{Heathcote:2010p10896,
author = {A Heathcote and S Brown and D J K Mewhort},
title = {Quantile Maximum Likelihood Estimation of Response Time Distributions},
abstract = {We introduce and evaluate via a Monte Carlo study a robust new estimation technique that fits distribution functions to grouped response time (RT) data, where the grouping is determined by sample quantiles. The new estimator, Quantile Maximum Likelihood (QML), is more efficient and less biased than the best alternative estimation technique when fitting the commonly used ex-Gaussian distribution. Limitations of the Monte Carlo results are discussed and guidance provided for the practical application of the new technique. Because QML estimation can be computationally costly, we make fast open source code for fitting available that can be easily modified to use QML in the estimation of any distribution function.},
date-added = {2010-04-11 13:43:25 +0200},
date-modified = {2010-04-11 13:44:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heathcote--_Quantile%20Maximum%20Lik.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10896},
rating = {0}
}
@article{Golestani:2007p4631,
author = {Narly Golestani and Nicolas Molko and Stanislas Dehaene and Denis LeBihan and Christophe Pallier},
journal = {Cereb Cortex},
title = {Brain structure predicts the learning of foreign speech sounds},
abstract = {Previous work has shown a relationship between parietal lobe anatomy and nonnative speech sound learning. We scanned a new group of phonetic learners using structural magnetic resonance imaging and diffusion tensor imaging. Voxel-based morphometry indicated higher white matter (WM) density in left Heschl's gyrus (HG) in faster compared with slower learners, and manual segmentation of this structure confirmed that the WM volume of left HG is larger in the former compared with the latter group. This finding was replicated in a reanalysis of the original groups tested in Golestani and others (2002, Anatomical correlates of learning novel speech sounds. Neuron 35:997-1010). We also found that faster learners have a greater asymmetry (left > right) in parietal lobe volumes than slower learners and that the right insula and HG are more superiorly located in slower compared with faster learners. These results suggest that left auditory cortex WM anatomy, which likely reflects auditory processing efficiency, partly predicts individual differences in an aspect of language learning that relies on rapid temporal processing. It also appears that a global displacement of components of a right hemispheric language network, possibly reflecting individual differences in the functional anatomy and lateralization of language processing, is predictive of speech sound learning.},
affiliation = {Unit{\'e} INSERM 562, Service Hospitalier Fr{\'e}d{\'e}ric Joliot, CEA/DRM/DSV 4 Place du general Leclerc, 91401 Orsay cedex, France. n.golestani@ucl.ac.uk},
number = {3},
pages = {575--82},
volume = {17},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Learning, Phonetics, Parietal Lobe, Predictive Value of Tests, Dominance: Cerebral, Brain Mapping, Adolescent, Child, Speech Perception, Humans, Auditory Cortex, Diffusion Magnetic Resonance Imaging},
date-added = {2010-01-30 15:36:39 +0100},
date-modified = {2010-07-29 19:22:58 +0200},
doi = {10.1093/cercor/bhk001},
pii = {bhk001},
pmid = {16603709},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Golestani-2007-Cereb%20Cortex_Brain%20structure%20pred.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4631},
rating = {0}
}
@article{Purcell:2003p7210,
author = {S Purcell and P C Sham},
journal = {Behav Genet},
title = {A model-fitting implementation of the DeFries-Fulker model for selected twin data},
abstract = {In this research note, DeFries-Fulker (DF) regression analysis is reframed in model-fitting terms, where an individual's expected score is modeled as a function of their co-twin's proband status. This more flexible implementation of the DF model allows DZ-O twins to be incorporated in a sex-limitation model. Brief simulation results are presented along with the Mx scripts used.},
affiliation = {Social, Genetic {\&} Developmental Research Centre, Institute of Psychiatry, London SE5 8AF, UK. s.purcell@iop.kcl.ac.uk},
number = {3},
pages = {271--8},
volume = {33},
year = {2003},
month = {May},
language = {eng},
keywords = {Twins: Monozygotic, Humans, Twins, Sex Characteristics, Female, Computer Simulation, Male, Twins: Dizygotic, Models: Statistical},
date-added = {2010-03-08 19:23:29 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {12837017},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Purcell-2003-Behav%20Genet_A%20model-fitting%20impl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7210},
rating = {0}
}
@article{Dapueto:2003p11152,
author = {Juan J Dapueto and Carla Francolino and Liliana Servente and Chih-Hung Chang and Irene Gotta and Roberto Levin and Mar{\'\i}a Del Carmen Abreu},
journal = {Health Qual Life Outcomes},
title = {Evaluation of the Functional Assessment of Cancer Therapy-General (FACT-G) Spanish Version 4 in South America: classic psychometric and item response theory analyses},
abstract = {BACKGROUND: The FACT-G has gone through many validation studies. However, little research has been conducted in South American Spanish speaking patients. The present study aimed to evaluate the FACT-G Spanish Version 4 in Uruguayan cancer patients. METHODS: The data analyzed were collected from 309 patients, with various tumor sites, at different stages of disease and receiving different treatments. RESULTS: Reliability was evaluated using Cronbach's coefficient alpha and showed high internal consistency for each of the subscales and its total scale (range =.78 -.91) of the FACT-G. The FACT-G total score also showed significant mean differences among known groups (performance status, in vs. outpatients) when tested by ANOVA and t-test. When the tumor stage (Local and Regional vs. Metastatic disease) was used as a clinical anchor, the FACT-G total score, the Physical Well-being (PWB), and Functional Well-being (FWB) subscale scores showed mean differences, ranging from 5 to 10 points in a scale from 0-108 (effect sizes = 0.30-0.60). Item response theory (IRT)-based evaluation using mean square fit statistics (.60-1.4) criteria showed that only two items misfit: "Estoy satisfecho(a) con mi vida sexual" (I am satisfied with my sex life) and "Estoy satisfecho(a) de c{\'o}mo estoy enfrentando mi enfermedad" (I am satisfied with how I am coping with my illness). CONCLUSION: The results indicated that, using both traditional and IRT approaches, the Spanish FACT-G has good reliability and validity to be used as a QOL instrument among Uruguayan cancer patients.},
affiliation = {Departamento de Psicolog{\'\i}a M{\'e}dica, Facultad de Medicina - Universidad de Rep{\'u}blica, Uruguay. jdapueto@hc.edu.uy},
pages = {32},
volume = {1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Socioeconomic Factors, Linguistics, Data Interpretation: Statistical, Middle Aged, Adult, Male, Questionnaires, South Africa, Reproducibility of Results, Quality of Life, Female, Language, Psychometrics, Self Assessment (Psychology), Aged, Sickness Impact Profile, Translations, Neoplasms, Humans, Psychological Theory},
date-added = {2010-04-25 19:19:49 +0200},
date-modified = {2010-04-25 19:19:49 +0200},
doi = {10.1186/1477-7525-1-32},
pii = {1477-7525-1-32},
pmid = {12969512},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dapueto-2003-Health%20and%20Quality%20of%20Life%20Outcomes_Evaluation%20of%20the%20Fu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11152},
rating = {0}
}
@article{Shigemasu:2000,
author = {K Shigemasu and O Yoshimura and T Nakamura},
journal = {Behaviormetrika},
title = {Bayesian hierarchical analysis of polytomous item responses},
number = {1},
pages = {51--65},
volume = {27},
year = {2000},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shigemasu-2000-Behaviormetrika_Bayesian%20hierarchica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2084},
rating = {0}
}
@article{Li:2009p14176,
author = {Heng Li and Bob Handsaker and Alec Wysoker and Tim Fennell and Jue Ruan and Nils Homer and Gabor Marth and Goncalo Abecasis and Richard Durbin and 1000 Genome Project Data Processing Subgroup},
journal = {Bioinformatics},
title = {The Sequence Alignment/Map format and SAMtools},
abstract = {SUMMARY: The Sequence Alignment/Map (SAM) format is a generic alignment format for storing read alignments against reference sequences, supporting short and long reads (up to 128 Mbp) produced by different sequencing platforms. It is flexible in style, compact in size, efficient in random access and is the format in which alignments from the 1000 Genomes Project are released. SAMtools implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments. AVAILABILITY: http://samtools.sourceforge.net.},
affiliation = {Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA, UK, Broad Institute of MIT and Harvard, Cambridge, MA 02141, USA.},
number = {16},
pages = {2078--9},
volume = {25},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Algorithms, Genomics, Molecular Sequence Data, Sequence Analysis: DNA, Sequence Alignment, Base Sequence, Computational Biology, Genome, Software},
date-added = {2010-08-18 17:08:14 +0200},
date-modified = {2010-08-18 17:08:14 +0200},
doi = {10.1093/bioinformatics/btp352},
pii = {btp352},
pmid = {19505943},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2009-Bioinformatics_The%20Sequence%20Alignme.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14176},
rating = {0}
}
@article{Butcher:2008p5762,
author = {L M Butcher and O S P Davis and I W Craig and R Plomin},
journal = {Genes Brain Behav},
title = {Genome-wide quantitative trait locus association scan of general cognitive ability using pooled DNA and 500K single nucleotide polymorphism microarrays},
abstract = {General cognitive ability (g), which refers to what cognitive abilities have in common, is an important target for molecular genetic research because multivariate quantitative genetic analyses have shown that the same set of genes affects diverse cognitive abilities as well as learning disabilities. In this first autosomal genome-wide association scan of g, we used a two-stage quantitative trait locus (QTL) design with pooled DNA to screen more than 500,000 single nucleotide polymorphisms (SNPs) on microarrays, selecting from a sample of 7000 7-year-old children. In stage 1, we screened for allele frequency differences between groups pooled for low and high g. In stage 2, 47 SNPs nominated in stage 1 were tested by individually genotyping an independent sample of 3195 individuals, representative of the entire distribution of g scores in the full 7000 7-year-old children. Six SNPs yielded significant associations across the normal distribution of g, although only one SNP remained significant after a false discovery rate of 0.05 was imposed. However, none of these SNPs accounted for more than 0.4% of the variance of g, despite 95% power to detect associations of that size. It is likely that QTL effect sizes, even for highly heritable traits such as cognitive abilities and disabilities, are much smaller than previously assumed. Nonetheless, an aggregated 'SNP set' of the six SNPs correlated 0.11 (P < 0.00000003) with g. This shows that future SNP sets that will incorporate many more SNPs could be useful for predicting genetic risk and for investigating functional systems of effects from genes to brain to behavior.},
affiliation = {Social, Genetic and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, London, UK.},
number = {4},
pages = {435--46},
volume = {7},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Cognition, Genome: Human, Genotype, Gene Frequency, Longitudinal Studies, Female, Intelligence, Genetic Predisposition to Disease, Humans, Polymorphism: Single Nucleotide, Multifactorial Inheritance, Quantitative Trait: Heritable, Genetic Variation, Child, Male, Inheritance Patterns, Adolescent, Oligonucleotide Array Sequence Analysis, Quantitative Trait Loci, DNA, Gene Expression Regulation: Developmental},
date-added = {2010-02-15 20:29:36 +0100},
date-modified = {2010-02-15 20:29:36 +0100},
doi = {10.1111/j.1601-183X.2007.00368.x},
pii = {GBB368},
pmid = {18067574},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5762},
rating = {0}
}
@article{MacCallum:1992p11742,
author = {R C MacCallum and M Roznowski and L B Necowitz},
journal = {Psychological Bulletin},
title = {Model modifications in covariance structure analysis: the problem of capitalization on chance},
abstract = {In applications of covariance structure modeling in which an initial model does not fit sample data well, it has become common practice to modify that model to improve its fit. Because this process is data driven, it is inherently susceptible to capitalization on chance characteristics of the data, thus raising the question of whether model modifications generalize to other samples or to the population. This issue is discussed in detail and is explored empirically through sampling studies using 2 large sets of data. Results demonstrate that over repeated samples, model modifications may be very inconsistent and cross-validation results may behave erratically. These findings lead to skepticism about generalizability of models resulting from data-driven modifications of an initial model. The use of alternative a priori models is recommended as a preferred strategy.},
affiliation = {Ohio State Univeristy, USA.},
number = {3},
pages = {490--504},
volume = {111},
year = {1992},
month = {May},
language = {eng},
keywords = {Intelligence Tests, Models: Psychological, Algorithms, Factor Analysis: Statistical, Software, Empirical Research, Job Satisfaction, Humans, Models: Statistical, Sampling Studies, Reproducibility of Results, Sample Size, Data Interpretation: Statistical, Questionnaires, Adolescent},
date-added = {2010-05-14 21:37:21 +0200},
date-modified = {2010-05-14 21:37:21 +0200},
pmid = {16250105},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11742},
rating = {4}
}
@article{Revuelta:2010p12917,
author = {J Revuelta},
journal = {Psychometrika},
title = {Estimating difficulty from polytomous categorical data},
abstract = {A comprehensive analysis of difficulty for multiple-choice items requires information at different levels: the test, the items, and the alternatives. This paper introduces a new parameterization of the nominal categories model (NCM) for analyzing difficulty at these three levels. The new parameterization is referred to as the NE--NCM and is statistically equivalent to the NCM. The NE--NCM is applied to a sample of responses from a logical analysis test. The results suggest that the individuals execute a self-terminated response process that is mostly determined by working memory load.},
number = {2},
pages = {331--350},
volume = {75},
year = {2010},
date-added = {2010-06-24 17:59:52 +0200},
date-modified = {2010-06-24 18:00:56 +0200},
doi = {10.1007/S11336-009-9145-9},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revuelta-2010-Psychometrika_Estimating%20difficult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12917},
rating = {5}
}
@article{Buckles:2008p11305,
author = {K Buckles and D M Hungerman},
journal = {NBER Working Paper},
title = {Season of birth and later outcomes: Old questions, new answers},
abstract = {Research has found that season of birth is associated with later health and professional outcomes; what drives this association remains unclear. In this paper we consider a new explanation: that children born at different times in the year are conceived by women with different socioeconomic characteristics. We document large seasonal changes in the characteristics of women giving birth throughout the year in the United States. Children born in the winter are disproportionally born to women who are more likely to be teenagers and less likely to be married or have a high school degree. We show that controls for family background characteristics can explain up to half of the relationship between season of birth and adult outcomes. We then discuss the implications of this result for using season of birth as an instrumental variable; our findings suggest that, though popular, season-of-birth instruments may produce inconsistent estimates. Finally, we find that some of the seasonality in maternal characteristics is due to summer weather differentially affecting fertility patterns across socioeconomic groups.},
number = {14573},
year = {2008},
date-added = {2010-04-26 22:40:49 +0200},
date-modified = {2010-04-26 22:59:20 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buckles-2008-NBER%20Working%20Paper_Season%20of%20birth%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11305},
rating = {0}
}
@article{Thacker:2004p3591,
author = {C Thacker and C Harrison and M Brion and C Phillips and P Sanchez-Diz and D Ballard and A Carracedo and D Syndercombe Court},
journal = {International Congress Series},
title = {Population studies using single nucleotide polymorphisms---how important is detailed sample origin information?},
abstract = {Within the UK there is an increase in the request for information about an individual's ancestory. UK population databases are not uncommon but the detailed origin of samples has not traditionally been collected. Typically samples are classified using very general identifiers such as `black British'. We have conducted a study to establish whether this lack of detailed information proves to be a major problem when considering population studies relying on SNP data. A panel of Y-chromosome and autosomal SNPs have been used to genotype individuals from a `black British' population and from six Mozambique population groups. The resulting population data sets were contrasted and differences between a well-defined and a broadly characterized population set were used to illustrate the importance of good sample information. A comparison of the different SNP typing methodologies used throughout this study was conducted and all methods were found to work well.},
pages = {30--32},
volume = {1261},
year = {2004},
date-added = {2010-01-15 21:18:45 +0100},
date-modified = {2010-01-15 21:20:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thacker-2004-International%20Congress%20Series_Population%20studies%20u.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3591},
rating = {0}
}
@article{Pennebaker:2003p13937,
author = {J W Pennebaker and L D Stone},
journal = {J Pers Soc Psychol},
title = {Words of Wisdom: Language Use Over the Life Span},
abstract = {Two projects explored the links between language use and aging. In the first project, written or spoken text samples from disclosure studies from over 3,000 research participants from 45 different studies representing 21 laboratories in 3 countries were analyzed to determine how people change in their use of 14 text dimensions as a function of age. A separate project analyzed the collected works of 10 well-known novelists, playwrights, and poets who lived over the last 500 years. Both projects found that with increasing age, individuals use more positive and fewer negative affect words, use fewer self- references, use more future-tense and fewer past-tense verbs, and demonstrate a general pattern of increasing cognitive complexity. Implications for using language as a marker of personality among current and historical texts are discussed.},
number = {2},
pages = {291--301},
volume = {85},
year = {2003},
date-added = {2010-07-29 19:00:44 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
doi = {10.1037/0022-3514.85.2.291},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pennebaker-2003-J%20Pers%20Soc%20Psychol_Words%20of%20Wisdom%20Lan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13937},
rating = {0}
}
@article{Salter:2009p5173,
author = {N P Salter},
title = {A MULTITRAIT-MULTIMETHOD APPROACH TO ISOLATING SITUATIONAL JUDGMENT FROM SITUATIONAL JUDGMENT TESTS},
year = {2009},
date-added = {2010-02-07 12:39:26 +0100},
date-modified = {2010-02-07 12:39:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Salter-2009-_A%20MULTITRAIT-MULTIME.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5173},
rating = {0}
}
@article{MacCallum:1997p11414,
author = {R C MacCallum and C Kim and W B Malarkey and J K Kiecolt-Glaser},
journal = {Multivariate Behavioral Research},
title = {Studying multivariate change using multilevel models and latent curve models},
number = {3},
pages = {215--253},
volume = {32},
year = {1997},
date-added = {2010-05-01 16:37:33 +0200},
date-modified = {2010-05-01 16:39:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/MacCallum-1997-Multivariate%20Behavioral%20Research_Studying%20multivariat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11414},
rating = {0}
}
@article{Zhao:2002p10913,
author = {Jing Hua Zhao and Pak Chnng Sham},
journal = {Hum Hered},
title = {Faster haplotype frequency estimation using unrelated subjects},
abstract = {Linkage disequilibrium (LD) between tightly linked loci provides fine mapping information of disease-predisposing allelic variants. The most common method of LD analysis involves unrelated cases and controls. We have previously proposed model-free and permutation tests for diseases with unknown mode of inheritance that can be applied to several highly polymorphic loci. However, performing such analyses remained computer intensive. In this report we propose a speed-up of both the gene-counting procedure and the permutation procedure. We demonstrate the improved method with an analysis of schizophrenia and human leucocyte antigen markers, and an analysis of alcoholism and mitochondrial aldehyde dehydrogenase markers. Our implementation also allows the rapid calculation of permutation-based LD measures and related statistics.},
affiliation = {Department of Psychological Medicine, Developmental Psychiatry Research Centre, Institute of Psychiatry, Denmark Hill, London, UK. j.zhao@iop.kcl.ac.uk},
number = {1},
pages = {36--41},
volume = {53},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Humans, Haplotypes, HLA Antigens, Gene Frequency, Linkage Disequilibrium, Genetic Markers, Alcoholism, Statistics as Topic, Schizophrenia, Aldehyde Dehydrogenase},
date-added = {2010-04-11 21:39:53 +0200},
date-modified = {2010-04-11 21:39:53 +0200},
pii = {hhe53036},
pmid = {11901269},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhao-2002-Hum%20Hered_Faster%20haplotype%20fre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10913},
rating = {0}
}
@article{Meriaux:2006p12125,
author = {S{\'e}bastien M{\'e}riaux and Alexis Roche and Ghislaine Dehaene-Lambertz and Bertrand Thirion and Jean-Baptiste Poline},
journal = {Hum Brain Mapp},
title = {Combined permutation test and mixed-effect model for group average analysis in fMRI},
abstract = {In group average analyses, we generalize the classical one-sample t test to account for heterogeneous within-subject uncertainties associated with the estimated effects. Our test statistic is defined as the maximum likelihood ratio corresponding to a Gaussian mixed-effect model. The test's significance level is calibrated using the same sign permutation framework as in Holmes et al., allowing for exact specificity control under a mild symmetry assumption about the subjects' distribution. Because our likelihood ratio test does not rely on homoscedasticity, it is potentially more sensitive than both the standard t test and its permutation-based version. We present results from the Functional Imaging Analysis Contest 2005 dataset to support this claim.},
affiliation = {CEA, Service Hospitalier Fr{\'e}d{\'e}ric Joliot, Orsay, France.},
number = {5},
pages = {402--10},
volume = {27},
year = {2006},
month = {May},
language = {eng},
keywords = {Magnetic Resonance Imaging, Brain Mapping, Humans, Normal Distribution, Image Processing: Computer-Assisted, Cognition, Functional Laterality, Computer Simulation, Verbal Behavior, Brain, Speech Perception, Models: Statistical, Algorithms, Software Validation},
date-added = {2010-05-30 10:09:12 +0200},
date-modified = {2010-05-30 10:09:12 +0200},
doi = {10.1002/hbm.20251},
pmid = {16596617},
local-url = {file://localhost/Users/chl/Dropbox/Papers/M%C3%A9riaux-2006-Hum%20Brain%20Mapp_Combined%20permutation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12125},
rating = {0}
}
@article{Foulkes:2003p4735,
author = {A S Foulkes and V De Gruttola},
journal = {JAMA},
title = {Characterizing the Progression of Viral Mutations Over Time},
abstract = {Development and spread of resistance of human immunode ciency virus type 1 to antiretroviral therapies is a serious medical and public health concern. A wide variety of mutations have been identi ed that either singly or in combination reduce the susceptibility of the virus to available therapies. This paper describes methods for understanding the genetic pathways that lead to high-level drug resistance under selective drug pressure, as well as for estimating the rates at which viral populations progress along these pathways. These methods can be used to determine whether the presence of certain mutations among drug-sensitive viruses predispose a patient under a particular treatment to develop patterns of mutations that confer high-level drug resistance. Our approach assumes that viral genotypes can be characterized as belonging to discrete states, de ned by patterns of viral mutations, and considers two approaches to modeling the rates of transition between these states. The rst approach treats the state at a given time point as known, whereas the second treats this as a latent variable. We apply our methods to genetic sequences of viruses cloned from the plasma of 170 patients who participated in three phase II clinical studies of efavirenz combination therapy (DMP 266-003, -004, -005). Multiple viral clones are available from each plasma sample at each time of measurement, allowing for consideration of the effect of minority species on the evolution of the viral populations infecting patients; the availability of such information motivates the second analytic approach. The sequences can be found in the Stanford HIV RT and Protease Sequence Database.},
number = {464},
pages = {859--867},
volume = {98},
year = {2003},
date-added = {2010-01-30 16:21:43 +0100},
date-modified = {2010-07-29 20:01:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Foulkes-2003-JAMA_Characterizing%20the%20P.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4735},
rating = {0}
}
@article{Gratacos:2007p9022,
author = {M{\`o}nica Gratac{\`o}s and Juan R Gonz{\'a}lez and Josep M Mercader and Rafael de Cid and Mikel Urretavizcaya and Xavier Estivill},
journal = {Biol Psychiatry},
title = {Brain-derived neurotrophic factor Val66Met and psychiatric disorders: meta-analysis of case-control studies confirm association to substance-related disorders, eating disorders, and schizophrenia},
abstract = {BACKGROUND: There is an increasing recognition that the pathophysiology of mental disorders could be the result of deregulation of synaptic plasticity with alterations of neurotrophins. The valine (Val)66-to-methionine (Met) variant, located in the pro brain-derived neurotrophic factor (BDNF) sequence, has been extensively studied through linkage and association approaches in several psychiatric disorders. METHODS: We performed a meta-analysis restricted to individual case-control studies in different categories of mental disorders and BDNF Val66Met polymorphism. We included data from 39 case-control studies encompassing psychiatric phenotypes: eating disorders, substance-related disorders, mood disorders, and schizophrenia, among others. RESULTS: The association of Val66Met was confined to three diagnoses: substance-related disorders, eating disorders, and schizophrenia. The Val/Met and the Met/Met genotypes increase the risk for eating disorders up to 33%, while these same genotypes confer a 21% protective effect in substance-related disorders. The homozygous carriers Met/Met showed a 19% increased risk of schizophrenia with respect to the heterozygous state. CONCLUSIONS: The study confirms the association of Val66Met to substance-related disorders, eating disorders, and schizophrenia. It remains to be determined if other variants in tight linkage disequilibrium with Val66Met could configure an extended functional haplotype that would explain observed discrepancies in risk estimations across studies.},
affiliation = {Genes and Disease Program, Center for Genomic Regulation (CRG), Psychiatry Department, Hospital Universitari de Bellvitge, Barcelona, Spain.},
number = {7},
pages = {911--22},
volume = {61},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Valine, Aged: 80 and over, Adult, Substance-Related Disorders, Brain-Derived Neurotrophic Factor, Male, Schizophrenia, Polymorphism: Genetic, Case-Control Studies, Aged, Eating Disorders, Middle Aged, Methionine, Genetic Predisposition to Disease, Female, Humans, Mental Disorders},
date-added = {2010-03-22 13:14:53 +0100},
date-modified = {2010-03-22 13:14:53 +0100},
doi = {10.1016/j.biopsych.2006.08.025},
pii = {S0006-3223(06)01072-9},
pmid = {17217930},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gratac%C3%B2s-2007-Biol%20Psychiatry_Brain-derived%20neurot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9022},
rating = {0}
}
@article{Patton:1996,
author = {GC Patton and M Hibbert and MJ Rosier and JB Carlin and J Caust and G Bowes},
journal = {Am J Public Health},
title = {Is smoking associated with depression and anxiety in teenagers?},
abstract = {OBJECTIVES. An association of smoking with depression and anxiety has been documented in adult smokers. This study examines this association in a representative group of teenage smokers. METHODS. A two-stage cluster sample of secondary school students in Victoria, Australia, were surveyed by using a computerized questionnaire, which included a 7-day retrospective diary for tobacco use and a structured psychiatric interview. RESULTS. Subjects reporting high levels of depression and anxiety were twice as likely to be smokers after the potential confounders of year level, sex, alcohol use, and parental smoking were controlled for. Regular smokers were almost twice as likely as occasional smokers to report high levels of depression and anxiety. In a stratified analysis, an association between regular smoking and psychiatric morbidity was found in girls of all ages but for boys only in the youngest group. CONCLUSIONS. The cross-sectional association is consistent with the use of smoking by teenage girls as self-medication for depression and anxiety. Therefore, future health promotional campaigns might consider strategies that attend to perceived psychological benefits of smoking.},
number = {2},
pages = {225--230},
volume = {86},
year = {1996},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1055},
rating = {0}
}
@article{Wittchen:1989,
author = {HU Wittchen and JD Burke and G ad Pfister Semler and M Von Cranach and M Zaudig},
journal = {Arch Gen Psychiatry},
title = {Recall and dating of psychiatric symptoms. Test-retest reliability of time-related symptom questions in a standardized psychiatric interview},
abstract = {The advent of more explicit diagnostic criteria and the growing interest in "lifetime" rates of mental disorders has made imperative an accurate determination of time-related diagnostic criteria. We used data from two independent test-retest studies of the Diagnostic Interview Schedule (DIS) and the Composite International Diagnostic Interview (CIDI) to study the reliability of different time-related questions in these fully standardized diagnostic interviews. With two exceptions (anxiety disorders and alcohol-related questions), the test-retest reliability of most time-related questions in both interviews was judged to be satisfactorily high. Furthermore, the validity of time-related questions in the DIS (age at symptom onset, duration and frequency of illness episodes) was examined by comparing them with detailed "consensus" ratings done independently by different clinicians for 207 former psychiatric inpatients. A surprisingly high concordance was found for former psychotic patients except for those still severely disturbed at the follow-up investigation. Some severe restrictions were also found for nonpsychotic disorders with regard to judgment of the age at onset of phobias, panic attacks, and depression. For a more valid assessment of time-related symptom information, the use of specific memory aids is suggested.},
number = {5},
pages = {437--443},
volume = {46},
year = {1989},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1090},
rating = {0}
}
@article{Wei:2009p2388,
author = {Zhi Wei and Wenguang Sun and Kai Wang and Hakon Hakonarson},
journal = {Bioinformatics},
title = {Multiple testing in genome-wide association studies via hidden Markov models},
abstract = {MOTIVATION: Genome-wide association studies (GWAS) interrogate common genetic variation across the entire human genome in an unbiased manner and hold promise in identifying genetic variants with moderate or weak effect sizes. However, conventional testing procedures, which are mostly P-value based, ignore the dependency and therefore suffer from loss of efficiency. The goal of this article is to exploit the dependency information among adjacent single nucleotide polymorphisms (SNPs) to improve the screening efficiency in GWAS. RESULTS: We propose to model the linear block dependency in the SNP data using hidden Markov models (HMMs). A compound decision-theoretic framework for testing HMM-dependent hypotheses is developed. We propose a powerful data-driven procedure [pooled local index of significance (PLIS)] that controls the false discovery rate (FDR) at the nominal level. PLIS is shown to be optimal in the sense that it has the smallest false negative rate (FNR) among all valid FDR procedures. By re-ranking significance for all SNPs with dependency considered, PLIS gains higher power than conventional P-value based methods. Simulation results demonstrate that PLIS dominates conventional FDR procedures in detecting disease-associated SNPs. Our method is applied to analysis of the SNP data from a GWAS of type 1 diabetes. Compared with the Benjamini-Hochberg (BH) procedure, PLIS yields more accurate results and has better reproducibility of findings. Conclusion: The genomic rankings based on our procedure are substantially different from the rankings based on the P-values. By integrating information from adjacent locations, the PLIS rankings benefit from the increased signal-to-noise ratio, hence our procedure often has higher statistical power and better reproducibility. It provides a promising direction in large-scale GWAS. AVAILABILITY: An R package PLIS has been developed to implement the PLIS procedure. Source codes are available upon request and will be available on CRAN (http://cran.r-project.org/). CONTACT: zhiwei@njit.edu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.},
affiliation = {Department of Computer Science, New Jersey Institute of Technology, Newark, NJ 07102, USA. zhiwei@njit.edu},
number = {21},
pages = {2802--8},
volume = {25},
year = {2009},
month = {Nov},
language = {eng},
date-added = {2010-01-11 19:51:07 +0100},
date-modified = {2010-01-11 19:51:07 +0100},
doi = {10.1093/bioinformatics/btp476},
pii = {btp476},
pmid = {19654115},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2388},
rating = {0}
}
@article{Zupan:2003p1841,
author = {Blaz Zupan and Ivan Bratko and Janez Demsar and Peter Juvan and Tomaz Curk and Urban Borstnik and J Robert Beck and John Halter and Adam Kuspa and Gad Shaulsky},
journal = {Artif Intell Med},
title = {GenePath: a system for inference of genetic networks and proposal of genetic experiments},
abstract = {A genetic network is a formalism that is often used in biology to represent causalities and reason about biological phenomena related to genetic regulation. We present GenePath, a computer-based system that supports the inference of genetic networks from a set of genetic experiments. Implemented in Prolog, GenePath uses abductive inference to elucidate network constraints based on background knowledge and experimental results. Additionally, it can propose genetic experiments that may further refine the discovered network and establish relations between genes that could not be related based on the original experimental data. We illustrate GenePath's approach and utility on analysis of data on aggregation and sporulation of the soil amoeba Dictyostelium discoideum.},
affiliation = {Faculty of Computer and Information Science, University of Ljubljana, Trzaska 25, SI-1000 Ljubljana, Slovenia. blaz.zupan@fri.uni-lj.si},
number = {1-2},
pages = {107--30},
volume = {29},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Neural Networks (Computer), Knowledge, Gene Expression Regulation, Dictyostelium, Humans, Research, Genomics, DNA, Animals},
date-added = {2010-01-10 10:36:07 +0100},
date-modified = {2010-01-10 10:36:07 +0100},
pii = {S0933365703000484},
pmid = {12957783},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zupan-2003-Artif%20Intell%20Med_GenePath%20a%20system%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1841},
rating = {0}
}
@article{Abdi:2003p12856,
author = {Herv{\'e} Abdi},
title = {Multivariate Analysis},
year = {2003},
date-added = {2010-06-22 08:13:50 +0200},
date-modified = {2010-07-29 20:14:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abdi-2003-_Multivariate%20Analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12856},
rating = {0}
}
@article{Saccone:2008p3097,
author = {Nancy L Saccone and Scott F Saccone and Alison M Goate and Richard A Grucza and Anthony L Hinrichs and John P Rice and Laura J Bierut},
journal = {BMC Genet},
title = {In search of causal variants: refining disease association signals using cross-population contrasts},
abstract = {BACKGROUND: Genome-wide association (GWA) using large numbers of single nucleotide polymorphisms (SNPs) is now a powerful, state-of-the-art approach to mapping human disease genes. When a GWA study detects association between a SNP and the disease, this signal usually represents association with a set of several highly correlated SNPs in strong linkage disequilibrium. The challenge we address is to distinguish among these correlated loci to highlight potential functional variants and prioritize them for follow-up. RESULTS: We implemented a systematic method for testing association across diverse population samples having differing histories and LD patterns, using a logistic regression framework. The hypothesis is that important underlying biological mechanisms are shared across human populations, and we can filter correlated variants by testing for heterogeneity of genetic effects in different population samples. This approach formalizes the descriptive comparison of p-values that has typified similar cross-population fine-mapping studies to date. We applied this method to correlated SNPs in the cholinergic nicotinic receptor gene cluster CHRNA5-CHRNA3-CHRNB4, in a case-control study of cocaine dependence composed of 504 European-American and 583 African-American samples. Of the 10 SNPs genotyped in the r2 > or = 0.8 bin for rs16969968, three demonstrated significant cross-population heterogeneity and are filtered from priority follow-up; the remaining SNPs include rs16969968 (heterogeneity p = 0.75). Though the power to filter out rs16969968 is reduced due to the difference in allele frequency in the two groups, the results nevertheless focus attention on a smaller group of SNPs that includes the non-synonymous SNP rs16969968, which retains a similar effect size (odds ratio) across both population samples. CONCLUSION: Filtering out SNPs that demonstrate cross-population heterogeneity enriches for variants more likely to be important and causative. Our approach provides an important and effective tool to help interpret results from the many GWA studies now underway.},
affiliation = {Department of Genetics, Washington University, Campus Box 8232, 4566 Scott Avenue, Saint Louis, Missouri, USA. nlims@wustl.edu},
pages = {58},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Chromosome Mapping, Humans, Genetics: Population, Case-Control Studies, Nerve Tissue Proteins, Population Groups, Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Receptors: Nicotinic, Female, Linkage Disequilibrium, African Americans, Gene Frequency, Cocaine-Related Disorders, European Continental Ancestry Group, Male, Quantitative Trait Loci},
date-added = {2010-01-14 20:18:57 +0100},
date-modified = {2010-01-14 20:18:57 +0100},
doi = {10.1186/1471-2156-9-58},
pii = {1471-2156-9-58},
pmid = {18759969},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3097},
rating = {0}
}
@article{Austin:2010p6528,
author = {Peter C Austin},
journal = {Journal of Clinical Epidemiology},
title = {Different measures of treatment effect for different research questions},
affiliation = {Institute for Clinical Evaluative Sciences, Toronto, Ontario M4N 3M5, Canada. peter.austin@ices.on.ca},
number = {1},
pages = {9--10},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:36:17 +0100},
date-modified = {2010-02-24 20:36:18 +0100},
doi = {10.1016/j.jclinepi.2009.07.006},
pii = {S0895-4356(09)00213-3},
pmid = {19837563},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Austin-2010-Journal%20of%20Clinical%20Epidemiology_Different%20measures%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6528},
rating = {0}
}
@article{Miller:2010p13755,
author = {T Miller and S Chahine and R A Childs},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Detecting Differential Item Functioning and Differential Step Functioning Due to Differences that Should Matter},
abstract = {This study illustrates the use of differential item functioning (DIF) and differential step functioning (DSF) analyses to detect differences in item difficulty that are related to experiences of examinees, such as their teachers' instructional practices, that are relevant to the knowledge, skill, or ability the test is intended to measure. This analysis is in contrast to the typical use of DIF or DSF to detect differences related to characteristics of examinees, such as gender, language, or cultural knowledge, that should be irrelevant. Using data from two forms of Ontario's Grade 9 Assessment of Mathematics, analyses were performed comparing groups of students defined by their teachers' instructional practices. All constructed-response items were tested for DIF using the Mantel Chi-Square, standardized Liu Agresti cumulative common log-odds ratio, and standardized Cox's noncentrality parameter. Items exhibiting moderate to large DIF were subsequently tested for DSF. In contrast to typical DIF or DSF analyses, which inform item development, these analyses have the potential to inform instructional practice.},
number = {10},
volume = {15},
year = {2010},
date-added = {2010-07-24 12:47:07 +0200},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miller-2010-Practical%20Assessment%20Research%20%20&%20Evaluation_Detecting%20Differenti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13755},
rating = {0}
}
@article{Dawson:2010p4003,
author = {T E Dawson},
title = {Basic Concepts in Classical Test Theory: Relating Variance Partitioning in Substantive Analyses to the Same Process in Measurement Analyses},
abstract = {The basic processes in univariate statistics involve partitioning the sum of squares into two components: explained and within. The present paper explains that the same partitioning occurs in measurement analyses, i.e., splitting the sum of squares into reliable and unreliable components. In addition, it will be shown how the three types of error inherent in all statistical analyses (i.e., sampling error, model specification error, and measurement error) impact any analysis the researcher attempts. Also emphasized will be that tests are not reliable, rather scores have varying degrees of reliability.},
date-added = {2010-01-17 23:26:33 +0100},
date-modified = {2010-01-17 23:27:13 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dawson--_Basic%20Concepts%20in%20Cl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4003},
rating = {0}
}
@article{deLeeuw:1988p4262,
author = {Jan de Leeuw},
journal = {Proceedings of the In- ternational Conference on Advances in Multivariate Statistical Analysis},
title = {Multivariate analysis with optimal scaling},
abstract = {Suppose K1 , · · · , Km are convex cones in a Hilbert space H , with unit sphere S and inner product ⟨. | .⟩. For a particular choice of quantifications, transformations, or representations of a variable xj in Kj ∩ S we can compute the correlation matrix R(x1, · · · , xm) by the rule rij(x1,··· ,xm) = (xi | xj). Now suppose φ is a real-valued objective function, defined on the space of all correlation matrices. In this paper we study the class of techniques that choose the xj in their feasible re- gionsKj∩Sinsuchawaythatφ(R(x1,...,xm))ismaximized. Wediscuss typical cases, including linear and nonlinear principal component analy- sis, canonical correlation analysis, regression analysis. It is shown that correspondence analysis and the Breiman-Friedman ACE-methods are both special cases of this class of techniques. We discuss some choices for the cones Kj, and we indicate that the results simplify greatly if all bivariate regressions can be linearized. A class of iterative projection techniques is suggested, that produces convergent algorithms of simple structure.},
pages = {127--160},
year = {1988},
date-added = {2010-01-23 21:17:10 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-1988-Proceedings%20of%20the%20In-%20ternational%20Conference%20on%20Advances%20in%20Multivariate%20Statistical%20Analysis_Multivariate%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4262},
rating = {0}
}
@article{Crosby:2004p8812,
author = {Ross D Crosby and Ronette L Kolotkin and G Rhys Williams},
journal = {Journal of Clinical Epidemiology},
title = {An integrated method to determine meaningful changes in health-related quality of life},
abstract = {OBJECTIVE: We describe an integrated method for determining meaningful change in health-related quality of life (HRQOL) that combines information from anchor-based and distribution-based methods and illustrate this method using data aggregated from weight loss studies. STUDY DESIGN AND SETTING: A total of 1476 participants in weight loss studies were evaluated at baseline and at 6 months using the Impact of Weight on Quality of Life-Lite (IWQOL-Lite). Severity of baseline impairment was determined by comparing scores with those obtained from a normative sample of 534 normal/overweight individuals. The precision of the IWQOL-Lite was evaluated using standard error of measurement corrected for regression to the mean. Weight loss was used as an anchor for evaluating changes in IWQOL-Lite scores. RESULTS: Change in HRQOL varied as a function of weight loss and baseline severity of HRQOL. Using this integrated method, an improvement of 7.7 to 12 points (depending on baseline severity) on IWQOL-Lite total score is considered meaningful. CONCLUSION: Meaningful change in HRQOL can be determined using an integrated method that (1) combines information from anchor-based and distribution-based methods, (2) reconciles discrepancies between these two methods, and (3) adjusts for baseline severity and regression to the mean. This method may be applied to other types of HRQOL measures and conditions.},
affiliation = {Neuropsychiatric Research Institute, 700 First Avenue South, Fargo, North Dakota 58107, USA. rcrosby@nrifargo.com},
number = {11},
pages = {1153--60},
volume = {57},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Aged, Self Assessment (Psychology), Quality of Life, Data Interpretation: Statistical, Weight Loss, Middle Aged, Health Status, Male, Adult, Female, Humans},
date-added = {2010-03-22 12:12:33 +0100},
date-modified = {2010-03-22 12:12:33 +0100},
doi = {10.1016/j.jclinepi.2004.04.004},
pii = {S0895-4356(04)00112-X},
pmid = {15567631},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crosby-2004-Journal%20of%20Clinical%20Epidemiology_An%20integrated%20method.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8812},
rating = {0}
}
@article{Ligtvoet:2010p6242,
author = {Ligtvoet},
title = {Latent Class Models for Testing Monotonicity and Invariant Item Ordering for Polytomous Items},
abstract = {Two assumptions that are relevant to many applications using item response theory (IRT) are the assumptions of monotonicity (M) and invariant item or- dering (IIO). An IRT model is proposed for ordinal items which implies M and IIO. This model is specified as a latent class model with inequality constraints on the class-specific item means. A Gibbs sampling scheme is used for estimat- ing the model parameters. It is shown that the deviance information criterium (DIC) can be used as an overall test of M and IIO, while posterior predictive checks can be used to test these assumptions at the item level. A real-data ap- plication illustrates a model fitting strategy for selecting an item set for which M and IIO holds.},
year = {2010},
date-added = {2010-02-19 21:18:47 +0100},
date-modified = {2010-02-19 21:19:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ligtvoet-2010-_Latent%20Class%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6242},
rating = {0}
}
@article{LeCao:2008p1836,
author = {K A L{\^e} Cao},
title = {Outils statistiques pour la s{\'e}lection de variables et l'int{\'e}gration de donn{\'e}es ``omiques''},
year = {2008},
date-added = {2010-01-09 23:06:55 +0100},
date-modified = {2010-01-09 23:08:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/L%C3%AA%20Cao-2008-_Outils%20statistiques.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1836},
rating = {0}
}
@article{RobertGranie:2009p462,
author = {Christ{\`e}le Robert-Grani{\'e} and Kim-Anh L{\^e} Cao and Magali Sancristobal},
journal = {BMC Proc},
title = {Predicting qualitative phenotypes from microarray data - the Eadgene pig data set},
abstract = {BACKGROUND: The aim of this work was to study the performances of 2 predictive statistical tools on a data set that was given to all participants of the Eadgene-SABRE Post Analyses Working Group, namely the Pig data set of Hazard et al. (2008). The data consisted of 3686 gene expressions measured on 24 animals partitioned in 2 genotypes and 2 treatments. The objective was to find biomarkers that characterized the genotypes and the treatments in the whole set of genes. METHODS: We first considered the Random Forest approach that enables the selection of predictive variables. We then compared the classical Partial Least Squares regression (PLS) with a novel approach called sparse PLS, a variant of PLS that adapts lasso penalization and allows for the selection of a subset of variables. RESULTS: All methods performed well on this data set. The sparse PLS outperformed the PLS in terms of prediction performance and improved the interpretability of the results. CONCLUSION: We recommend the use of machine learning methods such as Random Forest and multivariate methods such as sparse PLS for prediction purposes. Both approaches are well adapted to transcriptomic data where the number of features is much greater than the number of individuals.},
affiliation = {INRA, UR631 Station d'Am{\'e}lioration G{\'e}n{\'e}tique des Animaux, F-31326 Castanet-Tolosan, France. christele.robert-granie@toulouse.inra.fr},
pages = {S13},
volume = {3 Suppl 4},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-03 12:30:05 +0100},
date-modified = {2010-01-03 12:30:05 +0100},
doi = {10.1186/1753-6561-3-S4-S13},
pii = {1753-6561-3-S4-S13},
pmid = {19615113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robert-Grani%C3%A9-2009-BMC%20Proc_Predicting%20qualitati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p462},
rating = {0}
}
@misc{Martin:2007,
author = {E San Martin and A Jara and J-M Rolin and M Mouchart},
journal = {Miscellaneous},
title = {On the analysis of bayesian semiparametric IRT-type models},
year = {2007},
month = {Feb},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-2007-Miscellaneous_On%20the%20analysis%20of%20b.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2189},
rating = {0}
}
@article{Ellinghaus:2009p3967,
author = {David Ellinghaus and Stefan Schreiber and Andre Franke and Michael Nothnagel},
journal = {Hum Genomics},
title = {Current software for genotype imputation},
abstract = {Genotype imputation for single nucleotide polymorphisms (SNPs) has been shown to be a powerful means to include genetic markers in exploratory genetic association studies without having to genotype them, and is becoming a standard procedure. A number of different software programs are available. In our experience, user-friendliness is often the deciding factor in the choice of software to solve a particular task. We therefore evaluated the usability of three publicly available imputation programs: BEAGLE, IMPUTE and MACH. We found all three programs to perform well with HapMap reference data, with little effort needed for data preparation and subsequent association analysis. Each of them has different strengths and weaknesses, however, and none is optimal for all situations.},
affiliation = {Institute of Clinical Molecular Biology, Christian-Albrechts University, Kiel, Germany. d.ellinghaus@ikmb.uni-kiel.de},
number = {4},
pages = {371--80},
volume = {3},
year = {2009},
month = {Jul},
language = {eng},
keywords = {User-Computer Interface, Genotype, Polymorphism: Single Nucleotide, Software, Internet},
date-added = {2010-01-17 21:41:23 +0100},
date-modified = {2010-01-17 21:41:23 +0100},
pii = {4117575825726416},
pmid = {19706367},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3967},
rating = {0}
}
@article{deWinter:2009p5158,
author = {J C F de Winter and D Dodou and P A Wieringa},
journal = {Multivariate Behavioral Research},
title = {Exploratory Factor Analysis With Small Sample Sizes},
abstract = {Exploratory factor analysis (EFA) is generally regarded as a technique for large sample sizes (N), with N D 50 as a reasonable absolute minimum. This study offers a comprehensive overview of the conditions in which EFA can yield good quality results for N below 50. Simulations were carried out to estimate the minimum required N for different levels of loadings ({\oe}), number of factors (f ), and number of variables (p) and to examine the extent to which a small N solution can sustain the presence of small distortions such as interfactor correlations, model error, secondary loadings, unequal loadings, and unequal p/f. Factor recovery was assessed in terms of pattern congruence coefficients, factor score correlations, Heywood cases, and the gap size between eigenvalues. A subsampling study was also conducted on a psychological dataset of individuals who filled in a Big Five Inventory via the Internet. Results showed that when data are well conditioned (i.e., high {\oe}, low f, high p), EFA can yield reliable results for N well below 50, even in the presence of small distortions. Such conditions may be uncommon but should certainly not be ruled out in behavioral research data.},
number = {2},
pages = {147--181},
volume = {44},
year = {2009},
date-added = {2010-02-07 12:20:04 +0100},
date-modified = {2010-02-07 12:21:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Winter-2009-Multivariate%20Behavioral%20Research_Exploratory%20Factor%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5158},
rating = {0}
}
@article{Bloss:2009p3011,
author = {C S Bloss and T E Bakken and A H Joyner and N J Schork},
title = {Leveraging High-Dimensional Neuroimaging Data in Genetic Studies of Neuropsychiatric Disease},
abstract = {The current state of biomedical science is such that both the number and sophistication of meth- ods available to investigate the genetic determinants of disease is unprecedented. For example, the introduc- tion of high-throughput technologies such as DNA microarrays, allow researchers to comprehensively assess the human genome for single nucleotide poly- morphisms that confer genetic susceptibility. Indeed, while these, and other similarly sophisticated methods, have yielded notable findings with regard to identifi- cation of risk variants in diseases such as diabetes, obe- sity, and glaucoma, similar studies of neuropsychiatric diseases such as schizophrenia and bipolar disorder have been somewhat less successful in producing strong findings. The reasons why this is the case are numerous, but likely reflect the very complex genetic architecture of neuropsychiatric conditions. In this chapter, we consider an approach to addressing this complexity that involves the use of what are termed `endophenotypes' (or alternatively `intermediate phe- notypes') in genetic studies of neuropsychiatric disor- ders. Endophenotypes are biological changes, such as brain structural differences, that are thought to repre- sent underlying molecular, physiologic, or otherwise subclinical changes resulting directly from the genetic variations that mediate susceptibility to overt clinical disease. Furthermore, neuroimaging phenotypes are, for a variety of reasons, thought to represent good candi- date endophenotypes for genetic association studies of neuropsychiatric disease. Like high-dimensional genome-wide data, however, these phenotyping tech- nologies can produce hundreds to thousands of data points or more, when all neuroanatomic regions and tissue types of interest are considered. The question then becomes, how can two or more high-dimensional data types (i.e., in this case genomic and neuroimaging) be leveraged, integrated, and analyzed in order to make valid inferences about the genetic basis of neuropsychi- atric disease? We comment on the analytic issues that arise when trying to leverage both genome-wide genetic data and neuroimaging data (e.g., problems related to multiple comparisons and false positives, as well as small sample sizes), and discuss four general approaches, each with its own set of advantages and disadvantages, that can be used in the analysis of imag- ing-genetics data. Finally, we provide a brief review of some of the recent studies that combine imaging and genetics, but note that the field, as a whole, is still very much in its infancy. We also provide suggestions for future directions.},
year = {2009},
date-added = {2010-01-13 23:24:37 +0100},
date-modified = {2010-01-13 23:25:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bloss-2009-_Leveraging%20High-Dime.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3011},
rating = {0}
}
@article{Ricci:2008p5058,
author = {Daniela Ricci and Laura Cesarini and Domenico M M Romeo and Francesca Gallini and Francesca Serrao and Michela Groppo and Agnese De Carli and Francesco Cota and Domenico Lepore and Fernando Molle and Roberto Ratiglia and Maria Pia De Carolis and Fabio Mosca and Costantino Romagnoli and Francesco Guzzetta and Frances Cowan and Luca A Ramenghi and Eugenio Mercuri},
journal = {Pediatrics},
title = {Visual function at 35 and 40 weeks' postmenstrual age in low-risk preterm infants},
abstract = {OBJECTIVES: The objectives of this study were to (1) assess visual function in low-risk preterm infants at 35 and 40 weeks' postmenstrual age, (2) compare preterm visual abilities at term-equivalent age with term-born infants, and (3) evaluate effects of preterm extrauterine life on early visual function. METHODS: Visual function was assessed by using a validated test battery at 35 and 40 weeks' postmenstrual age in 109 low-risk preterm infants who were born at <31 weeks' gestation. The preterm findings were compared with data from term-born infants collected by using the same test protocol. RESULTS: All preterm infants completed both assessments. The 35-week responses were generally less mature than those at 40 weeks. Preterm infants at both ages were significantly more mature than term-born infants for ocular movements and vertical and arc tracking and at 40 weeks for stripe discrimination. In contrast, tracking a colored stimulus, attention at distance, and stripe discrimination were more mature at term age (in both term-born and preterm infants) than at 35 weeks. CONCLUSIONS: Our findings provide data for visual function at 35 and 40 weeks' postmenstrual age in low-risk preterm infants. The results suggest that early extrauterine experience may accelerate the maturation of aspects of visual function related to ocular stability and tracking but does not seem to affect other aspects that may be more cortically mediated.},
affiliation = {Catholic University, Pediatric Neurology Unit, Largo Gemelli 8, 00168 Rome, Italy.},
number = {6},
pages = {e1193--8},
volume = {122},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Visual Acuity, Child Development, Female, Vision Screening, Male, Eye Movements, Infant: Premature, Probability, Infant: Newborn, Italy, Vision: Ocular, Retrospective Studies, Menstrual Cycle, Term Birth, Follow-Up Studies, Gestational Age, Risk Assessment, Humans, Reference Values, Age Factors, Visual Perception, Cohort Studies, Statistics: Nonparametric},
date-added = {2010-02-05 20:04:45 +0100},
date-modified = {2010-02-05 20:04:45 +0100},
doi = {10.1542/peds.2008-1888},
pii = {122/6/e1193},
pmid = {19047222},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ricci-2008-Pediatrics_Visual%20function%20at%203.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5058},
rating = {0}
}
@article{Kontsevich:2002p4626,
author = {Leonid L Kontsevich and Chien-Chung Chen and Preeti Verghese and Christopher W Tyler},
journal = {Nat Neurosci},
title = {The unique criterion constraint: a false alarm?},
affiliation = {Smith Kettlewell Eye Res Inst, San Fancisco, CA},
number = {8},
pages = {707; author reply 707--8},
volume = {5},
year = {2002},
month = {Aug},
language = {eng},
keywords = {Mathematics, Reproducibility of Results, Models: Neurological, Humans, Signal Processing: Computer-Assisted, Neurons},
date-added = {2010-01-30 15:32:53 +0100},
date-modified = {2010-01-30 15:32:53 +0100},
doi = {10.1038/nn0802-707a},
pii = {nn0802-707a},
pmid = {12149617},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kontsevich-2002-Nat%20Neurosci_The%20unique%20criterion.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4626},
rating = {0}
}
@misc{Yamamoto:2002,
author = {K Yamamoto},
journal = {Miscellaneous},
title = {Estimating PISA students on the IALS prose literacy scale},
year = {2002},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yamamoto-2002-Miscellaneous_Estimating%20PISA%20stud.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1937},
rating = {0}
}
@article{Busjahn:1999p11468,
author = {A Busjahn and H D Faulhaber and K Freier and F C Luft},
journal = {Psychosom Med},
title = {Genetic and environmental influences on coping styles: a twin study},
abstract = {OBJECTIVE: Coping styles are generally considered to be environmentally driven, primarily by family influences. However, because personality traits are commonly influenced by genetic effects, we hypothesized that heredity is also important for coping. METHODS: We tested this hypothesis by assessing 19 coping styles, as well as four secondary coping factors, by questionnaire in 212 pairs of monozygotic and dizygotic twins. We then examined heredity by structural equation modeling. RESULTS: All coping styles showed evidence of genetic influences. The coping styles shared one common genetic factor. In addition, each coping style was also influenced by other separate genetic factors. Shared environment had no significant influence on coping styles. Three of 19 more specific coping styles showed shared environmental effects as well as genetic influences, 14 were solely under genetic influences, and two showed only shared environment effects. CONCLUSIONS: We suggest that hereditary effects on certain coping style preferences cannot be explained solely by genetic influences on major personality traits and temperament. An analysis of the relationships between coping and personality in twin subjects may elucidate the distinction between genetic and environmental effects.},
affiliation = {Franz Volhard Clinic, Max Delbr{\"u}ck Center for Molecular Medicine, Medical Faculty of the Charit{\'e}, Humboldt University, Berlin, Germany. busjahn@fvk-berlin.de},
number = {4},
pages = {469--75},
volume = {61},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Male, Genetic Markers, Polymerase Chain Reaction, Reproducibility of Results, Female, Middle Aged, Twins, Zygote, Phenotype, Environment, Adaptation: Psychological, Humans, Questionnaires, Adult},
date-added = {2010-05-01 17:24:18 +0200},
date-modified = {2010-07-29 19:47:44 +0200},
pmid = {10443755},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11468},
rating = {0}
}
@article{McClure:2000,
author = {GMG McClure},
journal = {British Journal of Psychiatry},
title = {Changes in suicide in England and wales 1960-1997},
abstract = {Background Methods of suicide and suicide rates in England and Wales have fluctuated considerably since the 1960s. Aims To review the changes that have occurred in suicide rates in England and Wales between 1960 and 1997. Method Suicide rates, derived from total annual suicides and the estimated annual resident population, were obtained from the Office for National Statistics. Results Suicide rates decreased in both genders between the early 1960s and the mid-1970s. The rate for males then increased between 1975 and 1990, while the rate for females continued to fall. Between 1990 and 1997, the rate decreased for males and females in all age groups, particularly for those using motor vehicle exhaust gas; the latter finding is associated with increasing use of catalytic converters. Conclusions Following the increase in suicide among males until 1990 there was a decrease for both genders between 1990 and 1997, consistent with the `Health of the Nation' target.},
pages = {64--87},
volume = {176},
year = {2000},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1036},
rating = {0}
}
@article{Weihrauch:2004p6469,
author = {Thomas R Weihrauch},
journal = {Sci Eng Ethics},
title = {Placebo treatment is effective differently in different diseases--but is it also harmless? A brief synopsis},
abstract = {The placebo drug reactions from controlled trials were studied for the first time systematically for efficacy and the safety in drug data pooled from randomized, placebo-controlled, multicentre studies. RESULTS: The efficacy of placebo on clinical symptoms and outcome varied between the therapeutic indications. However, no placebo effects on laboratory values, as e.g. blood glucose or Hb1c in diabetics, were noted. The frequency and type of placebo-induced adverse reactions also varied between indication groups. The placebo side effect profile was largely similar to the side effect profile of the active treatment. The mechanisms of placebo effects are many fold and varied (e.g. endorphin release, conditioning), much lacks explanation. CONCLUSION: Since the prescription of non-evidence based medicines (= pseudoplacebos) may clearly also result in serious adverse effects, such practice may not only be non-beneficial but may even be harmful. In clinical research, the judicious use of placebo remains essential to establish the efficacy and safety, safeguarding that patients receiving placebo will not be subject to harm and are fully informed.},
affiliation = {Pharmaceutical Research Center, Bayer AG, Aprather Weg, 42096 Wuppertal, Germany. thomas.weihrauch.tw@bayer-ag.de},
number = {1},
pages = {151--5},
volume = {10},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Human Experimentation, Placebos, Randomized Controlled Trials as Topic, Helsinki Declaration, Humans, Placebo Effect, Guidelines as Topic},
date-added = {2010-02-23 08:34:46 +0100},
date-modified = {2010-02-23 08:34:46 +0100},
pmid = {14986781},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Weihrauch-2004-Sci%20Eng%20Ethics_Placebo%20treatment%20is.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6469},
rating = {0}
}
@article{Hsu:2007p5883,
author = {C F Hsu and B Chang and H F Hung},
journal = {Proceedings of the 2007 IEEE IEEM},
title = {Applying SVM to Build Supplier Evaluation Model -- Comparing Likert Scale and Fuzzy Scale},
abstract = {This research was performed to generate a supplier evaluation (SE) model in order to enhance an enterprise's competitiveness, and apply this model to solve practical business problems. Through past studies, we applied representative supplier evaluation principles while designing supplier evaluation questionnaire, and classified the suppliers into three categories: perform excellently (class 1), perform ordinary (class 2), and perform poorly (class 3). The Likert scale and Fuzzy scale are applied individually to compute a score according to these principles. We then apply the support vector machine (SVM) to build the supplier evaluation classifier, and observe under SVM whether using the Likert or Fuzzy scale produces better classification performance. The result revealed that the performance is invariant under both scales. Therefore, we find SVM combined with efficient feature reduction to be a better strategy for building a supplier evaluation model.},
pages = {6--10},
year = {2007},
date-added = {2010-02-17 15:12:12 +0100},
date-modified = {2010-02-17 15:13:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hsu-2007-Proceedings%20of%20the%202007%20IEEE%20IEEM_Applying%20SVM%20to%20Buil.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5883},
rating = {0}
}
@article{Patterson:2004p3531,
author = {Nick Patterson and Neil Hattangadi and Barton Lane and Kirk E Lohmueller and David A Hafler and Jorge R Oksenberg and Stephen L Hauser and Michael W Smith and Stephen J O'Brien and David M Altshuler and Mark J Daly and David Reich},
journal = {Am J Hum Genet},
title = {Methods for high-density admixture mapping of disease genes},
abstract = {Admixture mapping (also known as "mapping by admixture linkage disequilibrium," or MALD) has been proposed as an efficient approach to localizing disease-causing variants that differ in frequency (because of either drift or selection) between two historically separated populations. Near a disease gene, patient populations descended from the recent mixing of two or more ethnic groups should have an increased probability of inheriting the alleles derived from the ethnic group that carries more disease-susceptibility alleles. The central attraction of admixture mapping is that, since gene flow has occurred recently in modern populations (e.g., in African and Hispanic Americans in the past 20 generations), it is expected that admixture-generated linkage disequilibrium should extend for many centimorgans. High-resolution marker sets are now becoming available to test this approach, but progress will require (a). computational methods to infer ancestral origin at each point in the genome and (b). empirical characterization of the general properties of linkage disequilibrium due to admixture. Here we describe statistical methods to estimate the ancestral origin of a locus on the basis of the composite genotypes of linked markers, and we show that this approach accurately estimates states of ancestral origin along the genome. We apply this approach to show that strong admixture linkage disequilibrium extends, on average, for 17 cM in African Americans. Finally, we present power calculations under varying models of disease risk, sample size, and proportions of ancestry. Studying approximately 2500 markers in approximately 2500 patients should provide power to detect many regions contributing to common disease. A particularly important result is that the power of an admixture mapping study to detect a locus will be nearly the same for a wide range of mixture scenarios: the mixture proportion should be 10%-90% from both ancestral populations.},
affiliation = {Program in Medical and Population Genetics, Broad Institute, Cambridge, MA, USA.},
number = {5},
pages = {979--1000},
volume = {74},
year = {2004},
month = {May},
language = {eng},
keywords = {Polymorphism: Genetic, Gene Frequency, Genetic Markers, Linkage Disequilibrium, African Continental Ancestry Group, Genetic Diseases: Inborn, Alleles, Risk, Tandem Repeat Sequences, Chromosome Mapping, Software, European Continental Ancestry Group, Humans, Ethnic Groups, Genome: Human},
date-added = {2010-01-15 15:57:08 +0100},
date-modified = {2010-07-29 20:21:03 +0200},
doi = {10.1086/420871},
pii = {S0002-9297(07)64363-8},
pmid = {15088269},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patterson-2004-Am%20J%20Hum%20Genet_Methods%20for%20high-den.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3531},
rating = {0}
}
@article{Speed:2009p1457,
author = {Terry Speed and Hongyu Zhao},
journal = {Stat Methods Med Res},
title = {Microarrays},
number = {6},
pages = {531--2},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:25:21 +0100},
date-modified = {2010-01-07 12:25:21 +0100},
doi = {10.1177/0962280209352042},
pii = {18/6/531},
pmid = {20048382},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Speed-2009-Stat%20Methods%20Med%20Res_Microarrays.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1457},
rating = {0}
}
@misc{Yu:2007,
author = {C H Yu},
journal = {Miscellaneous},
title = {Automation and visualization of distractor analysis using SAS/GRAPH},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2007-Miscellaneous_Automation%20and%20visua.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2157},
rating = {0}
}
@article{Geisinger:1994p11658,
author = {K F Geisinger},
journal = {Psychol Assess},
title = {Cross-Cultural Normative Assessment: Translation and Adaptation Issues Influencing the Normative Interpretation ofAssessment Instruments},
abstract = {This article describes some of the issues affecting measures that are translated and/or adapted from an original language and culture to a new one. It addresses steps to ensure (a) that the test continues to measure the same psychological characteristics, (b) that the test content is the same, and (c) that the research procedures needed to document that it effectively meets this goal are available. Specifi- cally, the notions of test validation, fairness, and norms are addressed. An argument that such adap- tations may be necessary when assessing members of subpopulations in U.S. culture is proposed.},
number = {4},
pages = {304--312},
volume = {6},
year = {1994},
date-added = {2010-05-11 22:54:54 +0200},
date-modified = {2010-07-29 19:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Geisinger-1994-Psychol%20Assess_Cross-Cultural%20Norma.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11658},
rating = {0}
}
@article{Wiesel:2008p416,
author = {Ami Wiesel and Mark Kliger and Alfred O. Hero III},
journal = {arXiv},
title = {A greedy approach to sparse canonical correlation analysis},
abstract = { We consider the problem of sparse canonical correlation analysis (CCA), i.e., the search for two linear combinations, one for each multivariate, that yield maximum correlation using a specified number of variables. We propose an efficient numerical approximation based on a direct greedy approach which bounds the correlation at each stage. The method is specifically designed to cope with large data sets and its computational complexity depends only on the sparsity levels. We analyze the algorithm's performance through the tradeoff between correlation and parsimony. The results of numerical simulation suggest that a significant portion of the correlation may be captured using a relatively small number of variables. In addition, we examine the use of sparse CCA as a regularization method when the number of available samples is small compared to the dimensions of the multivariates. },
note = {5 pages, 3 pages},
eprint = {0801.2748v1},
volume = {stat.CO},
year = {2008},
month = {Jan},
keywords = {stat.CO, stat.ME},
date-added = {2010-01-03 12:07:44 +0100},
date-modified = {2010-01-03 12:07:44 +0100},
pmid = {0801.2748v1},
url = {http://arxiv.org/abs/0801.2748v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wiesel-2008-arXiv_A%20greedy%20approach%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p416},
rating = {0}
}
@article{Naber:2008p11027,
author = {Fabi{\"e}nne B A Naber and Marian J Bakermans-Kranenburg and Marinus H van Ijzendoorn and Sophie H N Swinkels and Jan K Buitelaar and Claudine Dietz and Emma van Daalen and Herman van Engeland},
journal = {J Autism Dev Disord},
title = {Play behavior and attachment in toddlers with autism},
abstract = {Play helps to develop social skills. Children with autism show deviances in their play behavior that may be associated with delays in their social development. In this study, we investigated manipulative, functional and symbolic play behavior of toddlers with and without autism (mean age: 26.45, SD 5.63). The results showed that the quality of interaction between the child and the caregiver was related to the development of play behavior. In particular, security of attachment was related to better play behavior. When the developmental level of the child is taken into account, the attachment relationship of the child with the caregiver at this young age is a better predictor of the level of play behavior than the child's disorder.},
affiliation = {Centre for Child and Family studies, University of Leiden, 9555, 2300 RB Leiden, The Netherlands. Fnaber@fsw.leidenuniv.nl},
number = {5},
pages = {857--66},
volume = {38},
year = {2008},
month = {May},
language = {eng},
keywords = {Child: Preschool, Play and Playthings, Autistic Disorder, Time Factors, Object Attachment, Female, Humans, Psychomotor Performance, Male},
date-added = {2010-04-14 13:41:27 +0200},
date-modified = {2010-04-14 13:41:27 +0200},
doi = {10.1007/s10803-007-0454-5},
pmid = {17896172},
url = {http://www.springerlink.com/content/j611765408220298/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Naber-2008-J%20Autism%20Dev%20Disord_Play%20behavior%20and%20at.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11027},
rating = {0}
}
@article{Teresi:2000p547,
author = {J A Teresi and M Kleinman and K Ocepek-Welikson},
journal = {Stat Med},
title = {Modern psychometric methods for detection of differential item functioning: application to cognitive assessment measures},
abstract = {Cognitive screening tests and items have been found to perform differently across groups that differ in terms of education, ethnicity and race. Despite the profound implications that such bias holds for studies in the epidemiology of dementia, little research has been conducted in this area. Using the methods of modern psychometric theory (in addition to those of classical test theory), we examined the performance of the Attention subscale of the Mattis Dementia Rating Scale. Several item response theory models, including the two- and three-parameter dichotomous response logistic model, as well as a polytomous response model were compared. (Log-likelihood ratio tests showed that the three-parameter model was not an improvement over the two-parameter model.) Data were collected as part of the ten-study National Institute on Aging Collaborative investigation of special dementia care in institutional settings. The subscale KR-20 estimate for this sample was 0.92. IRT model-based reliability estimates, provided at several points along the latent attribute, ranged from 0.65 to 0.97; the measure was least precise at the less disabled tail of the distribution. Most items performed in similar fashion across education groups; the item characteristic curves were almost identical, indicating little or no differential item functioning (DIF). However, four items were problematic. One item (digit span backwards) demonstrated a large error term in the confirmatory factor analysis; item-fit chi-square statistics developed using BIMAIN confirm this result for the IRT models. Further, the discrimination parameter for that item was low for all education subgroups. Generally, persons with the highest education had a greater probability of passing the item for most levels of theta. Model-based tests of DIF using MULTILOG identified three other items with significant, albeit small, DIF. One item, for example, showed non-uniform DIF in that at the impaired tail of the latent distribution, persons with higher education had a higher probability of correctly responding to the item than did lower education groups, but at less impaired levels, they had a lower probability of a correct response than did lower education groups. Another method of detection identified this item as having DIF (unsigned area statistic=3.05, p<0.01, and 2.96, p<0.01). On average, across the entire score range, the lower education group's probability of answering the item correctly was 0.11 higher than the higher education group's probability. A cross-validation with larger subgroups confirmed the overall result of little DIF for this measure. The methods used for detecting differential item functioning (which may, in turn, be indicative of bias) were applied to a neuropsychological subtest. These methods have been used previously to examine bias in screening measures across education and ethnic and racial subgroups. In addition to the important epidemiological applications of ensuring that screening measures and neuropsychological tests used in diagnoses are free of bias so that more culture-fair classifications will result, these methods are also useful for the examination of site differences in large multi-site clinical trials. It is recommended that these methods receive wider attention in the medical statistical literature.},
affiliation = {Columbia University, Stroud Center, New York, NY 10032, USA. Teresimeas@aol.com},
number = {11-12},
pages = {1651--83},
volume = {19},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Aged, Neuropsychological Tests, Nursing Homes, Bias (Epidemiology), Humans, Alzheimer Disease, Aged: 80 and over, Psychometrics, United States, Homes for the Aged, Mass Screening},
date-added = {2010-01-03 14:17:52 +0100},
date-modified = {2010-01-03 14:17:52 +0100},
pii = {10.1002/(SICI)1097-0258(20000615/30)19:11/12<1651::AID-SIM453>3.0.CO;2-H},
pmid = {10844726},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Teresi-2000-Stat%20Med_Modern%20psychometric.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p547},
rating = {0}
}
@article{Lawson:2006p1828,
author = {Douglas M Lawson},
journal = {J Manipulative Physiol Ther},
title = {Applying the item response theory to classroom examinations},
abstract = {OBJECTIVE: The purpose of this research project was to determine if the item response theory (IRT) can successfully be applied to smaller-sized class examinations. METHODS: The Rasch mathematical model (RMM) was selected from the family of IRT models because of its ability to work with smaller sample sizes. Two simulated examinations were created for 100 students by 100-item dichotomous examinations. Examination 2 contained 20 items common with those in examination 1. Examination 1 was systematically exposed to randomly missing student responses and to entire items being removed to determine the robustness of the RMM to missing data. The two examinations were then analyzed with the RMM individually and then in combination. Student scores and IRT measures were compared to determine if the IRT could successfully place the students from the two examinations on the same metric of measure. RESULTS: The student measures were not affected when up to 20% of the student responses were randomly missing. Student measures continued to have high reliability and correlated with full matrix measures for up to 40% of items being dropped from the examination. Student scores and IRT measures correlated highly when the two examinations were combined. CONCLUSIONS: The RMM can be successfully applied to small-sized class examinations, such as those at chiropractic, medical, and other health profession institutions. It is possible to place candidates from different administrations on the same metric of measure if there is as little as a 20% overlap of items between examinations. The RMM could assist faculty in determining if differences in candidate scores are caused by ability or item difficulty.},
affiliation = {Faculty of Medicine, Medical Education Research Center, University of Calgary, Calgary, Alberta, Canada T1Y1C9. lawsondrdm@gmail.com},
number = {5},
pages = {393--7},
volume = {29},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Humans, Chiropractic, Educational Measurement},
date-added = {2010-01-09 23:00:24 +0100},
date-modified = {2010-01-09 23:00:24 +0100},
doi = {10.1016/j.jmpt.2006.04.006},
pii = {S0161-4754(06)00085-6},
pmid = {16762668},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1828},
rating = {0}
}
@article{Clark:2010p7570,
author = {D B Clark and H B Moss},
journal = {PLoS Med},
title = {Providing Alcohol-Related Screening and Brief Interventions to Adolescents through Health Care Systems: Obstacles and Solutions},
number = {3},
pages = {e1000214},
volume = {7},
year = {2010},
date-added = {2010-03-14 10:58:42 +0100},
date-modified = {2010-03-14 10:59:42 +0100},
doi = {10.1371/journal. pmed.1000214},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clark-2010-PLoS%20Med_Providing%20Alcohol-Re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7570},
rating = {0}
}
@article{Damico:2009p2387,
author = {A Damico},
journal = {The R Journal},
title = {Transitioning to R: Replicating SAS, Stata, and SUDAAN analysis techniques in Health Policy data},
abstract = {Statistical, data manipulation, and presentation tools make R an ideal integrated package for research in the fields of health policy and healthcare management and evaluation. However, the technical documentation accompanying most data sets used by researchers in these fields does not include syntax examples for analysts to make the transition from another statistical package to R. This paper describes the steps required to import health policy data into R, to prepare that data for analysis using the two most common complex survey variance calculation techniques, and to produce the principal set of statistical estimates sought by health policy researchers. Using data from the Medical Expenditure Panel Survey Household Component (MEPS-HC), this paper outlines complex survey data analysis techniques in R, with side-by-side comparisons to the SAS, Stata, and SUDAAN statistical software packages.},
pages = {37--44},
volume = {1/2},
year = {2009},
date-added = {2010-01-11 19:45:25 +0100},
date-modified = {2010-01-11 19:47:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Damico-2009-The%20R%20Journal_Transitioning%20to%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2387},
rating = {0}
}
@article{Lindeboom:2004p6387,
author = {R Lindeboom and R Holman and M G W Dijkgraaf and M A G Sprangers and E Buskens and J P Diederiks and R J De Haan},
journal = {Journal of Clinical Epidemiology},
title = {Scaling the sickness impact profile using item response theory: an exploration of linearity, adaptive use, and patient driven item weights},
abstract = {BACKGROUND AND OBJECTIVE: The objective of the study was to enhance the clinical interpretation and practicality of the widely used comprehensive Sickness Impact Profile. METHOD: Item Response Theory (extension of the Rasch model) was used to calibrate the severity of the SIP items, to assess item bias and to construct equally severe short forms of the SIP that can be used interchangeably. The scores of 1507 subjects were analyzed. RESULTS: Of the 127 SIP items, 82 items fitted the extended Rasch model, i.e., the observed proportions of sickness level groups endorsing the items corresponded to the proportions expected by the model. The item severity hierarchy allowed a more straightforward interpretation of the calibrated SIP-82 scores. Some items showed bias in age, gender, or diagnosis groups. The equivalent short forms agreed sufficiently well with the calibrated SIP-82 item pool to be used interchangeably. We observed a moderate correlation between the original SIP item severity weights and the Rasch item severity calibrations (r=0.53). CONCLUSION: The interpretability and practicality of the SIP was enhanced by the IRT calibration. Using the item calibrations, short forms can be assembled that can be used interchangeably.},
affiliation = {Department of Clinical Epidemiology and Biostatistics, Academic Medical Center, P.O. Box 22660, 1100 DD Amsterdam, The Netherlands. r.lindeboom@amc.uva.nl},
number = {1},
pages = {66--74},
volume = {57},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Sensitivity and Specificity, Neoplasms, Pancreatitis: Acute Necrotizing, Humans, Endarterectomy: Carotid, Calibration, Myocardial Infarction, Psychometrics, Hearing Loss, Sickness Impact Profile, Data Interpretation: Statistical, Case-Control Studies, Endocarditis: Bacterial, Stroke},
date-added = {2010-02-23 08:24:29 +0100},
date-modified = {2010-02-23 08:24:29 +0100},
doi = {10.1016/S0895-4356(03)00212-9},
pii = {S0895435603002129},
pmid = {15019012},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lindeboom-2004-Journal%20of%20Clinical%20Epidemiology_Scaling%20the%20sickness.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6387},
rating = {0}
}
@article{Rodin:2009p12953,
author = {Andrei S Rodin and Anatoliy Litvinenko and Kathy Klos and Alanna C Morrison and Trevor Woodage and Josef Coresh and Eric Boerwinkle},
journal = {Journal of computational biology : a journal of computational molecular cell biology},
title = {Use of wrapper algorithms coupled with a random forests classifier for variable selection in large-scale genomic association studies},
abstract = {Modern large-scale genetic association studies generate increasingly high-dimensional datasets. Therefore, some variable selection procedure should be performed before the application of traditional data analysis methods, for reasons of both computational efficiency and problems related to overfitting. We describe here a "wrapper" strategy (SIZEFIT) for variable selection that uses a Random Forests classifier, coupled with various local search/optimization algorithms. We apply it to a large dataset consisting of 2,425 African-American and non-Hispanic white individuals genotyped for 4,869 single-nucleotide polymorphisms (SNPs) in a coronary heart disease (CHD) case-cohort association study (Atherosclerosis Risk in Communities), using incident CHD and plasma low-density lipoprotein (LDL) cholesterol levels as the dependent variables. We show that most SNPs can be safely removed from the dataset without compromising the predictive (classification) accuracy, with only a small number of SNPs (sometimes less than 100) containing any predictive signal. A statistical (SUMSTAT) approach is also applied to the dataset for comparison purposes. We describe a novel method for refining the subset of signal-containing SNPs (FIXFIT), based on an Extremal Optimization algorithm. Finally, we compare the top SNP rankings obtained by different methods and devise practical guidelines for researchers trying to generate a compact subset of predictive SNPs from genome-wide association datasets. Interestingly, there is a significant amount of overlap between seemingly very heterogeneous rankings. We conclude by constructing compact optimal predictive SNP subsets for CHD (less than 150 SNPs) and LDL (less than 300 SNPs) phenotypes, and by comparing various rankings for two well-known positive control SNPs for LDL in the apolipoprotein E gene.},
affiliation = {Human Genetics Center, School of Public Health, University of Texas Health Science Center, Houston, Texas, USA. asrodin@hotmail.com},
number = {12},
pages = {1705--18},
volume = {16},
year = {2009},
month = {Dec},
language = {eng},
keywords = {African Americans, Genome-Wide Association Study, Apolipoproteins E, Algorithms, Databases: Genetic, Humans, Models: Genetic, Atherosclerosis, Genetic Predisposition to Disease},
date-added = {2010-06-25 22:05:41 +0200},
date-modified = {2010-06-25 22:05:42 +0200},
doi = {10.1089/cmb.2008.0037},
pmid = {20047492},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12953},
rating = {0}
}
@article{Joseph:2009p12169,
author = {Jane E Joseph and Xun Liu and Yang Jiang and Donald Lynam and Thomas H Kelly},
journal = {Psychol Sci},
title = {Neural correlates of emotional reactivity in sensation seeking},
abstract = {High sensation seeking has been linked to increased risk for drug abuse and other negative behavioral outcomes. This study explored the neurobiological basis of this personality trait using functional magnetic resonance imaging (fMRI). High sensation seekers (HSSs) and low sensation seekers (LSSs) viewed high- and low-arousal pictures. Comparison of the groups revealed that HSSs showed stronger fMRI responses to high-arousal stimuli in brain regions associated with arousal and reinforcement (right insula, posterior medial orbitofrontal cortex), whereas LSSs showed greater activation and earlier onset of fMRI responses to high-arousal stimuli in regions involved in emotional regulation (anterior medial orbitofrontal cortex, anterior cingulate). Furthermore, fMRI response in anterior medial orbitofrontal cortex and anterior cingulate was negatively correlated with urgency. Finally, LSSs showed greater sensitivity to the valence of the stimuli than did HSSs. These distinct neurobiological profiles suggest that HSSs exhibit neural responses consistent with an overactive approach system, whereas LSSs exhibit responses consistent with a stronger inhibitory system.},
affiliation = {Department of Anatomy and Neurobiology, University of Kentucky Chandler Medical Center, Lexington, KY 40536-0098, USA. jjoseph@uky.edu},
number = {2},
pages = {215--23},
volume = {20},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Risk Factors, Cerebral Cortex, Reinforcement (Psychology), Magnetic Resonance Imaging, Male, Humans, Exploratory Behavior, Arousal, Questionnaires, Affect, Prefrontal Cortex, Nerve Net, Substance-Related Disorders, Female},
date-added = {2010-05-30 10:44:39 +0200},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2009.02283.x},
pii = {PSCI2283},
pmid = {19222814},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12169},
rating = {0}
}
@article{Uher:2010p11106,
author = {Rudolf Uher and Robert Goodman},
journal = {Soc Psychiatry Psychiatr Epidemiol},
title = {The Everyday Feeling Questionnaire: the structure and validation of a measure of general psychological well-being and distress},
abstract = {BACKGROUND: Psychological distress and well-being underlie the continuum of susceptibility to common mental disorders. Our objective was to provide a simple and acceptable measure of psychological distress and well-being to collect information from subjects and informants in non-clinical samples, to explore its internal structure, concurrent and external validity. METHOD: Self and partner versions of the ten-item Everyday Feeling Questionnaire (EFQ) were administered to 5,279 adults. The 12-item General Health Questionnaire (GHQ) was used to establish concurrent validity. Socioeconomic status, child psychopathology, and family functioning served as external validators. RESULTS: The EFQ was internally consistent with all items loading strongly on a single common factor. Item response analysis showed excellent sensitivity of the ten items, balanced contribution of well-being and distress items and good information content across a broad range. The internal structure of partner version did not differ from self-report. The constructs measured by the EFQ and GHQ were distinct, but highly correlated. The EFQ's correlations with external validators were stronger than GHQ's ones. CONCLUSION: Psychological well-being and distress are measurable as a single construct, using the EFQ. The partner-report version will facilitate the collection of data on multiple household members or on the same individual from two or more sources.},
affiliation = {King's College London Institute of Psychiatry, London, SE5 8AF, UK.},
number = {3},
pages = {413--23},
volume = {45},
year = {2010},
month = {Mar},
language = {eng},
keywords = {Adaptation: Psychological, Child, Risk Factors, Female, Health Status, Sensitivity and Specificity, Adolescent, Stress: Psychological, Reproducibility of Results, Attitude to Health, Mental Disorders, Social Class, Middle Aged, Male, Adult, Family Characteristics, Humans, Psychometrics, Questionnaires, Quality of Life, Follow-Up Studies},
date-added = {2010-04-14 13:54:00 +0200},
date-modified = {2010-07-29 19:50:19 +0200},
doi = {10.1007/s00127-009-0074-9},
pmid = {19466369},
url = {http://www.springerlink.com/content/k4803647j75m1787/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Uher-2010-Soc%20Psychiatry%20Psychiatr%20Epidemiol_The%20Everyday%20Feeling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11106},
rating = {0}
}
@article{Eudey:2010p14021,
author = {T L Eudey and J D Kerr and B E Trumbo},
journal = {Journal of Statistics Education},
title = {Using R to Simulate Permutation Distributions for Some Elementary Experimental Designs},
abstract = {Null distributions of permutation tests for two-sample, paired, and block designs are simulated using the R statistical programming language. For each design and type of data, permutation tests are compared with standard normal-theory and nonparametric tests. These examples (often using real data) provide for classroom discussion use of metrics that are appropriate for the data. Simple programs in R are provided and explained briefly. Suggestions are provided for use of permutation tests and R in teaching statistics courses for upper-division and first year graduate students.},
number = {1},
volume = {18},
year = {2010},
date-added = {2010-08-09 09:58:16 +0200},
date-modified = {2010-08-09 09:59:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eudey-2010-Journal%20of%20Statistics%20Education_Using%20R%20to%20Simulate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14021},
rating = {0}
}
@article{Hanisch:2010p4191,
author = {Charlotte Hanisch and Inez Freund-Braier and Christopher Hautmann and Nicola J{\"a}nen and Julia Pl{\"u}ck and Gabriele Brix and Ilka Eichelberger and Manfred D{\"o}pfner},
journal = {Behav Cogn Psychother},
title = {Detecting effects of the indicated prevention Programme for Externalizing Problem behaviour (PEP) on child symptoms, parenting, and parental quality of life in a randomized controlled trial},
abstract = {BACKGROUND: Behavioural parent training is effective in improving child disruptive behavioural problems in preschool children by increasing parenting competence. The indicated Prevention Programme for Externalizing Problem behaviour (PEP) is a group training programme for parents and kindergarten teachers of children aged 3-6 years with externalizing behavioural problems. AIMS: To evaluate the effects of PEP on child problem behaviour, parenting practices, parent-child interactions, and parental quality of life. METHOD: Parents and kindergarten teachers of 155 children were randomly assigned to an intervention group (n = 91) and a nontreated control group (n = 64). They rated children's problem behaviour before and after PEP training; parents also reported on their parenting practices and quality of life. Standardized play situations were video-taped and rated for parent-child interactions, e.g. parental warmth. RESULTS: In the intention to treat analysis, mothers of the intervention group described less disruptive child behaviour and better parenting strategies, and showed more parental warmth during a standardized parent-child interaction. Dosage analyses confirmed these results for parents who attended at least five training sessions. Children were also rated to show less behaviour problems by their kindergarten teachers. CONCLUSIONS: Training effects were especially positive for parents who attended at least half of the training sessions. ABBREVIATIONS: CBCL: Child Behaviour Checklist; CII: Coder Impressions Inventory; DASS: Depression anxiety Stress Scale; HSQ: Home-situation Questionnaire; LSS: Life Satisfaction Scale; OBDT: observed behaviour during the test; PCL: Problem Checklist; PEP: prevention programme for externalizing problem behaviour; PPC: Parent Problem Checklist; PPS: Parent Practices Scale; PS: Parenting Scale; PSBC: Problem Setting and Behaviour checklist; QJPS: Questionnaire on Judging Parental Strains; SEFS: Self-Efficacy Scale; SSC: Social Support Scale; TRF: Caregiver-Teacher Report Form.},
affiliation = {University of Applied Sciences D{\"u}sseldorf, Germany. charlotte.hanisch@fh-duesseldorf.de},
number = {1},
pages = {95--112},
volume = {38},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-21 07:58:13 +0100},
date-modified = {2010-01-21 07:58:13 +0100},
doi = {10.1017/S1352465809990440},
pii = {S1352465809990440},
pmid = {19995467},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4191},
rating = {0}
}
@article{Dolnicar:2009p13380,
author = {S Dolnicar and F Leisch},
journal = {Marketing Letters},
title = {Evaluation of Structure and Reproducibility of Cluster Solutions Using the Bootstrap},
abstract = {Segmentation results derived using cluster analysis depend on (1) the structure of the data and (2) algorithm parameters. Typically neither the data structure is assessed in advance of clustering nor is the sensitivity of the analysis to changes in algorithm parameters. We propose a benchmarking framework based on bootstrapping techniques that accounts for sample and algorithm randomness. This provides much needed guidance both to data analysts and users of clustering solutions regarding the choice of the final clusters from computations which are exploratory in nature.},
year = {2009},
date-added = {2010-07-01 19:15:58 +0200},
date-modified = {2010-07-01 19:19:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dolnicar-2009-Marketing%20Letters_Evaluation%20of%20Struct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13380},
rating = {5}
}
@misc{Finkelman:2007,
author = {Matthew Finkelman and Wonsuk Kim},
journal = {Miscellaneous},
title = {Using person fit in a body of work standard setting},
year = {2007},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finkelman-2007-Miscellaneous_Using%20person%20fit%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1943},
rating = {0}
}
@article{Bender:2010p6558,
author = {Ralf Bender and Oliver Kuss},
journal = {Journal of Clinical Epidemiology},
title = {Methods to calculate relative risks, risk differences, and numbers needed to treat from logistic regression},
affiliation = {Department of Medical Biometry, Institute for Quality and Efficiency in Health Care (IQWiG), Dillenburger Str. 27, D-51105 Cologne, Germany. Ralf.Bender@iqwig.de},
number = {1},
pages = {7--8},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:36:38 +0100},
date-modified = {2010-02-24 20:36:38 +0100},
doi = {10.1016/j.jclinepi.2009.07.007},
pii = {S0895-4356(09)00214-5},
pmid = {19762212},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bender-2010-Journal%20of%20Clinical%20Epidemiology_Methods%20to%20calculate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6558},
rating = {0}
}
@article{Lin:2006p3921,
author = {D Y Lin},
journal = {Am J Hum Genet},
title = {Evaluating statistical significance in two-stage genomewide association studies},
abstract = {Genomewide association studies are being conducted to unravel the genetic etiology of complex human diseases. Because of cost constraints, these studies typically employ a two-stage design, under which a large panel of markers is examined in a subsample of subjects, and the most-promising markers are then examined in all subjects. This report describes a simple and efficient method to evaluate statistical significance for such genome studies. The proposed method, which properly accounts for the correlated nature of polymorphism data, provides accurate control of the overall false-positive rate and is substantially more powerful than the standard Bonferroni correction, especially when the markers are in strong linkage disequilibrium.},
affiliation = {Department of Biostatistics, University of North Carolina, Chapel Hill, 27599-7420, USA. lin@bios.unc.edu},
number = {3},
pages = {505--9},
volume = {78},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Genetic Markers, Software, Genome: Human, Genetic Diseases: Inborn, Genetic Predisposition to Disease, Linkage Disequilibrium, Humans, Genomics, Data Interpretation: Statistical},
date-added = {2010-01-16 21:05:33 +0100},
date-modified = {2010-01-16 21:05:33 +0100},
doi = {10.1086/500812},
pii = {S0002-9297(07)62389-1},
pmid = {16408254},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3921},
rating = {0}
}
@article{Singh:2010p13492,
author = {K P Singh and A A Bartolucci and S Bae},
journal = {Journal of Data Science},
title = {The Bayesian Multiple Logistic Random Effects Model for Analysis of Clinical Trial Data},
abstract = {A prospective, multi-institutional and randomized surgical trial involving 724 early stage melanoma patients was conducted to determine whether excision margins for intermediate-thickness melanomas (1.0 to 4.0 mm) could be safely reduced from the standard 4-cm radius. Patients with 1- to 4-mm-thick melanomas on the trunk or proximal extremities were ran- domly assigned to receive either a 2- or 4-cm surgical margin with or without immediate node dissection (i.e. immediate vs. later -within 6 months). The median follow-up time was 6 years. Recurrence rates did not correlate with surgical margins, even among stratified thickness groups. The hospital stay was shortened from 7.0 days for patients receiving 4-cm surgical margins to 5.2 days for those receiving 2-cm margins (p = 0.0001). This reduction was largely due to reduced need for skin grafting in the 2cm group. The overall conclusion was that the narrower margins significantly reduced the need for skin grafting and shortened the hospital stay. Due to the adequacy of subject follow up, recently a statistical focus was on what prognostics factors usually called covariates actually determined recurrence. As was an- ticipated, the thickness of the lesion (p = 0.0091) and whether or not the lesion was ulcerated (p = 0.0079), were determined to be significantly asso- ciated with recurrence events using the logistic regression model. This type of fixed effect analysis is rather a routine.
The authors have determined that a Bayesian consideration of the results would afford a more coherent interpretation of the effect of the model as- suming a random effect of the covariates of thickness and ulceration. Thus, using a Markov Chain Monte Carlo method of parameter estimation with non informative priors, one is able to obtain the posterior estimates and credible regions of estimates of these effects as well as their interaction on recurrence outcome. Graphical displays of convergence history and poste- rior densities affirm the stability of the results. We demonstrate how the model performs under relevant clinical conditions. The conditions are all tested using a Bayesian statistical approach allowing for the robust testing of the model parameters under various recursive partitioning conditions of the covariates and hyper parameters which we introduce into the model. The convergence of the parameters to stable values are seen in trace plots which follow the convergence patterns This allows for precise estimation for de- termining clinical conditions under which the response pattern will change. We give a numerical example of our results. The major platform for the theoretical development follows the Bayesian methodology and the multiple parameter logistic model with random effects having carefully chosen hyper parameters. We have done the basic infrastructure for the analysis using the commercially available WinBugs software employing the Markov Chain Monte Carlo (MCMC) methodology. The BUGS language allows a con- cise expression of the parametric model to denote stochastic (probabilistic) relationships and deterministic (logical) relationships.},
pages = {495--504},
volume = {8},
year = {2010},
date-added = {2010-07-01 22:34:06 +0200},
date-modified = {2010-07-01 22:35:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Singh-2010-Journal%20of%20Data%20Science_The%20Bayesian%20Multipl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13492},
rating = {0}
}
@article{Pounds:2004p10041,
author = {Stan Pounds and Cheng Cheng},
journal = {Bioinformatics},
title = {Improving false discovery rate estimation},
abstract = {MOTIVATION: Recent attempts to account for multiple testing in the analysis of microarray data have focused on controlling the false discovery rate (FDR). However, rigorous control of the FDR at a preselected level is often impractical. Consequently, it has been suggested to use the q-value as an estimate of the proportion of false discoveries among a set of significant findings. However, such an interpretation of the q-value may be unwarranted considering that the q-value is based on an unstable estimator of the positive FDR (pFDR). Another method proposes estimating the FDR by modeling p-values as arising from a beta-uniform mixture (BUM) distribution. Unfortunately, the BUM approach is reliable only in settings where the assumed model accurately represents the actual distribution of p-values. METHODS: A method called the spacings LOESS histogram (SPLOSH) is proposed for estimating the conditional FDR (cFDR), the expected proportion of false positives conditioned on having k 'significant' findings. SPLOSH is designed to be more stable than the q-value and applicable in a wider variety of settings than BUM. RESULTS: In a simulation study and data analysis example, SPLOSH exhibits the desired characteristics relative to the q-value and BUM. AVAILABILITY: The Web site www.stjuderesearch.org/statistics/splosh.html has links to freely available S-plus code to implement the proposed procedure.},
affiliation = {Department of Biostatistics, MS 262 St Jude Children's Research Hospital, 332 N. Lauderdale Street, Memphis, TN 38105-2794, USA. stanley.pounds@stjude.org},
number = {11},
pages = {1737--45},
volume = {20},
year = {2004},
month = {Jul},
language = {eng},
keywords = {Algorithms, Sensitivity and Specificity, False Positive Reactions, Models: Genetic, Reproducibility of Results, Computer Simulation, Quality Control, Oligonucleotide Array Sequence Analysis, Gene Expression Profiling, Models: Statistical, Benchmarking},
date-added = {2010-03-31 20:15:09 +0200},
date-modified = {2010-03-31 20:15:09 +0200},
doi = {10.1093/bioinformatics/bth160},
pii = {bth160},
pmid = {14988112},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pounds-2004-Bioinformatics_Improving%20false%20disc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10041},
rating = {0}
}
@article{Palmer:2008p14035,
author = {Michael W Palmer and Daniel J McGlinn and Lars Westerberg and Per Milberg},
journal = {Ecology},
title = {Indices for detecting differences in species composition: some simplifications of RDA and CCA},
abstract = {We provide algebraic simplifications for the redundancy analysis (RDA) eigenvalue and the canonical correspondence analysis (CCA) eigenvalue in the special case of permanent plots sampled twice. The indices for RDA and CCA are interrelated and are intuitively interpretable. These simplifications also apply to simple split-plot designs and to a balanced design with two independent samples.},
affiliation = {Department of Botany, Oklahoma State University, Stillwater, Oklahoma 74078, USA. mike.palmer@okstate.edu},
number = {6},
pages = {1769--71},
volume = {89},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Environmental Monitoring, Ecosystem, Models: Biological},
date-added = {2010-08-09 10:06:22 +0200},
date-modified = {2010-08-09 10:06:25 +0200},
pmid = {18589540},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Palmer-2008-Ecology_Indices%20for%20detectin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14035},
rating = {4}
}
@article{SalibianBarrera:2008p2978,
author = {M Salibian-Barrera and S Van Aelst and G Willems},
journal = {Statistical Methods and Applications},
title = {Fast and Robust Bootstrap},
abstract = {In this paper we review recent developments on a bootstrap method for robust estimators which is computationally faster and more resistant to outliers than the classical bootstrap. This fast and robust bootstrap method is, under reasonable regularity conditions, asymptotically consistent. We describe the method in general and then consider its application to perform inference based on robust estimators for the linear regression and multivariate location-scatter models. In particular, we study confidence and prediction intervals and tests of hypotheses for linear regression models, inference for location-scatter parameters and principal components, and classification error estimation for discriminant analysis.},
number = {1},
pages = {41--71},
volume = {17},
year = {2008},
date-added = {2010-01-13 23:10:16 +0100},
date-modified = {2010-07-29 19:51:06 +0200},
doi = {10.1007/s10260-007-0048-6},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Salibian-Barrera-2008-Statistical%20Methods%20and%20Applications_Fast%20and%20Robust%20Boot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2978},
rating = {0}
}
@article{Kelley:2007p10045,
author = {Ken Kelley},
journal = {Behavior research methods},
title = {Methods for the behavioral, educational, and social sciences: an R package},
abstract = {Methods for the Behavioral, Educational, and Social Sciences (MBESS; Kelley, 2007b) is an open source package for R (R Development Core Team, 2007b), an open source statistical programming language and environment. MBESS implements methods that are not widely available elsewhere, yet are especially helpful for the idiosyncratic techniques used within the behavioral, educational, and social sciences. The major categories of functions are those that relate to confidence interval formation for noncentral t, F, and chi2 parameters, confidence intervals for standardized effect sizes (which require noncentral distributions), and sample size planning issues from the power analytic and accuracy in parameter estimation perspectives. In addition, MBESS contains collections of other functions that should be helpful to substantive researchers and methodologists. MBESS is a long-term project that will continue to be updated and expanded so that important methods can continue to be made available to researchers in the behavioral, educational, and social sciences.},
affiliation = {Inquiry Methodolgy Program, Indiana University, Bloomington, Indiana 47405, USA. kkiii@indiana.edu},
number = {4},
pages = {979--84},
volume = {39},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Software, Social Sciences, Psychology: Educational, Behavioral Sciences, Humans},
date-added = {2010-03-31 20:15:46 +0200},
date-modified = {2010-07-29 19:18:35 +0200},
pmid = {18183915},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kelley-2007-Behavior%20research%20methods_Methods%20for%20the%20beha.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10045},
rating = {0}
}
@article{Yu:2008p826,
author = {Kai Yu and Zhaoming Wang and Qizhai Li and Sholom Wacholder and David J Hunter and Robert N Hoover and Stephen Chanock and Gilles Thomas},
journal = {PLoS ONE},
title = {Population substructure and control selection in genome-wide association studies},
abstract = {Determination of the relevance of both demanding classical epidemiologic criteria for control selection and robust handling of population stratification (PS) represents a major challenge in the design and analysis of genome-wide association studies (GWAS). Empirical data from two GWAS in European Americans of the Cancer Genetic Markers of Susceptibility (CGEMS) project were used to evaluate the impact of PS in studies with different control selection strategies. In each of the two original case-control studies nested in corresponding prospective cohorts, a minor confounding effect due to PS (inflation factor lambda of 1.025 and 1.005) was observed. In contrast, when the control groups were exchanged to mimic a cost-effective but theoretically less desirable control selection strategy, the confounding effects were larger (lambda of 1.090 and 1.062). A panel of 12,898 autosomal SNPs common to both the Illumina and Affymetrix commercial platforms and with low local background linkage disequilibrium (pair-wise r(2)<0.004) was selected to infer population substructure with principal component analysis. A novel permutation procedure was developed for the correction of PS that identified a smaller set of principal components and achieved a better control of type I error (to lambda of 1.032 and 1.006, respectively) than currently used methods. The overlap between sets of SNPs in the bottom 5% of p-values based on the new test and the test without PS correction was about 80%, with the majority of discordant SNPs having both ranks close to the threshold. Thus, for the CGEMS GWAS of prostate and breast cancer conducted in European Americans, PS does not appear to be a major problem in well-designed studies. A study using suboptimal controls can have acceptable type I error when an effective strategy for the correction of PS is employed.},
affiliation = {Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, Maryland, United States of America. yuka@mail.nih.gov},
number = {7},
pages = {e2551},
volume = {3},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Linkage Disequilibrium, Population Groups, Humans, Genome: Human, Polymorphism: Single Nucleotide, Algorithms},
date-added = {2010-01-03 17:48:11 +0100},
date-modified = {2010-01-03 17:48:11 +0100},
doi = {10.1371/journal.pone.0002551},
pmid = {18596976},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2008-PLoS%20ONE_Population%20substruct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p826},
read = {Yes},
rating = {0}
}
@article{Saddki:2009p12768,
author = {N Saddki and M M Noor and T H Norbanee and M A Rusli and Z Norzila and S Zaharah and A Sarimah and M Norsarwany and A R Asrenee and Z A Zarina},
journal = {AIDS Care},
title = {Validity and reliability of the Malay version of WHOQOL-HIV BREF in patients with HIV infection},
abstract = {This study determines the validity and reliability of the Malay version of the World Health Organization Quality of Life (WHOQOL) assessment instrument in patients with human immunodeficiency virus (HIV) infection. A cross-sectional study on 157 patients with HIV seen at the Infectious Disease Unit, Hospital Raja Perempuan Zainab II, Kota Bharu, Kelantan was conducted. Factor analysis identified five major domains: physical needs, spirituality, social relationship, psychological, and environment. Significant correlation was found between each domain scores and the general health questions. The instrument was able to discriminate between asymptomatic and symptomatic HIV positive patients for all domain scores except for the spirituality domain. The internal consistency of the five domains ranged from 0.70 to 0.83. The intraclass correlation coefficient (ICC) ranged from 0.60 to 0.87 across all domains. In conclusion, the Malay version of WHOQOL-HIV BREF is a valid and reliable instrument in assessing quality of life in HIV positive patients.},
affiliation = {School of Dental Sciences, Universiti Sains Malaysia, Kubang Kerian, Malaysia. fizah@kb.usm.my},
number = {10},
pages = {1271--8},
volume = {21},
year = {2009},
month = {Oct},
language = {eng},
keywords = {World Health Organization, Quality of Life, Spirituality, Middle Aged, Reproducibility of Results, Adult, Questionnaires, Adolescent, HIV Infections, Male, Severity of Illness Index, Aged, Young Adult, Malaysia, Humans, Female},
date-added = {2010-06-18 20:31:25 +0200},
date-modified = {2010-06-18 20:31:25 +0200},
doi = {10.1080/09540120902803216},
pii = {915627095},
pmid = {20024703},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saddki-2009-AIDS%20Care_Validity%20and%20reliabi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12768},
rating = {0}
}
@article{Maugis:2009p1697,
author = {C Maugis and M L Martin-Magniette and J P Tamby and J P Renou and A Lecharny and S Aubourg and G Celeux},
journal = {Modulad},
title = {S{\'e}lection de variables pour la classification par m{\'e}langes gaussiens pour pr{\'e}dire la fonction des g{\`e}nes orphelins},
abstract = {Biologists are interested in predicting the gene functions of sequenced genome organisms according to microarray transcriptome data. The microarray technology development allows one to study the whole genome in different experi- mental conditions. The information abundance may seem to be an advantage for the gene clustering. However, the structure of interest can often be contained in a sub- set of the available variables. The currently available variable selection procedures in model-based clustering assume that the irrelevant clustering variables are all in- dependent or are all linked with the relevant clustering variables. A more versatile variable selection model is proposed, taking into account three possible roles for each variable: The relevant clustering variables, the redundant variables and the inde- pendent variables. A model selection criterion and a variable selection algorithm are derived for this new variable role modelling. The interest of this new modelling for discovering the function of orphan genes is highlighted on a transcriptome dataset for the Arabidopsis thaliana plant.},
pages = {69--80},
volume = {40},
year = {2009},
keywords = {model-based clustering, transcriptome data, Variable selection, orphan genes},
date-added = {2010-01-09 18:51:57 +0100},
date-modified = {2010-01-09 18:55:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maugis-2009-Modulad_S%C3%A9lection%20de%20variabl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1697},
rating = {0}
}
@article{deRidder:2010p12342,
author = {Jeroen de Ridder and Alice Gerrits and Jan Bot and Gerald de Haan and Marcel Reinders and Lodewyk Wessels},
journal = {Bioinformatics},
title = {Inferring combinatorial association logic networks in multimodal genome-wide screens},
abstract = {MOTIVATION: We propose an efficient method to infer combinatorial association logic networks from multiple genome-wide measurements from the same sample. We demonstrate our method on a genetical genomics dataset, in which we search for Boolean combinations of multiple genetic loci that associate with transcript levels. RESULTS: Our method provably finds the global solution and is very efficient with runtimes of up to four orders of magnitude faster than the exhaustive search. This enables permutation procedures for determining accurate false positive rates and allows selection of the most parsimonious model. When applied to transcript levels measured in myeloid cells from 24 genotyped recombinant inbred mouse strains, we discovered that nine gene clusters are putatively modulated by a logical combination of trait loci rather than a single locus. A literature survey supports and further elucidates one of these findings. Due to our approach, optimal solutions for multi-locus logic models and accurate estimates of the associated false discovery rates become feasible. Our algorithm, therefore, offers a valuable alternative to approaches employing complex, albeit suboptimal optimization strategies to identify complex models. AVAILABILITY: The MATLAB code of the prototype implementation is available on: http://bioinformatics.tudelft.nl/ or http://bioinformatics.nki.nl/.},
affiliation = {Delft Bioinformatics Lab, Delft University of Technology, 2628 CD Delft, The Netherlands.},
number = {12},
pages = {i149--57},
volume = {26},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-06-12 10:21:18 +0200},
date-modified = {2010-06-12 10:21:18 +0200},
doi = {10.1093/bioinformatics/btq211},
pii = {btq211},
pmid = {20529900},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Ridder-2010-Bioinformatics_Inferring%20combinator.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12342},
rating = {0}
}
@article{Barth:2005p11710,
author = {J{\"u}rgen Barth and Colin R Martin},
journal = {Health Qual Life Outcomes},
title = {Factor structure of the Hospital Anxiety and Depression Scale (HADS) in German coronary heart disease patients},
abstract = {BACKGROUND: Depression and anxiety in patients with coronary heart disease (CHD) are associated with a poorer prognosis. Therefore the screening for psychological distress is strongly recommended in cardiac rehabilitation. The Hospital Anxiety and Depression Scale (HADS) is a widely used screening tool that has demonstrated good sensitivity and specificity for mental disorders. METHODS: We assessed mental distress in in-patient cardiac rehabilitation in Germany. The factor structure of the German language version of the HADS was investigated in 1320 patients with CHD. Exploratory factor analysis and confirmatory factor analysis were used to determine the underlying factor structure of the instrument. RESULTS: Three-factor models were found to offer a superior fit to the data compared to two-factor (anxiety and depression) models. The German language HADS performs similarly to the English language version of the instrument in CHD patients. The German language HADS fundamentally comprises a tri-dimensional underlying factor structure (labelled by Friedman et al. as psychomotor agitation, psychic anxiety and depression). CONCLUSION: Despite of clinical usefulness in screening for mental disturbances the construct validity of the HADS is not clear. The resulting scores of the tri-dimensional model can be interpreted as psychomotor agitation, psychic anxiety, and depression in individual patient data or clinical investigations.},
affiliation = {University of Freiburg - Institute of Psychology, Department of Rehabilitation Psychology, 79085 Freiburg, Germany. mail@juergen-barth.de},
pages = {15},
volume = {3},
year = {2005},
month = {Jan},
language = {eng},
keywords = {China, Psychometrics, Rehabilitation Centers, Sickness Impact Profile, Acute Disease, Middle Aged, Depression, Female, Questionnaires, Anxiety, Factor Analysis: Statistical, Germany, Hospitalization, Psychiatric Status Rating Scales, Humans, Aged: 80 and over, Male, Myocardial Infarction, Translating, Aged},
date-added = {2010-05-14 21:32:53 +0200},
date-modified = {2010-05-14 21:32:56 +0200},
doi = {10.1186/1477-7525-3-15},
pii = {1477-7525-3-15},
pmid = {15771778},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barth-2005-Health%20and%20Quality%20of%20Life%20Outcomes_Factor%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11710},
read = {Yes},
rating = {4}
}
@article{Raju:2002p11161,
author = {Nambury S Raju and Larry J Laffitte and Barbara M Byrne},
journal = {J Appl Psychol},
title = {Measurement equivalence: a comparison of methods based on confirmatory factor analysis and item response theory},
abstract = {Current interest in the assessment of measurement equivalence emphasizes 2 major methods of analysis. The authors offer a comparison of a linear method (confirmatory factor analysis) and a nonlinear method (differential item and test functioning using item response theory) with an emphasis on their methodological similarities and differences. The 2 approaches test for the equality of true scores (or expected raw scores) across 2 populations when the latent (or factor) score is held constant. Both approaches can provide information about when measurement nonequivalence exists and the extent to which it is a problem. An empirical example is used to illustrate the 2 approaches.},
affiliation = {Institute of Psychology, Illinois Institute of Technology, Chicago 60616-3793, USA. raju@iit.edu},
number = {3},
pages = {517--29},
volume = {87},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Factor Analysis: Statistical, Psychological Theory, Humans, Models: Psychological},
date-added = {2010-04-25 20:28:39 +0200},
date-modified = {2010-04-25 20:28:43 +0200},
pmid = {12090609},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raju-2002-J%20Appl%20Psychol_Measurement%20equivale.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11161},
rating = {4}
}
@article{Robins:1981,
author = {L Robins and JE Helzer and J Croughan and KS Radcliff},
journal = {Arch Gen Psychiatry},
title = {National Institute of Mental Health Diagnostic Interview Schedule: its history, characteristics and validity},
abstract = {A new interview schedule allows lay interviewers or clinicians to make psychiatric diagnoses according to DSM-III criteria, Feighner criteria, and Research Diagnostic Criteria. It is being used in a set of epidemiological studies sponsored by the National Institute of Mental Health Center for Epidemiological Studies. Its accuracy has been evaluated in a test-retest design comparing independent administrations by psychiatrists and lay interviewers to 216 subjects (inpatients, outpatients, ex-patients, and nonpatients).},
pages = {381--389},
volume = {38},
year = {1981},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1038},
rating = {0}
}
@article{Ruczinski2004,
author = {I Ruczinski and C Kooperberg and M LeBlanc},
journal = {Journal of Multivariate Analysis},
title = {Exploring Interactions in High Dimensional Genomic Data: An Overview of Logic Regression, With Applications},
pages = {178--195},
volume = {90},
year = {2004},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2518},
rating = {0}
}
@article{Buchkremer:2010p9371,
author = {Stefan Buchkremer and Jasmin Hendel and Markus Krupp and Arndt Weinmann and Kai Schlamp and Thorsten Maass and Frank Staib and Peter R Galle and Andreas Teufel},
journal = {BMC Genomics},
title = {Library of molecular associations: curating the complex molecular basis of liver diseases},
abstract = {ABSTRACT: BACKGROUND: Systems biology approaches offer novel insights into the development of chronic liver diseases. Current genomic databases supporting systems biology analyses are mostly based on microarray data. Although these data often cover genome wide expression, the validity of single microarray experiments remains questionable. However, for systems biology approaches addressing the interactions of molecular networks comprehensive but also highly validated data are necessary. RESULTS: We have therefore generated the first comprehensive database for published molecular associations in human liver diseases. It is based on PubMed published abstracts and aimed to close the gap between genome wide coverage of low validity from microarray data and individual highly validated data from PubMed. After an initial text mining process, the extracted abstracts were all manually validated to confirm content and potential genetic associations and may therefore be highly trusted. All data were stored in a publicly available database, Library of Molecular Associations (http://www.medicalgenomics.org/databases/loma/news), currently holding approximately 1260 confirmed molecular associations for chronic liver diseases such as HCC, CCC, liver fibrosis, NASH/fatty liver disease, AIH, PBC, and PSC. We furthermore transformed these data into a powerful resource for molecular liver research by connecting them to multiple biomedical information resources. CONCLUSION: Together, this database is the first available database providing a comprehensive view and analysis options for published molecular associations on multiple liver diseases.},
number = {1},
pages = {189},
volume = {11},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-23 18:43:00 +0100},
date-modified = {2010-03-23 18:43:00 +0100},
doi = {10.1186/1471-2164-11-189},
pii = {1471-2164-11-189},
pmid = {20302666},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buchkremer-2010-BMC%20Genomics_Library%20of%20molecular-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9371},
rating = {0}
}
@article{Jung:2007p1753,
author = {S Jung and Y Takane},
title = {Regularized Common Factor Analysis},
abstract = {In common factor analysis, estimation of unique variances by unweighted least squares (ULS), generalized least squares (GLS), and maximum likelihood (ML) often leads to improper solutions. To deal with this problem, a new estimation method of the unique variances was proposed by applying the idea of generalized ridge regularization. In regularized common factor analysis (RCFA), unique vari- ances are estimated under three alternative assumptions: 1) unique variances are constant across variables (i.e., proportional to the unit variance), 2) unique vari- ances are proportional to variances of anti-image variables, and 3) unique variances are proportional to Ihara-Kano's non-iterative estimates of unique variances. The constant of proportionality (i.e., the regularization parameter λ) is then estimated by ULS, GLS, or ML. Illustrative examples consisting of Monte Carlo studies and a real data set were given to demonstrate the usefulness of the proposed method.},
affiliation = {Department of Psychology, McGill University, 1205 Dr. Penfield Avenue, Montreal, QC, H3A 1B1, Canada},
year = {2007},
date-added = {2010-01-09 20:59:27 +0100},
date-modified = {2010-01-09 21:01:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jung-2007-_Regularized%20Common%20F.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1753},
read = {Yes},
rating = {0}
}
@article{Warrens:2005p5882,
author = {M J Warrens and W J Heiser and D N M de Gruijter},
journal = {Behaviormetrika},
title = {REPARAMETRIZATION OF HOMOGENEITY ANALYSIS TO ACCOMMODATE ITEM RESPONSE FUNCTIONS},
abstract = {Two test theoretical approaches to item analysis are compared, an approach based on homogeneity analysis and one based on item response theory. The literature on the relationship between the two approaches is briefly reviewed. The paper contains a contribution to the relationship between the two approaches for the case that the scores are dichotomous and a single latent variable is assumed to underlie the data. A loss function is proposed for modelling item response functions with two parameters, one for discrimination and one for difficulty. It turns out that the loss of the proposed loss function is related to loss of homogeneity. Demonstrations with simulated data are used to evaluate the proposed method.},
number = {2},
pages = {127--139},
volume = {32},
year = {2005},
date-added = {2010-02-17 15:09:17 +0100},
date-modified = {2010-02-17 15:10:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Warrens-2005-Behaviormetrika_REPARAMETRIZATION%20OF.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5882},
rating = {0}
}
@article{Oeseburg:2010p10862,
author = {B Oeseburg and D E M C Jansen and G J Dijkstra and J W Groothoff and S A Reijneveld},
journal = {Res Dev Disabil},
title = {Prevalence of chronic diseases in adolescents with intellectual disability},
abstract = {Valid community-based data on the prevalence of chronic diseases in adolescents (12-18 years) with intellectual disability (ID-adolescents) are scarce. The aim of this study was to assess the prevalence rates and the nature of chronic diseases in a population of ID-adolescents and to compare them with the rates among adolescents in the general population. Therefore, we obtained data on 1083 ID-adolescents attending secondary schools, day care centers or living in residential centers fully covering one region of The Netherlands. Parents of the adolescents completed a questionnaire about the occurrence of chronic diseases in their child during the previous 12 months and about background characteristics. The questionnaire was derived from the Dutch National Permanent Survey on Living Conditions questionnaire periodically administered in a representative population sample (n approximately = 10,000). Prevalence rates of chronic diseases in ID-adolescents were compared with those in adolescents in the Dutch general population. Among ID-adolescents, high prevalence rates of a wide range of chronic diseases were found. The five most prevalent were: ADHD (21.1%), PDD-NOS (14.0%), dyslexia (13.9%), migraine or chronic headache (12.7%), and autistic disorder (10.9%). These prevalence rates were all higher (p<0.05) than among adolescents in the general population. Of all ID-adolescents, 62.9% was reported to have at least one chronic disease. The burden of chronic diseases among ID-adolescents is very high, showing a high need for adequate care. These high prevalence rates should alert policymakers and clinicians regarding the widespread of chronic diseases among ID-adolescents.},
affiliation = {Department of Health Sciences and Graduate School for Health Research (SHARE), University Medical Center Groningen, University of Groningen, The Netherlands. b.oeseburg@med.umcg.nl},
number = {3},
pages = {698--704},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-10 03:34:48 +0200},
date-modified = {2010-04-10 03:34:48 +0200},
doi = {10.1016/j.ridd.2010.01.011},
pii = {S0891-4222(10)00012-0},
pmid = {20188511},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Oeseburg-2010-Res%20Dev%20Disabil_Prevalence%20of%20chroni.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10862},
rating = {0}
}
@article{Tversky:1974p4681,
author = {A Tversky and D Kahneman},
journal = {Science},
title = {Judgment under uncertainty: Heuristics and biases},
pages = {1124--1131},
volume = {185},
year = {1974},
date-added = {2010-01-30 16:11:06 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tversky-1974-Science_Judgment%20under%20uncer.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4681},
rating = {0}
}
@article{CommitteeforMedicinalProductsforHumanUse:2006p6458,
author = {Committee for Medicinal Products for Human Use and Efficacy Working Party and Committee for Release for Consultation},
journal = {Stat Med},
title = {Committee for Medicinal Products for Human Use (CHMP) guideline on the choice of the non-inferiority margin},
number = {10},
pages = {1628--38},
volume = {25},
year = {2006},
month = {May},
language = {eng},
keywords = {European Union, Confidence Intervals, Clinical Trials as Topic, Data Interpretation: Statistical, Humans, Pharmaceutical Preparations, Therapeutic Equivalency},
date-added = {2010-02-23 08:30:38 +0100},
date-modified = {2010-02-23 08:30:38 +0100},
doi = {10.1002/sim.2584},
pmid = {16639773},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Committee%20for%20Medicinal%20Products%20for%20Human%20Use-2006-Stat%20Med_Committee%20for%20Medici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6458},
rating = {0}
}
@article{Rogers:1996,
author = {SI Rogers and LT Friedhoff},
journal = {Dementia},
title = {The efficacy and safety of donepezil in patients with Alzeihmer's Disease: results of a US multicentre, randomised, double-blind, placebo-controlled trial},
pages = {293--303},
volume = {7},
year = {1996},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1084},
rating = {0}
}
@article{Fears:2009p7711,
author = {Scott C Fears and William P Melega and Susan K Service and Chris Lee and Kelly Chen and Zhuowen Tu and Matthew J Jorgensen and Lynn A Fairbanks and Rita M Cantor and Nelson B Freimer and Roger P Woods},
journal = {J Neurosci},
title = {Identifying heritable brain phenotypes in an extended pedigree of vervet monkeys},
abstract = {The area and volume of brain structural features, as assessed by high-resolution three-dimensional magnetic resonance imaging (MRI), are among the most heritable measures relating to the human CNS. We have conducted MRI scanning of all available monkeys >2 years of age (n = 357) from the extended multigenerational pedigree of the Vervet Research Colony (VRC). Using a combination of automated and manual segmentation we have quantified several correlated but distinct brain structural phenotypes. The estimated heritabilities (h(2)) for these measures in the VRC are higher than those reported previously for such features in humans or in other nonhuman primates: total brain volume (h(2) = 0.99, SE = 0.06), cerebral volume (h(2) = 0.98, SE = 0.06), cerebellar volume (h(2) = 0.86, SE = 0.09), hippocampal volume (h(2) = 0.95, SE = 0.07) and corpus callosum cross-sectional areas (h(2) = 0.87, SE = 0.07). These findings indicate that, in the controlled environment and with the inbreeding structure of the VRC, additive genetic factors account for almost all of the observed variance in brain structure, and suggest the potential of the VRC for genetic mapping of quantitative trait loci underlying such variance.},
affiliation = {Center for Neurobehavioral Genetics, University of California, Los Angeles, Los Angeles, California 90095, USA. fears.scott@gmail.com},
number = {9},
pages = {2867--75},
volume = {29},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Cerebellum, Aging, Female, Atlases as Topic, Phenotype, Corpus Callosum, Cercopithecus aethiops, Brain, Image Processing: Computer-Assisted, Male, Brain Mapping, Genetic Variation, Pedigree, Magnetic Resonance Imaging, Hippocampus, Social Dominance, Animals},
date-added = {2010-03-15 23:51:14 +0100},
date-modified = {2010-03-15 23:51:15 +0100},
doi = {10.1523/JNEUROSCI.5153-08.2009},
pii = {29/9/2867},
pmid = {19261882},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fears-2009-J%20Neurosci_Identifying%20heritabl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7711},
rating = {0}
}
@article{Weiss:2009p6029,
author = {Lauren A Weiss and Dan E Arking and Gene Discovery Project of Johns Hopkins {\&} the Autism Consortium and Mark J Daly and Aravinda Chakravarti},
journal = {Nature},
title = {A genome-wide linkage and association scan reveals novel loci for autism},
abstract = {Although autism is a highly heritable neurodevelopmental disorder, attempts to identify specific susceptibility genes have thus far met with limited success. Genome-wide association studies using half a million or more markers, particularly those with very large sample sizes achieved through meta-analysis, have shown great success in mapping genes for other complex genetic traits. Consequently, we initiated a linkage and association mapping study using half a million genome-wide single nucleotide polymorphisms (SNPs) in a common set of 1,031 multiplex autism families (1,553 affected offspring). We identified regions of suggestive and significant linkage on chromosomes 6q27 and 20p13, respectively. Initial analysis did not yield genome-wide significant associations; however, genotyping of top hits in additional families revealed an SNP on chromosome 5p15 (between SEMA5A and TAS2R1) that was significantly associated with autism (P = 2 x 10(-7)). We also demonstrated that expression of SEMA5A is reduced in brains from autistic patients, further implicating SEMA5A as an autism susceptibility gene. The linkage regions reported here provide targets for rare variation screening whereas the discovery of a single novel association demonstrates the action of common variants.},
affiliation = {Center for Human Genetic Research, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts 02114, USA.},
number = {7265},
pages = {802--8},
volume = {461},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Sample Size, Chromosome Mapping, Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Chromosomes: Human: Pair 5, Brain, Membrane Proteins, Linkage (Genetics), Internationality, Humans, Nerve Tissue Proteins, Genome-Wide Association Study, Autistic Disorder},
date-added = {2010-02-19 17:00:19 +0100},
date-modified = {2010-02-19 17:00:19 +0100},
doi = {10.1038/nature08490},
pii = {nature08490},
pmid = {19812673},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6029},
rating = {0}
}
@article{Hays:2005p5495,
author = {Ron D Hays and Dennis Revicki and Karin S Coyne},
journal = {Eval Health Prof},
title = {Application of structural equation modeling to health outcomes research},
abstract = {This article provides an overview of the basic underlying principles of structural equation modeling (SEM). SEM models have two basic elements: a measurement model and a structural model. The measurement model describes the associations between the indicators (observed measures) of the latent variables, whereas the structural model delineates the direct and indirect substantive effects among latent variables and between measured and latent variables. The application of SEM to health outcomes research is illustrated using two examples: (a) assessing the equivalence of the SF-36 and patient evaluations of care for English- and Spanish-language respondents and (b) evaluating a theoretical model of health in myocardial infarction patients. The results of SEM studies can contribute to better understanding of the validity of health outcome measures and of relationships between physiologic, clinical, and health outcome variables.},
affiliation = {University of California, Los Angeles, USA. drhays@ucla.edu},
number = {3},
pages = {295--309},
volume = {28},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Myocardial Infarction, Cross-Cultural Comparison, Models: Theoretical, Questionnaires, Health Status Indicators, Humans, Translations, Outcome Assessment (Health Care), Software, Models: Econometric, Psychometrics, Factor Analysis: Statistical},
date-added = {2010-02-12 14:45:16 +0100},
date-modified = {2010-02-12 14:45:18 +0100},
doi = {10.1177/0163278705278277},
pii = {28/3/295},
pmid = {16123259},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5495},
rating = {4}
}
@article{deBoer:1993p9560,
author = {J B de Boer and F S van Dam and M A Sprangers and P H Frissen and J M Lange},
journal = {AIDS},
title = {Longitudinal study on the Quality of Life of symptomatic HIV-infected patients in a trial of zidovudine versus zidovudine and interferon-alpha},
abstract = {OBJECTIVES: To compare the effect of treatment with zidovudine (ZDV) or a combination of ZDV and interferon-alpha (IFN-alpha) on patient Quality-of-Life (QoL); and to document changes over time in QoL. DESIGN: This study is part of a longitudinal, randomized, controlled clinical trial comparing the efficacy and tolerance of ZDV monotherapy and ZDV plus IFN-alpha. Patients were followed-up for 1 year. SETTING: Seven academic or general medical hospitals. PARTICIPANTS: Thirty-six symptomatic HIV-infected patients (Centers for Disease Control and Prevention stage IV) with a CD4+ count > or = 150 x 10(6)/l and Karnofsky Performance Status score > or = 60, who had not received ZDV or IFN-alpha before. METHODS: QoL was assessed using two self-report questionnaires (the European Organization for Research and Treatment of Cancer Core Quality-of-Life Questionnaire and an AIDS-specific questionnaire), administered before and every 3 months after the start of the treatment. RESULTS: There were no significant differences in QoL between the two treatment groups over a 1-year period. Emotional, cognitive and social functioning improved in the entire group, and patients reported fewer symptoms (for example, shortness of breath, nausea and vomiting, influenza-like symptoms, diarrhoea, lack of appetite, taste disturbances, dizziness, weight loss, trouble in vision) and a better overall QoL until month 9. Thereafter, emotional, cognitive and social functioning and overall QoL deteriorated and patients reported more symptoms. Major complaints at baseline and follow-up were associated with fatigue and emotional functioning: patients reported a strong need to rest, and felt very tired, worried, tense and irritable. CONCLUSIONS: These results show that both treatments may have a temporary beneficial effect on patient QoL. QoL research may contribute to evaluation of clinical trials and provide patients with information about the effects of treatment on their QoL, thus enabling them to make informed decisions.},
affiliation = {WHO Collaborating Centre on Quality of Life, The Netherlands Cancer Institute, Amsterdam.},
number = {7},
pages = {947--53},
volume = {7},
year = {1993},
month = {Jul},
language = {eng},
keywords = {Female, Quality of Life, Acquired Immunodeficiency Syndrome, Adult, Longitudinal Studies, Drug Therapy: Combination, Interferon-alpha, Humans, Patient Compliance, Demography, Patient Dropouts, Middle Aged, Questionnaires, Male, Zidovudine},
date-added = {2010-03-23 20:53:36 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {8357556},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Boer-1993-AIDS_Longitudinal%20study%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9560},
rating = {0}
}
@article{Cordell:2006p5289,
author = {Heather J Cordell},
journal = {Genet Epidemiol},
title = {Estimation and testing of genotype and haplotype effects in case-control studies: comparison of weighted regression and multiple imputation procedures},
abstract = {A popular approach for testing and estimating genotype and haplotype effects associated with a disease outcome is to conduct a population-based case/control study, in which haplotypes are not directly observed but may be inferred probabilistically from unphased genotype data. A variety of methods exist to analyse the resulting data while accounting for the uncertainty in haplotype assignment, but most focus on the issue of testing the global null hypothesis that no genotype or haplotype effects exist. A more interesting question, once a region of disease association has been identified, is to estimate the relevant genotypic or haplotypic effects and to perform tests of complex null hypotheses such as the hypothesis that some loci, but not others, are associated with disease. Here I examine the assumptions behind, and the performance of, two classes of methods for addressing this question. The first is a weighted regression approach in which posterior probabilities of haplotype assignments are used as weights in a logistic regression analysis, generating a test based on either a weighted pseudo-likelihood, or a weighted log-likelihood. The second is a multiple imputation approach using either an improper procedure in which the posterior probabilities are used to generate replicate imputed data sets, or a proper data augmentation procedure. I compare these approaches to a simple expectation substitution (haplotype trend regression) approach. In simulations, all methods gave unbiased parameter estimation but the weighted pseudo-likelihood, expectation substitution and multiple imputation methods had superior confidence interval coverage. For the weighted pseudo-likelihood and expectation substitution methods it was necessary to estimate posterior haplotype assignment probabilities using the combined case/control data, whereas for the multiple imputation approaches it was necessary to estimate these probabilities in the case and control groups separately. Overall, multiple imputation was easiest approach to implement in standard statistical software and to extend to more complex models such as those that include gene-gene or gene-environment interactions.},
affiliation = {Department of Medical Genetics, University of Cambridge, Cambridge Institute for Medical Research, Addenbrooke's Hospital, Cambridge, UK. heather.cordell@cimr.cam.ac.uk},
number = {3},
pages = {259--75},
volume = {30},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Case-Control Studies, Haplotypes, Humans, Odds Ratio, Genetic Techniques, Genotype, Risk},
date-added = {2010-02-09 22:28:44 +0100},
date-modified = {2010-02-09 22:28:44 +0100},
doi = {10.1002/gepi.20142},
pmid = {16496312},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5289},
rating = {0}
}
@article{Reuband:1995,
author = {KH Reuband},
journal = {European Addiction research},
title = {Drug use and drug policy in Western Europe},
pages = {32--41},
volume = {1},
year = {1995},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1091},
rating = {0}
}
@article{Engelen:2010p7295,
author = {Vivian Engelen and Lotte Haverman and Hendrik Koopman and Netteke Schouten-van Meeteren and Esther Meijer-van den Bergh and Jantien Vrijmoet-Wiersma and Elisabeth Maria van Dijk and Bob Last and Symone Detmar and Martha Grootenhuis},
journal = {Patient Education and Counseling},
title = {Development and implementation of a patient reported outcome intervention (QLIC-ON PROfile) in clinical paediatric oncology practice},
abstract = {OBJECTIVE: The use of patient reported outcomes (PRO) in routine clinical practice is becoming increasingly common, but there is limited knowledge about the development and implementation of PRO. The objective of the current paper is to provide a thorough description of the development and implementation of a PRO on health related quality of life (HRQOL) - the QLIC-ON PROfile - in clinical paediatric oncology practice. METHODS: The development of the QLIC-ON PROfile is explained by elucidating important choices: the HRQOL instrument, the professional that uses the QLIC-ON PROfile, the optimal form of HRQOL feedback and whether or not a clinically important difference is reported. The description of the implementation of the QLIC-ON PROfile focuses on the education and commitment of the professional that uses the QLIC-ON PROfile. Study design and outcome measures are also elaborated on. RESULTS: Important considerations regarding the development and implementation of PRO interventions are reported. These considerations have also resulted in educational material. CONCLUSION: Our study adds to current knowledge of PRO research. This paper can be used as a practical guide for researchers and other professionals, who are interested in setting up PRO interventions in any clinical setting.},
affiliation = {Academic Medical Centre/Emma Children's Hospital, Paediatric Psychosocial Department, Amsterdam, The Netherlands.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-10 20:20:13 +0100},
date-modified = {2010-07-29 19:42:37 +0200},
doi = {10.1016/j.pec.2010.02.003},
pii = {S0738-3991(10)00029-7},
pmid = {20189747},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7295},
rating = {0}
}
@article{Kang:2008p3825,
author = {Hyun Min Kang and Noah A Zaitlen and Claire M Wade and Andrew Kirby and David Heckerman and Mark J Daly and Eleazar Eskin},
journal = {Genetics},
title = {Efficient control of population structure in model organism association mapping},
abstract = {Genomewide association mapping in model organisms such as inbred mouse strains is a promising approach for the identification of risk factors related to human diseases. However, genetic association studies in inbred model organisms are confronted by the problem of complex population structure among strains. This induces inflated false positive rates, which cannot be corrected using standard approaches applied in human association studies such as genomic control or structured association. Recent studies demonstrated that mixed models successfully correct for the genetic relatedness in association mapping in maize and Arabidopsis panel data sets. However, the currently available mixed-model methods suffer from computational inefficiency. In this article, we propose a new method, efficient mixed-model association (EMMA), which corrects for population structure and genetic relatedness in model organism association mapping. Our method takes advantage of the specific nature of the optimization problem in applying mixed models for association mapping, which allows us to substantially increase the computational speed and reliability of the results. We applied EMMA to in silico whole-genome association mapping of inbred mouse strains involving hundreds of thousands of SNPs, in addition to Arabidopsis and maize data sets. We also performed extensive simulation studies to estimate the statistical power of EMMA under various SNP effects, varying degrees of population structure, and differing numbers of multiple measurements per strain. Despite the limited power of inbred mouse association mapping due to the limited number of available inbred strains, we are able to identify significantly associated SNPs, which fall into known QTL or genes identified through previous studies while avoiding an inflation of false positives. An R package implementation and webserver of our EMMA method are publicly available.},
affiliation = {Department of Computer Science, University of California, Los Angeles, California 90095-1596, USA.},
number = {3},
pages = {1709--23},
volume = {178},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Chromosome Mapping, Mice: Inbred Strains, Saccharin, Models: Biological, Models: Genetic, Quantitative Trait: Heritable, Phenotype, Body Weight, Polymorphism: Single Nucleotide, Mice, Organ Size, Zea mays, Population Dynamics, Software, Animals, Genome, Inbreeding, Arabidopsis, Flowers},
date-added = {2010-01-16 21:01:44 +0100},
date-modified = {2010-01-16 21:01:44 +0100},
doi = {10.1534/genetics.107.080101},
pii = {178/3/1709},
pmid = {18385116},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3825},
rating = {0}
}
@article{Rudas:2004p13780,
author = {T Rudas and W Bergsma},
journal = {METRON - International Journal of Statistics},
title = {On applications of marginal models for categorical data},
abstract = {The paper considers marginal models for categorical data and after review- ing the most important theoretical results concerning the definition, estimation and testing of such models, discusses a number of common statistical problems. These examples include, among others, the analysis of repeated measurements, panel studies and missing data. Fitting marginal models in these cases has the potential of pro- viding the researcher with substantial new insight. The examples illustrate that the marginal modeling approach may be used more widely than thought before. One of the examples shows how graphical models associated with directed acyclic graphs can be parameterized. A general algorithm is presented to compute maximum likelihood estimates under marginal models.},
number = {1},
volume = {LXII},
year = {2004},
date-added = {2010-07-28 23:10:57 +0200},
date-modified = {2010-07-28 23:12:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rudas-2004-METRON%20-%20International%20Journal%20of%20Statistics_On%20applications%20of%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13780},
rating = {0}
}
@article{Alvord:1988p6684,
author = {W G Alvord and J E Drummond and L O Arthur and R J Biggar and J J Goedert and P H Levine and E L Murphy and S H Weiss and W A Blattner},
journal = {AIDS Res Hum Retroviruses},
title = {A method for predicting individual HIV infection status in the absence of clinical information},
abstract = {Latent structure analysis can be used to determine sensitivity and specificity rates of human immunodeficiency virus antibody assays in the absence of previous clinical or laboratory results. The technique was applied to the analysis of data obtained when a panel of serum samples, collected as part of a large-scale screening project, were subjected to four conventional bioassays (ag121, p24, gp120, and an enzyme-linked immunosorbent assay). To determine the accuracy of this statistical approach, the results of latent structure analysis were compared with the known clinical diagnoses of patients from whom the samples were taken, and nearly 100% agreement was obtained. Although a two-class latent structure model had some predictive value, a three-class model more adequately explained assay patterns. The use of the four standard assays in conjunction with the statistical methods described here would largely reduce the need for confirmatory Western blot assays in analyses of large panels of samples.},
affiliation = {Data Management Services, National Cancer Institute-Frederick Cancer Research Facility, MD 21701.},
number = {4},
pages = {295--304},
volume = {4},
year = {1988},
month = {Aug},
language = {eng},
keywords = {HIV Seropositivity, Models: Statistical, Acquired Immunodeficiency Syndrome, AIDS Serodiagnosis, Humans, Radioimmunoassay, False Positive Reactions, Enzyme-Linked Immunosorbent Assay, False Negative Reactions},
date-added = {2010-03-05 22:07:58 +0100},
date-modified = {2010-03-05 22:07:59 +0100},
pmid = {3207513},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6684},
rating = {0}
}
@article{Pollard:2008p3588,
author = {K S Pollard and M J van der Laan},
journal = {U.C. Berkeley Division of Biostatistics Working Paper Series},
title = {Supervised Distance Matrices: Theory and Applications to Genomics},
abstract = {We propose a new approach to studying the relationship between a very high di- mensional random variable and an outcome. Our method is based on a novel con- cept, the supervised distance matrix, which quantifies pairwise similarity between variables based on their association with the outcome. A supervised distance ma- trix is derived in two stages. The first stage involves a transformation based on a particular model for association. In particular, one might regress the outcome on each variable and then use the residuals or the influence curve from each regres- sion as a data transformation. In the second stage, a choice of distance measure is used to compute all pairwise distances between variables in this transformed data. When the outcome is right-censored, we show that the supervised distance ma- trix can be consistently estimated using inverse probability of censoring weighted (IPCW) estimators based on the mean and covariance of the transformed data. The proposed methodology is illustrated with examples of gene expression data analysis with a survival outcome. This approach is widely applicable in genomics and other fields where high-dimensional data is collected on each subject.},
number = {238},
year = {2008},
date-added = {2010-01-15 21:14:20 +0100},
date-modified = {2010-07-29 19:55:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pollard-2008-U.C.%20Berkeley%20Division%20of%20Biostatistics%20Working%20Paper%20Series_Supervised%20Distance.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3588},
rating = {0}
}
@article{Chachamovich:2007p3413,
author = {J R Chachamovich and E Chachamovich and S Zachia and D Knauth and E P Passos},
journal = {Hum Reprod},
title = {What variables predict generic and health-related quality of life in a sample of Brazilian women experiencing infertility?},
abstract = {BACKGROUND: Infertility is a condition associated with impairment in several areas of life. Questionnaires about quality of life (QoL) allow the examination of the impact of health conditions in a broader way, comprehending outcomes beyond symptomatology, morbidity and mortality. The aim of this study was to identify factors associated with various aspects of QoL. METHODS: Cross-sectional study using the following: a socio-demographic and clinical data form, the Health Survey Short Form (SF-36) which examines health-related QoL and the WHOQOL-BREF which examines general QoL. RESULTS: 177 women seeking fertility assistance were interviewed. The sample was predominantly composed of women between 30 and 40 years old (64%), who had known about their infertility for <5 years (57%) and who had had no previous attempts at assisted reproduction (79%). Logistic regression indicated the following predictor variables: age (for better general health and physical functioning), previous in vitro fertilization (for lower vitality and poor psychological health scores), previous reproductive tract surgery (for worse general health but higher environment scores), advanced education (for higher vitality, mental health and environment scores, but for worse social relationships) and perception of worse sexual life (for lower overall scores). CONCLUSIONS: The identification of factors associated with better or worse QoL, in its different domains, is vital in order to propose and test scientifically based interventions on infertile women.},
affiliation = {Assisted Reproduction Service, Embryology and Genetics Laboratory, Gynecology and Obstetrics Department, Hospital de Clinicas de Porto Alegre, RS, and Federal University of Rio Grande do Sul, Brazil. jurigol@terra.com.br},
number = {7},
pages = {1946--52},
volume = {22},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Humans, Infertility, Health Status, Adult, Treatment Outcome, Questionnaires, Quality of Life, Odds Ratio, Female, Regression Analysis, Cross-Sectional Studies, Brazil, Sickness Impact Profile, Health Surveys},
date-added = {2010-01-15 14:49:11 +0100},
date-modified = {2010-01-15 14:49:11 +0100},
doi = {10.1093/humrep/dem080},
pii = {dem080},
pmid = {17428881},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chachamovich-2007-Hum%20Reprod_What%20variables%20predi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3413},
rating = {0}
}
@article{Vermunt:2001,
author = {J K Vermunt},
journal = {Applied Psychological Measurement},
title = {The use restricted latent class models for defining and testing nonparametric and parame tric IRT models},
pages = {283--294},
volume = {25},
year = {2001},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2001-Applied%20Psychological%20Measurement_The%20use%20restricted%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2101},
rating = {0}
}
@article{Thomas:2008p4064,
author = {Duncan C Thomas and James W Baurley and Elizabeth E Brown and Jane C Figueiredo and Alisa Goldstein and Aditi Hazra and Robin T Wilson and Nathaniel Rothman and American Association for Cancer Research},
journal = {Cancer Res},
title = {Approaches to complex pathways in molecular epidemiology: summary of a special conference of the American Association for Cancer Research},
affiliation = {Department of Preventive Medicine, University of Southern California, Los Angeles, California 90089-9011, USA. dthomas@usc.edu},
number = {24},
pages = {10028--30},
volume = {68},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Animals, Humans, Molecular Epidemiology, Neoplasms},
date-added = {2010-01-19 15:48:08 +0100},
date-modified = {2010-01-19 15:48:08 +0100},
doi = {10.1158/0008-5472.CAN-08-1690},
pii = {68/24/10028},
pmid = {19074865},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thomas-2008-Cancer%20Res_Approaches%20to%20comple.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4064},
rating = {0}
}
@article{Gargus:2005p6163,
author = {Regina A Gargus and Yvette Yatchmink},
journal = {Med Health R I},
title = {Early identification and assessment of young children with autism},
affiliation = {Hasbro Children's Hospital, Providence, RI 02903, USA.},
number = {5},
pages = {147--51},
volume = {88},
year = {2005},
month = {May},
language = {eng},
keywords = {Mass Screening, Child, Humans, Child Development, Autistic Disorder},
date-added = {2010-02-19 20:19:14 +0100},
date-modified = {2010-02-19 20:19:14 +0100},
pmid = {16052956},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gargus-2005-Med%20Health%20R%20I_Early%20identification.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6163},
rating = {0}
}
@article{Kirby:2010p5081,
author = {Amanda Kirby and Lisa Edwards and David Sugden and Sara Rosenblum},
journal = {Res Dev Disabil},
title = {The development and standardization of the Adult Developmental Co-ordination Disorders/Dyspraxia Checklist (ADC)},
abstract = {Developmental Co-ordination Disorder (DCD), also known as Dyspraxia in the United Kingdom (U.K.), is a developmental disorder affecting motor co-ordination. In the past this was regarded as a childhood disorder, however there is increasing evidence that a significant number of children will continue to have persistent difficulties into adulthood. Despite this, there remains little information as to how the difficulties might present at this stage, and additionally the impact on every day functioning. As young people move into further and higher education there is a need for screening and assessment tools. Such tools allow for identification of these difficulties, access to support, and clarification of areas where appropriate support needs to be targeted. This paper describes the first adult screening tool for DCD. The development and the results from testing this tool in two countries, Israel and the U.K. are outlined and the implications for its use in further and higher education discussed.},
affiliation = {The Dyscovery Centre, Allt-yr-yn Campus, University of Wales, Newport, UK. amanda.kirby@newport.ac.uk},
number = {1},
pages = {131--9},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Male, Disability Evaluation, Female, Israel, Humans, Mass Screening, Activities of Daily Living, Psychometrics, Adolescent, Apraxias, Handwriting, Young Adult, Cross-Cultural Comparison, Reference Values, Great Britain, Adult, Questionnaires, Motor Skills Disorders},
date-added = {2010-02-05 20:16:33 +0100},
date-modified = {2010-02-05 20:16:33 +0100},
doi = {10.1016/j.ridd.2009.08.010},
pii = {S0891-4222(09)00143-7},
pmid = {19819107},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5081},
rating = {0}
}
@book{Oppenheim:1992,
author = {AN Oppenheim},
journal = {Book},
title = {Questionnaire design, interviewing and attitude measurement},
year = {1992},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p953},
rating = {0}
}
@article{Dominicus:2006p5216,
author = {Annica Dominicus and Anders Skrondal and H{\aa}kon K Gjessing and Nancy L Pedersen and Juni Palmgren},
journal = {Behav Genet},
title = {Likelihood ratio tests in behavioral genetics: problems and solutions},
abstract = {The likelihood ratio test of nested models for family data plays an important role in the assessment of genetic and environmental influences on the variation in traits. The test is routinely based on the assumption that the test statistic follows a chi-square distribution under the null, with the number of restricted parameters as degrees of freedom. However, tests of variance components constrained to be non-negative correspond to tests of parameters on the boundary of the parameter space. In this situation the standard test procedure provides too large p-values and the use of the Akaike Information Criterion (AIC) or the Bayesian Information Criterion (BIC) for model selection is problematic. Focusing on the classical ACE twin model for univariate traits, we adapt existing theory to show that the asymptotic distribution for the likelihood ratio statistic is a mixture of chi-square distributions, and we derive the mixing probabilities. We conclude that when testing the AE or the CE model against the ACE model, the p-values obtained from using the chi(2)(1 df) as the reference distribution should be halved. When the E model is tested against the ACE model, a mixture of chi(2)(0 df), chi(2)(1 df) and chi(2)(2 df) should be used as the reference distribution, and we provide a simple formula to compute the mixing probabilities. Similar results for tests of the AE, DE and E models against the ADE model are also derived. Failing to use the appropriate reference distribution can lead to invalid conclusions.},
affiliation = {Department of Mathematics, Stockholm University, Stockholm, Sweden. annicad@math.su.se},
number = {2},
pages = {331--40},
volume = {36},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Twin Studies as Topic, Analysis of Variance, Models: Genetic, Genotype, Chi-Square Distribution, Humans, Bayes Theorem, Social Environment, Probability, Genetics: Behavioral, Likelihood Functions},
date-added = {2010-02-08 19:29:05 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-005-9034-7},
pmid = {16474914},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5216},
rating = {0}
}
@article{Storkey:2010p6301,
author = {A J Storkey and E Simonotto and H Whalley and S Lawrie and L Murray and D McGonigle},
title = {Learning Structural Equation Models for fMRI},
abstract = {Structural equation models can be seen as an extension of Gaussian belief net- works to cyclic graphs, and we show they can be understood generatively as the model for the joint distribution of long term average equilibrium activity of Gaus- sian dynamic belief networks. Most use of structural equation models in fMRI involves postulating a particular structure and comparing learnt parameters across different groups. In this paper it is argued that there are situations where priors about structure are not firm or exhaustive, and given sufficient data, it is worth investigating learning network structure as part of the approach to connectivity analysis. First we demonstrate structure learning on a toy problem. We then show that for particular fMRI data the simple models usually assumed are not supported. We show that is is possible to learn sensible structural equation models that can provide modelling benefits, but that are not necessarily going to be the same as a true causal model, and suggest the combination of prior models and learning or the use of temporal information from dynamic models may provide more benefits than learning structural equations alone.},
date-added = {2010-02-20 20:14:45 +0100},
date-modified = {2010-02-20 20:15:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Storkey--_Learning%20Structural.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6301},
rating = {0}
}
@article{Marquis:1986,
author = {KH Marquis and MS Marquis and JM Polich},
journal = {JAMA},
title = {Response bias and reliability in sensitive topic surveys},
abstract = {This discussion focuses on a reexamination of empirical evidence on the direction and size of response biases and estimates of the variance of the response error distributions for sensitive topics (receipt of welfare, income, alcohol use, drug use, criminal history, and embarrassing medical conditions). Partial or unidirectional record check studies are used as evidence of underreporting on specific topics. The estimates suggest that response biases are not uniformly negative but center around zero. Unreliability as measured in response error variance estimates appears to be very high. A response model based on classical test theory and other studies of Hansen, Hurwitz, and Bershad, and Hansen, Hurwitz, and Pritzer is presented. A review is given of empirical studies which estimate response error parameters. Estimates of response bias and error variance are given with a discussion of implications for methodological research and survey design. The conclusion in this review of the literature on response bias and reliability is that modeling of design features and response errors is not possible. There is no apparent link between features such as length of recall period, respondent rules, mode of data collection, working of survey questions, and rules for matching the survey and criterion sources. The results of the review for income show that income studies and welfare studies have a net response bias close to zero or no bias. In the income studies, other sources of potential estimation error from sampling, definitions, treatment of missing observations may cause survey estimates to be less than estimates made from administrative records. The drug and alcohol estimates are more disperse but still are not negative. For example, in the comparison of drug self-reports to urine test reports, 50% of studies show negative estimates, and 50% show positive estimates. Net bias estimates of crime data tend to be positive. For socially embarrassing problems (mental illness, hemorrhoids, and diseases of the genitourinary tract system), the large average response bias estimates are mostly negative, which may be due to poor questionnaire design. Only income estimates are higher than the accepted value of 70%, which means techniques should be used to overcome the bias of random measurement error.},
number = {394},
pages = {381--389},
volume = {81},
year = {1986},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p973},
rating = {0}
}
@article{Jelizarow:2010p11610,
author = {M Jelizarow and V Guillemot and A Tenenhaus and K strimmer and A-L Boulesteix},
title = {Over-optimism in bioinformatics: an illustration},
abstract = {In statistical bioinformatics research, different optimization mechanisms potentially lead to ``over-optimism'' in published papers. The present empirical study illustrates these mechanisms through a concrete example from an active research field. The investigated sources of over-optimism include the optimization of the data sets, of the settings, of the competing methods and, most importantly, of the method's characteristics.
We consider a ``promising'' new classification algorithm that turns out to yield disappointing results in terms of error rate, namely linear discriminant analysis incorporating prior knowledge on gene functional groups through an appropriate shrinkage of the within-group covariance matrix. We quantitatively demonstrate that this disappointing method can artificially seem superior to existing approaches if we ``fish for significance''. We conclude that, if the improvement of a quantitative criterion such as the error rate is the main contribution of a paper, the superiority of new algorithms should be validated using ``fresh'' validation data sets.
The R codes and preprocessed versions of the data sets as well as additional files can be downloaded from http://www.ibe.med.uni-muenchen.de/organisation/mitarbeiter/020− professuren/boulesteix/overoptimism/, such that the study is completely reproducible.},
number = {81},
year = {2010},
date-added = {2010-05-11 21:38:39 +0200},
date-modified = {2010-05-11 21:40:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jelizarow-2010-_Over-optimism%20in%20bio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11610},
rating = {0}
}
@article{Wickham:2009p488,
author = {Hadley Wickham and Michael Lawrence and Dianne Cook and Andreas Buja and Heike Hofmann and Deborah F Swayne},
journal = {Computational Statistics},
title = {The plumbing of interactive graphics},
abstract = {What is a pipeline, and why do we need one for interactive graphics? This conceptual paper attempts to answer these questions, building on previous work. A pipeline controls the transformation from data to graphical objects on our screens, and we argue that the pipeline must be present, in some form, in all graphics software. The pipeline is made explicit in descendants of DataViewer.},
affiliation = {Iowa State University, Ames, IA, USA},
pages = {207--215},
volume = {24},
year = {2009},
keywords = {dsc 2007, Interactive graphics, Pipeline},
date-added = {2010-01-03 12:38:36 +0100},
date-modified = {2010-07-29 19:24:32 +0200},
doi = {10.1007/s00180-008-0116-x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham-2009-Computational%20Statistics_The%20plumbing%20of%20inte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p488},
rating = {0}
}
@article{Tairyan:2009p8813,
author = {K Tairyan and J Illes},
journal = {Neuroscience},
title = {Imaging genetics and the power of combined technologies: a perspective from neuroethics},
abstract = {Imaging genetics has emerged as a powerful and sensitive approach to the study of functional genetic variations and brain responses in psychiatric and neurologic disorders. Ethics issues in contemporary neuroscience as they apply separately to genetics and neuroimaging have been a growing focus for research but, to date, there has not yet been a rigorous exploration of the ethical dimensions of the territory in which they overlap. Here we propose that the ethics challenges associated with the combination of these methods call for an expanded "neuro-space" in which societal and ethical values are closely and explicitly integrated with the new science. We build specifically on the model delivered by Roffman et al. [Roffman JL, Weiss AP, Goff DC, Rauch SL, Weinberger DR (2006) Neuroimaging-genetic paradigms: a new approach to investigate the pathophysiology and treatment of cognitive deficits in schizophrenia. Harv Rev Psychiatry 14:78-91] for neuroimaging, and develop the argument that the ethics issues parallel the heightened discriminative and cumulative power of imaging genetics. In the new combined space, features of discriminative power concern better differentiation of disease, sometimes by ethnicity, and incidental findings. Clinical utility, prediction and intervention, and stigma and labeling reflect a common ground between discriminative and cumulative power. Privacy, autonomy, response sensitivity and attitudes, resource allocation for research and for health care, and commercialization, are features of cumulative power. Parallel to the clinical features highlighted in the Roffman et al. map, the combined space yields additional neuroethics features. These are characterized by new knowledge and new implications for health care, justice, and policy. We conclude by examining these features in the context of public health at the interface of emerging new neurotechnologies.},
affiliation = {National Core for Neuroethics, The University of British Columbia, Vancouver, BC, Canada.},
number = {1},
pages = {7--15},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Public Health, Neurology, Humans, Genetic Techniques, Psychiatry, Genetics},
date-added = {2010-03-22 12:13:47 +0100},
date-modified = {2010-03-22 12:13:47 +0100},
doi = {10.1016/j.neuroscience.2009.01.052},
pii = {S0306-4522(09)00112-2},
pmid = {19409220},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tairyan-2009-Neuroscience_Imaging%20genetics%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8813},
read = {Yes},
rating = {0}
}
@article{Nestor:2010p9588,
author = {Liam Nestor and Robert Hester and Hugh Garavan},
journal = {Neuroimage},
title = {Increased ventral striatal BOLD activity during non-drug reward anticipation in cannabis users},
abstract = {Despite an increased understanding of the pharmacology and long-term cognitive effects of cannabis in humans, there has been no research to date examining its chronic effects upon reward processing in the brain. Motivational theories regarding long-term drug use posit contrasting predictions with respect to how drug users are likely to process non-drug incentives. The reward deficiency syndrome (RDS) of addiction posits that there are deficits in dopamine (DA) motivational circuitry for non-drug rewards, such that only drugs of abuse are capable of normalizing DA in the ventral striatum (VS). Alternatively, the opponent process theory (OPT) holds that in individuals prone to drug use, there exists some form of mesolimbic hyperactivity, in which there is a bias towards reward-centred behaviour concomitant with impulsivity. The current study examined BOLD responses during reward and loss anticipation and their outcome deliveries in 14 chronic cannabis users and 14 drug-naive controls during a monetary incentive delay (MID) task. Despite no significant behavioural differences between the two groups, cannabis users had significantly more right VS BOLD activity during reward anticipation. Correlation analyses demonstrated that this right VS BOLD response was significantly correlated with life-time use and reported life-time cannabis joints consumed. No correlations between cannabis abstinence and BOLD responses were observed. We also observed a number of group differences following outcome deliveries, most notably hypoactivity in the left insula cortex in response to loss and loss avoidance outcome notifications in the cannabis group. These results may suggest hypersensitivity during instrumental response anticipation for non-drug rewards and a hyposensitivity to loss outcomes in chronic cannabis users; the implications of which are discussed with respect to the potentially sensitizing effects of cannabis for other rewards.},
affiliation = {School of Psychology and Institute of Neuroscience, Trinity College Dublin, Ireland. lnestor@mednet.ucla.edu},
number = {1},
pages = {1133--43},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Dopamine, Limbic System, Adult, Substance Withdrawal Syndrome, Male, Marijuana Abuse, Oxygen, Putamen, Female, Reward, Cannabis, Magnetic Resonance Imaging, Cues, Humans, Young Adult, Motivation, Neostriatum, Image Processing: Computer-Assisted},
date-added = {2010-03-25 14:09:38 +0100},
date-modified = {2010-03-25 14:09:38 +0100},
doi = {10.1016/j.neuroimage.2009.07.022},
pii = {S1053-8119(09)00792-7},
pmid = {19631753},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4WV15PV-4&_user=2432700&_coverDate=01%252F01%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=b55c15605b7f87bd17984ed027696c46},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nestor-2010-Neuroimage_Increased%20ventral%20st.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9588},
rating = {0}
}
@article{Fisher:1999p5857,
author = {W P Fisher},
journal = {J La State Med Soc},
title = {Foundations for health status metrology: the stability of MOS SF-36 PF-10 calibrations across samples},
abstract = {Interest in applying probabilistic conjoint measurement (PCM) models, such as those devised by the late Georg Rasch, to health status and quality of life data has grown significantly in the last few years. Applications have yet, however, to fully realize the opportunities for scientific generalization and practical convenience PCM offers. This article fleshes out the substance of some of these opportunities by comparing eight separate PCM calibrations of the SF-36 ten-item physical functioning scale (PF-10). The initial average correlation across the 28 pairs of calibrations is .84; after taking advantage of the PCM model's capacity to account for missing data by omitting from the comparisons items that vary due to sample idiosyncracies, the average correlation is .90. Opportunities for, and limitations on, generalization from PF-10 measures are explored.},
affiliation = {Department of Biometry {\&} Genetics, Louisiana State University Medical Center, New Orleans, USA.},
number = {11},
pages = {566--78},
volume = {151},
year = {1999},
month = {Nov},
language = {eng},
keywords = {Calibration, Humans, Activities of Daily Living, Health Status Indicators, Models: Statistical, Disability Evaluation},
date-added = {2010-02-17 15:00:51 +0100},
date-modified = {2010-02-23 08:13:38 +0100},
pmid = {10618861},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5857},
rating = {4}
}
@article{Sinharay:2003p4257,
author = {S Sinharay and M S Johnson},
title = {Simulation studies: Applying posterior predictive model checking for assessing fit of the common item response theory models},
year = {2003},
date-added = {2010-01-23 21:05:04 +0100},
date-modified = {2010-01-23 21:06:00 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sinharay-2003-_Simulation%20studies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4257},
rating = {0}
}
@article{Hardouin:2008p1819,
author = {J B Hardouin and V S{\'e}bille},
title = {Comparison of sixteen methods for handling missing data in the framework of Patients Reported Outcomes},
year = {2008},
date-added = {2010-01-09 22:57:36 +0100},
date-modified = {2010-01-09 22:58:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardouin-2008-_Comparison%20of%20sixtee.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1819},
rating = {0}
}
@article{Cilibrasi:2005p3495,
author = {R Cilibrasi and P M B Vitanyi},
journal = {IEEE TRANSACTIONS ON INFORMATION THEORY},
title = {Clustering by Compression},
abstract = {We present a new method for clustering based on compression. The method doesn't use subject-specific features or background knowledge, and works as follows: First, we determine a parameter-free, universal, similarity distance, the normalized compression distance or NCD , computed from the lengths of compressed data files (singly and in pairwise concatenation). Second, we apply a hierarchical clustering method. The NCD is not restricted to a specific application area, and works across application area boundaries. A theoretical precursor, the normal- ized information distance, co-developed by one of the authors, is provably optimal. However, the optimality comes at the price of using the non-computable notion of Kolmogorov complexity. We propose axioms to capture the real-world setting, and show that the NCD approximates optimality. To extract a hierarchy of clusters from the distance matrix, we determine a dendrogram (binary tree) by a new quartet method and a fast heuristic to implement it. The method is implemented and available as public software, and is robust under choice of different compressors. To substantiate our claims of universality and robustness, we report evidence of successful application in areas as diverse as genomics, virology, languages, literature, music, handwritten digits, astronomy, and combinations of objects from completely different domains, using statistical, dictionary, and block sorting compressors. In genomics we presented new evidence for major questions in Mammalian evolution, based on whole-mitochondrial genomic analysis: the Eutherian orders and the Marsupionta hypothesis against the Theria hypothesis.},
number = {4},
pages = {1523--1545},
volume = {51},
year = {2005},
date-added = {2010-01-15 15:22:36 +0100},
date-modified = {2010-01-15 15:26:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cilibrasi-2005-IEEE%20TRANSACTIONS%20ON%20INFORMATION%20THEORY_Clustering%20by%20Compre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3495},
rating = {0}
}
@article{Cumming:2001,
author = {G Cumming and S Finch},
journal = {Educational and Psychological Measurement},
title = {A primer on the understanding, use and calculation of confidence intervals that are based on central and noncentral distributions},
pages = {532--575},
volume = {61},
year = {2001},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2028},
rating = {0}
}
@article{Rodgers:1988p2307,
author = {J L Rodgers and W A Nicewander},
journal = {The American Statistician},
title = {Thirteen Ways to Look at the Correlation Coefficient},
abstract = {In 1885, Sir Francis Galton first defined the term "regression" and completed the theory of bivariate correlation. A decade later, Karl Pearson developed the index that we still use to measure correlation, Pearson's r . Our article is written in recognition of the 100th anniversary of Galton's first discussion of regression and correlation. We begin with a brief history. Then we present 13 different formulas, each of which represents a different computational and conceptual definition of r. Each formula suggests a different way of thinking about this index, from algebraic, geometric, and trigonometric settings. We show that Pearson's r (or simple functions of r ) may variously be thought of as a special type of mean, a special type of variance, the ratio of two means, the ratio of two variances, the slope of a line, the cosine of an angle, and the tangent to an ellipse, and may be looked at from several other interesting perspectives.},
number = {1},
pages = {59--66},
volume = {42},
year = {1988},
date-added = {2010-01-10 12:20:50 +0100},
date-modified = {2010-01-10 12:21:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rodgers-1988-The%20American%20Statistician_Thirteen%20Ways%20to%20Loo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2307},
rating = {0}
}
@article{Bajari:2007p3604,
author = {P Bajari and J T Fox and S P Ryan},
title = {Linear regression estimation of discrete choice models with nonparametric distributions of random coefficients},
year = {2007},
date-added = {2010-01-15 21:44:52 +0100},
date-modified = {2010-01-15 21:46:00 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bajari-2007-_Linear%20regression%20es.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3604},
rating = {0}
}
@article{Miles:1998p9159,
author = {D R Miles and M C Stallings and S E Young and J K Hewitt and T J Crowley and D W Fulker},
journal = {Drug Alcohol Depend},
title = {A family history and direct interview study of the familial aggregation of substance abuse: the adolescent substance abuse study},
abstract = {The adolescent substance abuse (ASA) study collected information concerning drug use and psychopathology on male adolescent probands in treatment for substance abuse and also on matched control adolescents, as well as all available family members of both groups. Information was obtained through direct interview and the family history method of assessment. Both methods revealed greater alcohol and drug use, conduct disorder (CD) and antisocial personality disorder (ASP) in the relatives of treatment probands as compared with control relatives. These results suggest familial transmission, not only for alcohol abuse, but also for non-alcohol substance abuse. Familial transmission for CD and ASP is also evident for both male and female relatives, although the prevalence of these disorders is significantly greater in males than females.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, 80309, USA.},
number = {2},
pages = {105--14},
volume = {49},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Case-Control Studies, Sensitivity and Specificity, Substance-Related Disorders, Chi-Square Distribution, Adult, Middle Aged, Prevalence, Family Health, Antisocial Personality Disorder, Residential Treatment, Family, Male, Adolescent, Sex Factors, Female, Analysis of Variance, Humans, Comorbidity, Conduct Disorder, Colorado},
date-added = {2010-03-22 13:35:07 +0100},
date-modified = {2010-03-22 13:35:08 +0100},
pii = {S0376-8716(97)00156-7},
pmid = {9543647},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miles-1998-Drug%20Alcohol%20Depend_A%20family%20history%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9159},
rating = {0}
}
@article{Boulesteix:2007p315,
author = {Anne-Laure Boulesteix and Korbinian Strimmer},
journal = {Brief Bioinformatics},
title = {Partial least squares: a versatile tool for the analysis of high-dimensional genomic data},
abstract = {Partial least squares (PLS) is an efficient statistical regression technique that is highly suited for the analysis of genomic and proteomic data. In this article, we review both the theory underlying PLS as well as a host of bioinformatics applications of PLS. In particular, we provide a systematic comparison of the PLS approaches currently employed, and discuss analysis problems as diverse as, e.g. tumor classification from transcriptome data, identification of relevant genes, survival analysis and modeling of gene networks and transcription factor activities.},
affiliation = {Department of Medical Statistics and Epidemiology, Technical University of Munich, Ismaningerstrasse 22, D-81675 Munich, Germany. anne-laure.boulesteix@tum.de},
number = {1},
pages = {32--44},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Models: Statistical, Data Interpretation: Statistical, Least-Squares Analysis, Humans, Computational Biology, Multivariate Analysis, Survival Analysis, Genomics, Software, Animals},
date-added = {2010-01-03 11:44:47 +0100},
date-modified = {2010-01-03 11:44:47 +0100},
doi = {10.1093/bib/bbl016},
pii = {bbl016},
pmid = {16772269},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2007-Brief%20Bioinformatics_Partial%20least%20square.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p315},
rating = {0}
}
@article{Mccrae:2005p11170,
author = {R R Mccrae and A Terracciano},
journal = {J Pers Soc Psychol},
title = {Personality Profiles of Cultures: Aggregate Personality Traits},
abstract = {Personality profiles of cultures can be operationalized as the mean trait levels of culture members. College students from 51 cultures rated an individual from their country whom they knew well (N 12,156). Aggregate scores on Revised NEO Personality Inventory (NEO-PI-R) scales generalized across age and sex groups, approximated the individual-level 5-factor model, and correlated with aggregate self-report personality scores and other culture-level variables. Results were not attributable to national differences in economic development or to acquiescence. Geographical differences in scale variances and mean levels were replicated, with Europeans and Americans generally scoring higher in Extraversion than Asians and Africans. Findings support the rough scalar equivalence of NEO-PI-R factors and facets across cultures and suggest that aggregate personality profiles provide insight into cultural differences.},
number = {3},
pages = {407--425},
volume = {89},
year = {2005},
date-added = {2010-04-25 21:17:33 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
doi = {10.1037/0022-3514.89.3.407},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mccrae-2005-J%20Pers%20Soc%20Psychol_Personality%20Profiles.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11170},
rating = {4}
}
@article{Huopaniemi:2010p12338,
author = {I Huopaniemi and T Suvitaival and J Nikkil{\"a} and M Oresic and S Kaski},
journal = {Bioinformatics},
title = {Multivariate multi-way analysis of multi-source data},
abstract = {Motivation: Analysis of variance (ANOVA)-type methods are the default tool for the analysis of data with multiple covariates. These tools have been generalized to the multivariate analysis of high- throughput biological datasets, where the main challenge is the problem of small samplesize and high dimensionality. However, the existing multi-way analysis methods are not designed for the currently increasingly important experiments where data is obtained from multiple sources. Common examples of such settings include integrated analysis of metabolic and gene expression profiles, or metabolic profiles from several tissues in our case, in a controlled multi-way experimental setup where disease status, medical treatment, gender and time-series are usual covariates. Results: We extend the applicability area of multivariate, multi-way ANOVA-type methods to multi-source cases by introducing a novel Bayesian model. The method is capable of finding covariate-related dependencies between the sources. It assumes the measurements consist of groups of similarly behaving variables, and estimates the multivariate covariate effects and their interaction effects for the discovered groups of variables. In particular, the method partitions the effects to those shared between the sources and to source- specific ones. The method is specifically designed for datasets with small sample sizes and high dimensionality.
We apply the method to a lipidomics dataset from a lung cancer study with two-way experimental setup, where measurements from several tissues with mostly distinct lipids have been taken. The method is also directly applicable to gene expression and proteomics.},
pages = {i391--i398},
volume = {26},
year = {2010},
date-added = {2010-06-12 10:17:49 +0200},
date-modified = {2010-06-12 10:20:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huopaniemi-2010-Bioinformatics_Multivariate%20multi-w.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12338},
rating = {4}
}
@article{Mora:2008p7760,
author = {F Mora and M C Gon{\c c}alves-Vidigal and A I Santos},
journal = {CHILEAN JOURNAL OF AGRICULTURAL RESEARCH},
title = {BAYESIAN ANALYSIS OF THE GENETIC CONTROL OF SURVIVAL IN F3 FAMILIES OF COMMON BEAN},
abstract = {The objectives of this study were to examine the genetic control of survival in segregant families F3 of the common bean (Phaseolus vulgaris L.) in southern Brazil during the 2004-2005 growing season, to identify useful genotypes for the breeding program of this crop, and to determine the genetic association between survival and weight of 100 seeds (production trait; P100). A Bayesian approach was used to predict breeding values and to estimate variance components. Survival was recorded as a binary response: dead plant or live plant during harvest. The total population consisted of 11 520 individual plants. The difference in the magnitude between the best and the worst families was as high as 22%, and varied from 57 to 73%. Survival was found to be highly heritable, with an a posteriori heritability mean and Bayesian credible interval: H2 = 53% (43-65%). The genetic advance by direct selection achieved a value of 18%, considering a selection intensity of 25%. Survival was not correlated with P100 (Pearson = 0.099; Spearman = 0.074), indicating that selection for this trait alone would have little impact on production from a breeding viewpoint. Bayesian analysis, using the Gibbs algorithm, was useful in the genetic evaluation of common bean families based on a binary response variable.},
number = {4},
pages = {334--341},
volume = {68},
year = {2008},
date-added = {2010-03-17 20:55:02 +0100},
date-modified = {2010-03-17 20:56:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mora-2008-CHILEAN%20JOURNAL%20OF%20AGRICULTURAL%20RESEARCH_BAYESIAN%20ANALYSIS%20OF.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7760},
rating = {0}
}
@article{Surguladze:2008p8896,
author = {S A Surguladze and A Elkin and C Ecker and S Kalidindi and A Corsico and V Giampietro and N Lawrence and Q Deeley and D G M Murphy and K Kucharska-Pietura and T A Russell and P McGuffin and R Murray and M L Phillips},
journal = {Genes Brain Behav},
title = {Genetic variation in the serotonin transporter modulates neural system-wide response to fearful faces},
abstract = {A distributed, serotonergically innervated neural system comprising extrastriate cortex, amygdala and ventral prefrontal cortex is critical for identification of socially relevant emotive stimuli. The extent to which a genetic variation of serotonin transporter gene 5-HTTLPR impacts functional connectivity between the amygdala and the other components of this neural system remains little examined. In our study, neural activity was measured using event-related functional magnetic resonance imaging in 29 right-handed, white Caucasian healthy subjects as they viewed mild or prototypical fearful and neutral facial expressions. 5-HTTLPR genotype was classified as homozygous for the short allele (S/S), homozygous for the long allele (L/L) or heterozygous (S/L). S/S showed greater activity than L/L within right fusiform gyrus (FG) to prototypically fearful faces. To these fearful faces, S/S more than other genotype subgroups showed significantly greater positive functional connectivity between right amygdala and FG and between right FG and right ventrolateral prefrontal cortex (VLPFC). There was a positive association between measure of psychoticism and degree of functional connectivity between right FG and right VLPFC in response to prototypically fearful faces. Our data are the first to show that genotypic variation in 5-HTTLPR modulates both the amplitude within and the functional connectivity between different components of the visual object-processing neural system to emotionally salient stimuli. These effects may underlie the vulnerability to mood and anxiety disorders potentially triggered by socially salient, emotional cues in individuals with the S allele of 5-HTTLPR.},
affiliation = {Institute of Psychiatry, King's College London, London, United Kingdom. sphasis@iop.kcl.ac.uk},
number = {5},
pages = {543--51},
volume = {7},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Brain Mapping, Fear, Middle Aged, Adult, Personality, Aged, Facial Expression, Male, Female, Visual Cortex, Photic Stimulation, Genetic Variation, Neural Pathways, Humans, Amygdala, Anxiety, Affect, Serotonin Plasma Membrane Transport Proteins, Genotype, Magnetic Resonance Imaging},
date-added = {2010-03-22 12:51:01 +0100},
date-modified = {2010-03-22 12:51:02 +0100},
doi = {10.1111/j.1601-183X.2008.00390.x},
pii = {GBB390},
pmid = {18266983},
url = {http://www3.interscience.wiley.com/journal/119879341/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Surguladze-2008-Genes%20Brain%20Behav_Genetic%20variation%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8896},
rating = {0}
}
@article{From:2006,
author = {S G From and L Li},
journal = {Communications in Statistics -- Theory and Methods},
title = {Estimation of the paramters of the Birnbaum-Saunders distribution},
number = {12},
pages = {2157--2169},
volume = {35},
year = {2006},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/From-2006-Communications%20in%20Statistics%20--%20Theory%20and%20Methods_Estimation%20of%20the%20pa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1904},
rating = {0}
}
@article{Cohen:1998p9553,
author = {C Cohen and D A Revicki and A Nabulsi and P W Sarocco and P Jiang},
journal = {AIDS},
title = {A randomized trial of the effect of ritonavir in maintaining quality of life in advanced HIV disease. Advanced HIV Disease Ritonavir Study Group},
abstract = {BACKGROUND: The aim of treatment for HIV disease is prolonging survival and improvement in health-related quality of life. Ritonavir is a potent, orally bioavailable HIV protease inhibitor with demonstrated impact on surrogate endpoints, AIDS-defining disease, and mortality. OBJECTIVES: To evaluate the effect of ritonavir combined with reverse transcriptase inhibitor therapy on patient functioning and well-being. METHODS: An international, multicenter randomized placebo-controlled clinical trial of ritonavir was conducted in HIV-infected patients with CD4 cell counts < or = 100 x 10(6)/l. A total of 1090 patients were randomized to ritonavir and continued treatment with as many as two nucleoside agents (n=543) or placebo and continued treatment with as many as two nucleoside agents (n=547). Health-related quality of life was measured at baseline and after 3 and 6 months of treatment using the Medical Outcomes Study HIV Health Survey (MOS-HIV) and HIV-related symptoms scale. MOS-HIV contains 10 subscales and two summary scores (physical health and mental health). RESULTS: The two treatment groups were comparable on baseline CD4 cell counts, demographic characteristics, and MOS-HIV and HIV symptom subscale scores. After 3 months, statistically significant differences (P < 0.03) favoring the ritonavir-treated patients were seen on the physical health summary, mental health summary, and general health perceptions, social function, mental health, and energy/fatigue subscales. After 6 months of ritonavir therapy, significant differences were observed on physical health and mental health summary scores (P < 0.001), and on measures of general health perceptions, physical function, role function, social function, cognitive function, mental health, health distress, energy/fatigue, and overall ratings of quality of life (P < 0.01). Ritonavir-treated patients reported fewer fever symptoms and neurologic symptoms than the placebo group after 6 months of treatment (P < 0.005). CONCLUSIONS: Ritonavir therapy, combined with other antiretroviral treatments, significantly contributes to maintenance of functioning and well-being over at least 6 months in patients with advanced HIV disease.},
affiliation = {Community Research Initiative of New England, Brookline, Massachusetts, USA.},
number = {12},
pages = {1495--502},
volume = {12},
year = {1998},
month = {Aug},
language = {eng},
keywords = {HIV Infections, Female, Quality of Life, Drug Therapy: Combination, Adult, Middle Aged, Humans, Treatment Outcome, Anti-HIV Agents, Male, Double-Blind Method, Ritonavir},
date-added = {2010-03-23 20:50:25 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {9727571},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-1998-AIDS_A%20randomized%20trial%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9553},
rating = {0}
}
@article{Friedman:2007p12326,
author = {J Friedman and T Hastie and R Tibshirani},
journal = {Biostatistics},
title = {Sparse inverse covariance estimation with the graphical lasso},
abstract = {We consider the problem of estimating sparse graphs by a lasso penalty applied to the inverse covariance
matrix. Using a coordinate descent procedure for the lasso, we develop a simple algorithm---the graphical lasso---that is remarkably fast: It solves a 1000-node problem (∼500 000 parameters) in at most a minute and is 30--4000 times faster than competing methods. It also provides a conceptual link between the exact problem and the approximation suggested by Meinshausen and Bu ̈hlmann (2006). We illustrate the method on some cell-signaling data from proteomics.},
year = {2007},
date-added = {2010-06-12 09:44:47 +0200},
date-modified = {2010-06-12 09:45:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Friedman-2007-Biostatistics_Sparse%20inverse%20covar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12326},
read = {Yes},
rating = {5}
}
@article{Mayo:2004p6364,
author = {Nancy E Mayo and Lise Poissant and Sara Ahmed and Lois Finch and Johanne Higgins and Nancy M Salbach and Judith Soicher and Susan Jaglal},
journal = {J Am Med Inform Assoc},
title = {Incorporating the International Classification of Functioning, Disability, and Health (ICF) into an electronic health record to create indicators of function: proof of concept using the SF-12},
abstract = {OBJECTIVE: The purpose of this proof-of-concept study was to assess the feasibility of using a generic health measure to create coded functional status indicators and compare the characterization of a stroke population using coded functional indicators and using health-related quality-of-life summary measures alone. DESIGN: Multiple raters assigned International Classification of Functioning, Disability, and Health (ICF) codes to the items of the 12-Item Short Form Health Survey (SF-12). Data for comparing the information from the SF-12 and from ICF codes were derived from the Montreal Stroke Cohort Study that was set up to examine the long-term impact of stroke. Available for analysis were data from 604 persons with stroke, average age 69 years, and 488 controls, average age 62 years. MEASUREMENT: The SF-12 provides two summary scores, one for physical health and one for mental health. Domains of the ICF are coded to three digits, before the decimal; specific categorizations of impairments, activity limitations, and participation restrictions are coded to four digits before the decimal. RESULTS: Persons with stroke scored, on average, approximately 10 points lower than controls on physical and mental health. The ICF coding indicated that this was attributed, not surprisingly, to greater difficulty in doing moderate activities including housework, climbing stairs, and working and was not attributed to differences in pain. Differences in mental health were attributed most strongly to greater fatigue (impairment in energy), but all areas of mental health were affected to some degree. CONCLUSION: The ICF coding provided enhanced functional status information in a format compatible with the structure of administrative health databases.},
affiliation = {Division of Clinical Epidemiology, McGill University Health Center, Montreal, Quebec, Canada. nancy.mayo@mcgill.ca},
number = {6},
pages = {514--22},
volume = {11},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Age Factors, Vocabulary: Controlled, Sex Factors, Humans, Activities of Daily Living, Quality of Life, Sickness Impact Profile, Aged: 80 and over, International Classification of Diseases, Middle Aged, Feasibility Studies, Medical Records Systems: Computerized, Mental Health, Female, Case-Control Studies, Regression Analysis, Health Status Indicators, Health Status, Income, Male, Aged, Stroke},
date-added = {2010-02-23 08:21:49 +0100},
date-modified = {2010-02-23 08:21:49 +0100},
doi = {10.1197/jamia.M1462},
pii = {M1462},
pmid = {15298994},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6364},
rating = {0}
}
@article{Ware:2001p3608,
author = {J E Ware},
title = {Using Item Response Theory
To Construct QOL Measures
For Children:
The Dynamic Health Assessment (DynHA) Approach},
year = {2001},
date-added = {2010-01-16 18:23:09 +0100},
date-modified = {2010-02-23 15:00:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ware-2001-_Using%20Item%20Response.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3608},
read = {Yes},
rating = {4}
}
@article{Sarkar:2008p4356,
author = {Sanat K Sarkar},
journal = {arXiv},
title = {Stepup procedures controlling generalized FWER and generalized FDR},
abstract = { In many applications of multiple hypothesis testing where more than one false rejection can be tolerated, procedures controlling error rates measuring at least {\$}k{\$} false rejections, instead of at least one, for some fixed {\$}k\ge 1{\$} can potentially increase the ability of a procedure to detect false null hypotheses. The {\$}k{\$}-FWER, a generalized version of the usual familywise error rate (FWER), is such an error rate that has recently been introduced in the literature and procedures controlling it have been proposed. A further generalization of a result on the {\$}k{\$}-FWER is provided in this article. In addition, an alternative and less conservative notion of error rate, the {\$}k{\$}-FDR, is introduced in the same spirit as the {\$}k{\$}-FWER by generalizing the usual false discovery rate (FDR). A {\$}k{\$}-FWER procedure is constructed given any set of increasing constants by utilizing the {\$}k{\$}th order joint null distributions of the {\$}p{\$}-values without assuming any specific form of dependence among all the {\$}p{\$}-values. Procedures controlling the {\$}k{\$}-FDR are also developed by using the {\$}k{\$}th order joint null distributions of the {\$}p{\$}-values, first assuming that the sets of null and nonnull {\$}p{\$}-values are mutually independent or they are jointly positively dependent in the sense of being multivariate totally positive of order two (MTP{\$}_2{\$}) and then discarding that assumption about the overall dependence among the {\$}p{\$}-values. },
annote = {Published in: Annals of Statistics 2007, Vol. 35, No. 6, 2405-2420
Published in at http://dx.doi.org/10.1214/009053607000000398 the
Annals of Statistics (http://www.imstat.org/aos/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {0803.2934v1},
volume = {math.ST},
year = {2008},
month = {Jan},
keywords = {stat.TH, math.ST, 62J15, 62H15 (Primary) 62H99 (Secondary)},
date-added = {2010-01-27 18:29:41 +0100},
date-modified = {2010-01-27 18:29:41 +0100},
doi = {10.1214/009053607000000398},
pmid = {0803.2934v1},
url = {http://arxiv.org/abs/0803.2934v1},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4356},
rating = {0}
}
@article{Mark:2005p13798,
author = {Barbara A Mark and Thomas T H Wan},
journal = {West J Nurs Res},
title = {Testing measurement equivalence in a patient satisfaction instrument},
abstract = {The purpose of this methodological study was to examine five sources of measurement equivalence (configural invariance, metric invariance, scalar invariance, invariant uniquenesses, and invariant factor variances) in perceptions of patient satisfaction for two groups of patients, whose satisfaction was measured at different times, for men compared with women, and for minority populations compared with Whites. The sample consisted of a total sample of 1,897 patients of whom 1,070 were females, and 1,228 were White. Using confirmatory factor analysis and structural equation modeling, we found that the 10-item Likert-type scale performed well across time but required additional attention if it is to be used to compare satisfaction between genders and racial groups.},
affiliation = {University of North Carolina at Chapel Hill, USA.},
number = {6},
pages = {772--87},
volume = {27},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Texas, Inpatients, District of Columbia, Research Design, Men, Humans, Nursing Staff: Hospital, Sex Factors, Women, Factor Analysis: Statistical, Questionnaires, Patient Satisfaction, Time Factors, Female, Nursing Care, Psychometrics, Minority Groups, Nursing Evaluation Research, Southeastern United States, Male, Regression Analysis, Analysis of Variance},
date-added = {2010-07-29 12:17:55 +0200},
date-modified = {2010-07-29 12:17:55 +0200},
doi = {10.1177/0193945905276336},
pii = {27/6/772},
pmid = {16157947},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13798},
rating = {0}
}
@article{Holmes:2008p4761,
author = {Amanda Holmes and Maria Kragh Nielsen and Simon Green},
journal = {Biol Psychol},
title = {Effects of anxiety on the processing of fearful and happy faces: an event-related potential study},
abstract = {This study investigated the influence of trait anxiety on event-related potentials (ERPs) to fearful, happy, and neutral faces. Fearful faces, relative to neutral, elicited a range of effects in the low-trait anxiety (LTA) group: an enhanced visual P1 component, an early posterior negativity (EPN), and a sustained fronto-central positivity. Emotional expression effects were generally weaker for happy faces. The enhanced fronto-central positivity and EPN triggered by fearful stimuli in LTA participants were less pronounced in the high-trait anxiety (HTA) group, while the enhancement of the visual P1 seen in the LTA group was further augmented in the HTA group. This represents a clear dissociation across anxiety groups between rapid attentional processing as reflected by the visual P1 and later strategic processing as reflected by fronto-central and EPN components. These effects of high-trait anxiety in potentiating initial threat evaluation but attenuating later cognitive processing are discussed in the context of the possible roles of neural systems underlying threat evaluation, cognitive avoidance, and differentiated affective responses.},
affiliation = {School of Human and Life Sciences, Roehampton University, UK. a.holmes@roehampton.ac.uk},
number = {2},
pages = {159--73},
volume = {77},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Personality Tests, Electrocardiography, Electroencephalography, Anxiety, Fear, Female, Data Interpretation: Statistical, Happiness, Adult, Humans, Cerebral Cortex, Evoked Potentials, Cues, Male, Facial Expression, Habituation: Psychophysiologic},
date-added = {2010-02-01 20:18:48 +0100},
date-modified = {2010-02-01 20:18:48 +0100},
doi = {10.1016/j.biopsycho.2007.10.003},
pii = {S0301-0511(07)00162-7},
pmid = {18022310},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Holmes-2008-Biol%20Psychol_Effects%20of%20anxiety%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4761},
rating = {0}
}
@article{Rutgers:2007p11035,
author = {Anna H Rutgers and Marinus H van Ijzendoorn and Marian J Bakermans-Kranenburg and Sophie H N Swinkels and Emma van Daalen and Claudine Dietz and Fabienne B A Naber and Jan K Buitelaar and Herman van Engeland},
journal = {J Abnorm Child Psychol},
title = {Autism, attachment and parenting: a comparison of children with autism spectrum disorder, mental retardation, language disorder, and non-clinical children},
abstract = {Children with Autism Spectrum Disorder (ASD) have severe and pervasive impairments in the development of social interaction, which may affect the attachment relationship with their parents and may have an impact on parenting. In the current investigation 89 families with young children (mean age 26.5 months) were involved, who were diagnosed as ASD, mentally retarded (MR), or language delayed (LD), or part of a non-clinical comparison group. Attachment security was observed with the Brief Attachment Screening Questionnaire, and several parental self-report questionnaires assessed the parenting style, parental efficacy, parental experiences of daily hassles, social support, and psychological problems. Children with ASD were rated as less secure compared to the other clinical and normal comparison groups. Parents of non-clinical children reported higher levels of authoritative parenting than parents in the ASD group and in the total clinical group, and they also received less social support. Parents of children with ASD coped remarkably well with the challenges of raising a child with ASD.},
affiliation = {Centre for Child and Family Studies, Leiden University, PO Box 9555, NL-2300RB, Leiden, The Netherlands.},
number = {5},
pages = {859--70},
volume = {35},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Child: Preschool, Adaptation: Psychological, Language Development Disorders, Mental Retardation, Parenting, Male, Discriminant Analysis, Autistic Disorder, Analysis of Variance, Object Attachment, Parents, Humans, Netherlands, Social Support, Infant, Female},
date-added = {2010-04-14 13:41:11 +0200},
date-modified = {2010-07-29 19:31:18 +0200},
doi = {10.1007/s10802-007-9139-y},
pmid = {17505877},
url = {http://www.springerlink.com/content/t5t565nj38278765/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rutgers-2007-J%20Abnorm%20Child%20Psychol_Autism%20attachment%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11035},
read = {Yes},
rating = {0}
}
@article{Williams:2006,
author = {N J Williams and S N Beretvas},
journal = {Applied Psychological Measurement},
title = {DIF Identification Using HGLM for Polytomous Items},
abstract = {The relationship between the hierarchical generalized linear model (HGLM) and item response theory (IRT) models has been demonstrated for dichotomous items. The current study demonstrated the use of the HGLM for polytomous items (termed PHGLM) for identification of differential item functioning (DIF). First, the algebraic equivalence between parameterizations of a constrained form of Muraki's rating scale model and PHGLM was demonstrated. Next, as a precursor to using the PHGLM for DIF identification, a simulation was conducted to compare estimation of item and person latent trait parameters using HLM 5 and PARSCALE software. The resulting PHGLM and IRT parameter estimates were comparable. Last, a simulation was conducted that compared the performance of PHGLM with that of the generalized Mantel-Haenszel statistic for DIF identification. Both approaches performed similarly. Benefits and limitations of using PHGLM for DIF identification are presented. Index terms: hierarchical linear modeling, item response theory, polytomous items, parameter estimation, differential item functioning, attitude measurement.},
number = {1},
pages = {22--42},
volume = {30},
year = {2006},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:16:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-2006-Applied%20Psychological%20Measurement_DIF%20Identification%20U-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1143},
read = {Yes},
rating = {0}
}
@article{Durinck:2005p5049,
author = {Steffen Durinck and Yves Moreau and Arek Kasprzyk and Sean Davis and Bart De Moor and Alvis Brazma and Wolfgang Huber},
journal = {Bioinformatics},
title = {BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis},
abstract = {biomaRt is a new Bioconductor package that integrates BioMart data resources with data analysis software in Bioconductor. It can annotate a wide range of gene or gene product identifiers (e.g. Entrez-Gene and Affymetrix probe identifiers) with information such as gene symbol, chromosomal coordinates, Gene Ontology and OMIM annotation. Furthermore biomaRt enables retrieval of genomic sequences and single nucleotide polymorphism information, which can be used in data analysis. Fast and up-to-date data retrieval is possible as the package executes direct SQL queries to the BioMart databases (e.g. Ensembl). The biomaRt package provides a tight integration of large, public or locally installed BioMart databases with data analysis in Bioconductor creating a powerful environment for biological data mining.},
affiliation = {Department of Electronical Engineering, ESAT-SCD, K.U.Leuven, Kasteelpark Arenberg 10, 3001 Leuven-Heverlee, Belgium. steffen.durinck@esat.kuleuven.ac.be},
number = {16},
pages = {3439--40},
volume = {21},
year = {2005},
month = {Aug},
language = {eng},
keywords = {Databases: Protein, Systems Integration, Software, Gene Expression Profiling, Oligonucleotide Array Sequence Analysis, Database Management Systems, Information Storage and Retrieval, Algorithms},
date-added = {2010-02-05 20:01:09 +0100},
date-modified = {2010-02-05 20:01:09 +0100},
doi = {10.1093/bioinformatics/bti525},
pii = {21/16/3439},
pmid = {16082012},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Durinck-2005-Bioinformatics_BioMart%20and%20Biocondu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5049},
rating = {0}
}
@article{Hawley:2002p8155,
author = {C J Hawley and T M Gale and T Sivakumaran and Hertfordshire Neuroscience Research group},
journal = {J Affect Disord},
title = {Defining remission by cut off score on the MADRS: selecting the optimal value},
abstract = {BACKGROUND: Remission from major depression may be conceptualised in terms of a cut-off score on an appropriate rating scale. Candidate values proposed hitherto have not been directly validated. METHOD: The relationship between The Clinical Global Impression Scale for Severity (CGI-S) and the Montgomery-Asberg Depression Rating Scale (MADRS) was explored in 684 major depressed patients (1114 observations). The value on the MADRS which had greatest concordance with remission, as defined by the CGI-S, was computed using two models. Concordance between clinician and patient judgements of global illness were also compared. RESULTS AND CONCLUSION: The two models yielded optimal definitions of remission of <9 and <10 on the MADRS. Either value offers a workable operationalisation of remission and there is little to choose between them. CLINICAL RELEVANCE: The data confirm that MADRS <10 should provide the clinician with a valid, and reasonably objectifiable, target for remission},
affiliation = {Department of Psychiatry, QEII Hospital, Hertfordshire AL7 4HQ, Welwyn Garden City, UK. c.l.hawley@herts.ac.uk},
number = {2},
pages = {177--84},
volume = {72},
year = {2002},
month = {Nov},
language = {eng},
keywords = {Depressive Disorder: Major, Severity of Illness Index, Adult, Middle Aged, Psychiatric Status Rating Scales, Remission: Spontaneous, Questionnaires, Aged, Humans, Male, Reproducibility of Results, Female},
date-added = {2010-03-20 19:50:06 +0100},
date-modified = {2010-03-20 19:50:06 +0100},
pii = {S0165032701004517},
pmid = {12200208},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hawley-2002-J%20Affect%20Disord_Defining%20remission%20b.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8155},
rating = {0}
}
@article{Yi:2009p540,
author = {Nengjun Yi and Samprit Banerjee},
journal = {Genetics},
title = {Hierarchical generalized linear models for multiple quantitative trait locus mapping},
abstract = {We develop hierarchical generalized linear models and computationally efficient algorithms for genomewide analysis of quantitative trait loci (QTL) for various types of phenotypes in experimental crosses. The proposed models can fit a large number of effects, including covariates, main effects of numerous loci, and gene-gene (epistasis) and gene-environment (G x E) interactions. The key to the approach is the use of continuous prior distribution on coefficients that favors sparseness in the fitted model and facilitates computation. We develop a fast expectation-maximization (EM) algorithm to fit models by estimating posterior modes of coefficients. We incorporate our algorithm into the iteratively weighted least squares for classical generalized linear models as implemented in the package R. We propose a model search strategy to build a parsimonious model. Our method takes advantage of the special correlation structure in QTL data. Simulation studies demonstrate reasonable power to detect true effects, while controlling the rate of false positives. We illustrate with three real data sets and compare our method to existing methods for multiple-QTL mapping. Our method has been implemented in our freely available package R/qtlbim (www.qtlbim.org), providing a valuable addition to our previous Markov chain Monte Carlo (MCMC) approach.},
affiliation = {Department of Biostatistics, Section on Statistical Genetics, University of Alabama, Birmingham, Alabama 35294-0022, USA. nyi@ms.soph.uab.edu},
number = {3},
pages = {1101--13},
volume = {181},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Male, Chromosome Mapping, Listeria monocytogenes, Animals, Female, Mice, Obesity, Monte Carlo Method, Quantitative Trait Loci, Linear Models, Algorithms, Hordeum, Markov Chains},
date-added = {2010-01-03 14:05:20 +0100},
date-modified = {2010-01-03 14:05:20 +0100},
doi = {10.1534/genetics.108.099556},
pii = {genetics.108.099556},
pmid = {19139143},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yi-2009-Genetics_Hierarchical%20general.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p540},
rating = {0}
}
@article{Drosler:2008p3603,
author = {S Dr{\"o}sler},
title = {FACILITATING CROSS-NATIONAL COMPARISONS OF INDICATORS FOR PATIENT SAFETY AT THE HEALTH-SYSTEM LEVEL IN THE OECD COUNTRIES},
year = {2008},
date-added = {2010-01-15 21:43:21 +0100},
date-modified = {2010-01-15 21:43:57 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dr%C3%B6sler-2008-_FACILITATING%20CROSS-N.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3603},
rating = {0}
}
@article{Jacob:2009p6234,
author = {L Jacob and G Obozinski and J-P Vert},
journal = {Proceedings of the 26th International Conference on Machine Learning},
title = {Group Lasso with Overlap and Graph Lasso},
abstract = {We propose a new penalty function which, when used as regularization for empirical risk mini- mization procedures, leads to sparse estimators. The support of the sparse vector is typically a union of potentially overlapping groups of co- variates defined a priori, or a set of covariates which tend to be connected to each other when a graph of covariates is given. We study theo- retical properties of the estimator, and illustrate its behavior on simulated and breast cancer gene expression data.},
year = {2009},
date-added = {2010-02-19 21:03:57 +0100},
date-modified = {2010-02-19 21:04:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacob-2009-Proceedings%20of%20the%2026th%20International%20Conference%20on%20Machine%20Learning_Group%20Lasso%20with%20Ove.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6234},
rating = {0}
}
@article{Plaze:2009p5006,
author = {Marion Plaze and Marie-Laure Paill{\`e}re-Martinot and Jani Penttil{\"a} and Dominique Januel and Renaud de Beaurepaire and Franck Bellivier and Jamila Andoh and Andr{\'e} Galinowski and Thierry Gallarda and Eric Artiges and Jean-Pierre Oli{\'e} and Jean-Fran{\c c}ois Mangin and Jean-Luc Martinot and Arnaud Cachia},
journal = {Schizophr Bull},
title = {"Where Do Auditory Hallucinations Come From?"--A Brain Morphometry Study of Schizophrenia Patients With Inner or Outer Space Hallucinations},
abstract = {Auditory verbal hallucinations are a cardinal symptom of schizophrenia. Bleuler and Kraepelin distinguished 2 main classes of hallucinations: hallucinations heard outside the head (outer space, or external, hallucinations) and hallucinations heard inside the head (inner space, or internal, hallucinations). This distinction has been confirmed by recent phenomenological studies that identified 3 independent dimensions in auditory hallucinations: language complexity, self-other misattribution, and spatial location. Brain imaging studies in schizophrenia patients with auditory hallucinations have already investigated language complexity and self-other misattribution, but the neural substrate of hallucination spatial location remains unknown. Magnetic resonance images of 45 right-handed patients with schizophrenia and persistent auditory hallucinations and 20 healthy right-handed subjects were acquired. Two homogeneous subgroups of patients were defined based on the hallucination spatial location: patients with only outer space hallucinations (N = 12) and patients with only inner space hallucinations (N = 15). Between-group differences were then assessed using 2 complementary brain morphometry approaches: voxel-based morphometry and sulcus-based morphometry. Convergent anatomical differences were detected between the patient subgroups in the right temporoparietal junction (rTPJ). In comparison to healthy subjects, opposite deviations in white matter volumes and sulcus displacements were found in patients with inner space hallucination and patients with outer space hallucination. The current results indicate that spatial location of auditory hallucinations is associated with the rTPJ anatomy, a key region of the "where" auditory pathway. The detected tilt in the sulcal junction suggests deviations during early brain maturation, when the superior temporal sulcus and its anterior terminal branch appear and merge.},
affiliation = {2INSERM, U797 Research Unit, Neuroimaging and Psychiatry, IFR49, Orsay, France.},
pages = {},
year = {2009},
month = {Aug},
language = {ENG},
date-added = {2010-02-05 00:08:14 +0100},
date-modified = {2010-02-05 00:08:14 +0100},
doi = {10.1093/schbul/sbp081},
pii = {sbp081},
pmid = {19666833},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Plaze-2009-Schizophr%20Bull_%22Where%20Do%20Auditory%20H.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5006},
rating = {0}
}
@article{Hedeker:2003p6515,
author = {Donald Hedeker},
journal = {Stat Med},
title = {A mixed-effects multinomial logistic regression model},
abstract = {A mixed-effects multinomial logistic regression model is described for analysis of clustered or longitudinal nominal or ordinal response data. The model is parameterized to allow flexibility in the choice of contrasts used to represent comparisons across the response categories. Estimation is achieved using a maximum marginal likelihood (MML) solution that uses quadrature to numerically integrate over the distribution of random effects. An analysis of a psychiatric data set, in which homeless adults with serious mental illness are repeatedly classified in terms of their living arrangement, is used to illustrate features of the model.},
affiliation = {Division of Epidemiology {\&} Biostatistics, School of Public Health, University of Illinois at Chicago, Chicago, IL 60612, USA. hedeker@uic.edu},
number = {9},
pages = {1433--46},
volume = {22},
year = {2003},
month = {May},
language = {eng},
keywords = {California, Adult, Housing, Cluster Analysis, Logistic Models, Social Welfare, Humans, Public Assistance, Mentally Ill Persons, Longitudinal Studies, Likelihood Functions, Homeless Persons},
date-added = {2010-02-23 08:38:12 +0100},
date-modified = {2010-02-23 08:38:12 +0100},
doi = {10.1002/sim.1522},
pmid = {12704607},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hedeker-2003-Stat%20Med_A%20mixed-effects%20mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6515},
rating = {0}
}
@article{Mynarek:2008p11911,
author = {Zb M{\l}ynarek and J Wierzbicki and W Wo{\l}ynski and W Tschuschke},
journal = {International Association for Computer Methods and Advances in Geomechanics (IACMAG)},
title = {Assessment of Efficiency of Different Cluster Analysis Methods for Evaluation of a Stratigraphy of Strongly Laminated Subsoil},
abstract = {Cluster analysis is a statistical method applied with increasing frequency to solve geotechnical problems. Its primary advantage is the possibility to simultaneously consider several parameters describing soil to isolate homogenous subsoil layers. Studies conducted so far pertained mainly to subsoil composed of homogenous layers with thickness of at least several dozen centimeters. This study presents the results of analyses conducted on deposits of different character -- varved clays. These deposits exhibit marked lamination, consisting of alternate clay and silt layers. Individual laminae do not exceed several cm in thickness. Such a structure of deposits may cause marked discrepancies in the assessment of homogenous geotechnical layers, depending on the applied method of cluster analysis. The subject of the paper is the assessment of the effect of the laminar structure on efficiency of isolations performed using different cluster analysis methods.},
year = {2008},
date-added = {2010-05-23 12:00:34 +0200},
date-modified = {2010-05-23 12:02:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/M%C5%82ynarek-2008-International%20Association%20for%20Computer%20Methods%20and%20Advances%20in%20Geomechanics%20(IACMAG)_Assessment%20of%20Effici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11911},
rating = {0}
}
@article{Muthen:2009p13479,
author = {B Muth{\'e}n and T Asparouhov},
title = {Beyond Multilevel Regression Modeling: Multilevel Analysis in a General Latent Variable Framework},
abstract = {Multilevel modeling is often treated as if it concerns only regression analysis and growth modeling. Multilevel modeling, however, is rele- vant for nested data not only with regression and growth analysis but with all types of statistical analyses. This chapter has two aims. First, it shows that already in the traditional multilevel analysis areas of re- gression and growth there are several new modeling opportunities that should be considered. Second, it gives an overview with examples of multilevel modeling for path analysis, factor analysis, structural equa- tion modeling, and growth mixture modeling. Examples include two extensions of two-level regression analysis with measurement error in the level 2 covariate and a level 1 mixture; two-level path analysis and structural equation modeling; two-level exploratory factor analysis of classroom misbehavior; two-level growth modeling using a two-part model for heavy drinking development; an unconventional approach to three-level growth modeling of math achievement; and multilevel latent class mediation of high school dropout using multilevel growth mixture modeling of math achievement development.},
year = {2009},
date-added = {2010-07-01 20:42:32 +0200},
date-modified = {2010-07-01 20:43:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-2009-_Beyond%20Multilevel%20Re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13479},
rating = {0}
}
@article{Kang:2010p13620,
author = {T Kang and T T Chen},
journal = {Asia Pacific Educ. Rev.},
title = {Performance of the generalized S-X2 item fit index for the graded response model},
abstract = {The utility of Orlando and Thissen's (2000, 2003) S-X2 fit index was extended to the model-fit analysis of the graded response model (GRM). The performance of a modified S-X2 in assessing item-fit of the GRM was investigated in light of empirical Type I error rates and power with a simulation study having various conditions typically encountered in applied testing situations. The results show that the Type I error rates were controlled adequately around the nominal alpha by S-X2. The power of the S-X2 statistic was much lower when the source of misfit was multidimensionality than when it was due to discrepancy from the true GRM curves. Once the data size increased sufficiently, however, appropriate power was obtained regardless of the source of the item-misfit. In summary, the generalized S-X2 appears to be a promising index for investigating item fit for polytomous items in educational and psychological assessments.},
year = {2010},
date-added = {2010-07-07 21:21:38 +0200},
date-modified = {2010-07-07 21:22:28 +0200},
doi = {10.1007/s12564-010-9082-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kang-2010-Asia%20Pacific%20Educ.%20Rev._Performance%20of%20the%20g.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13620},
rating = {0}
}
@article{Leon:2009p5446,
author = {Jos{\'e} C Le{\'o}n and Jos{\'e} Carmona and Pilar Garc{\'\i}a},
journal = {J Adolesc},
title = {Health-risk behaviors in adolescents as indicators of unconventional lifestyles},
abstract = {This study analyses the dimensions of health-risk behaviors in adolescence. Based on the Theory of Problem Behavior, the study hypothesises that the structure of relations between risk behaviors may be explained in terms of their level of social transgression or unconventionality. With a sample of 771 adolescents, this study explores the association between the behaviors which, according to the WHO, have a greater impact on morbidity and mortality. The results of these analyses point to the existence of a latent variable grouping the risk behaviors that lead to greater confrontation with the norms of conventional society. The analysis of the relation of this latent variable with indicators of academic failure and satisfaction with peers and adults also produces findings that are consistent with the proposed interpretation. Finally, some recommendations are made for the planning of preventive interventions as a result of the findings.},
affiliation = {Department of Clinical, Experimental and Social Psychology, University of Huelva, Avda. Fuerzas Armadas s/n, 21071 Huelva, Spain.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-02-12 14:09:27 +0100},
date-modified = {2010-02-12 14:09:27 +0100},
doi = {10.1016/j.adolescence.2009.11.004},
pii = {S0140-1971(09)00151-1},
pmid = {19954829},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5446},
rating = {0}
}
@article{Fullerton:2003p2481,
author = {Jan Fullerton and Matthew Cubin and Hemant Tiwari and Chenxi Wang and Amarjit Bomhra and Stuart Davidson and Sue Miller and Christopher Fairburn and Guy Goodwin and Michael C Neale and Simon Fiddy and Richard Mott and David B Allison and Jonathan Flint},
journal = {Am J Hum Genet},
title = {Linkage analysis of extremely discordant and concordant sibling pairs identifies quantitative-trait loci that influence variation in the human personality trait neuroticism},
abstract = {Several theoretical studies have suggested that large samples of randomly ascertained siblings can be used to ascertain phenotypically extreme individuals and thereby increase power to detect genetic linkage in complex traits. Here, we report a genetic linkage scan using extremely discordant and concordant sibling pairs, selected from 34,580 sibling pairs in the southwest of England who completed a personality questionnaire. We performed a genomewide scan for quantitative-trait loci (QTLs) that influence variation in the personality trait of neuroticism, or emotional stability, and we established genomewide empirical significance thresholds by simulation. The maximum pointwise P values, expressed as the negative logarithm (base 10), were found on 1q (3.95), 4q (3.84), 7p (3.90), 12q (4.74), and 13q (3.81). These five loci met or exceeded the 5% genomewide significance threshold of 3.8 (negative logarithm of the P value). QTLs on chromosomes 1, 12, and 13 are likely to be female specific. One locus, on chromosome 1, is syntenic with that reported from QTL mapping of rodent emotionality, an animal model of neuroticism, suggesting that some animal and human QTLs influencing emotional stability may be homologous.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom.},
number = {4},
pages = {879--90},
volume = {72},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Siblings, England, Humans, Genotype, Neurotic Disorders, Genetic Markers, Quantitative Trait Loci, Regression Analysis, Adult, Personality Assessment, Genetic Variation, Chromosome Mapping, Personality Disorders, Middle Aged, Female, Questionnaires, Male},
date-added = {2010-01-12 13:31:12 +0100},
date-modified = {2010-07-29 19:13:31 +0200},
doi = {10.1086/374178},
pii = {S0002-9297(07)60610-7},
pmid = {12612864},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fullerton-2003-Am%20J%20Hum%20Genet_Linkage%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2481},
rating = {0}
}
@article{Harrell:1996p4700,
author = {F E Harrell and K L Lee and D B Mark},
journal = {Stat Med},
title = {Multivariable prognostic models: issues in developing models, evaluating assumptions and adequacy, and measuring and reducing errors},
abstract = {Multivariable regression models are powerful tools that are used frequently in studies of clinical outcomes. These models can use a mixture of categorical and continuous variables and can handle partially observed (censored) responses. However, uncritical application of modelling techniques can result in models that poorly fit the dataset at hand, or, even more likely, inaccurately predict outcomes on new subjects. One must know how to measure qualities of a model's fit in order to avoid poorly fitted or overfitted models. Measurement of predictive accuracy can be difficult for survival time data in the presence of censoring. We discuss an easily interpretable index of predictive discrimination as well as methods for assessing calibration of predicted survival probabilities. Both types of predictive accuracy should be unbiasedly validated using bootstrapping or cross-validation, before using predictions in a new data series. We discuss some of the hazards of poorly fitted and overfitted regression models and present one modelling strategy that avoids many of the problems discussed. The methods described are applicable to all regression models, but are particularly needed for binary, ordinal, and time-to-event outcomes. Methods are illustrated with a survival analysis in prostate cancer using Cox regression.},
affiliation = {Division of Biometry, Duke University Medical Center, Durham, North Carolina 27710, USA.},
number = {4},
pages = {361--87},
volume = {15},
year = {1996},
month = {Feb},
language = {eng},
keywords = {Treatment Outcome, Clinical Trials as Topic, Prostatic Neoplasms, Linear Models, Multivariate Analysis, Male, Mathematical Computing, Computer Graphics, Software, Data Interpretation: Statistical, Models: Statistical, Survival Analysis, Humans, Computer Simulation, Discriminant Analysis, Regression Analysis},
date-added = {2010-01-30 16:18:57 +0100},
date-modified = {2010-01-30 16:19:02 +0100},
doi = {10.1002/(SICI)1097-0258(19960229)15:4<361::AID-SIM168>3.0.CO;2-4},
pii = {10.1002/(SICI)1097-0258(19960229)15:4<361::AID-SIM168>3.0.CO;2-4},
pmid = {8668867},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harrell-1996-Stat%20Med_Multivariable%20progno.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4700},
rating = {4}
}
@article{Zhang:2009p1524,
author = {Q Zhang and E Y Liu and A Sarkar and W Wang},
title = {Split-Order Distance for Clustering and Classification Hierarchies},
abstract = {Clustering and classification hierarchies are organizational structures of a set of objects. Multiple hierarchies may be derived over the same set of objects, which makes distance computation between hi- erarchies an important task for summarization and similarity search of hierarchical patterns. In this paper, we model the classification and clustering hierarchies as rooted, leaf-labeled, unordered trees. We propose a novel distance metric Split-Order distance to evaluate the organizational structure difference between two hierarchies over the same set of leaf objects. The Split-Order distance reflects the order in which subsets of the tree leaves are differentiated from each other and can be used to explain the relationships between the leaf objects. We also propose an efficient algorithm for computing Split-Order distance between two trees in O(n2d4) time, where n is the number of leaves, and d is the maximum number of children of any node. Our experiments on both real and synthetic data demonstrate the efficiency and effectiveness of our algorithm.},
affiliation = {Department of Computer Science University of North Carolina at Chapel Hill},
year = {2009},
date-added = {2010-01-07 15:58:05 +0100},
date-modified = {2010-01-07 15:59:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2009-_Split-Order%20Distance.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1524},
rating = {0}
}
@article{Ivkovic:2007p5520,
author = {V Ivkovic and V Vitart and I Rudan and B Janicijevic and N Smolej-Narancic and T Skaric-Juric and M Barbalic and O Polasek and I Kolcic and Z Biloglav and P M Visscher and C Hayward and N D Hastie and N Anderson and H Campbell and A F Wright and P Rudan and I J Deary},
journal = {Personality and Individual Differences},
title = {The Eysenck personality factors: Psychometric structure, reliability, heritability and phenotypic and genetic correlations with psychological distress in an isolated Croatian population},
abstract = {We report the psychometric structure of a Croatian translation of the Eysenck Personality Questionnaire- Revised (short-form), its correlations with psychological distress (General Health Questionnaire-30), its heritability, and personality--psychological distress genetic correlations. The setting is a large (~1000), family-based sample of men and women from an isolated Croatian island. The neuroticism and extraversion traits and the lie scale showed good psychometric characteristics. The translated psychoticism scale was unsatisfactory in this sample. It had a very low internal consistency, probably due in part to heavily biased item responses. There were significant additive genetic contributions to variation in neuroticism, extraver- sion, and psychological distress. Psychological distress had a very high genetic correlation with neuroticism, and a moderate genetic correlation with extraversion.},
pages = {123--133},
volume = {42},
year = {2007},
date-added = {2010-02-12 14:59:45 +0100},
date-modified = {2010-02-12 15:03:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ivkovic-2007-Personality%20and%20Individual%20Differences_The%20Eysenck%20personal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5520},
rating = {0}
}
@article{Kiltz:2009p8454,
author = {U Kiltz and D van der Heijde},
journal = {Clin Exp Rheumatol},
title = {Health-related quality of life in patients with rheumatoid arthritis and in patients with ankylosing spondylitis},
abstract = {In this review the influence of rheumatoid arthritis (RA) and ankylosing spondylitis (AS) on a wide range of health-related quality of life (HRQoL) domains will be described. The domains most frequently studied are pain, functional disability, fatigue and mental problems. In addition, age and socio-economic aspects such as employment and economic status as well as education affect patient-reported HRQoL.Although many studies have assessed the impact on HRQoL of a single disease state, either RA or AS, few studies have focused on a direct comparison between those both diagnostic groups. In general, patients with RA and AS report significant decrements in HRQoL in comparison with the general population. It has been shown that the magnitude of the impairment is similar among both patients group.},
affiliation = {Rheumazentrum Ruhrgebiet, St. Josefs-Krankenhaus, Herne, Germany. kiltz@rheumazentrum-ruhrgebiet.de},
number = {4 Suppl 55},
pages = {S108--11},
volume = {27},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Health Status, Spondylitis: Ankylosing, Employment, Arthritis: Rheumatoid, Humans, Mental Health, Disability Evaluation, Pain, Activities of Daily Living, Quality of Life, Fatigue},
date-added = {2010-03-21 17:57:33 +0100},
date-modified = {2010-03-21 17:57:33 +0100},
pii = {2772},
pmid = {19822055},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kiltz-2009-Clin%20Exp%20Rheumatol_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8454},
rating = {0}
}
@article{Glas:2003p2679,
author = {C A W Glas and J C Suarez Falcon},
journal = {Applied Psychological Measurement},
title = {A Comparison of Item-Fit Statistics for the Three-Parameter Logistic Model},
abstract = {In this article, the Type I error rate and the power of a number of existing and new tests of fit to the 3-parameter logistic model (3PLM) are investigated. The first test is a generalization of a test for the evaluation of the fit to the 2-parameter logistic model (2PLM) based on the Lagrange multiplier (LM) test or the equivalent efficient score test. This technique is applied to two model violations: deviation from the 3PLM item characteristic curve and violation of local stochastic independence. The LM test for the first violation is compared with the Q1 − G2j and S − G2j tests, respectively. The LM test for the second violation is compared with the Q3 test and a new test, the S3 test, which can be viewed as a generalization of the approach of the S − G2j test to the evaluation of violation of local independence. The results of simulation studies indicate that all tests, except the Q1 − G2j test, have a Type I error rate that is acceptably close to the nominal significance level, and good power to detect the model violations they are targeted at. When, however, misfitting items are present in a test, the proportion of items that are flagged incorrectly as misfitting can become undesirably high, especially for short tests. Index terms: chi-square distribution, efficient score test, goodness of fit, item fit, item response theory (item fit), modification indices, three-parameter logistic model, Lagrange multiplier test, power studies, Type I error.},
number = {2},
pages = {87--106},
volume = {27},
year = {2003},
date-added = {2010-01-13 09:54:46 +0100},
date-modified = {2010-07-29 19:16:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-2003-Applied%20Psychological%20Measurement_A%20Comparison%20of%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2679},
rating = {0}
}
@article{Wilderjans:2009p11607,
author = {T Wilderjans and E Ceulemans and I Van Mechelen},
journal = {Computational Statistics},
title = {Simultaneous analysis of coupled data blocks differing in size: A comparison of two weighting schemes},
abstract = {Research questions in several research domains imply the simultaneous analysis of different blocks of information that pertain to the same research objects. In personality psychology, for example, to study the relation between individual differences in behavior and cognitive-affective units that can account for these differences, two types of information pertaining to the same set of persons need to be analyzed simultaneously: (1) information about the situation-specific behavior profile of these persons, and (2) information about the cognitive-affective units these persons exhibit. When dealing with such coupled data blocks (i.e., different N-way N-mode data blocks that have one or more modes in common) it often happens that one data block is much larger in size than the other(s). In this case, the question arises whether the data entries or the data blocks should be considered as the units of information, in order to disclose the true structure underlying the coupled data blocks. To answer this question, two weighting schemes are compared that are obtained by applying weights in the overall objective function that is to be optimized in the data analysis, with each weight indicating the extent to which the corresponding data block influences the integrated analysis. In a simulation study it is showed that weighting the different data blocks such that each data entry influences the analysis to the same extent (i.e., data entries as units of information) outperforms a weighting scheme in which each data block has an equal influence on the analysis (i.e., data blocks as units of information). This superior performance is demonstrated for two global models for coupled data consisting of a three-way three-mode data block and a two- way two-mode data block that have one mode in common: (1) a multiway multiblock component model for coupled real-valued data, and (2) a simultaneous clustering model for coupled binary data.},
pages = {1086--1098},
volume = {53},
year = {2009},
date-added = {2010-05-11 17:21:10 +0200},
date-modified = {2010-07-29 19:24:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wilderjans-2009-Computational%20Statistics_Simultaneous%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11607},
rating = {0}
}
@article{Gregorich:2006p13791,
author = {Steven E Gregorich},
journal = {Med Care},
title = {Do self-report instruments allow meaningful comparisons across diverse population groups? Testing measurement invariance using the confirmatory factor analysis framework},
abstract = {Comparative public health research makes wide use of self-report instruments. For example, research identifying and explaining health disparities across demographic strata may seek to understand the health effects of patient attitudes or private behaviors. Such personal attributes are difficult or impossible to observe directly and are often best measured by self-reports. Defensible use of self-reports in quantitative comparative research requires not only that the measured constructs have the same meaning across groups, but also that group comparisons of sample estimates (eg, means and variances) reflect true group differences and are not contaminated by group-specific attributes that are unrelated to the construct of interest. Evidence for these desirable properties of measurement instruments can be established within the confirmatory factor analysis (CFA) framework; a nested hierarchy of hypotheses is tested that addresses the cross-group invariance of the instrument's psychometric properties. By name, these hypotheses include configural, metric (or pattern), strong (or scalar), and strict factorial invariance. The CFA model and each of these hypotheses are described in nontechnical language. A worked example and technical appendices are included.},
affiliation = {University of California, San Francisco, 3333 California Street, Suite 335, San Francisco, CA 94143-0856, USA. gregorich@medicine.ucsf.edu},
number = {11 Suppl 3},
pages = {S78--94},
volume = {44},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Data Collection, Bias (Epidemiology), Humans, Factor Analysis: Statistical, Ethnic Groups, Psychometrics, Models: Statistical, Cross-Cultural Comparison},
date-added = {2010-07-29 12:18:29 +0200},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000245454.12228.8f},
pii = {00005650-200611001-00014},
pmid = {17060839},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13791},
rating = {0}
}
@article{Raudenbush:2003p2369,
author = {S W Raudenbush and C Johnson and R J Sampson},
journal = {Sociological Methodology},
title = {A multivariate, multilevel Rasch model with application to self-reported criminal behavior},
number = {1},
pages = {169--211},
volume = {33},
year = {2003},
date-added = {2010-01-10 13:45:50 +0100},
date-modified = {2010-01-10 13:48:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raudenbush-2003-Sociological%20Methodology_A%20multivariate%20mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2369},
rating = {0}
}
@article{Steiger:1980p806,
author = {James H Steiger},
journal = {Multivariate Behavioral Research},
title = {Testing pattern hypotheses on correlation matrices: Alternative statistics and some empirical results},
abstract = {The goodness-of-fit of correlational pattern hypotheses has traditionally been assessed either with a likelihood ratio statistic or with a quadratic form statistic. Several alternative statistics, based on the use of the Fisher r-to-z transform, are proposed and assessed in a Monte Carlo experiment.},
pages = {335--352},
volume = {15},
year = {1980},
date-added = {2010-01-03 17:05:02 +0100},
date-modified = {2010-01-03 17:07:11 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steiger-1980-Multivariate%20Behavioral%20Research_Testing%20pattern%20hypo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p806},
rating = {0}
}
@article{Baker:2009p1305,
author = {Jessica H Baker and Hermine H Maes and Lauren Lissner and Steven H Aggen and Paul Lichtenstein and Kenneth S Kendler},
journal = {J Abnorm Psychol},
title = {Genetic risk factors for disordered eating in adolescent males and females},
abstract = {The etiologic role of genetic and environmental factors on disordered eating was examined in a sample of 15- to 17-year-old female-female, male-male, and opposite-sex twin pairs. Also assessed was whether a single factor is underlying 3 facets (body dissatisfaction, drive for thinness, bulimia) of disordered eating, including the possible importance of sex differences. Univariate model-fitting analyses indicated that genetic factors are more important for girls and environment more important for boys for body dissatisfaction and drive for thinness. A multivariate common factor analysis indicated that a single factor accounted for the association among these 3 facets of disordered eating in both sexes. However, only 50% of the genetic risk for this factor is shared between the sexes.},
affiliation = {Department of Psychology, Virginia Commonwealth University, Richmond, VA 23284, USA. bakerjh@vcu.edu},
number = {3},
pages = {576--86},
volume = {118},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Personality Inventory, Adolescent, Twins: Monozygotic, Multivariate Analysis, Anorexia Nervosa, Male, Gender Identity, Bulimia Nervosa, Body Image, Motivation, Humans, Models: Genetic, Sex Factors, Genotype, Thinness, Female, Risk Factors, Social Environment, Diseases in Twins, Twins: Dizygotic, Psychometrics},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
doi = {10.1037/a0016314},
pii = {2009-12104-013},
pmid = {19685954},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1305},
rating = {0}
}
@article{Manolio:2009p7189,
author = {Teri A Manolio},
journal = {Pharmacogenomics},
title = {Collaborative genome-wide association studies of diverse diseases: programs of the NHGRI's office of population genomics},
abstract = {In the past 3 years, genome-wide association (GWA) studies have revolutionized the discovery of genetic variants associated with complex diseases. These studies present unique challenges in their conduct; particularly in the need for meticulous quality control of genotyping and for sample sizes large enough to withstand the severe penalty for multiple comparisons necessitated by testing hundreds of thousands of SNPs. They also present unique opportunities in the unprecedented detail with which they characterize an individual's genome and the potential for relating that information to any trait consistent with that person's informed consent. Such data exceed the abilities of any single group of investigators to mine them fully and by NIH policy are distributed to qualified investigators agreeing to specified terms of use. This report describes collaborative programs of the National Human Genome Research Institute's Office of Population Genomics for facilitating collection, analysis, interpretation, and dissemination of these data so that their research value can be maximized.},
affiliation = {National Human Genome Research Institute, Building 31, Room 4B-09, 31 Center Drive, MSC 2154, Bethesda, MD 20892-2154, USA. manolio@nih.gov},
number = {2},
pages = {235--41},
volume = {10},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Genomics, Polymorphism: Single Nucleotide, Genetic Diseases: Inborn, Environment, Medical Records, Humans, National Institutes of Health (U.S.), United States, Crohn Disease, Diabetes Mellitus, Alzheimer Disease, Genome-Wide Association Study},
date-added = {2010-03-06 21:18:32 +0100},
date-modified = {2010-03-06 21:18:32 +0100},
doi = {10.2217/14622416.10.2.235},
pii = {10.2217/14622416.10.2.235},
pmid = {19207024},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7189},
rating = {0}
}
@article{Heck:2009p2489,
author = {A Heck and R Lieb and A Ellgas and H Pfister and S Lucae and D Roeske and B P{\"u}tz and B M{\"u}ller-Myhsok and M Uhr and F Holsboer and M Ising},
journal = {Genes Brain Behav},
title = {Investigation of 17 candidate genes for personality traits confirms effects of the HTR2A gene on novelty seeking},
abstract = {Genes involved in serotonergic and dopaminergic neurotransmission have been hypothesized to affect different aspects of personality, but findings from genetic association studies did not provide conclusive results so far. In previous studies, however, only one or a few polymorphisms within single genes were investigated neglecting the possibility that the genetic associations might be more complex comprising several genes or gene regions. To overcome this limitation, we performed an extended genetic association study analyzing 17 serotonergic (SLC6A4, HTR1A, HTR1B, HTR2A, HTR2C, HTR3A, HTR6, MAOA, TPH1, TPH2) and dopaminergic genes (SLC6A3, DRD2, DRD3, DRD4, COMT, MAOA, TH, DBH), which have been previously reported to be implicated with personality traits. One hundred and ninety-five single nucleotide polymorphisms (SNPs) within these genes were genotyped with the Illumina BeadChip technology (HumanHap300, Human-1) in a sample of 366 mentally healthy Caucasians. Additionally, we tried to replicate our results in an independent sample of further 335 Caucasians. Personality traits in both samples were assessed with the German version of Cloninger's Tridimensional Personality Questionnaire. From 30 SNPs showing associations at a nominal level of significance, two intronic SNPs, rs2770296 and rs927544, both located in the HTR2A gene, withstood correction for multiple testing. These SNPs were associated with the personality trait novelty seeking. The effect of rs927544 could be replicated for the novelty seeking subscale extravagance, and the same SNP was also associated with extravagance in the combined samples. Our results show that HTR2A polymorphisms modulate facets of novelty seeking behaviour in healthy adults suggesting that serotonergic neurotransmission is involved in this phenotype.},
affiliation = {Max Planck Institute of Psychiatry, Munich, Germany. heck@mpipsykl.mpg.de},
number = {4},
pages = {464--72},
volume = {8},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Receptors: Dopamine, Serotonin, Polymorphism: Single Nucleotide, Receptors: Serotonin, Genotype, Humans, Phenotype, Dopamine, Germany, DNA, Exploratory Behavior, Personality, Receptor: Serotonin: 5-HT2A, Synaptic Transmission},
date-added = {2010-01-12 13:32:49 +0100},
date-modified = {2010-02-16 22:40:38 +0100},
doi = {10.1111/j.1601-183X.2009.00494.x},
pii = {GBB494},
pmid = {19566713},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heck-2009-Genes%20Brain%20Behav_Investigation%20of%2017.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2489},
read = {Yes},
rating = {4}
}
@article{Barrett:2007p9304,
author = {J H Barrett and N A Sheehan and A Cox and J Worthington and C Cannings and M D Teare},
journal = {Hum Hered},
title = {Family based studies and genetic epidemiology: theory and practice},
abstract = {Family based studies have underpinned many successes in uncovering the causes of monogenic and oligogenic diseases. Now research is focussing on the identification and characterisation of genes underlying common diseases and it is widely accepted that these studies will require large population based samples. Population based family study designs have the potential to facilitate the analysis of the effects of both genes and environment. These types of studies integrate the population based approaches of classic epidemiology and the methods enabling the analysis of correlations between relatives sharing both genes and environment. The extent to which such studies are feasible will depend upon population- and disease-specific factors. To review this topic, a symposium was held to present and discuss the costs, requirements and advantages of population based family study designs. This article summarises the features of the meeting held at The University of Sheffield, August 2006.},
affiliation = {Genetic Epidemiology Division, Leeds Institute of Molecular Medicine, University of Leeds, Leeds, UK.},
number = {2},
pages = {146--8},
volume = {64},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Genetic Diseases: Inborn, Research Design, Linkage (Genetics), Epidemiologic Methods, Genetics: Medical, Genetics: Population, Family Health},
date-added = {2010-03-22 13:41:30 +0100},
date-modified = {2010-03-22 13:41:31 +0100},
doi = {10.1159/000101993},
pii = {000101993},
pmid = {17476114},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barrett-2007-Hum%20Hered_Family%20based%20studies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9304},
read = {Yes},
rating = {0}
}
@article{Shattuck:2007p6179,
author = {Paul T Shattuck and Scott D Grosse},
journal = {Ment Retard Dev Disabil Res Rev},
title = {Issues related to the diagnosis and treatment of autism spectrum disorders},
abstract = {This paper explores issues and implications for diagnosis and treatment, stemming from the growing number of children identified with autism spectrum disorders (ASDs). Recent developments and innovations in special education and Medicaid programs are emphasized. Eligibility determination policies, innovations in diagnostic practices, the cost and financing of assessment, variability among programs in diagnostic criteria, and racial/ethnic disparities in the timing of diagnosis all influence the capacity of service systems to provide diagnoses in a timely, coordinated, accurate, economical, and equitable manner. There are several barriers to the more widespread provision of intensive intervention for children with ASDs, including lack of strong evidence of effectiveness in scaled-up public programs, uncertainty about the extent of obligations to provide services under the Individuals with Disabilities Education Act, high cost of intervention, and variability among states in their willingness to fund intensive intervention via Medicaid. Innovative policy experiments with respect to financing intensive intervention through schools and Medicaid are being conducted in a number of states.},
affiliation = {Waisman Center, University of Wisconsin-Madison, Madison, Wisconsin 53705, USA. shattuck@waisman.wisc.edu},
number = {2},
pages = {129--35},
volume = {13},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Capital Financing, Autistic Disorder, Child, Education: Special, Humans, United States, Public Policy},
date-added = {2010-02-19 20:21:54 +0100},
date-modified = {2010-02-19 20:21:54 +0100},
doi = {10.1002/mrdd.20143},
pmid = {17563895},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shattuck-2007-Ment%20Retard%20Dev%20Disabil%20Res%20Rev_Issues%20related%20to%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6179},
rating = {0}
}
@article{Levy:2008p1570,
author = {R Levy and G R Hancock},
title = {A Generalized Model Comparison Framework for Covariance and Mean Structure Models, Accommodating Multiple Groups and Latent Mixtures},
abstract = {The model comparison framework of Levy and Hancock (2007) for covariance and mean
structure models is extended to treat multiple-group models, both in cases where group membership is known and those in which it is unknown (i.e., finite mixtures). The framework addresses questions of distinguishability as well as difference in fit of the models with respect to data, first by determining the nature of the models' relation in terms of the families of distributions that constitute the models and then by conducting the appropriate statistical test(s). In the case of latent mixtures of groups, the standard likelihood ratio theory does not apply and a bootstrapping approach is employed to facilitate the tests. Illustrations demonstrate the procedures.},
year = {2008},
date-added = {2010-01-07 16:56:59 +0100},
date-modified = {2010-01-07 16:57:33 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2008-_A%20Generalized%20Model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1570},
rating = {0}
}
@article{Beeby:2006p2236,
author = {Harry N Beeby and Sarah E Medland and Nicholas G Martin},
journal = {Behav Genet},
title = {ViewPoint and ViewDist: utilities for rapid graphing of linkage distributions and identification of outliers},
abstract = {ViewPoint and ViewDist are stand alone Java utilities designed to provide an interactive visual representation of data from files which may be created by the user or produced directly from analyses packages such as Mx. ViewPoint is designed for representation of linkage results and can be used for summarizing multiple univariate linkage results or providing detailed comparison of univariate and multivariate results, with optional dynamic sub-plots designed to display the QTL path coefficients at each marker. ViewDist is an easy to use distribution plotter designed for use with raw data or case-wise likelihood statistics. The utility can produce Q-Q plots (assuming either normal or chi(2)-distributions) and by allowing data to be read simultaneously from two files readily produces difference plots allowing comparison of the case-wise likelihood under two competing models.},
affiliation = {Queensland Institute of Medical Research, PO Royal Brisbane Hospital, Brisbane, Australia. harry.beeby@qimr.edu.au},
number = {1},
pages = {7--11},
volume = {36},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Humans, linkage disequilibrium, Reproducibility of Results, Chromosome Mapping, Quantitative Trait Loci},
date-added = {2010-01-10 11:57:10 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9045-z},
pmid = {16502136},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Beeby-2006-Behav%20Genet_ViewPoint%20and%20ViewDi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2236},
rating = {0}
}
@article{Lehmann:2005p4753,
author = {EL Lehmann and J P Romano},
journal = {The Annals of Statistics},
title = {Generalizations of the familywise error rate},
abstract = {Consider the problem of simultaneously testing null hypotheses H1,...,Hs. The usual approach to dealing with the multiplicity prob- lem is to restrict attention to procedures that control the familywise error rate (FWER), the probability of even one false rejection. In many applications, particularly if s is large, one might be willing to tolerate more than one false rejection provided the number of such cases is controlled, thereby increasing the ability of the procedure to detect false null hypotheses. This suggests replacing control of the FWER by controlling the probability of k or more false rejec- tions, which we call the k-FWER. We derive both single-step and stepdown procedures that control the k-FWER, without making any assumptions concerning the dependence structure of the p-values of the individual tests. In particular, we derive a stepdown procedure that is quite simple to apply, and prove that it cannot be improved without violation of control of the k-FWER. We also consider the false discovery proportion (FDP) defined by the number of false re- jections divided by the total number of rejections (defined to be 0 if there are no rejections). The false discovery rate proposed by Ben- jamini and Hochberg [J. Roy. Statist. Soc. Ser. B 57 (1995) 289--300] controls E(FDP). Here, we construct methods such that, for any γ and α, P {FDP > γ} ≤ α. Two stepdown methods are proposed. The first holds under mild conditions on the dependence structure of p- values, while the second is more conservative but holds without any dependence assumptions.},
number = {3},
pages = {1138--1154},
volume = {33},
year = {2005},
date-added = {2010-02-01 12:06:44 +0100},
date-modified = {2010-07-11 09:54:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lehmann-2005-The%20Annals%20of%20Statistics_Generalizations%20of%20t-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4753},
rating = {0}
}
@inbook{Hamon:2002,
author = {A Hamon and M Mesbah},
journal = {Book},
title = {Statistical Methods for Quality of Life Studies. Design, Measurement and Analysis},
chapter = {Questionnaire Reliability under the Rasch Model},
year = {2002},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamon-2002-Book_Statistical%20Methods.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1900},
rating = {0}
}
@article{Yamada:2007p11042,
author = {Atsurou Yamada and Miyoshi Suzuki and Misuzu Kato and Mie Suzuki and Sayumi Tanaka and Takuo Shindo and Kazuo Taketani and Tatsuo Akechi and Toshi A Furukawa},
journal = {Psychiatry Clin Neurosci},
title = {Emotional distress and its correlates among parents of children with pervasive developmental disorders},
abstract = {A number of studies have reported that parents of autistic children face higher levels of stress, but few studies examined the stress associated with the home care of children with pervasive developmental disorders (PDD) other than autistic disorder. The aims of the present study were therefore to (i) evaluate the emotional stress level of parents caring for their children with PDD; and (ii) explore the correlates of their emotional stress. Participants were 147 families (147 mothers and 122 fathers) of 158 children with PDD (42 with autistic disorder, 35 with Asperger's disorder and 81 with PDD not otherwise specified). K6 was used to measure the stress level of the parents. Marital relationships and personality were assessed with the Intimate Bond Measure and the NEO Five-Factor Inventory, respectively. The parents also rated the characteristics of their children with PDD through the Pervasive Developmental Disorder-Autism Society Japan Rating Scale (PARS). The mean K6 score of the mothers was significantly higher than that of the women in the general population in Japan. Stepwise multiple regression indicated that the emotional stress of the mothers was correlated with the personality traits of Neuroticism and Agreeableness, perceived Control by the husband, and the children's PARS score. Clinicians can deliver better service by paying appropriate attention to the emotional distress of mothers of children with not only autistic disorder but also other PDD.},
affiliation = {Department of Psychiatry and Cognitive-Behavioral Medicine, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan. atsurou.yamada@mbr.cifty.com},
number = {6},
pages = {651--7},
volume = {61},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Object Attachment, Child, Asperger Syndrome, Personality, Ambulatory Care, Schools, Female, Regression Analysis, Stress: Psychological, Socioeconomic Factors, Child Development Disorders: Pervasive, Male, Adult, Psychiatric Status Rating Scales, Marriage, Humans, Intelligence, Questionnaires, Autistic Disorder, Child Behavior, Age of Onset, Data Interpretation: Statistical, Parents},
date-added = {2010-04-14 13:41:47 +0200},
date-modified = {2010-04-14 13:41:47 +0200},
doi = {10.1111/j.1440-1819.2007.01736.x},
pii = {PCN1736},
pmid = {18081627},
url = {http://www3.interscience.wiley.com/journal/118506127/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yamada-2007-Psychiatry%20Clin%20Neurosci_Emotional%20distress%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11042},
rating = {0}
}
@article{Melzer:2008p2299,
author = {David Melzer and John R B Perry and Dena Hernandez and Anna-Maria Corsi and Kara Stevens and Ian Rafferty and Fulvio Lauretani and Anna Murray and J Raphael Gibbs and Giuseppe Paolisso and Sajjad Rafiq and Javier Simon-Sanchez and Hana Lango and Sonja Scholz and Michael N Weedon and Sampath Arepalli and Neil Rice and Nicole Washecka and Alison Hurst and Angela Britton and William Henley and Joyce van de Leemput and Rongling Li and Anne B Newman and Greg Tranah and Tamara Harris and Vijay Panicker and Colin Dayan and Amanda Bennett and Mark I McCarthy and Aimo Ruokonen and Marjo-Riitta Jarvelin and Jack Guralnik and Stefania Bandinelli and Timothy M Frayling and Andrew Singleton and Luigi Ferrucci},
journal = {PLoS Genet},
title = {A genome-wide association study identifies protein quantitative trait loci (pQTLs)},
abstract = {There is considerable evidence that human genetic variation influences gene expression. Genome-wide studies have revealed that mRNA levels are associated with genetic variation in or close to the gene coding for those mRNA transcripts - cis effects, and elsewhere in the genome - trans effects. The role of genetic variation in determining protein levels has not been systematically assessed. Using a genome-wide association approach we show that common genetic variation influences levels of clinically relevant proteins in human serum and plasma. We evaluated the role of 496,032 polymorphisms on levels of 42 proteins measured in 1200 fasting individuals from the population based InCHIANTI study. Proteins included insulin, several interleukins, adipokines, chemokines, and liver function markers that are implicated in many common diseases including metabolic, inflammatory, and infectious conditions. We identified eight Cis effects, including variants in or near the IL6R (p = 1.8x10(-57)), CCL4L1 (p = 3.9x10(-21)), IL18 (p = 6.8x10(-13)), LPA (p = 4.4x10(-10)), GGT1 (p = 1.5x10(-7)), SHBG (p = 3.1x10(-7)), CRP (p = 6.4x10(-6)) and IL1RN (p = 7.3x10(-6)) genes, all associated with their respective protein products with effect sizes ranging from 0.19 to 0.69 standard deviations per allele. Mechanisms implicated include altered rates of cleavage of bound to unbound soluble receptor (IL6R), altered secretion rates of different sized proteins (LPA), variation in gene copy number (CCL4L1) and altered transcription (GGT1). We identified one novel trans effect that was an association between ABO blood group and tumour necrosis factor alpha (TNF-alpha) levels (p = 6.8x10(-40)), but this finding was not present when TNF-alpha was measured using a different assay , or in a second study, suggesting an assay-specific association. Our results show that protein levels share some of the features of the genetics of gene expression. These include the presence of strong genetic effects in cis locations. The identification of protein quantitative trait loci (pQTLs) may be a powerful complementary method of improving our understanding of disease pathways.},
affiliation = {Department of Epidemiology and Public Health, Institute of Biomedical and Clinical Sciences, Peninsula College of Medicine and Dentistry, University of Exeter, Devon, United Kingdom.},
number = {5},
pages = {e1000072},
volume = {4},
year = {2008},
month = {May},
language = {eng},
keywords = {Genotype, Middle Aged, Aged: 80 and over, Male, Genome: Human, Genetic Variation, Aged, Adult, Polymorphism: Single Nucleotide, Female, Humans, Quantitative Trait Loci, Transcription: Genetic, Linkage (Genetics), Blood Proteins, Gene Dosage},
date-added = {2010-01-10 12:12:38 +0100},
date-modified = {2010-01-10 12:12:38 +0100},
doi = {10.1371/journal.pgen.1000072},
pmid = {18464913},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Melzer-2008-PLoS%20Genet_A%20genome-wide%20associ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2299},
rating = {0}
}
@article{Johnson:2004p10895,
author = {R B Johnson and A J Onwuegbuzie},
journal = {Educational Researcher},
title = {Mixed Methods Research: A Research Paradigm Whose Time Has Come},
abstract = {The purposes of this article are to position mixed methods research (mixed research is a synonym) as the natural complement to tradi- tional qualitative and quantitative research, to present pragmatism as offering an attractive philosophical partner for mixed methods re- search, and to provide a framework for designing and conducting mixed methods research. In doing this, we briefly review the para- digm ``wars'' and incompatibility thesis, we show some commonali- ties between quantitative and qualitative research, we explain the tenets of pragmatism, we explain the fundamental principle of mixed research and how to apply it, we provide specific sets of designs for the two major types of mixed methods research (mixed-model de- signs and mixed-method designs), and, finally, we explain mixed meth- ods research as following (recursively) an eight-step process. A key feature of mixed methods research is its methodological pluralism or eclecticism, which frequently results in superior research (com- pared to monomethod research). Mixed methods research will be successful as more investigators study and help advance its concepts and as they regularly practice it.},
number = {7},
pages = {14--26},
volume = {33},
year = {2004},
date-added = {2010-04-10 03:36:57 +0200},
date-modified = {2010-04-10 03:37:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnson-2004-Educational%20Researcher_Mixed%20Methods%20Resear.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10895},
rating = {0}
}
@article{Tochigi:2006p11582,
author = {Mamoru Tochigi and Takeshi Otowa and Hiroyuki Hibino and Chieko Kato and Toshiyuki Otani and Tadashi Umekage and Takeshi Utsumi and Nobumasa Kato and Tsukasa Sasaki},
journal = {Neurosci Res},
title = {Combined analysis of association between personality traits and three functional polymorphisms in the tyrosine hydroxylase, monoamine oxidase A, and catechol-O-methyltransferase genes},
abstract = {Several molecular genetic studies have been conducted with regard to the association between catecholamine-related genes and personality traits. However, the results of replication studies did not always coincide. One of the possible reasons may be that the effect exerted by the individual gene is small. In the present study, we investigated the association between personality traits and systematic combination of functional polymorphisms in three genes that regulate the metabolism of catecholamines, namely, tyrosine hydroxylase (TH), monoamine oxidase A (MAOA), and catechol-O-methyltransferase (COMT). The (TCAT)n repeat in the TH gene, the promoter variable number tandem repeat (VNTR) in the MAOA gene, and Val158Met in the COMT gene were genotyped in 256 healthy Japanese volunteers. Personality traits were evaluated using the NEO Personality Inventory-Revised (NEO PI-R). As a result, the score for Neuroticism increased, and those for Extraversion and Conscientiousness decreased according to the degree of functional polymorphic change, i.e., the lower synthesis/higher catalysis of catecholamines. A statistically significant difference was observed in the change of Extraversion (p=0.04, after Bonferroni correction). These results may provide evidence for the association between metabolic change of catecholamines and personality traits, which may be due to the additive effect of the three genes.},
affiliation = {Department of Neuropsychiatry, Graduate School of Medicine, University of Tokyo, 7-3-1 Hongo, Bunkyo, Tokyo 113-0033, Japan.},
number = {3},
pages = {180--5},
volume = {54},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Tyrosine 3-Monooxygenase, Male, Personality, Adult, Humans, Monoamine Oxidase, Female, Catechol O-Methyltransferase, Polymorphism: Genetic},
date-added = {2010-05-09 18:26:20 +0200},
date-modified = {2010-05-09 18:26:25 +0200},
doi = {10.1016/j.neures.2005.11.003},
pii = {S0168-0102(05)00298-1},
pmid = {16360899},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tochigi-2006-Neurosci%20Res_Combined%20analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11582},
rating = {4}
}
@inbook{Edwards:1991,
author = {WS Edwards and D Cantor},
journal = {Book},
title = {Measurement errors in sruveys},
chapter = {Toward a response model in establishment surveys},
pages = {211--233},
year = {1991},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p974},
rating = {0}
}
@article{Kromrey:2010p11752,
author = {J D Kromrey and C G Parshall and W M Chason and O Yi},
title = {Generating Item Responses Based on Multidimensional Item Response Theory},
abstract = {The purpose of this paper is to demonstrate code written in SAS/IML software that generates examinees' test responses (0/1s) based on a multidimensional item response theory (MIRT) model. This program reads in a file of calibrated item parameters from the NOHARM computer program (Fraser {\&} McDonald, 1986) and generates normally distributed random variables to represent examinees' ability levels on each dimension.
The SAS/IML program calculates the probability of an examinee obtaining a correct response based on the MIRT model, then compares this probability with a uniform random number to decide the examinee's item response. If the probability is larger than the random number, the examinee is credited a correct response (i.e., an item score of 1), otherwise, a zero. The program allows control of the number of samples, the number of examinees, and the number of items for which item responses are generated.},
date-added = {2010-05-14 22:00:11 +0200},
date-modified = {2010-05-14 22:01:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kromrey--_Generating%20Item%20Resp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11752},
rating = {0}
}
@article{Hung:2007p7757,
author = {H M James Hung and Sue-Jane Wang and Robert O'Neill},
journal = {J Biopharm Stat},
title = {Statistical considerations for testing multiple endpoints in group sequential or adaptive clinical trials},
abstract = {Many clinical trials are designed with a fixed sample size or total number of events to detect a postulated size of treatment effect on a primary efficacy endpoint. When the trial is completed and the primary efficacy endpoint achieves statistical significance, formal statistical testing of other clinically important secondary endpoints often follows in order for the statistically and clinically significant results of these endpoints to be included in the label of the test pharmaceutical product. In conventional fixed designs without any interim analysis or trial extension, these endpoints are often tested in a pre-specified hierarchical order, following the closed testing principle. This testing strategy ensures a strong control of the overall type I error. However, when trials are conducted using a group-sequential design with interim analyses or can be extended using an adaptive design with an increase of sample size or total number of events, this conventional hierarchical testing strategy may violate the closure principle and the overall type I error rate may not be controlled in the strong sense.},
affiliation = {Division of Biometrics I, OB/OTS/CDER, FDA, Silver Spring, Maryland 20993-0002, USA. hsienming.hung@fda.hhs.gov},
number = {6},
pages = {1201--10},
volume = {17},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Humans, Clinical Trials as Topic, Sample Size, Endpoint Determination, Research Design, Probability},
date-added = {2010-03-17 20:53:31 +0100},
date-modified = {2010-07-29 19:32:23 +0200},
doi = {10.1080/10543400701645405},
pii = {785296381},
pmid = {18027226},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7757},
rating = {0}
}
@article{Meier:2008p6237,
author = {L Meier and S van de Geer and P B{\"u}hlmann},
journal = {Journal of the Royal Society, Serie B},
title = {The group lasso for logistic regression},
abstract = {The group lasso is an extension of the lasso to do variable selection on (predefined) groups of variables in linear regression models. The estimates have the attractive property of being invariant under groupwise orthogonal reparameterizations. We extend the group lasso to logistic regression models and present an efficient algorithm, that is especially suitable for high dimensional problems, which can also be applied to generalized linear models to solve the corresponding convex optimization problem. The group lasso estimator for logistic regression is shown to be statistically consistent even if the number of predictors is much larger than sam- ple size but with sparse true underlying structure. We further use a two-stage procedure which aims for sparser models than the group lasso, leading to improved prediction performance for some cases. Moreover, owing to the two-stage nature, the estimates can be constructed to be hierarchical. The methods are used on simulated and real data sets about splice site detection in DNA sequences.},
number = {1},
pages = {53--71},
volume = {70},
year = {2008},
date-added = {2010-02-19 21:09:15 +0100},
date-modified = {2010-07-29 19:38:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meier-2008-Journal%20of%20the%20Royal%20Society%20Serie%20B_The%20group%20lasso%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6237},
rating = {0}
}
@article{DelFiol:2009p2375,
author = {Guilherme Del Fiol and Peter J Haug},
journal = {J Biomed Inform},
title = {Classification models for the prediction of clinicians' information needs},
abstract = {OBJECTIVE: Clinicians face numerous information needs during patient care activities and most of these needs are not met. Infobuttons are information retrieval tools that help clinicians to fulfill their information needs by providing links to on-line health information resources from within an electronic medical record (EMR) system. The aim of this study was to produce classification models based on medication infobutton usage data to predict the medication-related content topics (e.g., dose, adverse effects, drug interactions, patient education) that a clinician is most likely to choose while entering medication orders in a particular clinical context. DESIGN: We prepared a dataset with 3078 infobutton sessions and 26 attributes describing characteristics of the user, the medication, and the patient. In these sessions, users selected one out of eight content topics. Automatic attribute selection methods were then applied to the dataset to eliminate redundant and useless attributes. The reduced dataset was used to produce nine classification models from a set of state-of-the-art machine learning algorithms. Finally, the performance of the models was measured and compared. MEASUREMENTS: Area under the ROC curve (AUC) and agreement (kappa) between the content topics predicted by the models and those chosen by clinicians in each infobutton session. RESULTS: The performance of the models ranged from 0.49 to 0.56 (kappa). The AUC of the best model ranged from 0.73 to 0.99. The best performance was achieved when predicting choice of the adult dose, pediatric dose, patient education, and pregnancy category content topics. CONCLUSION: The results suggest that classification models based on infobutton usage data are a promising method for the prediction of content topics that a clinician would choose to answer patient care questions while using an EMR system.},
affiliation = {Biomedical Informatics Department, University of Utah, 4646 Lake Park Boulevard, Salt Lake City, UT 84120, USA. guilherme.delfiol@utah.edu},
number = {1},
pages = {82--9},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Artificial Intelligence, Health Personnel, User-Computer Interface, Medical Records Systems: Computerized, Models: Statistical, Patient Care, ROC Curve, Decision Support Systems: Clinical, Bayes Theorem, Pharmaceutical Preparations, Prescriptions, Algorithms, Information Storage and Retrieval, Area Under Curve, Databases: Factual, Humans, Online Systems},
date-added = {2010-01-10 19:28:57 +0100},
date-modified = {2010-01-10 19:28:57 +0100},
doi = {10.1016/j.jbi.2008.07.001},
pii = {S1532-0464(08)00095-6},
pmid = {18675380},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Del%20Fiol-2009-J%20Biomed%20Inform_Classification%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2375},
rating = {0}
}
@article{Buschgens:2009p1235,
author = {Cathelijne J M Buschgens and Marcel A G van Aken and Sophie H N Swinkels and Johan Ormel and Frank C Verhulst and Jan K Buitelaar},
journal = {Eur Child Adolesc Psychiatry},
title = {Externalizing behaviors in preadolescents: familial risk to externalizing behaviors and perceived parenting styles},
abstract = {The aim was to investigate the contribution of familial risk to externalizing behaviors (FR-EXT), perceived parenting styles, and their interactions to the prediction of externalizing behaviors in preadolescents. Participants were preadolescents aged 10-12 years who participated in TRAILS, a large prospective population-based cohort study in the Netherlands (N = 2,230). Regression analyses were used to determine the relative contribution of FR-EXT and perceived parenting styles to parent and teacher ratings of externalizing behaviors. FR-EXT was based on lifetime parental externalizing psychopathology and the different parenting styles (emotional warmth, rejection, and overprotection) were based on the child's perspective. We also investigated whether different dimensions of perceived parenting styles had different effects on subdomains of externalizing behavior. We found main effects for FR-EXT (vs. no FR-EXT), emotional warmth, rejection, and overprotection that were fairly consistent across rater and outcome measures. More specific, emotional warmth was the most consistent predictor of all outcome measures, and rejection was a stronger predictor of aggression and delinquency than of inattention. Interaction effects were found for FR-EXT and perceived parental rejection and overprotection; other interactions between FR-EXT and parenting styles were not significant. Correlations between FR-EXT and perceived parenting styles were absent or very low and were without clinical significance. Predominantly main effects of FR-EXT and perceived parenting styles independently contribute to externalizing behaviors in preadolescents, suggesting FR-EXT and parenting styles to be two separate areas of causality. The relative lack of gene-environment interactions may be due to the epidemiological nature of the study, the preadolescent age of the subjects, the measurement level of parenting and the measurement level of FR-EXT, which might be a consequence of both genetic and environmental factors.},
affiliation = {Department of Psychiatry, Radboud University, Nijmegen Medical Centre, PO Box 9101, HP 966, 6500 HB, Nijmegen, The Netherlands, C.Buschgens@psy.umcn.nl.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-07 11:23:29 +0100},
date-modified = {2010-01-07 11:23:29 +0100},
doi = {10.1007/s00787-009-0086-8},
pmid = {20041337},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1235},
rating = {0}
}
@article{Doledec:1994p12020,
author = {S Dol{\'e}dec and D Chessel},
journal = {Freshwater Biology},
title = {Co-inertia analysis: An alternative method for studying species-environment relationships},
pages = {277--294},
volume = {31},
year = {1994},
date-added = {2010-05-23 22:48:57 +0200},
date-modified = {2010-05-23 22:50:00 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dol%C3%A9dec-1994-Freshwater%20Biology_Co-inertia%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12020},
rating = {0}
}
@article{Billiet:2002p11933,
author = {J Billiet and B Cambr{\'e} and J Welkenhuysen-Gybels},
title = {Equivalence of Measurement Instruments for Attitude Variables in Comparative Surveys, Taking Method Effects into Account: The Case of Ethnocentrism},
abstract = {This study is focused on the construction of a cross-national comparable measurement instrument for attitude variables in comparative surveys. Multi-group measurement models for latent variables (LISREL), taking method effects into account, are applied. The measurements of the 'out- group' dimension of ethnocentrism (variables q42, q44, q45, q47-q52) in the 1995 ISSP dataset are used. Nearly all the items in the quasi balanced set are written in a Likert format in which respondents are asked how strongly they agree or disagree with each attitude statement. There is considerable evidence that such a response format can be susceptible to an agreeing- response bias called acquiescence (Billiet and McClendon, 2000). It is shown that in all countries, models with a method or style factor (acquiescence) always fit the data better than models without a style factor. It is investigated to what extent the measurement instrument with a content and a method factor is equivalent over the cultural groups. In a first step the factor loadings of the groups are explored by cluster analysis. After the detection of two subsets of groups that are likely to share equivalent measurement instruments, a stepwise procedure was performed starting with the measurement model for one group, and then looking for equivalent groups (countries) only accepting minor changes in the measurement model. The introduction of a style factor allows us to control for a possible source of measurement non-equivalence, namely method bias. Moreover, the inclusion of a method factor gives the opportunity to investigate the differences in method effects between the groups (countries). However, it is found that both, the variance of the style factor and its factor loadings do not differ between the groups in the first subset of countries, but there are differences in the degree of acquiescence in the second one. It seems reasonable to conclude that the agreeing-response bias does not lead to a cross-cultural method bias in the measurement of ethnocentrism in the Western countries of ISSP 1995.},
year = {2002},
date-added = {2010-05-23 16:50:32 +0200},
date-modified = {2010-05-23 16:51:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Billiet-2002-_Equivalence%20of%20Measu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11933},
rating = {4}
}
@article{Bechger:2002p14010,
author = {Timo M Bechger and Dorret I Boomsma and Henk Koning},
journal = {Behav Genet},
title = {A limited dependent variable model for heritability estimation with non-random ascertained samples},
abstract = {In a questionnaire study, a random sample of Dutch families was asked whether they suffered from asthma and related symptoms. From these families, a selected sample was invited to come to the hospital for further phenotyping. Families were selected if at least one family member reported a history of asthma and the twins were 18 years of age or older. Not all families that were thus selected volunteered, leaving us with a fraction of the original sample. The aim of this paper is to describe a limited dependent variable model that can be used in such situations in order to obtain estimates that are representative of the population from which the sample was originally drawn. The model is a linear (DeFries-Fulker) regression model corrected for sample selection. This correction is possible when (some of) the characteristics that determine whether subjects volunteer (or not) are known for all subjects, including those that did not volunteer. The questionnaire study is of interest by itself but serves mainly to provide a concrete illustration of our method. The present model is used to analyze the data and the results are compared to those obtained with other methods: raw (or direct) likelihood estimation, multiple imputation, and sample weighting. Throughout, Rubin's general theory of inference with missing data serves as an integrating framework.},
affiliation = {National Institute for Educational Measurement (Cito), Arnhem, The Netherlands. timo.bechger@citogroep.nl},
number = {2},
pages = {145--51},
volume = {32},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Diseases in Twins, Bias (Epidemiology), Risk, Adolescent, Models: Genetic, Humans, Asthma, Likelihood Functions, Adult, Genetic Testing, Female, Child, Phenotype, Genetic Predisposition to Disease, Netherlands, Male},
date-added = {2010-08-04 09:36:02 +0200},
date-modified = {2010-08-04 09:36:02 +0200},
pmid = {12036112},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2002-Behav%20Genet_A%20limited%20dependent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14010},
rating = {0}
}
@article{Eiser:2001p8501,
author = {C Eiser and R Morse},
journal = {Qual Life Res},
title = {Can parents rate their child's health-related quality of life? Results of a systematic review},
abstract = {A systematic review was conducted to determine the relationship between ratings of children's health-related quality of life (HRQoL) made by parents and children. This was investigated in relation to four questions: is agreement greater for some domains (e.g. physical HRQoL) than others?; do parents perceive illness to have a greater impact than their child?; how is agreement affected by child age, gender and illness status?; and is the relationship between proxy ratings affected by the method of data collection? Fourteen studies were identified. Consistent with previous research, there was greater agreement for observable functioning (e.g. physical HRQoL), and less for non-observable functioning (e.g. emotional or social HRQoL). Three studies assessed whether parents perceive the illness to have a greater impact than their child, but no clear conclusions could be drawn given differences in measures used. Agreement is better between parents and chronically sick children compared with parents and their healthy children, but no effects were found for age or gender. All of these results may be dependent on the specific measure of HRQoL employed. There remain strong arguments for obtaining information from both parents and children whenever possible.},
affiliation = {Department of Psychology, University of Sheffield, Western Bank, UK. c.eiser@sheffield.ac.uk},
number = {4},
pages = {347--57},
volume = {10},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Parents, Sex Factors, Quality of Life, Adolescent, Adult, Observer Variation, Age Factors, Child: Preschool, Female, Male, Reproducibility of Results, Child, Humans, Data Collection},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
pmid = {11763247},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eiser-2001-Qual%20Life%20Res_Can%20parents%20rate%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8501},
rating = {0}
}
@article{Moon:2007p4076,
author = {Hojin Moon and Hongshik Ahn and Ralph L Kodell and Songjoon Baek and Chien-Ju Lin and James J Chen},
journal = {Artif Intell Med},
title = {Ensemble methods for classification of patients for personalized medicine with high-dimensional data},
abstract = {OBJECTIVE: Personalized medicine is defined by the use of genomic signatures of patients in a target population for assignment of more effective therapies as well as better diagnosis and earlier interventions that might prevent or delay disease. An objective is to find a novel classification algorithm that can be used for prediction of response to therapy in order to help individualize clinical assignment of treatment. METHODS AND MATERIALS: Classification algorithms are required to be highly accurate for optimal treatment on each patient. Typically, there are numerous genomic and clinical variables over a relatively small number of patients, which presents challenges for most traditional classification algorithms to avoid over-fitting the data. We developed a robust classification algorithm for high-dimensional data based on ensembles of classifiers built from the optimal number of random partitions of the feature space. The software is available on request from the authors. RESULTS: The proposed algorithm is applied to genomic data sets on lymphoma patients and lung cancer patients to distinguish disease subtypes for optimal treatment and to genomic data on breast cancer patients to identify patients most likely to benefit from adjuvant chemotherapy after surgery. The performance of the proposed algorithm is consistently ranked highly compared to the other classification algorithms. CONCLUSION: The statistical classification method for individualized treatment of diseases developed in this study is expected to play a critical role in developing safer and more effective therapies that replace one-size-fits-all drugs with treatments that focus on specific patient needs.},
affiliation = {Department of Mathematics and Statistics, California State University-Long Beach, 1250 Bellflower Blvd., Long Beach, CA 90840, USA. hmoon623@yahoo.com},
number = {3},
pages = {197--207},
volume = {41},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Mesothelioma, Pleural Neoplasms, Models: Statistical, Lung Neoplasms, Female, Humans, Algorithms, Lymphoma: Large B-Cell: Diffuse, Patient Selection, Software, Male, Gene Expression Regulation: Neoplastic, Breast Neoplasms, Adenocarcinoma, Reproducibility of Results, Chemotherapy: Adjuvant, Diagnosis: Computer-Assisted, Treatment Outcome, Neoplasms},
date-added = {2010-01-19 15:53:55 +0100},
date-modified = {2010-01-19 15:53:55 +0100},
doi = {10.1016/j.artmed.2007.07.003},
pii = {S0933-3657(07)00086-3},
pmid = {17719213},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moon-2007-Artif%20Intell%20Med_Ensemble%20methods%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4076},
rating = {0}
}
@article{Baayen:2004p3625,
author = {R H Baayen},
title = {Statistics in Psycholinguistics: A critique of some current gold standards},
abstract = {This paper presents a detailed critique of some current gold standards for the stat- istical analysis of experimental data in psycholinguistics. A series of examples il- lustrates (1) the disadvantages of reducing numerical variables to factors and the importance of including available covariates in the model, (2) the advantages of us- ing multilevel models instead of the traditional by-subject and by-item procedures and the quasi-F test, and (3) the relevance of logistic models for binary data such as the error measure in decision tasks.},
year = {2004},
date-added = {2010-01-16 18:47:41 +0100},
date-modified = {2010-01-16 18:48:09 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baayen-2004-_Statistics%20in%20Psycho.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3625},
rating = {0}
}
@misc{Way:2006,
author = {Walter D Way and Laurie Laughlin Davis and Steven Fitzpatrick},
journal = {Miscellaneous},
title = {Practical questions in introducing computerized adaptive testing for K-12 assessments},
year = {2006},
month = {Apr},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Way-2006-Miscellaneous_Practical%20questions.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1933},
read = {Yes},
rating = {0}
}
@article{Hall:2010p3117,
author = {Peter A Hall and Jorge S Reis-Filho and Ian Pm Tomlinson and Richard Poulsom},
journal = {J Pathol},
title = {An introduction to genes, genomes and disease},
abstract = {The human and other genome projects and subsequent resequencing programmes have provided new perspectives on the nature of the gene and how genes function. Understanding the complexity of the eukaryotic nucleus and the diversity of genetic regulatory mechanisms, including the role of non-coding RNAs, translational control mechanisms and the extraordinary prevalence of splicing, will be central to understanding how genes function, as will the recognition of gene dosage issues. This introduction to the 2010 Annual Review Issue, Genes, Genomes and Disease, provides overviews of these areas and then considers their relevance to a range of human diseases, including cardiovascular and renal disease, neural tube defects and cancer. The p53 gene is considered as an example of a massively regulated gene and the genetic perturbations in cancer are considered in a historical perspective. High-throughput genomic and transcriptomic methods have led to a paradigm shift in the way cancers are perceived and have changed the way translational research is performed. The progress in our understanding of chromosomal rearrangements in cancer, once believed to be incredibly rare events in epithelial malignancies, is discussed. The identification of low-penetrance cancer susceptibility genes through genome-wide association studies and their implications are reviewed. The contribution and limitations of expression profiling are discussed. In the last series of reviews, future challenges are addressed: the promise of synthetic lethality strategies in cancer therapy, a case for 'systems' approaches to genetic networks and the potential of single molecule genetic technologies. Finally, the question 'Does massively parallel DNA resequencing signify the end of histopathology as we know it?' is posed. Readers should find that the 2010 Annual Review Issue is an invaluable resource on contemporary genetics and its applications to understanding disease.},
affiliation = {Institute of Pathology, School of Medicine, Dentistry and Biomedical Science, Queen's University of Belfast, Belfast BT12 6BL, UK. peter.hall@qub.ac.uk},
number = {2},
pages = {109--13},
volume = {220},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-14 20:22:28 +0100},
date-modified = {2010-01-14 20:22:28 +0100},
doi = {10.1002/path.2652},
pmid = {19960555},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3117},
rating = {0}
}
@techreport{Willms:2007,
author = {J D Willms and T Smith},
journal = {Techreport},
title = {A Manual for Conducting Analyses with Data from TIMSS and PISA},
affiliation = {UNESCO Institute for Statistics},
year = {2007},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Willms-2007-Techreport_A%20Manual%20for%20Conduct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2148},
rating = {0}
}
@article{Pocock:1990p3993,
author = {S J Pocock and M D Hughes},
journal = {Stat Med},
title = {Estimation issues in clinical trials and overviews},
abstract = {There is a general move towards greater emphasis on point and interval estimates of treatment effect in reporting of clinical trials, so that significance testing plays a lesser role. In this article we examine a number of issues which affect the use and interpretation of conventional estimation methods. Should we accept or avoid the stereotypes of 95 per cent confidence? Should the abstract of a trial report include confidence intervals for major endpoints? Are frequentist confidence intervals being interpreted correctly, and should Bayesian probability intervals be more widely used in trial reports? Does the timing of publication, such as early stopping because of a large observed treatment difference, lead to exaggerated point and interval estimates? How can we produce realistic estimates from subgroup analyses? Is publication bias seriously affecting our ability to obtain unbiased estimates? Is the emphasis on estimation methods a powerful tool for encouraging larger sample sizes? Can we resolve the controversy concerning fixed or random effects models for estimation in overviews of related trials? Our arguments are illustrated by results from recent trials in cardiovascular disease.},
affiliation = {Medical Statistics Unit, London School of Hygiene and Tropical Medicine, London, U.K.},
number = {6},
pages = {657--71},
volume = {9},
year = {1990},
month = {Jun},
language = {eng},
keywords = {Bayes Theorem, Clinical Trials as Topic, Confidence Intervals, Data Interpretation: Statistical, Meta-Analysis as Topic, Bias (Epidemiology)},
date-added = {2010-01-17 23:24:36 +0100},
date-modified = {2010-01-17 23:24:36 +0100},
pmid = {2145623},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3993},
rating = {0}
}
@article{Fantino:2009p8354,
author = {Bruno Fantino and Nicholas Moore},
journal = {BMC Psychiatry},
title = {The self-reported Montgomery-Asberg Depression Rating Scale is a useful evaluative tool in Major Depressive Disorder},
abstract = {BACKGROUND: The use of Patient-reported Outcomes (PROs) as secondary endpoints in the development of new antidepressants has grown in recent years. The objective of this study was to assess the psychometric properties of the 9-item, patient-administered version of the Montgomery-Asberg Depression Rating Scale (MADRS-S). METHODS: Data from a multicentre, double-blind, 8-week, randomised controlled trial of 278 outpatients diagnosed with Major Depressive Disorder were used to evaluate the validity, reliability and sensitivity to change of the MADRS-S using psychometric methods. A Receiver Operating Characteristic (ROC) curve was plotted to identify the most appropriate threshold to define perceived remission. RESULTS: No missing values were found at the item level, indicating good acceptability of the scale. The construct validity was satisfactory: all items contributed to a common underlying concept, as expected. The correlation between MADRS-S and physicians' MADRS was moderate (r = 0.54, p < 0.001) indicating that MADRS-S is complementary rather than redundant to the MADRS. Cronbach's alpha was 0.84, and the stability over time of the scale, estimated on a sub-sample of patients whose health status did not change during the first week of the study, was good (intraclass correlation coefficient of 0.78). MADRS-S sensitivity to change was shown. Using a threshold value of 5, the definition of "perceived remission" reached a sensitivity of 82% and a specificity of 75%. CONCLUSION: Taking account of patient's perceptions of the severity of their own symptoms along with the psychometric properties of the MADRS-S enable its use for evaluative purposes in the development of new antidepressant drugs.},
affiliation = {ADIM-AGORAS, Lyon, France. bruno.fantino@wanadoo.fr},
pages = {26},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Adolescent, Questionnaires, Severity of Illness Index, Psychiatric Status Rating Scales, Aged, Randomized Controlled Trials as Topic, Sensitivity and Specificity, Treatment Outcome, Health Status, Antidepressive Agents, Depressive Disorder: Major, Reproducibility of Results, Female, Adult, Psychometrics, Multicenter Studies as Topic, Drug Discovery, Middle Aged, ROC Curve, Ambulatory Care, Male},
date-added = {2010-03-21 12:56:02 +0100},
date-modified = {2010-03-21 12:56:02 +0100},
doi = {10.1186/1471-244X-9-26},
pii = {1471-244X-9-26},
pmid = {19473506},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fantino-2009-BMC%20Psychiatry_The%20self-reported%20Mo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8354},
rating = {0}
}
@article{Claridge:1996p5513,
author = {G Claridge and C McCreery and O Mason and R Bentall and G Boyle and P Slade and D Popplewell},
journal = {Br J Clin Psychol},
title = {The factor structure of "schizotypal' traits: a large replication study},
abstract = {The heterogeneity of schizotypal traits, suggested in previous research, was further investigated in a sample of subjects (N = 1095) administered a composite questionnaire consisting of a large number of published scales the majority of which were designed to measure psychotic characteristics. Factor analysis confirmed the four components previously indicated in our work with the same instrument; namely, "aberrant perceptions and beliefs', "cognitive disorganization', "introvertive anhedonia' and "asocial behaviour'. This structure was maintained regardless of whether or not the analysis included scales from the Eysenck Personality Questionnaire, which might otherwise have been held to explain the variance. "Aberrant perceptions and beliefs'-reminiscent of the positive symptoms of schizophrenia-was the strongest component; but, given the multidimensional nature of the data, together with the pattern of factor loadings and intercorrelations for the scales involved, it was concluded that the broader term "psychosis-proneness' or "psychoticism' (in a non-Eysenckian sense) might be a better descriptor of the clinical and personality domain sampled.},
affiliation = {University of Oxford Department of Experimental Psychology, UK.},
pages = {103--15},
volume = {35 ( Pt 1)},
year = {1996},
month = {Feb},
language = {eng},
keywords = {Female, Schizophrenic Psychology, Middle Aged, Adult, Reproducibility of Results, Humans, Schizophrenia, Personality Inventory, Psychotic Disorders, Risk Factors, Male, Psychometrics, Schizotypal Personality Disorder},
date-added = {2010-02-12 14:59:17 +0100},
date-modified = {2010-02-12 14:59:17 +0100},
pmid = {8673026},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5513},
rating = {0}
}
@article{Tseng:2010p5093,
author = {Mei-Hui Tseng and Chung-Pei Fu and Brenda N Wilson and Fu-Chang Hu},
journal = {Res Dev Disabil},
title = {Psychometric properties of a Chinese version of the Developmental Coordination Disorder Questionnaire in community-based children},
abstract = {The aim of this study was to adapt and evaluate the Developmental Coordination Disorder Questionnaire (DCDQ) for use in Chinese-speaking countries. A total of 1082 parents completed the DCDQ and 35 parents repeated it after 2 weeks for test-retest reliability. Two items were deleted after examination of test consistency. Cronbach's alpha for the total score was 0.89 and test-retest reliability was 0.94. Exploratory and confirmatory factor analyses showed this version to be compatible with the original and two adaptations of the DCDQ. One-way ANOVA and the post hoc tests revealed that the non-DCD group scored significantly higher than the DCD group and the suspect DCD group, but the latter two did not differ significantly. Sensitivity and specificity of the DCDQ were 73% and 54%. The estimated area under the Receiver Operating Characteristic curve was 0.68. Compared to the dichotomized grouping in assessing sensitivity and specificity, which provides clinicians with all or none information about a child's probability of being DCD, the informative conditional effect plot could alert clinicians to the child with less conspicuous movement problems. This adaptation of the DCDQ could be used for identifying motor coordination problems in Chinese-speaking societies.},
affiliation = {School of Occupational Therapy, College of Medicine, National Taiwan University, Department of Physical Medicine and Rehabilitation, National Taiwan University Hospital, Taipei, Taiwan. mhtseng@ntu.edu.tw},
number = {1},
pages = {33--45},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Male, Female, Humans, Child, Mass Screening, Translating, Psychometrics, ROC Curve, Reproducibility of Results, Questionnaires, Taiwan, Cross-Cultural Comparison, Motor Skills Disorders},
date-added = {2010-02-05 20:14:58 +0100},
date-modified = {2010-02-05 20:14:58 +0100},
doi = {10.1016/j.ridd.2009.07.018},
pii = {S0891-4222(09)00118-8},
pmid = {19709853},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5093},
rating = {0}
}
@article{Dias:2009p5150,
author = {Vasco Videira Dias and Sofia Brissos and Benicio N Frey and Ana Cristina Andreazza and Carlos Cardoso and Fl{\'a}vio Kapczinski},
journal = {Bipolar Disord},
title = {Cognitive function and serum levels of brain-derived neurotrophic factor in patients with bipolar disorder},
abstract = {OBJECTIVES: Brain-derived neurotrophic factor (BDNF) is an important contributor to the pathophysiology of bipolar disorder (BD), and abnormalities in the BDNF-signaling system may be implicated in the cognitive decline observed in BD patients. We aimed to investigate serum BDNF levels in BD patients and its relation to neurocognitive function. METHODS: We measured serum BDNF levels using an enzyme-linked immunosorbent assay method in 65 euthymic type I BD patients and 50 healthy controls, and administered a neuropsychological test battery to assess attention and mental control, perceptual-motor skills, executive functions, verbal fluency and abstraction, visuospatial attention, and memory. RESULTS: We found no significant differences regarding serum BDNF levels in BD patients and healthy controls. We found significant positive associations between serum BDNF levels and illness duration, and manic and depressive episodes in female BD patients only. Serum BDNF levels were lower in patients medicated with antipsychotics and/or lithium, whereas patients on valproate and/or antidepressants showed higher serum BDNF levels. Patients performed significantly worse on 11 out of 16 neurocognitive tests as compared to controls. We found a significant positive association between serum BDNF levels and a test of verbal fluency in both BD patients and controls. CONCLUSIONS: Present results support the hypothesis that BDNF normalizes with mood stabilization and pharmacological treatment. Our findings in young and physically healthy patients with short illness duration and few mood episodes may explain the lack of association between serum BDNF levels and neurocognitive performance, even though cognitive performance in patients was overall significantly worse as compared to healthy controls.},
affiliation = {University of Extremadura (UNEX), Badajoz, Extremadura, Spain.},
number = {6},
pages = {663--71},
volume = {11},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Male, Middle Aged, Female, Analysis of Variance, Enzyme-Linked Immunosorbent Assay, Humans, Neuropsychological Tests, Cognition, Brain-Derived Neurotrophic Factor, Time Factors, Psychiatric Status Rating Scales, Bipolar Disorder, Adolescent, Cognition Disorders, Young Adult, Adult},
date-added = {2010-02-05 20:19:44 +0100},
date-modified = {2010-02-05 20:19:44 +0100},
doi = {10.1111/j.1399-5618.2009.00733.x},
pii = {BDI733},
pmid = {19689509},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5150},
rating = {0}
}
@article{Muthen:1985p6602,
author = {B Muth{\'e}n and D Kaplan},
journal = {Bristish Journal of Mathematical and Statistical Psychology},
title = {A comparison of some methodologies for the factor analysis of non-normal Likert variables},
pages = {171--189},
volume = {38},
year = {1985},
date-added = {2010-03-03 19:45:45 +0100},
date-modified = {2010-03-03 20:17:59 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1985-Bristish%20Journal%20of%20Mathematical%20and%20Statistical%20Psychology_A%20comparison%20of%20some.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6602},
rating = {4}
}
@misc{Farahat:2006,
author = {Ayman Farahat and Francine Chen},
journal = {Miscellaneous},
title = {Improving probabilistic latent semantic analysis with principal component analysis},
year = {2006},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Farahat-2006-Miscellaneous_Improving%20probabilis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2081},
rating = {0}
}
@article{Guittet:2005p9769,
author = {Lydia Guittet and Bruno Giraudeau and Philippe Ravaud},
journal = {BMC Med Res Methodol},
title = {A priori postulated and real power in cluster randomized trials: mind the gap},
abstract = {BACKGROUND: Cluster randomization design is increasingly used for the evaluation of health-care, screening or educational interventions. The intraclass correlation coefficient (ICC) defines the clustering effect and be specified during planning. The aim of this work is to study the influence of the ICC on power in cluster randomized trials. METHODS: Power contour graphs were drawn to illustrate the loss in power induced by an underestimation of the ICC when planning trials. We also derived the maximum achievable power given a specified ICC. RESULTS: The magnitude of the ICC can have a major impact on power, and with low numbers of clusters, 80% power may not be achievable. CONCLUSION: Underestimating the ICC during planning cluster randomized trials can lead to a seriously underpowered trial. Publication of a priori postulated and a posteriori estimated ICCs is necessary for a more objective reading: negative trial results may be the consequence of a loss of power due to a mis-specification of the ICC.},
affiliation = {D{\'e}partement d'Epid{\'e}miologie, Biostatistique et Recherche Clinique, Groupe Hospitalier Bichat-Claude Bernard (AP-HP) - Universit{\'e} Paris 7, Paris, France. lguittet@free.fr},
pages = {25},
volume = {5},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Decision Theory, Cluster Analysis, Geography, Humans, Research Design, Data Interpretation: Statistical, Confidence Intervals, Randomized Controlled Trials as Topic},
date-added = {2010-03-25 15:19:39 +0100},
date-modified = {2010-03-25 15:19:39 +0100},
doi = {10.1186/1471-2288-5-25},
pii = {1471-2288-5-25},
pmid = {16109162},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guittet-2005-BMC%20Med%20Res%20Methodol_A%20priori%20postulated.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9769},
rating = {0}
}
@article{Pritchard:2000p4306,
author = {J K Pritchard and M Stephens and P Donnelly},
journal = {Genetics},
title = {Inference of population structure using multilocus genotype data},
abstract = {We describe a model-based clustering method for using multilocus genotype data to infer population structure and assign individuals to populations. We assume a model in which there are K populations (where K may be unknown), each of which is characterized by a set of allele frequencies at each locus. Individuals in the sample are assigned (probabilistically) to populations, or jointly to two or more populations if their genotypes indicate that they are admixed. Our model does not assume a particular mutation process, and it can be applied to most of the commonly used genetic markers, provided that they are not closely linked. Applications of our method include demonstrating the presence of population structure, assigning individuals to populations, studying hybrid zones, and identifying migrants and admixed individuals. We show that the method can produce highly accurate assignments using modest numbers of loci-e.g. , seven microsatellite loci in an example using genotype data from an endangered bird species. The software used for this article is available from http://www.stats.ox.ac.uk/ approximately pritch/home. html.},
affiliation = {Department of Statistics, University of Oxford, United Kingdom. pritch@tats.ox.ac.uk},
number = {2},
pages = {945--59},
volume = {155},
year = {2000},
month = {Jun},
language = {eng},
keywords = {Algorithms, Cluster Analysis, Humans, Models: Genetic, Genotype, Genetics: Population},
date-added = {2010-01-26 10:53:33 +0100},
date-modified = {2010-01-26 10:53:33 +0100},
pmid = {10835412},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pritchard-2000-Genetics_Inference%20of%20populat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4306},
rating = {0}
}
@article{Kessler:1998,
author = {RC Kessler and M Olfson and PA Berglund},
journal = {American Journal of Psychiatry},
title = {Patterns and predictors of treatment contact after first onset of psychiatric disorders},
abstract = {OBJECTIVE: The authors used self-report data to study patterns and predictors of treatment contact after the first onset of DSM-III-R mood, anxiety, and addictive disorders. METHOD: Data from the National Comorbidity Survey, a general population survey of 8,098 respondents, were used. Disorders were assessed by using a modified version of the Composite International Diagnostic Interview. Age at onset and age at first treatment contact were assessed retrospectively. RESULTS: There was great variation across disorders in lifetime probability of treatment contact. Most treatment contact was delayed; the median delay time was between 6 and 14 years across the disorders considered here. Probability of treatment contact was inversely related to age at onset and increased in younger cohorts. The effects of sociodemographic variables were modest and inconsistent across disorders. CONCLUSIONS: The majority of people with the disorders considered here eventually make treatment contact. However, delay was pervasive. Further research is needed on the determinants of delay and on the low probability of lifetime treatment contact among people with early-onset psychiatric disorders.},
number = {1},
pages = {62--69},
volume = {155},
year = {1998},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:13:59 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1061},
rating = {0}
}
@book{Selltiz:1959,
author = {C Selltiz and M Jahoda and M Deutsch and SW Cook},
journal = {Book},
title = {Research methods in social relations},
year = {1959},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p991},
rating = {0}
}
@article{King:2003,
author = {J A King and T G Bond},
journal = {Journal of Applied Measurement},
title = {Measuring Client Satisfaction with Public Education I: Meeting Competing Demands in Establishing State-wide Benchmarks},
number = {2},
pages = {111--123},
volume = {4},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/King-2003-Journal%20of%20Applied%20Measurement_Measuring%20Client%20Sat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2000},
rating = {0}
}
@article{Arnold:2000p7331,
author = {L M Arnold and K A Witzeman and M L Swank and S L McElroy and P E Keck},
journal = {J Affect Disord},
title = {Health-related quality of life using the SF-36 in patients with bipolar disorder compared with patients with chronic back pain and the general population},
abstract = {BACKGROUND: The purpose of this study was to assess and compare the health-related quality of life of patients with bipolar disorder and chronic back pain and, in turn, to compare these results with those previously generated for the general population. METHODS: Subjects were patients with bipolar disorder (n=44), a comparison group of chronic back pain patients (n=30), and a population-based control sample (n=2,474). Health-related quality of life was assessed using the Medical Outcomes Study 36-Item Short-Form Health Survey (SF-36), a self-administered questionnaire in which lower scores are indicative of greater impairment. RESULTS: Patients with bipolar disorder had lower mean scores than the general population on all scales except Physical Functioning. Bipolar patients had significantly higher scores than chronic back pain patients in the categories of Physical Functioning, Role Limitations--Physical, Bodily Pain, and Social Function. There were no significant differences between bipolar disorder and chronic back pain groups in the Mental Health and Role Limitations - Emotional categories. LIMITATIONS: The results of the study are limited by the relatively small sample sizes of the bipolar and back pain patient groups. CONCLUSIONS: Patients with bipolar disorder had substantial impairment in health-related quality of life in comparison with the general population. Bipolar patients were less compromised in areas of physical and social functioning than chronic back pain patients but had similar impairment in mental health.},
affiliation = {Biological Psychiatry Program, Department of Psychiatry, University of Cincinnati, College of Medicine, 231 Bethesda Avenue, ML 559, Cincinnati, OH 45267-0559, USA.},
number = {1-3},
pages = {235--9},
volume = {57},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Chronic Disease, Quality of Life, Questionnaires, Health Status, Female, Back Pain, Adult, Humans, Male, Middle Aged, Population Surveillance, Bipolar Disorder},
date-added = {2010-03-10 20:22:51 +0100},
date-modified = {2010-07-29 19:31:26 +0200},
pii = {S0165032799000427},
pmid = {10708837},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arnold-2000-J%20Affect%20Disord_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7331},
rating = {0}
}
@article{Wu:2000p9549,
author = {A W Wu},
journal = {AIDS},
title = {Quality of life assessment comes of age in the era of highly active antiretroviral therapy},
number = {10},
pages = {1449--51},
volume = {14},
year = {2000},
month = {Jul},
language = {eng},
keywords = {Humans, HIV Infections, Quality of Life, Antiretroviral Therapy: Highly Active, Questionnaires},
date-added = {2010-03-23 20:44:59 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {10930161},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2000-AIDS_Quality%20of%20life%20asse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9549},
rating = {0}
}
@article{Tay:2009p13441,
author = {L Tay and D A Newman and J K Vermunt},
title = {Using mixed-measurement item response theory with covariates (MM-IRT-C) to ascertain observed and unobserved measurement equivalence},
abstract = {Traditional item response theory (IRT) measurement invariance approaches examine measurement equivalence (ME) between observed groups (e.g., race, gender, culture). By contrast, mixed-measurement item response theory (MM-IRT) ascertains ME among unobserved groups (i.e., latent classes [LC] of respondents distinguished by differences in scale use). Both approaches can be integrated by using the MM-IRT-C model, in which covariates (i.e., observed characteristics) are modeled in conjunction with LCs, thereby elucidating if ME is attributable to observed and/or unobserved groupings. An advantage of the technique is that it can be used to ascertain ME over multiple observed characteristics (categorical and/or continuous) concomitantly. In general, the MM-IRT-C can serve several purposes: (a) infer underlying latent measurement classes (LCs), (b) determine associations of LC membership with observed characteristics, and (c) determine if observed measurement nonequivalence occurs predominantly within a particular latent measurement class. This method is illustrated using a measure of union citizenship behavior, with years of work experience and gender as covariates. The substantive and methodological contributions of this model for rethinking ME and its use in organizational research are discussed.},
year = {2009},
date-added = {2010-07-01 20:04:28 +0200},
date-modified = {2010-07-01 20:05:15 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tay-2009-_Using%20mixed-measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13441},
rating = {5}
}
@techreport{Dings:2002,
author = {J Dings and R Childs and N Kingston},
journal = {Techreport},
title = {The effects of matrix sampling on student score comparability in constructed-response and multiple-choice assessments},
affiliation = {THE COUNCIL OF CHIEF STATE SCHOOL OFFICERS},
year = {2002},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dings-2002-Techreport_The%20effects%20of%20matri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1976},
rating = {0}
}
@article{WellcomeTrustCaseControlConsortium:2010p11303,
author = {Wellcome Trust Case Control Consortium},
journal = {Nature},
title = {Genome-wide association study of CNVs in 16,000 cases of eight common diseases and 3,000 shared controls},
abstract = {Copy number variants (CNVs) account for a major proportion of human genetic polymorphism and have been predicted to have an important role in genetic susceptibility to common disease. To address this we undertook a large, direct genome-wide study of association between CNVs and eight common human diseases. Using a purpose-designed array we typed approximately 19,000 individuals into distinct copy-number classes at 3,432 polymorphic CNVs, including an estimated approximately 50% of all common CNVs larger than 500 base pairs. We identified several biological artefacts that lead to false-positive associations, including systematic CNV differences between DNAs derived from blood and cell lines. Association testing and follow-up replication analyses confirmed three loci where CNVs were associated with disease-IRGM for Crohn's disease, HLA for Crohn's disease, rheumatoid arthritis and type 1 diabetes, and TSPAN8 for type 2 diabetes-although in each case the locus had previously been identified in single nucleotide polymorphism (SNP)-based studies, reflecting our observation that most common CNVs that are well-typed on our array are well tagged by SNPs and so have been indirectly explored through SNP studies. We conclude that common CNVs that can be typed on existing platforms are unlikely to contribute greatly to the genetic basis of common human diseases.},
number = {7289},
pages = {713--20},
volume = {464},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-04-26 22:38:59 +0200},
date-modified = {2010-04-26 22:38:59 +0200},
doi = {10.1038/nature08979},
pii = {nature08979},
pmid = {20360734},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wellcome%20Trust%20Case%20Control%20Consortium-2010-Nature_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11303},
rating = {0}
}
@article{Peng:2002p4620,
author = {R D Peng and Jan de Leeuw},
title = {An Introduction to the .C Interface to R},
year = {2002},
date-added = {2010-01-30 15:28:23 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Peng-2002-_An%20Introduction%20to%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4620},
rating = {0}
}
@article{Allison:1997p13134,
author = {P J Allison and D Locker and J S Feine},
journal = {Soc Sci Med},
title = {Quality of life: a dynamic construct},
abstract = {The principle of Einstein's theory of special relativity is that an observer of an apparently moving body cannot be sure if the body really has moved, if he/she has moved or if both events have occurred. Although Einstein was discussing physical events, a similar hypothesis may apply to quality of life. When using quality of life instruments, one presumes that the point of reference (the observer in Einstein's terms) does not move, i.e. that an individual's attitude towards a particular construct will remain stable. Otherwise, changes in response to particular variables cannot be interpreted. However, attitudes are not constant: they vary with time and experience and are modified by such psychological phenomena as adaptation, coping, expectancy, optimism, self-control and self-concept. For example, eating problems may be extremely important at one point in a person's life. However, when oral discomfort has been diagnosed as cancer and treated with surgery or radiation, the same individual may "objectively" demonstrate more problems when eating, but report them as less because they have now become relatively unimportant. Furthermore, paradoxical reports that some groups of ill individuals rate their quality of life higher than do "healthy" persons raise similar questions concerning between-group point of reference differences. Investigators in the fields of organisational management, education and psychology have developed techniques such as "then ratings", saliency indicators and individualised questionnaires in attempts to quantify within-subject variability and between-group differences pertaining to point of reference. We suggest that similar methods may help us to measure change in the impact of the different items of quality of life instruments. In this paper, we will describe the theories of change associated with quality of life measurement. In addition, we will present evidence suggesting that the point of reference does change, the reasons for this and possible solutions to the problem.},
affiliation = {Faculty of Dentistry, McGill University, Montr{\'e}al, Qu{\'e}bec, Canada.},
number = {2},
pages = {221--30},
volume = {45},
year = {1997},
month = {Jul},
language = {eng},
keywords = {Adaptation: Psychological, Quality of Life, Activities of Daily Living, Sick Role, Humans, Bias (Epidemiology), Self Concept, Outcome Assessment (Health Care), Internal-External Control},
date-added = {2010-06-26 11:05:48 +0200},
date-modified = {2010-06-26 11:05:48 +0200},
pii = {S0277953696003395},
pmid = {9225410},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Allison-1997-Soc%20Sci%20Med_Quality%20of%20life%20a%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13134},
rating = {0}
}
@article{Harrell:1998p4732,
author = {F E Harrell and P A Margolis and S Gove and K E Mason and E K Mulholland and D Lehmann and L Muhe and S Gatchalian and H F Eichenwald},
journal = {Stat Med},
title = {Development of a clinical prediction model for an ordinal outcome: the World Health Organization Multicentre Study of Clinical Signs and Etiological agents of Pneumonia, Sepsis and Meningitis in Young Infants. WHO/ARI Young Infant Multicentre Study Group},
abstract = {This paper describes the methodologies used to develop a prediction model to assist health workers in developing countries in facing one of the most difficult health problems in all parts of the world: the presentation of an acutely ill young infant. Statistical approaches for developing the clinical prediction model faced at least two major difficulties. First, the number of predictor variables, especially clinical signs and symptoms, is very large, necessitating the use of data reduction techniques that are blinded to the outcome. Second, there is no uniquely accepted continuous outcome measure or final binary diagnostic criterion. For example, the diagnosis of neonatal sepsis is ill-defined. Clinical decision makers must identify infants likely to have positive cultures as well as to grade the severity of illness. In the WHO/ARI Young Infant Multicentre Study we have found an ordinal outcome scale made up of a mixture of laboratory and diagnostic markers to have several clinical advantages as well as to increase the power of tests for risk factors. Such a mixed ordinal scale does present statistical challenges because it may violate constant slope assumptions of ordinal regression models. In this paper we develop and validate an ordinal predictive model after choosing a data reduction technique. We show how ordinality of the outcome is checked against each predictor. We describe new but simple techniques for graphically examining residuals from ordinal logistic models to detect problems with variable transformations as well as to detect non-proportional odds and other lack of fit. We examine an alternative type of ordinal logistic model, the continuation ratio model, to determine if it provides a better fit. We find that it does not but that this model is easily modified to allow the regression coefficients to vary with cut-offs of the response variable. Complex terms in this extended model are penalized to allow only as much complexity as the data will support. We approximate the extended continuation ratio model with a model with fewer terms to allow us to draw a nomogram for obtaining various predictions. The model is validated for calibration and discrimination using the bootstrap. We apply much of the modelling strategy described in Harrell, Lee and Mark (Statist. Med. 15, 361-387 (1998)) for survival analysis, adapting it to ordinal logistic regression and further emphasizing penalized maximum likelihood estimation and data reduction.},
affiliation = {Department of Health Evaluation Sciences, University of Virginia, Charlottesville 22908, USA. fharrell@virginia.edu},
number = {8},
pages = {909--44},
volume = {17},
year = {1998},
month = {Apr},
language = {eng},
keywords = {World Health Organization, Pneumonia, Chi-Square Distribution, Cluster Analysis, Infant, Mathematical Computing, Proportional Hazards Models, Logistic Models, Sepsis, Predictive Value of Tests, Infant: Newborn, Odds Ratio, Meningitis, Risk Factors, Developing Countries, Humans, Multicenter Studies as Topic},
date-added = {2010-01-30 16:20:37 +0100},
date-modified = {2010-01-30 16:20:37 +0100},
pii = {10.1002/(SICI)1097-0258(19980430)17:8<909::AID-SIM753>3.0.CO;2-O},
pmid = {9595619},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harrell-1998-Stat%20Med_Development%20of%20a%20cli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4732},
rating = {0}
}
@article{Dahlin:2007p13495,
author = {Marie E Dahlin and Bo Runeson},
journal = {BMC Med Educ},
title = {Burnout and psychiatric morbidity among medical students entering clinical training: a three year prospective questionnaire and interview-based study},
abstract = {BACKGROUND: Mental distress among medical students is often reported. Burnout has not been studied frequently and studies using interviewer-rated diagnoses as outcomes are rarely employed. The objective of this prospective study of medical students was to examine clinically significant psychiatric morbidity and burnout at 3rd year of medical school, considering personality and study conditions measured at 1st year. METHODS: Questionnaires were sent to 127 first year medical students who were then followed-up at 3rd year of medical school. Eighty-one of 3rd year respondents participated in a diagnostic interview. Personality (HP5-i) and Performance-based self-esteem (PBSE-scale) were assessed at first year, Study conditions (HESI), Burnout (OLBI), Depression (MDI) at 1st and 3rd years. Diagnostic interviews (MINI) were used at 3rd year to assess psychiatric morbidity. High and low burnout at 3rd year was defined by cluster analysis. Logistic regressions were used to identify predictors of high burnout and psychiatric morbidity, controlling for gender. RESULTS: 98 (77%) responded on both occasions, 80 (63%) of these were interviewed. High burnout was predicted by Impulsivity trait, Depressive symptoms at 1st year and Financial concerns at 1st year. When controlling for 3rd year study conditions, Impulsivity and concurrent Workload remained. Of the interviewed sample 21 (27%) had a psychiatric diagnosis, 6 of whom had sought help. Unadjusted analyses showed that psychiatric morbidity was predicted by high Performance-based self-esteem, Disengagement and Depression at 1st year, only the later remained significant in the adjusted analysis. CONCLUSION: Psychiatric morbidity is common in medical students but few seek help. Burnout has individual as well as environmental explanations and to avoid it, organisational as well as individual interventions may be needed. Early signs of depressive symptoms in medical students may be important to address. Students should be encouraged to seek help and adequate facilities should be available.},
affiliation = {Department of Clinical Neuroscience, Division of Psychiatry St. G{\"o}ran, Karolinska Institutet, Stockholm, Sweden. marie.dahlin@ki.se},
pages = {6},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Humans, Questionnaires, Self Concept, Depression, Sweden, Female, Interviews as Topic, Personality Inventory, Clinical Clerkship, Longitudinal Studies, Sex Distribution, Risk Factors, Burnout: Professional, Prospective Studies, Adult, Male, Prevalence, Mental Disorders, Students: Medical, Workload},
date-added = {2010-07-07 20:34:02 +0200},
date-modified = {2010-07-29 19:20:14 +0200},
doi = {10.1186/1472-6920-7-6},
pii = {1472-6920-7-6},
pmid = {17430583},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dahlin-2007-BMC%20Med%20Educ_Burnout%20and%20psychiat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13495},
rating = {0}
}
@book{Payne:1951,
author = {SL Payne},
journal = {Book},
title = {The art of asking questions},
year = {1951},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p971},
rating = {0}
}
@article{Linacre:2000p3647,
author = {J M Linacre},
title = {Computer-Adaptive Testing: A Methodology Whose Time Has Come},
year = {2000},
date-added = {2010-01-16 19:53:54 +0100},
date-modified = {2010-01-16 19:54:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Linacre-2000-_Computer-Adaptive%20Te.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3647},
rating = {0}
}
@article{Rimol:2010p4837,
author = {Lars M Rimol and Ingrid Agartz and Srdjan Djurovic and Andrew A Brown and J Cooper Roddey and Anna K K{\"a}hler and Morten Mattingsdal and Lavinia Athanasiu and Alexander H Joyner and Nicholas J Schork and Eric Halgren and Kjetil Sundet and Ingrid Melle and Anders M Dale and Ole A Andreassen and Alzheimer's Disease Neuroimaging Initiative},
journal = {Proc Natl Acad Sci USA},
title = {Sex-dependent association of common variants of microcephaly genes with brain structure},
abstract = {Loss-of-function mutations in the genes associated with primary microcephaly (MCPH) reduce human brain size by about two-thirds, without producing gross abnormalities in brain organization or physiology and leaving other organs largely unaffected [Woods CG, et al. (2005) Am J Hum Genet 76:717-728]. There is also evidence suggesting that MCPH genes have evolved rapidly in primates and humans and have been subjected to selection in recent human evolution [Vallender EJ, et al. (2008) Trends Neurosci 31:637-644]. Here, we show that common variants of MCPH genes account for some of the common variation in brain structure in humans, independently of disease status. We investigated the correlations of SNPs from four MCPH genes with brain morphometry phenotypes obtained with MRI. We found significant, sex-specific associations between common, nonexonic, SNPs of the genes CDK5RAP2, MCPH1, and ASPM, with brain volume or cortical surface area in an ethnically homogenous Norwegian discovery sample (n = 287), including patients with mental illness. The most strongly associated SNP findings were replicated in an independent North American sample (n = 656), which included patients with dementia. These results are consistent with the view that common variation in brain structure is associated with genetic variants located in nonexonic, presumably regulatory, regions.},
affiliation = {Division of Psychiatry, Oslo University Hospital-Ulleval, 0407 Oslo, Norway.},
number = {1},
pages = {384--8},
volume = {107},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-01 20:23:04 +0100},
date-modified = {2010-02-01 20:23:04 +0100},
doi = {10.1073/pnas.0908454107},
pii = {0908454107},
pmid = {20080800},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rimol-2010-Proc%20Natl%20Acad%20Sci%20USA_Sex-dependent%20associ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4837},
rating = {0}
}
@article{Steiger:2003p2432,
author = {J H Steiger},
title = {Comparing correlations: Pattern hypothesis tests between and/or within independent samples},
year = {2003},
date-added = {2010-01-11 23:38:11 +0100},
date-modified = {2010-01-11 23:41:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steiger-2003-_Comparing%20correlatio.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2432},
rating = {0}
}
@article{Lundqvist:2000p12119,
author = {C Lundqvist and K G Sabel},
journal = {J Pediatr Psychol},
title = {Brief report: the Brazelton Neonatal Behavioral Assessment Scale detects differences among newborn infants of optimal health},
abstract = {OBJECTIVE: To determine whether the Brazelton Neonatal Behavioral Assessment Scale (NBAS) can detect behavioral differences in newborn infants of optimal health and, if such differences appear, also detect gender differences among those neonates. METHODS: Participants were a group of healthy Swedish neonates, 20 boys and 18 girls. The infants were assessed by the NBAS under standardized conditions at 48-72 hours of age, at the midpoint between two meals. RESULTS: All items except those in the dimensions Autonomic System and Motor System had a wide interquartile range. The trend was that girls had higher median item profiles, which means a higher level of functioning than boys. Four out of seven median values in the dimension Social Interactive Organization, as well as the median value in the self-quieting item in the dimension State Regulation, were significantly higher for girls. The interquartile range of the items seemed wider for boys than for girls. CONCLUSIONS: The results indicate behavioral variability among healthy neonates. Gender differences were also observed with girls showing higher levels of functioning than boys.},
affiliation = {Lund University, Sweden. cristina.lundqvist@psychology.lu.se},
number = {8},
pages = {577--82},
volume = {25},
year = {2000},
month = {Dec},
language = {eng},
keywords = {Statistics: Nonparametric, Questionnaires, Sex Factors, Male, Female, Health Status, Infant: Newborn, Humans, Infant Behavior},
date-added = {2010-05-30 10:01:10 +0200},
date-modified = {2010-07-29 19:35:17 +0200},
pmid = {11085761},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lundqvist-2000-J%20Pediatr%20Psychol_Brief%20report%20the%20Br.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12119},
rating = {0}
}
@article{Griffin:2004p2332,
author = {P Griffin and M Wu and N Zoanetti},
title = {Rasch Model Scaling and Reporting for the Royal Australasian College of Surgeons Basic Surgical Sciences MCQ Examination},
abstract = {Rasch scaling was conducted on five consecutive Basic Surgical Sciences MCQ examinations using the Quest 90 (Adams {\&} Khoo, 1995) software package. Items that were common to multiple tests were then used to calibrate all tests to a single, anchored item-difficulty scale. This scale was extended across all items to determine the relative item difficulties in the five tests under investigation. Exploration of candidate reporting formats was also undertaken as part of this project. The production of kidmaps for various item subsets was trialed and eventually implemented for evaluation by the Royal Australasian College of Surgeons.},
year = {2004},
date-added = {2010-01-10 13:15:13 +0100},
date-modified = {2010-01-10 13:15:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Griffin-2004-_Rasch%20Model%20Scaling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2332},
rating = {0}
}
@article{Smith:1997p9556,
author = {K W Smith and N E Avis and K H Mayer and L Swislow},
journal = {Qual Life Res},
title = {Use of the MQoL-HIV with asymptomatic HIV-positive patients},
abstract = {The purpose of this study was to determine the appropriateness of the recently developed Multidimensional Quality of Life Questionnaire for HIV/AIDS (MQoL-HIV) as a measure of quality of life (QoL) in cases of asymptomatic human immunodeficiency virus (HIV) infection. The MQoL-HIV is a 40-item instrument measuring ten domains (mental health, physical health, physical functioning, social functioning, social support, cognitive functioning, financial status, partner intimacy, sexual functioning and medical care) relevant to HIV infection. An overall QoL score, the MQoL-HIV Index, is a weighted composite of two domain scores. In a sample of 216 HIV-infected men and women, the MQoL-HIV distinguished acquired immune deficiency syndrome (AIDS), symptomatic and asymptomatic cases in overall QoL and in seven individual QoL domains. The index was responsive to perceived QoL changes over 5.5 months (r = 0.52). We also found the MQoL-HIV was less susceptible to ceiling effects in asymptomatic cases than was the Medical Outcomes Study (MOS) SF-20. These results suggest that the MQoL-HIV is a valid and reliable measure of QoL for both asymptomatic and symptomatic HIV infection.},
affiliation = {New England Research Institutes, Watertown, MA 02172, USA. kevins@neri.org},
number = {6},
pages = {555--60},
volume = {6},
year = {1997},
month = {Aug},
language = {eng},
keywords = {HIV Infections, Female, Regression Analysis, Quality of Life, Adult, Longitudinal Studies, Boston, Health Surveys, Humans, Severity of Illness Index, Cross-Sectional Studies, Psychometrics, Male, Reproducibility of Results},
date-added = {2010-03-23 20:53:49 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
pmid = {9330554},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9556},
rating = {0}
}
@article{Davis:2002p7343,
author = {Kimberly Hunt Davis and Libby Black and Betsy Sleath},
journal = {Value Health},
title = {Validation of the Patient Perception of Migraine Questionnaire},
abstract = {OBJECTIVE: The purpose of this study was to assess the psychometric properties of the Patient Perception of Migraine Questionnaire (PPMQ), which measures patient satisfaction with migraine therapy. METHODS AND DATA: The PPMQ was administered to 940 patients as part of a 3-month, multinational, open-label, clinical trial comparing the effects of oral naratriptan 2.5 mg with the patient's customary therapy for the treatment of migraine. Psychometric properties of the PPMQ were evaluated in terms of its latent factor structure, validity, reliability, sensitivity, and development of a scoring method. Classical Test theory and Item Response theory (IRT) modeling were both used to measure reliability. RESULTS: The PPMQ was able to detect treatment differences (P >.001), and all items significantly correlated with diary ratings of headache pain (r =.18-.51, p >.0001) and the Medical Outcomes Short Form-36 pain scale (r =.27, p >.0001). A principal components factor analysis revealed that the items on the PPMQ were psychometrically distinct and unidimensional (loadings, 0.74-0.91), with the exclusion of two items. The reliability (i.e., internal item consistency) of the PPMQ post-trial was high in both treatment groups (Cronbach's alpha = 0.96). An IRT analysis also ensured the formation of homogenous items, which were stable on repeat administration. Items did not require weighting and can be simply summed to yield a total score. CONCLUSION: Based on the data from this one clinical trial, the 15-item PPMQ was shown to be a valid and reliable instrument that seems to efficiently and comprehensively measure patient perception of drug attributes in relation to the treatment of symptoms associated with migraine headaches.},
affiliation = {Global Health Outcomes, GlaxoSmithKline, PO Box 13398, Research Triangle Park, NC 27709-3398, USA. khd64468@gsk.com},
number = {5},
pages = {422--30},
volume = {5},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Piperidines, Questionnaires, Nonlinear Dynamics, Tryptamines, Reproducibility of Results, Female, Indoles, Analysis of Variance, Adult, Self Efficacy, Humans, Migraine Disorders, Male, Patient Satisfaction, Factor Analysis: Statistical, Pain Measurement, Sensitivity and Specificity, Serotonin Agonists, Psychometrics},
date-added = {2010-03-10 20:23:36 +0100},
date-modified = {2010-03-10 20:23:36 +0100},
pii = {55120},
pmid = {12201859},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7343},
rating = {0}
}
@article{Blei:2010p6279,
author = {D M Blei and A Y Ng and M I Jordan},
title = {Latent Dirichlet allocation},
date-added = {2010-02-20 17:57:32 +0100},
date-modified = {2010-02-20 17:58:33 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blei--_Latent%20Dirichlet%20all.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6279},
rating = {0}
}
@article{Mathews:2007p8502,
author = {William C Mathews and Susanne May},
journal = {Health Qual Life Outcomes},
title = {EuroQol (EQ-5D) measure of quality of life predicts mortality, emergency department utilization, and hospital discharge rates in HIV-infected adults under care},
abstract = {BACKGROUND: Health-related quality of life (HR-QOL) is a relevant and quantifiable outcome of care. We implemented HR-QOL assessment at all primary care visits at UCSD Owen Clinic using EQ-5D. The study aim was to estimate the prognostic value of EQ-5D for survival, hospitalization, and emergency department (ED) utilization after controlling for CD4 and HIV plasma viral load (pVL). METHODS: We conducted a retrospective analysis of HIV clinic based cohort (1996-2000). The EQ-5D includes single item measures of: mobility, self-care, usual activities, pain/discomfort, and anxiety/depression. Each item is coded using 3-levels (1 = no problems; 2 = some problems; 3 = severe problems). The instrument includes a global rating of current health using a visual analog scale (VAS) ranging from 0 (worst imaginable) to 100 (best imaginable). An additional single item measure of health change (better, much the same, worse) was included. A predicted VAS (pVAS) was estimated by regressing the 5 EQ-5D health states on VAS using reference cell coding of health states and random effects linear models. Survival models were fit using Cox modelling. Hospitalization and ED rate models were estimated using population-averaged Poisson models. RESULTS: 965 patients met eligibility criteria. 12% were female; 42% were non-white. Median time-at-risk was 1.2 years. Median CD4 was 233. Median log10(pVL) was 4.6. 47 deaths occurred. In two Cox models controlling for CD4 and pVL, the adjusted hazard ratios (aHR) for VAS and pVAS as time-varying covariates were 0.73 (95% CI: 0.63-0.83) and 0.66 (95% CI: 0.56-0.77) respectively, for every 10 point increase in (p)VAS rating. In Poisson regression models predicting ED visit rates and hospital discharge rates controlling for current CD4 and pVL, each of the EQ-5D health dimensions, VAS, and health change items were significantly (p < 0.05) associated with the outcomes. For ED visit rates, the adjusted incidence rate ratios (aIRR) were 0.86 (0.83-0.89) and 0.79 (0.75-0.82) for VAS and pVAS, respectively. For hospital discharge rates, the aIRR's were 0.85 (0.82-0.88) and 0.79 (0.75-0.82) for VAS and pVAS, respectively. CONCLUSION: EQ-5D is a brief and prognostically useful predictor of mortality, hospitalization, and ED utilization among adults under care for HIV infection, even after adjusting for CD4 and HIV plasma viral load.},
affiliation = {Department of Medicine, University of California San Diego, San Diego, CA, USA. cmathews@ucsd.edu},
pages = {5},
volume = {5},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Sickness Impact Profile, Proportional Hazards Models, Patient Discharge, HIV Infections, California, Male, CD4 Lymphocyte Count, Hospitalization, Adult, Retrospective Studies, Pain Measurement, Humans, Quality of Life, Emergency Service: Hospital, Cohort Studies, Female, Survival Analysis, Poisson Distribution, Risk Assessment, Prognosis, Viral Load, Primary Health Care},
date-added = {2010-03-21 18:05:44 +0100},
date-modified = {2010-03-21 18:05:44 +0100},
doi = {10.1186/1477-7525-5-5},
pii = {1477-7525-5-5},
pmid = {17254361},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mathews-2007-Health%20and%20Quality%20of%20Life%20Outcomes_EuroQol%20(EQ-5D)%20meas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8502},
rating = {0}
}
@article{Marlin:2009p12320,
author = {B M Marlin and K P Murphy},
journal = {Proceedings of the 26th International Confer- ence on Machine Learning},
title = {Sparse Gaussian Graphical Models with Unknown Block Structure},
abstract = {Recent work has shown that one can learn the structure of Gaussian Graphical Models by imposing an L1 penalty on the precision matrix, and then using efficient convex opti- mization methods to find the penalized max- imum likelihood estimate. This is similar to performing MAP estimation with a prior that prefers sparse graphs. In this paper, we use the stochastic block model as a prior. This prefer graphs that are blockwise sparse, but unlike previous work, it does not require that the blocks or groups be specified a priori. The resulting problem is no longer convex, but we devise an efficient variational Bayes algo- rithm to solve it. We show that our method has better test set likelihood on two differ- ent datasets (motion capture and gene ex- pression) compared to independent L1, and can match the performance of group L1 us- ing manually created groups.},
year = {2009},
date-added = {2010-06-12 09:38:32 +0200},
date-modified = {2010-06-12 09:39:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marlin-2009-Proceedings%20of%20the%2026th%20International%20Confer-%20ence%20on%20Machine%20Learning_Sparse%20Gaussian%20Grap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12320},
rating = {0}
}
@article{Tenenhaus:2010p3611,
author = {M Tenenhaus},
title = {La r{\'e}gression logistique PLS},
date-added = {2010-01-16 18:28:39 +0100},
date-modified = {2010-01-16 18:29:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tenenhaus--_La%20r%C3%A9gression%20logist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3611},
rating = {0}
}
@article{Campanelli:1991,
author = {P Campanelli and E Martin and JM Rothgeb},
journal = {The Statistician},
title = {The use of respondent and interviewer debriefing studies as a way to study response error in survey data},
abstract = {This paper describes the use of specially designed debriefing studies as a way to explore respondent and interviewer components of response error in survey data. Such studies are useful in developing new questionnaires as well as identifying sources of error in existing questionnaires. This discussion is illustrated through recent work conducted as the US Bureau of the Census, in conjunction with the US Bureau of Labor Statistics, to redesign the Current Population Survey questionnaire.},
pages = {253--264},
volume = {40},
year = {1991},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p936},
rating = {0}
}
@article{Proitsi:2009p4743,
author = {P Proitsi and G Hamilton and M Tsolaki and M Lupton and M Daniilidou and P Hollingworth and N Archer and C Foy and F Stylios and B McGuinness and S Todd and B Lawlor and M Gill and C Brayne and D C Rubinsztein and M Owen and J Williams and D Craig and P Passmore and S Lovestone and J F Powell},
journal = {Neurobiol Aging},
title = {A Multiple Indicators Multiple Causes (MIMIC) model of Behavioural and Psychological Symptoms in Dementia (BPSD)},
abstract = {INTRODUCTION: Although there is evidence for distinct behavioural sub-phenotypes in Alzheimer's disease (AD), their inter-relationships and the effect of clinical variables on their expression have been little investigated. METHODS: We have analysed a sample of 1850 probable AD patients from the UK and Greece with 10 item Neuropsychiatric Inventory (NPI) data. We applied a Multiple Indicators Multiple Causes (MIMIC) approach to investigate the effect of MMSE, disease duration, gender, age and age of onset on the structure of a four-factor model consisting of "psychosis", "moods", "agitation" and "behavioural dyscontrol". RESULTS: Specific clinical variables predicted the expression of individual factors. When the inter-relationship of factors is modelled, some previously significant associations are lost. For example, lower MMSE scores predict psychosis, agitation and behavioural dyscontrol factors, but psychosis and mood predict the agitation factor. Taking these associations into account MMSE scores did not predict agitation. CONCLUSIONS: The complexity of the inter-relations between symptoms, factors and clinical variables is efficiently captured by this MIMIC model.},
affiliation = {King's College London, Institute of Psychiatry, De Crespigny Park, London SE5 8AF, UK.},
pages = {},
year = {2009},
month = {Apr},
language = {ENG},
date-added = {2010-02-01 11:36:28 +0100},
date-modified = {2010-02-01 11:36:29 +0100},
doi = {10.1016/j.neurobiolaging.2009.03.005},
pii = {S0197-4580(09)00101-8},
pmid = {19386383},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Proitsi-2009-Neurobiol%20Aging_A%20Multiple%20Indicator.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4743},
rating = {0}
}
@article{Freedman:2005p6299,
author = {D A Freedman},
title = {Statistical Models for Causation},
abstract = {We review the basis for inferring causation by statistical modeling. Parameters should be stable under interventions, and so should error distributions. There are also statistical conditions on the errors. Stability is difficult to establish a priori, and the statistical conditions are equally problematic. Therefore, causal relationships are seldom to be inferred from a data set by running statistical algorithms, unless there is substantial prior knowledge about the mechanisms that generated the data. We begin with linear models (regression analysis) and then turn to graphical models, which may in principle be non-linear.},
year = {2005},
date-added = {2010-02-20 20:13:06 +0100},
date-modified = {2010-02-20 20:13:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Freedman-2005-_Statistical%20Models%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6299},
rating = {0}
}
@article{Leese:2008p5880,
author = {Morven Leese and Aart Schene and Maarten Koeter and Karin Meijer and Jonathan Bindman and Mariangela Mazzi and Bernd Puschner and Lorenzo Burti and Thomas Becker and Mauricio Moreno and Daniela Celani and Ian R White and Graham Thonicroft},
journal = {Journal of Clinical Epidemiology},
title = {SF-36 scales, and simple sums of scales, were reliable quality-of-life summaries for patients with schizophrenia},
abstract = {OBJECTIVE: To examine the feasibility and reliability of the Medical Outcomes Study 36 Item Short Form Health Survey (SF-36) for patients with schizophrenia, focusing on the eight scales and various aggregate summary measures. STUDY DESIGN AND SETTING: Secondary analysis of data from the European multicenter QUATRO medication adherence trial and the Regional Psychosis Project from The Netherlands. Methods included exploratory and confirmatory factor analyses and estimation of aggregate score reliability using Cronbach's alpha and Tarkkonen's generalized reliability index. The aggregate scores that were compared included two sets based on factor analyses, the standard "physical and mental health component summary scores" (PCS and MCS) and scores based on the original conceptual model of the SF-36 (simple sum of first four scales for physical health, last four for mental health). RESULTS: The eight SF-36 scales were feasible to administer and reliable. Factor analyses of the QUATRO baseline scale data suggested two or three factors, the latter solution including a general "role limitation" factor. Aggregate scores based on the conceptual model had the highest generalized reliability of those compared. CONCLUSION: SF-36 scales are suitable for patients with schizophrenia. Aggregate scores based on the conceptual model may be preferable to the MCS and PCS for such patients. Further investigation of factor structure is advisable.},
affiliation = {Health Services and Population Research Department, Institute of Psychiatry, King's College London, De Crespigny Park, London SE5 8AF, UK. m.leese@iop.kcl.ac.uk},
number = {6},
pages = {588--96},
volume = {61},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Psychiatric Status Rating Scales, Female, Adult, Quality of Life, Schizophrenia, Epidemiologic Methods, Adolescent, Health Status Indicators, Middle Aged, Schizophrenic Psychology, Humans, Male, Aged, Psychometrics},
date-added = {2010-02-17 15:06:24 +0100},
date-modified = {2010-02-17 15:06:25 +0100},
doi = {10.1016/j.jclinepi.2007.08.004},
pii = {S0895-4356(07)00291-0},
pmid = {18471663},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leese-2008-Journal%20of%20Clinical%20Epidemiology_SF-36%20scales%20and%20si.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5880},
rating = {0}
}
@article{BipolarDisorderGenomeStudyBiGSConsortium:2010p4890,
author = {Bipolar Disorder Genome Study (BiGS) Consortium and Francis J McMahon and Nirmala Akula and Thomas G Schulze and Pierandrea Muglia and Federica Tozzi and Sevilla D Detera-Wadleigh and C J M Steele and Ren{\'e} Breuer and Jana Strohmaier and Jens R Wendland and Manuel Mattheisen and Thomas W M{\"u}hleisen and Wolfgang Maier and Markus M N{\"o}then and Sven Cichon and Anne Farmer and John B Vincent and Florian Holsboer and Martin Preisig and Marcella Rietschel},
journal = {Nat Genet},
title = {Meta-analysis of genome-wide association data identifies a risk locus for major mood disorders on 3p21.1},
abstract = {The major mood disorders, which include bipolar disorder and major depressive disorder (MDD), are considered heritable traits, although previous genetic association studies have had limited success in robustly identifying risk loci. We performed a meta-analysis of five case-control cohorts for major mood disorder, including over 13,600 individuals genotyped on high-density SNP arrays. We identified SNPs at 3p21.1 associated with major mood disorders (rs2251219, P = 3.63 x 10(-8); odds ratio = 0.87; 95% confidence interval, 0.83-0.92), with supportive evidence for association observed in two out of three independent replication cohorts. These results provide an example of a shared genetic susceptibility locus for bipolar disorder and MDD.},
affiliation = {Unit on the Genetic Basis of Mood {\&} Anxiety Disorders, National Institute of Mental Health, National Institutes of Health, Department of Health and Human Services, Bethesda, Maryland, USA. mcmahonf@mail.nih.gov},
number = {2},
pages = {128--31},
volume = {42},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-02 11:26:02 +0100},
date-modified = {2010-02-02 11:26:03 +0100},
doi = {10.1038/ng.523},
pii = {ng.523},
pmid = {20081856},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bipolar%20Disorder%20Genome%20Study%20(BiGS)%20Consortium-2010-Nat%20Genet_Meta-analysis%20of%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4890},
rating = {0}
}
@article{Vijayakumar:2005p1667,
author = {Sethu Vijayakumar and Aaron D'Souza and Stefan Schaal},
journal = {Neural Comput},
title = {Incremental online learning in high dimensions},
abstract = {Locally weighted projection regression (LWPR) is a new algorithm for incremental nonlinear function approximation in high-dimensional spaces with redundant and irrelevant input dimensions. At its core, it employs nonparametric regression with locally linear models. In order to stay computationally efficient and numerically robust, each local model performs the regression analysis with a small number of univariate regressions in selected directions in input space in the spirit of partial least squares regression. We discuss when and how local learning techniques can successfully work in high-dimensional spaces and review the various techniques for local dimensionality reduction before finally deriving the LWPR algorithm. The properties of LWPR are that it (1) learns rapidly with second-order learning methods based on incremental training, (2) uses statistically sound stochastic leave-one-out cross validation for learning without the need to memorize training data, (3) adjusts its weighting kernels based on only local information in order to minimize the danger of negative interference of incremental learning, (4) has a computational complexity that is linear in the number of inputs, and (5) can deal with a large number of-possibly redundant-inputs, as shown in various empirical evaluations with up to 90 dimensional data sets. For a probabilistic interpretation, predictive variance and confidence intervals are derived. To our knowledge, LWPR is the first truly incremental spatially localized learning method that can successfully and efficiently operate in very high-dimensional spaces.},
affiliation = {School of Informatics, University of Edinburgh, Edinburgh EH9 3JZ, UK. sethu.vijayakumar@ed.ac.uk},
number = {12},
pages = {2602--34},
volume = {17},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Learning, Algorithms, Pattern Recognition: Automated, Nonlinear Dynamics, Neural Networks (Computer), Robotics, Models: Theoretical},
date-added = {2010-01-08 22:11:23 +0100},
date-modified = {2010-01-08 22:11:23 +0100},
doi = {10.1162/089976605774320557},
pmid = {16212764},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vijayakumar-2005-Neural%20Comput_Incremental%20online%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1667},
rating = {0}
}
@article{Hubley:2003p12244,
author = {Robert M Hubley and Eckart Zitzler and Jared C Roach},
journal = {BMC Bioinformatics},
title = {Evolutionary algorithms for the selection of single nucleotide polymorphisms},
abstract = {BACKGROUND: Large databases of single nucleotide polymorphisms (SNPs) are available for use in genomics studies. Typically, investigators must choose a subset of SNPs from these databases to employ in their studies. The choice of subset is influenced by many factors, including estimated or known reliability of the SNP, biochemical factors, intellectual property, cost, and effectiveness of the subset for mapping genes or identifying disease loci. We present an evolutionary algorithm for multiobjective SNP selection. RESULTS: We implemented a modified version of the Strength-Pareto Evolutionary Algorithm (SPEA2) in Java. Our implementation, Multiobjective Analyzer for Genetic Marker Acquisition (MAGMA), approximates the set of optimal trade-off solutions for large problems in minutes. This set is very useful for the design of large studies, including those oriented towards disease identification, genetic mapping, population studies, and haplotype-block elucidation. CONCLUSION: Evolutionary algorithms are particularly suited for optimization problems that involve multiple objectives and a complex search space on which exact methods such as exhaustive enumeration cannot be applied. They provide flexibility with respect to the problem formulation if a problem description evolves or changes. Results are produced as a trade-off front, allowing the user to make informed decisions when prioritizing factors. MAGMA is open source and available at http://snp-magma.sourceforge.net. Evolutionary algorithms are well suited for many other applications in genomics.},
affiliation = {Institute for Systems Biology, Seattle, WA, USA. rhubley@systemsbiology.org},
pages = {30},
volume = {4},
year = {2003},
month = {Jul},
language = {eng},
keywords = {Major Histocompatibility Complex, Software, Humans, Selection: Genetic, Algorithms, Evolution: Molecular, Computational Biology, Polymorphism: Single Nucleotide, Programming Languages, Genetic Markers, Computer Simulation, Models: Genetic},
date-added = {2010-06-09 20:07:47 +0200},
date-modified = {2010-06-09 20:07:47 +0200},
doi = {10.1186/1471-2105-4-30},
pmid = {12875658},
url = {http://www.biomedcentral.com/1471-2105/4/30},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hubley-2003-BMC%20Bioinformatics_Evolutionary%20algorit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12244},
rating = {0}
}
@article{McCarroll:2010p11515,
author = {Steven A McCarroll},
journal = {Nat Genet},
title = {Copy number variation and human genome maps},
abstract = {Maps of human genome copy number variation (CNV) are maturing into useful resources for complex disease genetics. Four new studies increase the resolution of CNV maps and seek to locate human phenotypic variation on these maps.},
affiliation = {Department of Genetics, Harvard Medical School, Boston, Massachusetts, USA. mccarroll@genetics.med.harvard.edu},
number = {5},
pages = {365--6},
volume = {42},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-05-01 17:35:36 +0200},
date-modified = {2010-05-01 17:35:36 +0200},
doi = {10.1038/ng0510-365},
pii = {ng0510-365},
pmid = {20428091},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCarroll-2010-Nat%20Genet_Copy%20number%20variatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11515},
rating = {0}
}
@article{Mlacic:2007p13882,
author = {B Mlacic and L R Goldberg},
journal = {J Pers Assess},
title = {An Analysis of a Cross-Cultural Personality Inventory: The IPIP Big-Five Factor Markers
in Croatia},
abstract = {In this article, we describe the factor structure in both self-reports and peer ratings of the items in a cross-cultural Big-Five inventory in Croatia. Using 2 versions of an inventory developed from the International Personality Item Pool (IPIP; Goldberg, 1999), this is one of the first cross-national analyses of these IPIP measures. A large sample of university students (N = 519) used the translated Croatian version of the 100-item IPIP Big Five inventory to describe themselves, and they were also described by 515 of their acquaintances on the same instrument. In separate analyses of both self-reports and peer ratings, the 100-item and 50-item versions of these IPIP measures showed clear Five-factor orthogonal structures that were nearly identical to the American structure. These factors were strongly related on a one-to-one basis with those derived from a Croatian translation of Goldberg's (1992) bipolar rating scales.},
number = {2},
pages = {168--177},
volume = {88},
year = {2007},
date-added = {2010-07-29 17:57:21 +0200},
date-modified = {2010-07-29 19:35:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mlacic-2007-J%20Pers%20Assess_An%20Analysis%20of%20a%20Cro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13882},
rating = {0}
}
@article{Haxby:2002p4793,
author = {James V Haxby and Elizabeth A Hoffman and M Ida Gobbini},
journal = {Biol Psychiatry},
title = {Human neural systems for face recognition and social communication},
abstract = {Face perception is mediated by a distributed neural system in humans that consists of multiple, bilateral regions. The functional organization of this system embodies a distinction between the representation of invariant aspects of faces, which is the basis for recognizing individuals, and the representation of changeable aspects, such as eye gaze, expression, and lip movement, which underlies the perception of information that facilitates social communication. The system also has a hierarchical organization. A core system, consisting of occipitotemporal regions in extrastriate visual cortex, mediates the visual analysis of faces. An extended system consists of regions from neural systems for other cognitive functions that can act in concert with the core system to extract meaning from faces. Of regions in the extended system for face perception, the amygdala plays a central role in processing the social relevance of information gleaned from faces, particularly when that information may signal a potential threat.},
affiliation = {Laboratory of Brain and Cognition, National Institute of Mental Health, Building 10, Room 4C104, 10 Center Drive-MSC 1366, Bethesda, MD 20892, USA.},
number = {1},
pages = {59--67},
volume = {51},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Communication, Magnetic Resonance Imaging, Attention, Brain, Space Perception, Social Behavior, Interpersonal Relations, Social Perception, Nerve Net, Humans, Recognition (Psychology), Facial Expression, Visual Perception},
date-added = {2010-02-01 20:20:28 +0100},
date-modified = {2010-02-01 20:20:28 +0100},
pii = {S0006322301013300},
pmid = {11801231},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haxby-2002-Biol%20Psychiatry_Human%20neural%20systems.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4793},
rating = {0}
}
@article{Wilson:2009p8222,
author = {A J Wilson and D R{\'e}ale and M N Clements and M M Morrissey and E Postma and C A Walling and L E B Kruuk and D H Nussey},
journal = {Journal of Animal Ecology},
title = {An ecologist's guide to the animal model},
abstract = {1. Efforts to understand the links between evolutionary and ecological dynamics hinge on our ability to measure and understand how genes influence phenotypes, fitness and population dynam- ics. Quantitative genetics provides a range of theoretical and empirical tools with which to achieve this when the relatedness between individuals within a population is known.
2. A number of recent studies have used a type of mixed-effects model, known as the animal model, to estimate the genetic component of phenotypic variation using data collected in the field. Here, we provide a practical guide for ecologists interested in exploring the potential to apply this quantitative genetic method in their research.
3. Webeginbyoutlining,insimpleterms,keyconceptsinquantitativegeneticsandhowananimal model estimates relevant quantitative genetic parameters, such as heritabilities or genetic correla- tions. 4. We then provide three detailed example tutorials, for implementation in a variety of software packages, for some basic applications of the animal model. We discuss several important statistical issues relating to best practice when fitting different kinds of mixed models.
5. We conclude by briefly summarizing more complex applications of the animal model, and by highlighting key pitfalls and dangers for the researcher wanting to begin using quantitative genetic tools to address ecological and evolutionary questions.},
pages = {13--26},
volume = {79},
year = {2009},
date-added = {2010-03-20 19:55:00 +0100},
date-modified = {2010-03-20 19:56:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wilson-2009-Journal%20of%20Animal%20Ecology_An%20ecologist%E2%80%99s%20guide.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8222},
rating = {0}
}
@article{Clemmensen:2008p12785,
author = {L Clemmensen and T Hastie and B Ersboll},
title = {Sparse Discriminant Analysis},
abstract = {Classification in high-dimensional feature spaces where interpreta- tion and dimension reduction are of great importance is common in biological and medical applications. For these applications standard methods as microarrays, 1D NMR, and spectroscopy have become ev- eryday tools for measuring thousands of features in samples of interest. Furthermore, the samples are often costly and therefore many such problems have few observations in relation to the number of features. Traditionally such data are analyzed by first performing a feature se- lection before classication. We propose a method which performs linear discriminant analysis with a sparseness criterion imposed such that the classification, feature selection and dimension reduction is merged into one analysis. The sparse discriminant analysis is faster than traditional feature selection methods based on computationally heavy criteria such as Wilk's lambda, and the results are better with regards to classification rates and sparseness. The method is extended to mixtures of Gaussians which is useful when e.g. biological clusters are present within each class. Finally, the methods proposed provide low-dimensional views of the discriminative directions.},
year = {2008},
date-added = {2010-06-18 20:57:04 +0200},
date-modified = {2010-06-18 20:58:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Clemmensen-2008-_Sparse%20Discriminant-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12785},
rating = {3}
}
@article{Leibon:2007p528,
author = {Gregory Leibon and Daniel Rockmore and Martin Pollak},
journal = {arXiv},
title = {A simple computational method for the identification of disease-associated loci in complex, incomplete pedigrees},
abstract = { We present an approach, called the "Shadow Method," for the identification of disease loci from dense genetic marker maps in complex, potentially incomplete pedigrees. "Shadow" is a simple method based on an analysis of the patterns of obligate meiotic recombination events in genotypic data. This method can be applied to any high density marker map and was specifically designed to exploit the fact that extremely dense marker maps are becoming more readily available. We also describe how to interpret and associate meaningful P-Values to the results. Shadow has significant advantages over traditional parametric linkage analysis methods in that it can be readily applied even in cases in which the topology of a pedigree or pedigrees can only be partially determined. In addition, Shadow is robust to variability in a range of parameters and in particular does not require prior knowledge of mode of inheritance, penetrance or clinical misdiagnosis rate. Shadow can be used for any SNP data, but is especially effective when applied to dense samplings. Our primary example uses data from Affymetrix 100k SNPChip samples in which we illustrate our approach by analyzing simulated data as well as genome-wide SNP data from two pedigrees with inherited forms of kidney failure, one of which is compared with a typical LOD score analysis. },
note = {20 pages, 9 figures},
eprint = {0710.5625v1},
volume = {q-bio.GN},
year = {2007},
month = {Jan},
keywords = {q-bio.QM, q-bio.GN},
date-added = {2010-01-03 13:42:56 +0100},
date-modified = {2010-01-03 13:42:56 +0100},
pmid = {0710.5625v1},
url = {http://arxiv.org/abs/0710.5625v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leibon-2007-arXiv_A%20simple%20computation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p528},
rating = {0}
}
@article{Roberts:2005p13832,
author = {B W Roberts and O S Chernyshenko and S Stark and L R Goldberg},
journal = {Personnel Psychology},
title = {The structure of conscientiousness: An empirical investigation based on seven major personality questionnaires},
pages = {103--139},
volume = {58},
year = {2005},
date-added = {2010-07-29 17:13:09 +0200},
date-modified = {2010-07-29 18:00:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roberts-2005-Personnel%20Psychology_The%20structure%20of%20con.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13832},
rating = {0}
}
@article{Polderman:2006p1342,
author = {Tinca J C Polderman and Dani{\"e}lle Posthuma and Leo M J De Sonneville and Frank C Verhulst and Dorret I Boomsma},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Genetic analyses of teacher ratings of problem behavior in 5-year-old twins},
abstract = {Behavioral problems in young children can be assessed by asking their parents or teachers to rate their behaviors. Genetic analyses of parental ratings show relatively large heritabilities for emotional and behavioral problems in young children, but data from teachers for this age group are scarce. Sources of variation in the Teacher's Report Form (TRF) problem scales were examined. The TRF was completed for 211 Dutch 5-year-old twin pairs and 4 single twins. Twins rated by different teachers had higher means and variances than twins rated by the same teacher, in addition twin correlations were lower in this group. In both groups monozygotic (MZ) correlations were generally higher than dizygotic (DZ) correlations. A model for twin resemblance was tested that allowed for these effects. For 5 problem scales (Withdrawn, Social Problems, Aggressive Behavior, Rule Breaking Behavior and Attention Problems) a model with genetic and unique environmental sources of variation fitted best to the data. For 3 problem scales (Anxious/Depressed, Thought Problems and Somatic Complaints) there were familial influences but it was not possible to distinguish between common environmental influences or genetic influences. Heritability was 63% for Attention problems, around 45% for Withdrawn, Social Problems, Aggressive Behavior and Rule Breaking Behavior, and around 30% for Anxious/Depressed, Thought Problems and Somatic Complaints.},
affiliation = {Department of Biological Psychology, Vrije Universiteit of Amsterdam, Amsterdam, Netherlands. jc.polderman@psy.vu.nl},
number = {1},
pages = {122--30},
volume = {9},
year = {2006},
month = {Feb},
language = {eng},
keywords = {Twins: Monozygotic, Analysis of Variance, Male, Child Behavior Disorders, Twins: Dizygotic, Registries, Female, Parents, Netherlands, Child: Preschool, Humans, Questionnaires, Genetic Variation},
date-added = {2010-01-07 11:41:23 +0100},
date-modified = {2010-07-29 19:54:54 +0200},
doi = {10.1375/183242706776402975},
pmid = {16611477},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1342},
rating = {0}
}
@article{Herbst:2000p12136,
author = {J H Herbst and A B Zonderman and R R Mccrae and P T Costa},
journal = {Am J Psychiatry},
title = {Do the dimensions of the temperament and character inventory map a simple genetic architecture? Evidence from molecular genetics and factor analysis},
abstract = {OBJECTIVE: It has been reported that the human temperament dimensions of novelty seeking and harm avoidance are associated with polymorphisms in the D(4) dopamine receptor gene (D4DR) and the serotonin-transporter-linked promoter region (5-HTTLPR), respectively. Although these findings are consistent with Cloninger's hypothesized psychobiological model of temperament and character, many studies failed to replicate these findings. In the present study the authors tested whether the psychobiological model taps the genetic architecture of personality by exploring associations between these candidate genes and the dimensions of the Temperament and Character Inventory and by examining its phenotypic structure. METHOD: Of the 946 male and female participants in the Baltimore Longitudinal Study of Aging to whom the Temperament and Character Inventory was administered, 587 were genotyped for a polymorphism with a 48-base-pair repeat in the D4DR gene and 425 were genotyped for a 44-base-pair insertion or deletion in the 5-HTTLPR polymorphism. RESULTS: There was no significant association between D4DR polymorphisms and novelty seeking. The authors also failed to find an association between 5-HTTLPR polymorphisms and harm avoidance. The factor structure of the Temperament and Character Inventory did not reveal the hypothesized phenotypic structure. CONCLUSIONS: This investigation produced no support for the temperament-character model at either the biological or psychological level.},
affiliation = {laboratory of Personality and Cognition, Intramural Research Program, National Institute on Aging, NIH, Baltimore, MD 21224-6825, USA.},
number = {8},
pages = {1285--90},
volume = {157},
year = {2000},
month = {Aug},
language = {eng},
keywords = {Promoter Regions: Genetic, Female, Factor Analysis: Statistical, Models: Psychological, Personality Assessment, Adult, Aged: 80 and over, Carrier Proteins, Models: Genetic, Serotonin, Humans, Membrane Glycoproteins, Serotonin Plasma Membrane Transport Proteins, Aged, Genotype, Receptors: Dopamine D4, Personality Inventory, Middle Aged, Character, Phenotype, Membrane Transport Proteins, Receptors: Dopamine D2, Nerve Tissue Proteins, Temperament, Polymorphism: Genetic, Male, Personality},
date-added = {2010-05-30 10:32:01 +0200},
date-modified = {2010-05-30 10:32:15 +0200},
pmid = {10910792},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Herbst-2000-Am%20J%20Psychiatry_Do%20the%20dimensions%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12136},
rating = {5}
}
@article{Schmitt:2008p12249,
author = {J E Schmitt and R K Lenroot and G L Wallace and S Ordaz and K N Taylor and N Kabani and D Greenstein and J P Lerch and K S Kendler and M C Neale and J N Giedd},
journal = {Cereb Cortex},
title = {Identification of genetically mediated cortical networks: a multivariate study of pediatric twins and siblings},
abstract = {Structural magnetic resonance imaging data from 308 twins, 64 singleton siblings of twins, and 228 singletons were analyzed using structural equation modeling and selected multivariate methods to identify genetically mediated intracortical associations. Principal components analyses (PCA) of the genetic correlation matrix indicated a single factor accounting for over 60% of the genetic variability in cortical thickness. When covaried for mean global cortical thickness, PCA, cluster analyses, and graph models identified genetically mediated fronto-parietal and occipital networks. Graph theoretical models suggest that the observed genetically mediated relationships follow small world architectural rules. These findings are largely concordant with other multivariate studies of brain structure and function, the twin literature, and current understanding on the role of genes in cortical neurodevelopment.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics Richmond, VA 23298, USA.},
number = {8},
pages = {1737--47},
volume = {18},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Longitudinal Studies, Multivariate Analysis, Humans, Siblings, Male, Child, Child: Preschool, Adolescent, Brain Mapping, Nerve Net, Twins, Female, Cerebral Cortex},
date-added = {2010-06-09 20:09:20 +0200},
date-modified = {2010-07-29 19:22:58 +0200},
doi = {10.1093/cercor/bhm211},
pii = {bhm211},
pmid = {18234689},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmitt-2008-Cereb%20Cortex_Identification%20of%20ge.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12249},
rating = {4}
}
@article{Berge:2010p6624,
author = {Claude Berge and Nicolas Froloff and Ravi Kiran Reddy Kalathur and Myriam Maumy and Olivier Poch and Wolfgang Raffelsberger and Nicolas Wicker},
journal = {Journal of computational biology : a journal of computational molecular cell biology},
title = {Multidimensional Fitting for Multivariate Data Analysis},
abstract = {Abstract Large multidimensional data matrices are frequent in biology. However, statistical methods often have difficulties dealing with such matrices because they contain very complex data sets. Consequently variable selection and dimensionality reduction methods are often used to reduce matrix complexity, although at the expense of information conservation. A new method derived from multidimensional scaling (MDS) is presented for the case where two matrices are available to describe the same population. The presented method transforms one of the matrices, called the target matrix, with some constraints to make it fit with the second matrix, referred to as the reference matrix. The fitting to the reference matrix is performed on the distances computed for the two matrices, and the transformation depends on the problem at hand. A special feature of this method is that a variable can be only partially modified. The method is applied on the exclusive-or (XOR) problem and then on a biological application with large-scale gene expression data.},
affiliation = {1 F. Hoffmann-La Roche Ltd. , Basel, Switzerland .},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-03 20:31:59 +0100},
date-modified = {2010-03-03 20:31:59 +0100},
doi = {10.1089/cmb.2009.0126},
pmid = {20175691},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Berge-2010-Journal%20of%20computational%20biology%20a%20journal%20of%20computational%20molecular%20cell%20biology_Multidimensional%20Fit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6624},
rating = {0}
}
@article{DEBellis:2009p5122,
author = {Michael D DE Bellis and Stephen R Hooper and Eve G Spratt and Donald P Woolley},
journal = {J Int Neuropsychol Soc},
title = {Neuropsychological findings in childhood neglect and their relationships to pediatric PTSD},
abstract = {Although child neglect is the most prevalent form of child maltreatment, the neurocognitive effects of neglect are understudied. We examined IQ, reading, mathematics, and neurocognitive domains of fine-motor skills, language, visual-spatial, memory/learning, and attention/executive functions in two groups of nonsexually abused medically healthy neglected children, one with DSM-IV posttraumatic stress disorder (PTSD) and one without, and a demographically similar healthy nonmaltreated control group. Significantly lower IQ, reading, mathematics, and selected differences in complex visual attention, visual memory, language, verbal memory and learning, planning, problem solving, and speeded naming were seen in Neglect Groups. The Neglect with PTSD Group performed worse than controls on NEPSY Design Copying, NEPSY Tower, and Mathematics; and performed worse than controls and Neglect without PTSD on NEPSY Memory for Faces-Delayed. Negative correlations were seen between PTSD symptoms, PTSD severity, and maltreatment variables, and IQ, Academic Achievement, and neurocognitive domains. Neglected children demonstrated significantly lower neurocognitive outcomes and academic achievement than controls. Lower IQ, neurocognitive functions, and achievement may be associated with more PTSD symptoms (particularly re-experiencing symptoms), greater PTSD severity, and a greater number of maltreatment experiences. Trauma experiences may additionally contribute to subsequent neurodevelopmental risk in neglected children. (JINS, 2009, 15, 868-878.).},
affiliation = {Department of Psychiatry and Behavioral Sciences, Duke University Medical Center, Durham, North Carolina 27710, USA.},
number = {6},
pages = {868--78},
volume = {15},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Male, Learning, Female, Stress Disorders: Post-Traumatic, Language, Humans, Severity of Illness Index, Child, Neuropsychological Tests, Child: Preschool, Psychiatric Status Rating Scales, Adolescent, Pediatrics, Intelligence Tests, Visual Perception, Attention, Educational Status, Cognition Disorders, Child Abuse},
date-added = {2010-02-05 20:17:54 +0100},
date-modified = {2010-02-05 20:17:54 +0100},
doi = {10.1017/S1355617709990464},
pii = {S1355617709990464},
pmid = {19703321},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5122},
rating = {0}
}
@article{Bechger:2001aa,
author = {Timo M Bechger and B T Hemker and G K J Maris},
title = {About the Cluster Kappa Coefficient},
abstract = {The cluster kappa was proposed by Schouten (1982) as a measure of chance-corrected rater agreement suitable for studies where objects are rated on a categorical scale by two or more judges. We discuss a way to calculate the cluster kappa which is suited even if ratings are missing. Further, we demonstrate how the sampling error of the cluster kappa may be estimated.},
year = {2001},
month = {Aug},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2001-_About%20the%20Cluster%20Ka.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1195},
rating = {0}
}
@article{Nooteboom:2008p11295,
author = {S Nooteboom and H Quen{\'e}},
journal = {Journal of Memory and Language},
title = {Self-monitoring and feedback: A new attempt to find the main cause of lexical bias in phonological speech errors},
abstract = {This paper reports two experiments designed to investigate whether lexical bias in phonological speech errors is caused by immediate feedback of activation, by self-monitoring of inner speech, or by both. The experiments test a number of predictions derived from a model of self-monitoring of inner speech. This model assumes that, after an error in inner speech, (1) an early interruption of speech may be made when speech was initiated too hastily, (2) the error may be covertly repaired, leading to the correct target, (3) the error may be covertly replaced by another speech error, or (4) an error may go undetected, leading to a completed spoonerism. This model of self-monitoring was supported by the speech errors observed in two SLIP experiments. The pattern of results supports the idea that lexical bias has two sources, immediate feedback of activation and self-monitoring of inner speech.},
pages = {837--861},
volume = {58},
year = {2008},
date-added = {2010-04-25 21:37:23 +0200},
date-modified = {2010-04-25 21:38:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nooteboom-2008-Journal%20of%20Memory%20and%20Language_Self-monitoring%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11295},
rating = {0}
}
@article{Blalock:1967,
author = {HM Jr Blalock},
journal = {American Sociological Review},
title = {Status inconsistency, social mobility, status integration and structural effects},
pages = {790--801},
volume = {32},
year = {1967},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1075},
rating = {0}
}
@article{Daunizeau:2009p6705,
author = {J Daunizeau and O David and K E Stephan},
journal = {Neuroimage},
title = {Dynamic causal modelling: A critical review of the biophysical and statistical foundations},
abstract = {The goal of dynamic causal modelling (DCM) of neuroimaging data is to study experimentally induced changes in functional integration among brain regions. This requires (i) biophysically plausible and physiologically interpretable models of neuronal network dynamics that can predict distributed brain responses to experimental stimuli and (ii) efficient statistical methods for parameter estimation and model comparison. These two key components of DCM have been the focus of more than thirty methodological articles since the seminal work of Friston and colleagues published in 2003. In this paper, we provide a critical review of the current state-of-the-art of DCM. We inspect the properties of DCM in relation to the most common neuroimaging modalities (fMRI and EEG/MEG) and the specificity of inference on neural systems that can be made from these data. We then discuss both the plausibility of the underlying biophysical models and the robustness of the statistical inversion techniques. Finally, we discuss potential extensions of the current DCM framework, such as stochastic DCMs, plastic DCMs and field DCMs.},
affiliation = {Wellcome Trust Centre for Neuroimaging, University College of London, UK; Laboratory for Social and Neural Systems Research, Institute of Empirical Research in Economics, University of Zurich, Switzerland.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-03-05 22:09:14 +0100},
date-modified = {2010-03-05 22:09:14 +0100},
doi = {10.1016/j.neuroimage.2009.11.062},
pii = {S1053-8119(09)01248-8},
pmid = {19961941},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6705},
rating = {0}
}
@article{Petersen:2006p7352,
author = {Morten Aa Petersen and Mogens Groenvold and Neil K Aaronson and Jane Blazeby and Yvonne Brandberg and Alexander de Graeff and Peter Fayers and Eva Hammerlid and Mirjam Sprangers and Galina Velikova and Jakob B Bjorner and European Organisation for Research and Treatment of Cancer Quality of Life Group},
journal = {Journal of Clinical Epidemiology},
title = {Item response theory was used to shorten EORTC QLQ-C30 scales for use in palliative care},
abstract = {BACKGROUND AND OBJECTIVE: The goal was to develop a shortened version of the EORTC QLQ-C30 for use in palliative care. We wanted to keep as few items as possible in each scale while still being able to compare results with studies using the original scales. We examined the possibilities of shortening the physical functioning, cognitive functioning, fatigue, and nausea and vomiting scales. STUDY DESIGN AND SETTING: The shortening was based on 2,366 (physical functioning) and 10,815 (three other scales) observations, respectively. We used item response theory to construct scoring algorithms for predicting scores on the original scales. RESULTS: Evaluations showed that a three-item physical scale, a two-item fatigue scale, and a one-item nausea or vomiting scale predicted the scores on the original scales with excellent agreement and had measurement abilities similar to the original scales with no loss or only a little loss in power to detect group differences. The results of the cognitive functioning scale indicated problems when predicting scores from a shortened version. CONCLUSION: Given the favorable results for the physical functioning, fatigue, and nausea or vomiting scales we expect that the shortened versions of these scales will be included in the abbreviated version of the EORTC QLQ-C30 for palliative care.},
affiliation = {The Research Unit, Department of Palliative Medicine, Bispebjerg Hospital, DK-2400 Copenhagen NV, Denmark. map01@bbh.hosp.dk},
number = {1},
pages = {36--44},
volume = {59},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Models: Statistical, Quality of Life, Questionnaires, Cognition, Neoplasms, Reproducibility of Results, Language, Palliative Care, Humans, Factor Analysis: Statistical, Vomiting, Nausea, Fatigue},
date-added = {2010-03-10 20:24:36 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
doi = {10.1016/j.jclinepi.2005.04.010},
pii = {S0895-4356(05)00221-0},
pmid = {16360559},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petersen-2006-Journal%20of%20Clinical%20Epidemiology_Item%20response%20theory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7352},
rating = {0}
}
@article{AkbulutAktekin:2009p8439,
author = {Lale Akbulut Aktekin and Filiz Eser and Simten Malhan and Ergun Oks{\"u}z and Dilek Keskin and Hatice Bodur},
journal = {Rheumatol Int},
title = {A comparison of four different HRQoL generic questionnaire in five different patient groups},
abstract = {Most of musculoskeletal diseases involve pain and reduced physical functioning. Recognition of the coexistence of more than one musculoskeletal disease is important because they are relatively common and has a substantial impact on health-related quality of life (HRQoL). Our aim was to compare the results of four generic QoL questionnaires-QoL-5, Nottingham Health Profile (NHP), Short Form (SF)-6D, and Visual Analogue Scale (VAS)-in five different patient groups. Two hundred and one patients representing five different disease groups (knee osteoarthritis, osteoporosis, back pain, rheumatoid arthritis and ankylosing spondylitis), randomly selected through the Ankara Numune Education and Research Hospital Physical Medicine and Rehabilitation Outpatient Clinic, were included in the study. Scores indicating low QoL for each of the five diseases compared are reported. Patients in each disease group stated high disability. No strong correlation between any of the scales could be determined, and NHP was identified as the only scale able to differentiate between the diseases. Many instruments are available for measuring HRQoL. The QoL-5, NHP, SF-6D, and VAS are four commonly used generic (i.e., not disease-specific) measures for quantifying HRQoL in patients with musculoskeletal disorders. Most studies have focused on only one musculoskeletal disease, but comorbidity of musculoskeletal disorders is common. We emphasize in this study the effect of multiple musculoskeletal diseases on HRQoL.},
affiliation = {Department of Physical Medicine and Rehabilitation, Ankara Numune Education and Research Hospital, Ankara, Turkey, laleakbulut@yahoo.com.},
pages = {},
year = {2009},
month = {Apr},
language = {ENG},
date-added = {2010-03-21 17:55:56 +0100},
date-modified = {2010-03-21 17:55:56 +0100},
doi = {10.1007/s00296-009-0912-9},
pmid = {19373468},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8439},
rating = {0}
}
@article{Burgess:1993p9554,
author = {A Burgess and M Dayer and J Catalan and D Hawkins and B Gazzard},
journal = {AIDS},
title = {The reliability and validity of two HIV-specific health-related Quality-of-Life measures: a preliminary analysis},
abstract = {OBJECTIVE: To evaluate the reliability and validity of two HIV-specific Quality-of-Life (QoL) questionnaires in a UK sample. METHOD: Subjects were 99 HIV-seropositive gay men (23 were asymptomatic, 41 were asymptomatic, 35 had AIDS). QoL was measured using two HIV-specific QoL questionnaires. MEASURES: An adaptation of the Medical Outcomes Study questionnaire and a self-completion version of the Health-Related Quality-of-Life Questions. Affect was measured using the Hospital Anxiety and Depression (HAD) Scale. Disease measures included Centers for Disease Control and Prevention (CDC) stage, and CD4 and CD8 cell count. RESULTS: Both QoL instruments showed good internal reliability on all scales used. Many of the scales, particularly those related to physical health and functional performance, showed significant correlations with CD4 cell count and other measures of disease progression. Measures of physical health showed a deterioration in QoL as disease progressed from asymptomatic disease to AIDS. In contrast, most subscales purporting to measure psychological aspects of QoL did not correlate significantly with measures of disease progression, nor was there any difference between CDC stages. Subjects' global ratings of QoL were most strongly correlated with the HAD depression scale, although there were also significant correlations with most other QoL scales. CONCLUSION: This study provides further evidence for the reliability and validity of two HIV-specific QoL questionnaires in a wider range of disease stages than hitherto reported and raises issues relevant to the practical use of QoL scales in HIV disease.},
affiliation = {Department of Psychological Medicine, Chelsea and Westminster Hospital, London, UK.},
number = {7},
pages = {1001--8},
volume = {7},
year = {1993},
month = {Jul},
language = {eng},
keywords = {HIV Infections, Regression Analysis, Models: Biological, Quality of Life, Antigens: CD8, Antigens: CD4, Humans, Factor Analysis: Statistical, T-Lymphocyte Subsets, Great Britain, Questionnaires, Male, Health Status Indicators, Reproducibility of Results},
date-added = {2010-03-23 20:51:09 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {8357546},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burgess-1993-AIDS_The%20reliability%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9554},
rating = {0}
}
@article{Jong:2007,
author = {M G De Jong and J B E M Steenkamp and J-P Fox},
journal = {Journal of Marketing Research},
title = {Using item response theory to measure extreme response style in marketing research: A global investigation},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jong-2007-Journal%20of%20Marketing%20Research_Using%20item%20response.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2074},
rating = {0}
}
@article{Vincenzi:2009p10622,
author = {Christine Barbara Vincenzi and Kimberly Moody and Rebecca Spirig},
journal = {Appl Nurs Res},
title = {Development and pretesting of a set of symptom assessment tools in HIV: The HIV Symptom Experience Assessment Scale and the HIV Symptom Manageability Scale},
abstract = {Symptom experience has been conceptualized to be multidimensional, but few instruments for use with persons with HIV or AIDS reflect this. The purpose of this study was to develop an instrument to measure the multidimensional nature of symptom experience in persons living with HIV/AIDS. Two scales: the HIV Symptom Experience Assessment Scale (HIV-SEAS) and the HIV Symptom Manageability Scale (HIV-SMS) were developed and tested in 26 patients. Results indicated that the items of HIV-SEAS appropriately assess three dimensions, whereas HIV-SMS covers one dimension. Overall, the HIV-SEAS and the HIV-SMS are promising instruments. Further testing with a larger sample of participants has started.},
affiliation = {Division of Clinical Nursing Science, University Hospital, CH-4031 Basel, Switzerland; Institute of Nursing Science, University of Basel, CH-4031 Basel, Switzerland.},
number = {3},
pages = {204--10},
volume = {22},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Reproducibility of Results, Middle Aged, HIV Infections, Male, Culture, Aged, Evidence-Based Nursing, Comorbidity, Questionnaires, Cross-Sectional Studies, Nursing Assessment, Female, Language, Humans, Adult},
date-added = {2010-04-07 11:44:05 +0200},
date-modified = {2010-04-07 11:44:05 +0200},
doi = {10.1016/j.apnr.2007.10.002},
pii = {S0897-1897(07)00133-4},
pmid = {19616169},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0897-1897(07)00133-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vincenzi-2009-Appl%20Nurs%20Res_Development%20and%20pret.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10622},
rating = {0}
}
@article{Straetmans:1998aa,
author = {G J J M Straetmans and T J H M Eggen},
title = {Comparison of Test Administration Procedures for Placement Decisions in a Mathematics Course},
abstract = {In this study, three different test administration procedures for making placement decisions in adult education were compared: a paper-based test (PBT), a computer-based test (CBT), and a computerized adaptive test (CAT). All tests were prepared from an item response theory calibrated item bank. The subjects were 90 volunteer students from three adult education schools. They were randomly assigned to one of six experimental groups to take two tests which differed in mode of administration. The results indicate that test performance was not differentially affected by the mode of administration and that the CAT always yielded more accurate ability estimates than the two other test administration procedures. The CAT was also found to be capable of making placement decisions with a test that was on average 24% shorter.},
year = {1998},
month = {Sep},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Straetmans-1998-_Comparison%20of%20Test%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1192},
rating = {0}
}
@article{Aulchenko:2007p9877,
author = {Yurii S Aulchenko and Stephan Ripke and Aaron Isaacs and Cornelia M van Duijn},
journal = {Bioinformatics},
title = {GenABEL: an R library for genome-wide association analysis},
abstract = {Here we describe an R library for genome-wide association (GWA) analysis. It implements effective storage and handling of GWA data, fast procedures for genetic data quality control, testing of association of single nucleotide polymorphisms with binary or quantitative traits, visualization of results and also provides easy interfaces to standard statistical and graphical procedures implemented in base R and special R libraries for genetic analysis. We evaluated GenABEL using one simulated and two real data sets. We conclude that GenABEL enables the analysis of GWA data on desktop computers. Availability: http://cran.r-project.org.},
affiliation = {Department of Epidemiology and Biostatistics, Erasmus MC Rotterdam, Postbus 2040, 3000 CA Rotterdam, The Netherlands. i.aoultchenko@erasmusmc.nl},
number = {10},
pages = {1294--6},
volume = {23},
year = {2007},
month = {May},
language = {eng},
keywords = {Humans, Genome, Computer Simulation, Genome: Human, Oligonucleotide Array Sequence Analysis, Computational Biology, Haplotypes, Polymorphism: Single Nucleotide, Gene Library, Software, Information Storage and Retrieval},
date-added = {2010-03-26 19:33:47 +0100},
date-modified = {2010-03-26 19:33:47 +0100},
doi = {10.1093/bioinformatics/btm108},
pii = {btm108},
pmid = {17384015},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aulchenko-2007-Bioinformatics_GenABEL%20an%20R%20librar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9877},
rating = {0}
}
@article{Mebane:2003p10904,
author = {W R Mebane and J S Sekhon},
title = {Robust Estimation and Outlier Detection for Overdispersed Multinomial Models of Count Data},
abstract = {We develop a robust estimator---the hyperbolic tangent (tanh) estimator---for overdispersed multinomial regression models of count data. The tanh estimator provides accurate estimates and reliable inferences even when the specified model is not good for as much as half of the data. Seriously ill-fitted counts---outliers---are identified as part of the estimation. A Monte Carlo sampling experiment shows that the tanh estimator produces good results at practical sample sizes even when ten percent of the data are generated by a significantly different process. The experiment shows that, with contaminated data, estimation fails using four other estimators: the nonrobust maximum likelihood estimator, the additive logistic model and two SUR models. Using the tanh estimator to analyze data from Florida for the 2000 presidential election matches well-known features of the election that the other four estimators fail to capture. In an analysis of data from the 1993 Polish parliamentary election, the tanh estimator gives sharper inferences than does a previously proposed heteroscedastic SUR model.},
year = {2003},
date-added = {2010-04-11 13:50:12 +0200},
date-modified = {2010-04-11 13:50:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mebane-2003-_Robust%20Estimation%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10904},
rating = {0}
}
@article{Boulesteix:2008p311,
author = {Anne-Laure Boulesteix and Christine Porzelius and Martin Daumer},
journal = {Bioinformatics},
title = {Microarray-based classification and clinical predictors: on combined classifiers and additional predictive value},
abstract = {MOTIVATION: In the context of clinical bioinformatics methods are needed for assessing the additional predictive value of microarray data compared to simple clinical parameters alone. Such methods should also provide an optimal prediction rule making use of all potentialities of both types of data: they should ideally be able to catch subtypes which are not identified by clinical parameters alone. Moreover, they should address the question of the additional predictive value of microarray data in a fair framework. RESULTS: We propose a novel but simple two-step approach based on random forests and partial least squares (PLS) dimension reduction embedding the idea of pre-validation suggested by Tibshirani and colleagues, which is based on an internal cross-validation for avoiding overfitting. Our approach is fast, flexible and can be used both for assessing the overall additional significance of the microarray data and for building optimal hybrid classification rules. Its efficiency is demonstrated through simulations and an application to breast cancer and colorectal cancer data. AVAILABILITY: Our method is implemented in the freely available R package 'MAclinical' which can be downloaded from http://www.stat.uni-muenchen.de/~socher/MAclinical},
affiliation = {Sylvia Lawry Centre for MS Research, Hohenlindenerstr. 1, D-81677 Munich, Germany. boulesteix@slcmsr.org},
number = {15},
pages = {1698--706},
volume = {24},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Pattern Recognition: Automated, Algorithms, Humans, Artificial Intelligence, Neoplasm Proteins, Gene Expression Profiling, Neoplasms, Tumor Markers: Biological, Diagnosis: Computer-Assisted, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-03 11:44:47 +0100},
date-modified = {2010-01-03 11:44:47 +0100},
doi = {10.1093/bioinformatics/btn262},
pii = {btn262},
pmid = {18544547},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2008-Bioinformatics_Microarray-based%20cla.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p311},
rating = {0}
}
@misc{Thacher:2005,
author = {J A Thacher and E Morey and W E Craighead},
journal = {Miscellaneous},
title = {Using patient characteristics and attitudinal data to identify depression treatment preference groups: A latent-class model},
year = {2005},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thacher-2005-Miscellaneous_Using%20patient%20charac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2190},
rating = {0}
}
@article{Witte:2009p9675,
author = {A Veronica Witte and Agnes Fl{\"o}el and Patrycja Stein and Markus Savli and Leonhard-Key Mien and Wolfgang Wadsak and Christoph Spindelegger and Ulrike Moser and Martin Fink and Andreas Hahn and Markus Mitterhauser and Kurt Kletter and Siegfried Kasper and Rupert Lanzenberger},
journal = {Hum Brain Mapp},
title = {Aggression is related to frontal serotonin-1A receptor distribution as revealed by PET in healthy subjects},
abstract = {OBJECTIVES: Various studies indicate that serotonin regulates impulsivity and the inhibitory control of aggression. Aggression is also known to be modified by sex hormones, which exert influence on serotonergic neurotransmission. The present study aimed to elucidate potential interactions between human aggression, the inhibitory serotonergic 5-HT(1A) receptor, and sex hormones. EXPERIMENTAL DESIGN: Thirty-three healthy volunteers (16 women, aged 26.24 +/- 5.5 yr) completed a validated questionnaire incorporating five dimensions of aggression. Subsequently, all subjects underwent positron emission tomography with the radioligand [carbonyl-(11)C]WAY-100635 to quantify 5-HT(1A) binding potentials (BP(ND)s) in the prefrontal cortex, limbic areas, and midbrain. Also, plasma levels of testosterone, 17beta-estradiol and sex hormone-binding globulin (SHBG) were measured. Relations between aggression scores, regional 5-HT(1A) BP(ND)s, and hormone levels were analyzed using correlations, multivariate analyses of variance, and linear regressions. PRINCIPAL OBSERVATIONS: Statistical analyses revealed higher 5-HT(1A) receptor BP(ND)s in subjects exhibiting higher aggression scores in prefrontal (all P < 0.041) and anterior cingulate cortices (P = 0.016). More aggressive subjects were also characterized by lower SHBG levels (P = 0.015). Moreover, higher SHBG levels were associated with lower 5-HT(1A) BP(ND)s in frontal (P = 0.048) and cingulate cortices (all P < 0.013) and in the amygdala (P = 0.03). CONCLUSIONS: The present study provides first-time evidence for a specific interrelation between the 5-HT(1A) receptor distribution, sex hormones, and aggression in humans. Our findings point to a reduced down-stream control due to higher amounts or activities of frontal 5-HT(1A) receptors in more aggressive subjects, which is presumably modulated by sex hormones.},
affiliation = {Department of Psychiatry and Psychotherapy, Medical University of Vienna, Vienna, Austria.},
note = {genim},
number = {8},
pages = {2558--70},
volume = {30},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Questionnaires, Personality Assessment, Adult, Male, Sex Hormone-Binding Globulin, Receptor: Serotonin: 5-HT1A, Piperazines, Female, Testosterone, Aggression, Pyridines, Magnetic Resonance Imaging, Positron-Emission Tomography, Humans, Estradiol, Brain, Kinetics, Brain Mapping, Carbon Radioisotopes},
date-added = {2010-03-25 15:09:54 +0100},
date-modified = {2010-03-25 18:19:12 +0100},
doi = {10.1002/hbm.20687},
pmid = {19086022},
url = {http://www3.interscience.wiley.com/journal/121560994/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Witte-2009-Hum%20Brain%20Mapp_Aggression%20is%20relate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9675},
rating = {0}
}
@article{Deary:1998p5517,
author = {I J Deary and A Peter and E Austin and G Gibson},
journal = {Br J Psychol},
title = {Personality traits and personality disorders},
abstract = {The structure of personality disorder traits was examined in a sample of 400 undergraduates who completed the personality disorder questionnaire from the Structured Clinical Interview for DSM-III-R (SCID-II). The relations between personality disorder and normal personality traits indexed by the Eysenck Personality Questionnaire-Revised (EPQ-R) were examined. The three-cluster model of personality traits--as described in the DSM scheme--found equivocal support. Exploratory principal components analysis and confirmatory factor analysis found four broad factors of personality disorder that overlapped with normal personality traits: an asthenic factor related to neuroticism; an antisocial factor associated with psychoticism; an asocial factor linked to introversion-extraversion; and an anankastic (obsessive-compulsive) factor. There is growing agreement about the number and type of broad personality disorder dimensions; similar dimensions may be found in clinical and non-clinical samples, suggesting that those people with personality disorders differ quantitatively rather than qualitatively from others; and there is substantial overlap between normal and abnormal personality dimensions.},
affiliation = {Department of Psychology, University of Edinburgh, UK.},
pages = {647--61},
volume = {89 ( Pt 4)},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Adult, Reproducibility of Results, Psychiatric Status Rating Scales, Male, Personality Disorders, Female, Humans, Students, Personality Inventory, Psychometrics},
date-added = {2010-02-12 14:59:09 +0100},
date-modified = {2010-02-12 14:59:11 +0100},
pmid = {9854807},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5517},
rating = {4}
}
@article{Moore:2009p13499,
author = {Susan G Moore and Pareen J Shenoy and Laura Fanucchi and John W Tumeh and Christopher R Flowers},
journal = {BMC Health Serv Res},
title = {Cost-effectiveness of MRI compared to mammography for breast cancer screening in a high risk population},
abstract = {BACKGROUND: Breast magnetic resonance imaging (MRI) is a sensitive method of breast imaging virtually uninfluenced by breast density. Because of the improved sensitivity, breast MRI is increasingly being used for detection of breast cancer among high risk young women. However, the specificity of breast MRI is variable and costs are high. The purpose of this study was to determine if breast MRI is a cost-effective approach for the detection of breast cancer among young women at high risk. METHODS: A Markov model was created to compare annual breast cancer screening over 25 years with either breast MRI or mammography among young women at high risk. Data from published studies provided probabilities for the model including sensitivity and specificity of each screening strategy. Costs were based on Medicare reimbursement rates for hospital and physician services while medication costs were obtained from the Federal Supply Scale. Utilities from the literature were applied to each health outcome in the model including a disutility for the temporary health state following breast biopsy for a false positive test result. All costs and benefits were discounted at 5% per year. The analysis was performed from the payer perspective with results reported in 2006 U.S. dollars. Univariate and probabilistic sensitivity analyses addressed uncertainty in all model parameters. RESULTS: Breast MRI provided 14.1 discounted quality-adjusted life-years (QALYs) at a discounted cost of {\$}18,167 while mammography provided 14.0 QALYs at a cost of {\$}4,760 over 25 years of screening. The incremental cost-effectiveness ratio of breast MRI compared to mammography was {\$}179,599/QALY. In univariate analysis, breast MRI screening became < {\$}50,000/QALY when the cost of the MRI was < {\$}315. In the probabilistic sensitivity analysis, MRI screening produced a net health benefit of -0.202 QALYs (95% central range: -0.767 QALYs to +0.439 QALYs) compared to mammography at a willingness-to-pay threshold of {\$}50,000/QALY. Breast MRI screening was superior in 0%, < {\$}50,000/QALY in 22%, > {\$}50,000/QALY in 34%, and inferior in 44% of trials. CONCLUSION: Although breast MRI may provide health benefits when compared to mammographic screening for some high risk women, it does not appear to be cost-effective even at willingness to pay thresholds above {\$}120,000/QALY.},
affiliation = {Department of Hematology and Oncology, School of Medicine, Winship Cancer Institute, Emory University, Atlanta, USA. smoore@gmail.com},
pages = {9},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Adult, Mammography, Humans, Female, Magnetic Resonance Imaging, Cost-Benefit Analysis, Markov Chains, Breast Neoplasms, Mass Screening, Middle Aged},
date-added = {2010-07-07 20:39:08 +0200},
date-modified = {2010-07-29 19:20:08 +0200},
doi = {10.1186/1472-6963-9-9},
pii = {1472-6963-9-9},
pmid = {19144138},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moore-2009-BMC%20Health%20Serv%20Res_Cost-effectiveness%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13499},
rating = {0}
}
@article{Goldberg:1994p13838,
author = {L R Goldberg and T K Rosolack},
title = {The Big Five factor structure as an integrative framework: An empirical comparison with Eysenck's P-E-N model},
year = {1994},
date-added = {2010-07-29 17:19:16 +0200},
date-modified = {2010-07-29 17:20:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1994-_The%20Big%20Five%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13838},
rating = {0}
}
@article{Sun:2007p900,
author = {Wei Sun and Chih-Ping Chou and Alan W Stacy and Huiyan Ma and Jennifer Unger and Peggy Gallaher},
journal = {Behavior research methods},
title = {SAS and SPSS macros to calculate standardized Cronbach's alpha using the upper bound of the phi coefficient for dichotomous items},
abstract = {Cronbach's a is widely used in social science research to estimate the internal consistency of reliability of a measurement scale. However, when items are not strictly parallel, the Cronbach's a coefficient provides a lower-bound estimate of true reliability, and this estimate may be further biased downward when items are dichotomous. The estimation of standardized Cronbach's a for a scale with dichotomous items can be improved by using the upper bound of coefficient phi. SAS and SPSS macros have been developed in this article to obtain standardized Cronbach's a via this method. The simulation analysis showed that Cronbach's a from upper-bound phi might be appropriate for estimating the real reliability when standardized Cronbach's a is problematic.},
affiliation = {University of Southern California, Los Angeles, California, USA. wsun@usc.edu},
number = {1},
pages = {71--81},
volume = {39},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Data Interpretation: Statistical, Humans, Psychology},
date-added = {2010-01-03 18:29:52 +0100},
date-modified = {2010-07-29 19:18:35 +0200},
pmid = {17552473},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sun-2007-Behavior%20research%20methods_SAS%20and%20SPSS%20macros.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p900},
read = {Yes},
rating = {0}
}
@article{Peleg:2009p2383,
author = {Mor Peleg and Nuaman Asbeh and Tsvi Kuflik and Mitchell Schertz},
journal = {J Biomed Inform},
title = {Onto-clust--a methodology for combining clustering analysis and ontological methods for identifying groups of comorbidities for developmental disorders},
abstract = {Children with developmental disorders usually exhibit multiple developmental problems (comorbidities). Hence, such diagnosis needs to revolve on developmental disorder groups. Our objective is to systematically identify developmental disorder groups and represent them in an ontology. We developed a methodology that combines two methods (1) a literature-based ontology that we created, which represents developmental disorders and potential developmental disorder groups, and (2) clustering for detecting comorbid developmental disorders in patient data. The ontology is used to interpret and improve clustering results and the clustering results are used to validate the ontology and suggest directions for its development. We evaluated our methodology by applying it to data of 1175 patients from a child development clinic. We demonstrated that the ontology improves clustering results, bringing them closer to an expert generated gold-standard. We have shown that our methodology successfully combines an ontology with a clustering method to support systematic identification and representation of developmental disorder groups.},
affiliation = {Department of Management Information Systems, University of Haifa, Haifa 31905, Israel. peleg.mor@gmail.com},
number = {1},
pages = {165--75},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Comorbidity, Child Behavior Disorders, User-Computer Interface, Child Development Disorders: Pervasive, Models: Statistical, Cluster Analysis, Motor Skills Disorders, Reproducibility of Results, Humans, Pattern Recognition: Automated, Child, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-01-10 19:33:20 +0100},
date-modified = {2010-01-10 19:33:20 +0100},
doi = {10.1016/j.jbi.2008.05.010},
pii = {S1532-0464(08)00080-4},
pmid = {18590984},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Peleg-2009-J%20Biomed%20Inform_Onto-clust--a%20method.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2383},
rating = {0}
}
@article{Uher:2008p5937,
author = {Rudolf Uher and Isobel Heyman and Cynthia M Turner and Roz Shafran},
journal = {J Anxiety Disord},
title = {Self-, parent-report and interview measures of obsessive-compulsive disorder in children and adolescents},
abstract = {Self-report measures of obsessive-compulsive disorder (OCD) in children and adolescents are needed for practical evaluation of severity and treatment response. We compared the self- and parent-report Obsessional Compulsive Inventory Revised (CHOCI-R) to the interview-based Child Yale-Brown Obsessive-Compulsive Scale (CY-BOCS) in a clinical sample of 285 children and adolescents with OCD. Classical test theory and item-response theory were applied to compare the instruments. The self- and parent-report CHOCI-R had good internal consistency and were strongly related to each other. The self- and parent-report CHOCI-R severity scores correlated with the CY-BOCS (Pearson's r 0.55 and 0.45 respectively). The CY-BOCS discriminated better at the severe end of the spectrum. The CHOCI-R provided better discrimination in the mild to moderate range. The time-efficient self- and parent-report alternatives will enable routine measurement of OCD severity in clinical practice. Estimates of equivalent summed scores are provided to facilitate comparison.},
affiliation = {King's College London, Institute of Psychiatry, London, UK. r.uher@iop.kcl.ac.uk},
number = {6},
pages = {979--90},
volume = {22},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Adolescent, Male, Age Factors, Severity of Illness Index, Reproducibility of Results, Psychiatric Status Rating Scales, Obsessive-Compulsive Disorder, Personality Inventory, Child, Parents, Psychometrics, Questionnaires, Humans, Female},
date-added = {2010-02-18 23:15:06 +0100},
date-modified = {2010-02-18 23:15:06 +0100},
doi = {10.1016/j.janxdis.2007.10.001},
pii = {S0887-6185(07)00182-X},
pmid = {18023139},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5937},
rating = {0}
}
@article{Legendre:2002p11912,
author = {P Legendre and K E Ellingsen and E Bjornbom and P Casgrain},
journal = {Can J Fish Aquat Sci},
title = {Acoustic seabed classification: improved statistical method},
abstract = {Huge amounts of money will be spent by industrialized nations during the next decades to obtain detailed maps of continental shelf seabeds. These maps, which will allow a more rational exploitation of the sea floor, are needed to assess the impact of anthropic activities. The statistical method of analysis of echosounder backscatter data described in this paper presents several improvements over existing techniques. The steps are as follows. (i) The backscatter data are decomposed mathematically into a number of quantitative variables, which are subjected to principal component analysis (PCA). (ii) Principal components representing 95--99% of the variation are used in a K- means partitioning procedure. A statistical criterion indicates what the number of groups is that best reflects the variability of the data. (iii) The groups are then plotted on maps of the survey area. Insofar as the mathematical decomposition produces variables that reflect the variations of the physical nature and composition of the seabed, the classes of the partition will correspond to different seabed types. Free software (The Q Package) implementing this method is available at http://www.fas.umontreal.ca/biol/legendre/.},
pages = {1085--1089},
volume = {59},
year = {2002},
date-added = {2010-05-23 16:35:11 +0200},
date-modified = {2010-05-23 16:37:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Legendre-2002-Can%20J%20Fish%20Aquat%20Sci_Acoustic%20seabed%20clas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11912},
rating = {0}
}
@article{Witting:2009p810,
author = {K Witting and P Santtila and F Rijsdijk and M Varjonen and P Jern and A Johansson and B von der Pahlen and K Alanko and N K Sandnabba},
journal = {Psychol Med},
title = {Correlated genetic and non-shared environmental influences account for the co-morbidity between female sexual dysfunctions},
abstract = {BACKGROUND: Previous studies have shown moderate heritability for female orgasm. So far, however, no study has addressed the pattern of genetic and environmental influences on diverse sexual dysfunctions in women, nor how genetic and environmental factors contribute to the associations between them. METHOD: The sample was drawn from the Genetics of Sex and Aggression (GSA) sample and consisted of 6, 446 female twins (aged 18-43 years) and 1994 female siblings (aged 18-49 years). The participants responded to the Female Sexual Function Index (FSFI), either by post or online. RESULTS: Model fitting analyses indicated that individual differences on all six subdomains of the FSFI (desire, arousal, lubrication, orgasm, satisfaction, and pain) were primarily due to non-shared (individual-specific) environmental influences. Genetic influences were modest but significant, whereas shared environmental influences were not significant. A correlated factors model including additive and non-additive genetic and non-shared environmental effects proved to have the best fit and suggested that both correlated additive and non-additive genetic factors and unique environmental factors underlie the co-occurrence of the sexual function problems. CONCLUSIONS: The findings suggest that female sexual dysfunctions are separate entities with some shared aetiology. They also indicate that there is a genetic susceptibility for sexual dysfunctions. The unique experiences of each individual are, however, the main factors determining if, and which, dysfunction develops.},
affiliation = {Centre of Excellence for Behaviour Genetics, Department of Psychology, Abo Akademi University, Finland. katarina.witting@abo.fi},
number = {1},
pages = {115--27},
volume = {39},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Personal Satisfaction, Orgasm, Genetic Predisposition to Disease, Young Adult, Questionnaires, Sexual Dysfunctions: Psychological, Adolescent, Adult, Social Environment, Self Disclosure, Sexual Behavior, Humans, Middle Aged, Age Factors, Pain, Comorbidity, Factor Analysis: Statistical, Twins, Female},
date-added = {2010-01-03 17:18:43 +0100},
date-modified = {2010-01-03 17:18:43 +0100},
doi = {10.1017/S0033291708003206},
pii = {S0033291708003206},
pmid = {18366817},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Witting-2009-Psychol%20Med_Correlated%20genetic%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p810},
rating = {0}
}
@article{Davis:2009p5759,
author = {Oliver S P Davis and Claire M A Haworth and Robert Plomin},
journal = {Psychol Sci},
title = {Dramatic increase in heritability of cognitive development from early to middle childhood: an 8-year longitudinal study of 8,700 pairs of twins},
abstract = {The generalist genes hypothesis implies that general cognitive ability (g) is an essential target for understanding how genetic polymorphisms influence the development of the human brain. Using 8,791 twin pairs from the Twins Early Development Study, we examine genetic stability and change in the etiology of g assessed by diverse measures during the critical transition from early to middle childhood. The heritability of a latent g factor in early childhood is 23%, whereas shared environment accounts for 74% of the variance. In contrast, in middle childhood, heritability of a latent g factor is 62%, and shared environment accounts for 33%. Despite increasing importance of genetic influences and declining influence of shared environment, similar genetic and shared environmental factors affect g from early to middle childhood, as indicated by a cross-age genetic correlation of .57 and a shared environmental correlation of .65. These findings set constraints on how genetic and environmental variation affects the developing brain.},
affiliation = {Social, Genetic and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, De Crespigny Park, London SE5 8AF, United Kingdom. oliver.davis@iop.kcl.ac.uk},
number = {10},
pages = {1301--8},
volume = {20},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Social Environment, Task Performance and Analysis, Child Development, Great Britain, Cognition, Verbal Behavior, Child: Preschool, Child, Principal Component Analysis, Twins, Longitudinal Studies, Age Factors, Female, Male, Humans},
date-added = {2010-02-15 20:29:54 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2009.02433.x},
pii = {PSCI2433},
pmid = {19732386},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5759},
rating = {0}
}
@article{Vernazza:2008p9548,
author = {Pietro Vernazza},
journal = {AIDS},
title = {HAART improves quality of life: should we care about the quality of spermatozoa?},
number = {5},
pages = {647--8},
volume = {22},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Quality of Life, Sperm Motility, Male, Adult, HIV, Humans, Antiretroviral Therapy: Highly Active, HIV Infections, Anti-Retroviral Agents},
date-added = {2010-03-23 20:44:42 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
doi = {10.1097/QAD.0b013e3282f4de4d},
pii = {00002030-200803120-00012},
pmid = {18317007},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vernazza-2008-AIDS_HAART%20improves%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9548},
rating = {0}
}
@article{Sockeel:2006p5905,
author = {P Sockeel and K Dujardin and D Devos and C Den{\`e}ve and A Dest{\'e}e and L Defebvre},
journal = {J Neurol Neurosurg Psychiatr},
title = {The Lille apathy rating scale (LARS), a new instrument for detecting and quantifying apathy: validation in Parkinson's disease},
abstract = {BACKGROUND: Apathy is usually defined as reduced interest and participation in various activities. It is a frequent consequence of neurological and psychiatric disorders. Although various scoring methods have been proposed, there is a lack of validated, standardised instruments for detecting apathy and assessing its severity. OBJECTIVE: To develop an apathy rating scale using a structured standardised interview capable of distinguishing between the condition's various features. METHODS: The Lille Apathy Rating Scale (LARS) is based on a structured interview. It includes 33 items, divided into nine domains. Responses are scored on a dichotomous scale. The participants used to validate the scale consisted of 159 patients with probable Parkinson's disease and 58 healthy control subjects. The Marin Apathy Scale, the Montgomery and Asberg Depression Rating Scale, and the Mattis Dementia Rating Scale were also administered. RESULTS: Principal component analysis showed that the LARS probed a single construct which forms the root of an oblique factor structure reflecting four dimensions: intellectual curiosity, self awareness, emotion, and action initiation. The main psychometric properties of the LARS (internal consistency, inter-rater and test-retest reliability) were satisfactory. Concurrent validity was evaluated by reference to the Marin scale and to judgements provided by expert clinicians. CONCLUSIONS: Standard validity indices showed that the LARS is sensitive and capable of distinguishing between apathy and depression. As a screening tool, the scale is able to support dichotomous judgements accurately and, when greater measurement sensitivity is required, also determine the severity of apathy within a four category classification.},
affiliation = {Psychology Department, Charles De Gaulle University, and Neurology and Movement Disorders Unit, Faculty of Medicine and Lille University Hospital, France. pascal.sockeel@univ-lille3.fr},
number = {5},
pages = {579--84},
volume = {77},
year = {2006},
month = {May},
language = {eng},
keywords = {Diagnosis: Differential, Awareness, Parkinson Disease, Depressive Disorder, Humans, Male, Reproducibility of Results, Exploratory Behavior, Personality Assessment, Dementia, Self Concept, Middle Aged, Emotions, Motivation, Psychometrics, Neuropsychological Tests, Female, Aged},
date-added = {2010-02-18 23:08:14 +0100},
date-modified = {2010-02-18 23:08:14 +0100},
doi = {10.1136/jnnp.2005.075929},
pii = {77/5/579},
pmid = {16614016},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sockeel-2006-J%20Neurol%20Neurosurg%20Psychiatr_The%20Lille%20apathy%20rat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5905},
rating = {0}
}
@article{Akman:2008p11075,
author = {Ipek Akman and M Kemal Kuscu and Ziya Yurdakul and Nihal Ozdemir and Mine Solako{\u g}lu and Lale Orhon and Ayt{\"u}l Karabekiro{\u g}lu and Eren Ozek},
journal = {J Paediatr Child Health},
title = {Breastfeeding duration and postpartum psychological adjustment: role of maternal attachment styles},
abstract = {AIM: Depressive and anxiety symptoms are common in new mothers. The aim of this study is to explore the link between postpartum psychological adjustment and feeding preferences of the mothers. METHODS: Sixty mothers and newborns were enrolled in this prospective, longitudinal study. Maternal depressive symptoms were screened by the Edinburgh Postpartum Depression Scale (EPDS), and maternal anxiety level was assessed by the State-Trait Anxiety Inventory at 1 month postpartum. The Multidimensional Scale of Perceived Social Support was used for the assessment of maternal social support. The Adult Attachment Scale was used to determine the attachment style of the mother. Infants were examined and evaluated at 1 and 4 months of life. RESULTS: All mothers started breastfeeding their infants postpartum; 91% and 68.1% continued exclusive breastfeeding at 1 and 4 months, respectively. The first-month median EPDS score of mothers who breastfeed at the fourth month was statistically significantly lower than those who were not breastfeeding (6 and 12, respectively) (P = 0001). The first-month median EPDS score of mothers with secure attachment was lower than the median score of mothers with insecure attachment (5 and 9, respectively) (P < 0001). Exclusive breastfeeding rate was not statistically different among mothers with secure and insecure attachment styles. The median state and trait anxiety scores and social support scores of mothers were not different between groups according to breastfeeding status. CONCLUSIONS: This study has shown an association between higher EPDS scores and breastfeeding cessation by 4 months after delivery.},
affiliation = {Division of Neonatology, Department of Paediatrics, Marmara University Medical School, Istanbul, Turkey. ipekakman@yahoo.com},
number = {6},
pages = {369--73},
volume = {44},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Object Attachment, Longitudinal Studies, Postpartum Period, Educational Status, Mothers, Female, Social Support, Depression: Postpartum, Mother-Child Relations, Parity, Maternal Age, Pregnancy, Breast Feeding, Male, Adult, Humans, Time Factors, Anxiety Disorders, Infant: Newborn, Prospective Studies},
date-added = {2010-04-14 13:48:37 +0200},
date-modified = {2010-04-14 13:48:37 +0200},
doi = {10.1111/j.1440-1754.2008.01336.x},
pii = {JPC1336},
pmid = {18476931},
url = {http://www3.interscience.wiley.com/journal/119412645/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11075},
rating = {0}
}
@article{Cullen:2007,
author = {Karen W Cullen and Barbara J Anderson and Siripoom McKay and Kathy Watson},
journal = {Pediatr Diabetes},
title = {Psychometric properties of questionnaires measuring associations between behavioral factors and diabetes care for youth with type 2 diabetes.},
abstract = {BACKGROUND: Because of the recency of the large numbers of youth diagnosed with type 2 diabetes (T2D), measures of adherence behavior and family response to diabetes have not been developed or tested. OBJECTIVE: The objective of this study is to identify whether questionnaires on personal and family behaviors regarding the care of diabetes previously used with youth with type 1 diabetes (T1D) are reliable and related to metabolic control among youth with T2D. DESIGN/METHODS: During a regularly scheduled visit, youth with T2D and a parent/guardian were invited to participate in the study. Youth and a parent completed questionnaires and one 24-h dietary recall at the visit. During the following 2 wk, each youth completed two telephone dietary recalls and physical activity questionnaires. RESULTS: Child-reported scales measuring parental reminding, positive family behavior, self-care behaviors, and self-efficacy and maternal report of child self-care behaviors and maternal self-efficacy were found to have adequate internal consistency. Only parental reminding was related to metabolic control. Those youth reporting higher parental reminding were in poorer metabolic control. CONCLUSIONS: These scales appear to be reliable with youth with T2D in south Texas.},
affiliation = {Children's Nutrition Research Center, Department of Pediatrics, Baylor College of Medicine, Houston, TX 77030-2600, USA. kcullen@bcm.tmc.edu},
number = {1},
pages = {21--27},
volume = {8},
year = {2007},
month = {Feb},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1111/j.1399-5448.2006.00222.x},
pii = {PDI222},
pmid = {17341288},
url = {http://dx.doi.org/10.1111/j.1399-5448.2006.00222.x},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1153},
rating = {0}
}
@article{Newman:1986p8224,
author = {J P Newman and D S Kosson},
journal = {J Abnorm Psychol},
title = {Passive avoidance learning in psychopathic and nonpsychopathic offenders},
note = {psytools},
number = {3},
pages = {252--6},
volume = {95},
year = {1986},
month = {Aug},
language = {eng},
keywords = {Adult, Male, Humans, Antisocial Personality Disorder, Avoidance Learning, Criminal Psychology, Punishment, Goals, Reward},
date-added = {2010-03-20 19:56:45 +0100},
date-modified = {2010-03-20 19:57:14 +0100},
pmid = {3745647},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newman-1986-J%20Abnorm%20Psychol_Passive%20avoidance%20le.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8224},
read = {Yes},
rating = {0}
}
@article{Reise:2009p13758,
author = {S P Reise},
journal = {Austrian Journal of Statistics},
title = {The Emergence of Item Response Theory Models and the Patient Reported Outcomes Measurement Information Systems},
abstract = {Item response theory (IRT) models emerged to solve practical testing problems in large-scale cognitive achievement and aptitude assess- ment. Within the last decade, an explosion of IRT applications have oc- curred in the non-cognitive domain. In this report, I highlight the develop- ment, implementation, and results of a single project: Patient Reported Out- comes Measurement Information Systems (PROMIS). The PROMIS project reflects the state-of-the-art application of IRT in the non-cognitive domain, and has produced important advancements in patient reported outcomes mea- surement. However, the project also illustrates challenges that confront re- searchers wishing to apply IRT to non-cognitive constructs. These challenges are: a) selecting a population to set the metric for interpretation of item parameters, b) working with non-normal quasi-continuous latent traits, and c) working with narrow-bandwidth constructs that potentially have a limited pool of potential indicators. Differences between cognitive and non-cognitive measurement contexts are discussed and directions for future research sug- gested.},
number = {4},
pages = {211--220},
volume = {38},
year = {2009},
date-added = {2010-07-24 12:50:50 +0200},
date-modified = {2010-07-24 12:51:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reise-2009-Austrian%20Journal%20of%20Statistics_The%20Emergence%20of%20Ite.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13758},
rating = {0}
}
@article{Jacobson:1984,
author = {NS Jacobson and WC Follette and D Revenstorf},
journal = {Behavior Therapy},
title = {Psychotherapy outcome research: Methods for reporting variability and evaluating clinical significance},
pages = {336--352},
volume = {15},
year = {1984},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-01-03 19:35:30 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1018},
rating = {0}
}
@article{Reeve:2010p3643,
author = {B B Reeve},
title = {An Introduction to Modern Measurement Theory},
date-added = {2010-01-16 19:47:39 +0100},
date-modified = {2010-01-16 19:48:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reeve--_An%20Introduction%20to%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3643},
rating = {0}
}
@article{Visser:2003p12969,
author = {J Visser},
journal = {Human Movement Science},
title = {Developmental coordination disorder: a review of research on subtypes and comorbidities},
abstract = {The interest in Developmental Coordination Disorder (DCD) has grown considerably over the last decade. Nevertheless, its etiology and prognosis are still poorly understood. The idea is growing that DCD may not be a uniform disorder. This review summarizes research on DCD, with a particular focus on subtype and comorbidity studies. The main message of the paper is that, in order to understand the etiology and prognosis of DCD, we need to have a better understanding of its nature. This requires an awareness of the existence of subtypes and comorbidities. Current theories on comorbidity phenomena are discussed in terms of their possible merit for the development of the field. Particular attention is given to the Automatization Deficit Hypothesis, a theory based on research on dyslexia.},
affiliation = {Department of Kinesiology, Pennsylvania State University, 267-J Recreation Building, University Park, PA 16802, USA. jxv17@psu.edu},
number = {4-5},
pages = {479--93},
volume = {22},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Learning Disorders, Comorbidity, Prognosis, Psychomotor Disorders, Risk Factors, Child, Humans, Motor Skills Disorders, Dyslexia, Attention Deficit Disorder with Hyperactivity, Disability Evaluation},
date-added = {2010-06-25 22:18:19 +0200},
date-modified = {2010-06-25 22:18:19 +0200},
pii = {S0167945703000678},
pmid = {14624829},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Visser-2003-Human%20Movement%20Science_Developmental%20coordi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12969},
rating = {0}
}
@article{Liu:2009p1566,
author = {Jingyu Liu and Godfrey Pearlson and Andreas Windemuth and Gualberto Ruano and Nora I Perrone-Bizzozero and Vince Calhoun},
journal = {Hum Brain Mapp},
title = {Combining fMRI and SNP data to investigate connections between brain function and genetics using parallel ICA},
abstract = {There is current interest in understanding genetic influences on both healthy and disordered brain function. We assessed brain function with functional magnetic resonance imaging (fMRI) data collected during an auditory oddball task--detecting an infrequent sound within a series of frequent sounds. Then, task-related imaging findings were utilized as potential intermediate phenotypes (endophenotypes) to investigate genomic factors derived from a single nucleotide polymorphism (SNP) array. Our target is the linkage of these genomic factors to normal/abnormal brain functionality. We explored parallel independent component analysis (paraICA) as a new method for analyzing multimodal data. The method was aimed to identify simultaneously independent components of each modality and the relationships between them. When 43 healthy controls and 20 schizophrenia patients, all Caucasian, were studied, we found a correlation of 0.38 between one fMRI component and one SNP component. This fMRI component consisted mainly of parietal lobe activations. The relevant SNP component was contributed to significantly by 10 SNPs located in genes, including those coding for the nicotinic alpha-7 cholinergic receptor, aromatic amino acid decarboxylase, disrupted in schizophrenia 1, among others. Both fMRI and SNP components showed significant differences in loading parameters between the schizophrenia and control groups (P = 0.0006 for the fMRI component; P = 0.001 for the SNP component). In summary, we constructed a framework to identify interactions between brain functional and genetic information; our findings provide a proof-of-concept that genomic SNP factors can be investigated by using endophenotypic imaging findings in a multivariate format.},
affiliation = {The Mind Research Network, Albuquerque, New Mexico, USA. jliu@themindinstitute.org},
number = {1},
pages = {241--55},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Schizophrenia, Parietal Lobe, Brain, Female, Middle Aged, Phenotype, Mutation, Young Adult, Genetic Testing, Predictive Value of Tests, Adult, Genotype, Aromatic-L-Amino-Acid Decarboxylases, Brain Mapping, DNA Mutational Analysis, Magnetic Resonance Imaging, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide, Humans, Statistics as Topic, Receptors: Nicotinic, Male},
date-added = {2010-01-07 16:52:52 +0100},
date-modified = {2010-01-07 16:52:52 +0100},
doi = {10.1002/hbm.20508},
pmid = {18072279},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2009-Hum%20Brain%20Mapp_Combining%20fMRI%20and%20S.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1566},
read = {Yes},
rating = {0}
}
@article{Plomin:2010p12463,
author = {Robert Plomin and Claire M A Haworth and Oliver S P Davis},
journal = {Behav Genet},
title = {Genetics of learning abilities and disabilities: recent developments from the UK and possible directions for research in China. 2008},
number = {3},
pages = {297--305},
volume = {40},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-06-15 17:37:35 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9355-z},
pmid = {20358396},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Plomin-2010-Behav%20Genet_Genetics%20of%20learning.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12463},
rating = {0}
}
@article{Schrodt:2006p2330,
author = {P A Schrodt},
journal = {Symposium on Rethinking Social Inquiry},
title = {Beyond the Linear Frequentist Orthodoxy},
year = {2006},
date-added = {2010-01-10 13:13:17 +0100},
date-modified = {2010-01-10 13:13:54 +0100},
doi = {10.1093/pan/mpj013},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schrodt-2006-Symposium%20on%20Rethinking%20Social%20Inquiry_Beyond%20the%20Linear%20Fr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2330},
rating = {0}
}
@article{Andrews:2001p2475,
author = {G Andrews and S Henderson and W Hall},
journal = {Br J Psychiatry},
title = {Prevalence, comorbidity, disability and service utilisation. Overview of the Australian National Mental Health Survey},
abstract = {BACKGROUND: Health planning should be based on data about prevalence, disability and services used. AIMS: To determine the prevalence of ICD-10 disorders and associated comorbidity, disability and service utilisation. METHOD: We surveyed a national probability sample of Australian households using the Composite International Diagnostic Interview and other measures. RESULTS: The sample size was 10 641 adults, response rate 78%. Close to 23% reported at least one disorder in the past 12 months and 14% a current disorder. Comorbidity was associated with disability and service use. Only 35% of people with a mental disorder in the 12 months prior to the survey had consulted for a mental problem during that year, and most had seen a general practitioner. Only half of those who were disabled or had multiple comorbidity had consulted and of those who had not, more than half said they did not need treatment. CONCLUSIONS: The high rate of not consulting among those with disability and comorbidity is an important public health problem. As Australia has a universal health insurance scheme, the barriers to effective care must be patient knowledge and physician competence.},
affiliation = {World Health Organization Collaborating Centre for Mental Health and School of Psychiatry, University of New South Wales at St Vincent's Hospital, Sydney, Australia. gavina@crufad.unsw.edu.au},
pages = {145--53},
volume = {178},
year = {2001},
month = {Feb},
language = {eng},
keywords = {Adolescent, Health Services Needs and Demand, Mental Disorders, Mental Health Services, Substance-Related Disorders, Patient Acceptance of Health Care, Humans, Adult, Mentally Disabled Persons, Comorbidity, Aged, Health Surveys, Female, Prevalence, Middle Aged, Severity of Illness Index, Australia, Male, Family Practice},
date-added = {2010-01-12 13:30:11 +0100},
date-modified = {2010-01-12 13:30:11 +0100},
pmid = {11157427},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andrews-2001-Br%20J%20Psychiatry_Prevalence%20comorbid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2475},
rating = {0}
}
@article{Benson:2000,
author = {K Benson and AJ Hartz},
journal = {N Engl J Med},
title = {A comparison of observational studies and randomised controlled trials},
abstract = {Background For many years it has been claimed that observational studies find stronger treatment effects than randomized, controlled trials. We compared the results of observational studies with those of randomized, controlled trials. Methods We searched the Abridged Index Medicus and Cochrane data bases to identify observational studies reported between 1985 and 1998 that compared two or more treatments or interventions for the same condition. We then searched the Medline and Cochrane data bases to identify all the randomized, controlled trials and observational studies comparing the same treatments for these conditions. For each treatment, the magnitudes of the effects in the various observational studies were combined by the Mantel--Haenszel or weighted analysis-of-variance procedure and then compared with the combined magnitude of the effects in the randomized, controlled trials that evaluated the same treatment. Results There were 136 reports about 19 diverse treatments, such as calcium-channel--blocker therapy for coronary artery disease, appendectomy, and interventions for subfertility. In most cases, the estimates of the treatment effects from observational studies and randomized, controlled trials were similar. In only 2 of the 19 analyses of treatment effects did the combined magnitude of the effect in observational studies lie outside the 95 percent confidence interval for the combined magnitude in the randomized, controlled trials. Conclusions We found little evidence that estimates of treatment effects in observational studies reported after 1984 are either consistently larger than or qualitatively different from those obtained in randomized, controlled trials.},
pages = {1878--1886},
volume = {342},
year = {2000},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1052},
rating = {0}
}
@article{Nelson:2010p5060,
author = {Kerrie P Nelson and Don Edwards},
journal = {Stat Med},
title = {Improving the reliability of diagnostic tests in population-based agreement studies},
abstract = {Many large-scale studies have recently been carried out to assess the reliability of diagnostic procedures, such as mammography for the detection of breast cancer. The large numbers of raters and subjects involved raise new challenges in how to measure agreement in these types of studies. An important motivator of these studies is the identification of factors that contribute to the often wide discrepancies observed between raters' classifications, such as a rater's experience, in order to improve the reliability of the diagnostic process of interest. Incorporating covariate information into the agreement model is a key component in addressing these questions. Few agreement models are currently available that jointly model larger numbers of raters and subjects and incorporate covariate information. In this paper, we extend a recently developed population-based model and measure of agreement for binary ratings to incorporate covariate information using the class of generalized linear mixed models with a probit link function. Important information on factors related to the subjects and raters can be included as fixed and/or random effects in the model. We demonstrate how agreement can be assessed between subgroups of the raters and/or subjects, for example, comparing agreement between experienced and less experienced raters. Simulation studies are carried out to test the performance of the proposed models and measures of agreement. Application to a large-scale breast cancer study is presented. Copyright (c) 2010 John Wiley {\&} Sons, Ltd.},
affiliation = {Massachusetts General Hospital and Harvard Medical School, Biostatistics Center, 50 Staniford Street, Suite 560, Boston, MA 02114, U.S.A.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-05 20:05:25 +0100},
date-modified = {2010-02-05 20:05:25 +0100},
doi = {10.1002/sim.3819},
pmid = {20128018},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nelson-2010-Stat%20Med_Improving%20the%20reliab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5060},
rating = {0}
}
@article{Westfall:2010p10013,
author = {Peter H Westfall and James F Troendle and Gene Pennello},
journal = {Biometrics},
title = {Multiple McNemar Tests},
abstract = {Summary. Methods for performing multiple tests of paired proportions are described. A broadly applicable method using McNemar's exact test and the exact distributions of all test statistics is developed; the method controls the familywise error rate in the strong sense under minimal assumptions. A closed form (not simulation-based) algorithm for carrying out the method is provided. A bootstrap alternative is developed to account for correlation structures. Operating characteristics of these and other methods are evaluated via a simulation study. Applications to multiple comparisons of predictive models for disease classification and to postmarket surveillance of adverse events are given.},
affiliation = {Area of ISQS, Texas Tech University, Lubbock, Texas 79409-2101, U.S.A.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-31 20:00:30 +0200},
date-modified = {2010-03-31 20:00:30 +0200},
doi = {10.1111/j.1541-0420.2010.01408.x},
pii = {BIOM1408},
pmid = {20345498},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Westfall-2010-Biometrics_Multiple%20McNemar%20Tes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10013},
rating = {0}
}
@article{Verplancke:2008p12455,
author = {T Verplancke and S Van Looy and D Benoit and S Vansteelandt and P Depuydt and F De Turck and J Decruyenaere},
journal = {BMC Med Inform Decis Mak},
title = {Support vector machine versus logistic regression modeling for prediction of hospital mortality in critically ill patients with haematological malignancies},
abstract = {BACKGROUND: Several models for mortality prediction have been constructed for critically ill patients with haematological malignancies in recent years. These models have proven to be equally or more accurate in predicting hospital mortality in patients with haematological malignancies than ICU severity of illness scores such as the APACHE II or SAPS II 1. The objective of this study is to compare the accuracy of predicting hospital mortality in patients with haematological malignancies admitted to the ICU between models based on multiple logistic regression (MLR) and support vector machine (SVM) based models. METHODS: 352 patients with haematological malignancies admitted to the ICU between 1997 and 2006 for a life-threatening complication were included. 252 patient records were used for training of the models and 100 were used for validation. In a first model 12 input variables were included for comparison between MLR and SVM. In a second more complex model 17 input variables were used. MLR and SVM analysis were performed independently from each other. Discrimination was evaluated using the area under the receiver operating characteristic (ROC) curves (+/- SE). RESULTS: The area under ROC curve for the MLR and SVM in the validation data set were 0.768 (+/- 0.04) vs. 0.802 (+/- 0.04) in the first model (p = 0.19) and 0.781 (+/- 0.05) vs. 0.808 (+/- 0.04) in the second more complex model (p = 0.44). SVM needed only 4 variables to make its prediction in both models, whereas MLR needed 7 and 8 variables in the first and second model respectively. CONCLUSION: The discriminative power of both the MLR and SVM models was good. No statistically significant differences were found in discriminative power between MLR and SVM for prediction of hospital mortality in critically ill patients with haematological malignancies.},
affiliation = {Department of Intensive Care Medicine, Ghent University Hospital, Faculty of Medicine, Ghent University, Ghent, Belgium. thierry.verplancke@ugent.be},
pages = {56},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Hematologic Neoplasms, Female, Hospital Mortality, Software, Logistic Models, Predictive Value of Tests, Middle Aged, Intensive Care Units, Male, Critical Illness, Algorithms, Humans, Prospective Studies, ROC Curve},
date-added = {2010-06-15 17:33:55 +0200},
date-modified = {2010-06-15 17:34:13 +0200},
doi = {10.1186/1472-6947-8-56},
pii = {1472-6947-8-56},
pmid = {19061509},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verplancke-2008-BMC%20Med%20Inform%20Decis%20Mak_Support%20vector%20machi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12455},
rating = {3}
}
@article{Molenberghs:2004,
author = {G Molenberghs and G Verbeke},
journal = {Statistica Sinica},
title = {Meaningful statistical model formulations for repeated measures},
pages = {989--1020},
volume = {14},
year = {2004},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Molenberghs-2004-Statistica%20Sinica_Meaningful%20statistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1105},
rating = {0}
}
@misc{Claeskens:2007,
author = {G Claeskens and M Aerts},
journal = {Miscellaneous},
title = {On local estimating equations in additive multiparameter models},
year = {2007},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Claeskens-2007-Miscellaneous_On%20local%20estimating.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2116},
rating = {0}
}
@article{Bolton:2007p5241,
author = {Derek Bolton and Fr{\"u}hling Rijsdijk and Thomas G O'Connor and Sean Perrin and Thalia C Eley},
journal = {Psychol Med},
title = {Obsessive-compulsive disorder, tics and anxiety in 6-year-old twins},
abstract = {BACKGROUND: Previous reports of genetic influences on obsessive-compulsive disorder (OCD) symptoms have suggested moderate heritability. Family history studies of co-morbidity have found familial aggregation with tics, especially for early-onset OCD, and familial aggregation with anxiety disorders. METHOD: Heritability of OCD and familial aggregation of OCD, tics and anxiety disorders were investigated in a community sample of 6-year-old twins using a two-phase design in which 4662 twin pairs were sampled and 854 pairs were assessed in the second phase by maternal-informant diagnostic interview using DSM-IV criteria. RESULTS: In the multivariate model combined additive genetic and common environmental effects were estimated as 47% for sub-threshold OCD, and the model was unable to distinguish these sources of familial aggregation. There were strong familial aggregations between sub-threshold OCD and tics and between sub-threshold OCD and other anxiety disorders (80% and 97% respectively), although again specific sources could not be distinguished. CONCLUSIONS: The findings are consistent with the hypothesis of a tic-related early-onset OCD phenotype, but also with the hypothesis of an anxiety-related early-onset OCD phenotype.},
affiliation = {Institute of Psychiatry, Kings College London, UK. d.bolton@iop.kcl.ac.uk},
number = {1},
pages = {39--48},
volume = {37},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Comorbidity, Female, Time Factors, Anxiety Disorders, Diagnostic and Statistical Manual of Mental Disorders, Humans, Twins, Phenotype, Social Environment, Male, Tics, Child, Obsessive-Compulsive Disorder},
date-added = {2010-02-09 21:57:25 +0100},
date-modified = {2010-02-09 21:57:26 +0100},
doi = {10.1017/S0033291706008816},
pii = {S0033291706008816},
pmid = {16999878},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5241},
rating = {0}
}
@article{Ihaka:2001p1817,
author = {R Ihaka},
journal = {DSC 2001 Proceedings of the 2nd International Workshop on Distributed Statistical Computing},
title = {R Graphics. The Good, The Bad, and the Ugly},
abstract = {The present R graphics system was originally written as a placeholder, which could be replaced when a better alternative became available. This temporary solution has now become so entrenched that it is probably no longer possible to remove it. In this paper we will look at some of what is possible in the R graphics system, how it could be improved, and what might not be fixable. We will also look at how the existing system might be augmented and see what tradeoffs might be involved in adding an additional graphics system.},
affiliation = {Department of Statistics, University of Auckland, New Zealand},
year = {2001},
date-added = {2010-01-09 22:51:19 +0100},
date-modified = {2010-01-09 22:52:21 +0100},
url = {http://www.ci.tuwien.ac.at/Conferences/DSC-2001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ihaka-2001-DSC%202001%20Proceedings%20of%20the%202nd%20International%20Workshop%20on%20Distributed%20Statistical%20Computing_R%20Graphics.%20The%20Good.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1817},
read = {Yes},
rating = {0}
}
@article{Martin:2009p7641,
author = {Nicolas W Martin and Narelle K Hansell and Mark A Wainwright and Sri N Shekar and Sarah E Medland and Timothy C Bates and Jennifer S Burt and Nicholas G Martin and Margaret J Wright},
journal = {Behav Genet},
title = {Genetic covariation between theAuthor Recognition Test and reading and verbal abilities: what can we learn from the analysis of high performance?},
abstract = {The Author Recognition Test (ART) measures print exposure and is a unique predictor of phonological and orthographic processes in reading. In a sample of adolescent and young adult twins and siblings (216 MZ/430 DZ pairs, 307 singletons; aged 11-29 years) ART scores were moderately heritable (67%) and correlated with reading and verbal abilities, with genes largely accounting for the covariance. We also examine whether high (and low) (i.e. 1SD above the mean) represents a quantitative extreme of the normal distribution. Heritability for high ART was of similar magnitude to the full sample, but, a specific genetic factor, independent from both low ART performance and high reading ability, accounted for 53-58% of the variance. This suggests a distinct genetic etiology for high ART ability and we speculate that the specific genetic influence is on orthographical processing, a critical factor in developing word recognition skills.},
affiliation = {Genetic Epidemiology Laboratory, Queensland Institute of Medical Research, PO Royal Brisbane Hospital, Brisbane, QLD, Australia. nico.martin@qimr.edu.au},
number = {4},
pages = {417--26},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Twins: Dizygotic, Reading, Analysis of Variance, Adult, Intelligence, Vocabulary, Models: Genetic, Genotype, Epistasis: Genetic, Aptitude, Recognition (Psychology), Male, Twins: Monozygotic, Adolescent, Queensland, Phenotype, Verbal Learning, Child: Gifted, Child, Female, Young Adult, Aptitude Tests, Social Environment, Phonetics, Siblings, Humans},
date-added = {2010-03-15 23:14:27 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9275-y},
pmid = {19418212},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Martin-2009-Behav%20Genet_Genetic%20covariation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7641},
rating = {0}
}
@article{Beseler:2010p13895,
author = {Cheryl L Beseler and Deborah S Hasin},
journal = {Addict Behav},
title = {Cannabis dimensionality: Dependence, abuse and consumption},
abstract = {AIMS: Genetic research on substance use disorders usually defines phenotypes as a binary diagnosis, resulting in a loss of information if the disorder is inherently dimensional. The DSM-IV criteria for drug dependence were based on a theoretically dimensional (linear) model. Considerable investigation has been conducted on DSM-IV alcohol criteria, but less is known about the dimensionality of DSM-IV cannabis criteria for abuse and dependence. The aim of this study is to assess whether DSM-IV cannabis dependence (including withdrawal) and abuse criteria fit a linear measure of severity and whether a consumption criterion adds linearly to severity. DESIGN/SETTING/PARTICIPANTS/MEASUREMENTS: Participants were 8172 in the National Epidemiologic Survey on Alcohol and Related Conditions who had ever used cannabis. Wald statistics were used to test whether categorical, dimensional or hybrid forms best fit the data. We examined the following as criterion sets: (1) dependence; (2) dependence and abuse; and (3) dependence, abuse and frequency of use. Validating variables included family history of drug problems, early onset of cannabis use, and antisocial personality disorder. FINDINGS: For cannabis dependence, no evidence was found for categorical or hybrid models; Wald tests indicated that models representing the seven DSM-IV dependence criteria as a linear severity measure best described the association between the criteria and validating variables. However, significant differences from linearity occurred after adding the four cannabis abuse criteria (p=0.03) and the use indicator (p=0.01) for family history and antisocial personality disorder. CONCLUSION: With ample power to detect non-linearity, cannabis dependence was shown to form an underlying continuum of severity. However, adding abuse criteria, with and without a measure of consumption, resulted in a model that differed significantly from linearity for two of the three validating variables.},
affiliation = {New York State Psychiatric Institute, New York, NY 10032, USA.},
pages = {},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-07-29 18:35:29 +0200},
date-modified = {2010-07-29 18:35:29 +0200},
doi = {10.1016/j.addbeh.2010.06.011},
pii = {S0306-4603(10)00171-1},
pmid = {20598807},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13895},
rating = {0}
}
@article{Forero:2009p10570,
author = {Carlos G Forero and Alberto Maydeu-Olivares},
journal = {Psychological Methods},
title = {Estimation of IRT graded response models: limited versus full information methods},
abstract = {The performance of parameter estimates and standard errors in estimating F. Samejima's graded response model was examined across 324 conditions. Full information maximum likelihood (FIML) was compared with a 3-stage estimator for categorical item factor analysis (CIFA) when the unweighted least squares method was used in CIFA's third stage. CIFA is much faster in estimating multidimensional models, particularly with correlated dimensions. Overall, CIFA yields slightly more accurate parameter estimates, and FIML yields slightly more accurate standard errors. Yet, across most conditions, differences between methods are negligible. FIML is the best election in small sample sizes (200 observations). CIFA is the best election in larger samples (on computational grounds). Both methods failed in a number of conditions, most of which involved 200 observations, few indicators per dimension, highly skewed items, or low factor loadings. These conditions are to be avoided in applications.},
affiliation = {Department of Personality, Evaluation and Psychological Treatment, Faculty of Psychology, University of Barcelona, Spain. carlos.garcia@ub.edu},
number = {3},
pages = {275--99},
volume = {14},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Likelihood Functions, Psychometrics, Least-Squares Analysis, Models: Statistical, Logistic Models, Normal Distribution, Humans, Factor Analysis: Statistical, Psychological Tests, Reproducibility of Results},
date-added = {2010-04-07 11:34:09 +0200},
date-modified = {2010-04-07 11:34:09 +0200},
doi = {10.1037/a0015825},
pii = {2009-12975-006},
pmid = {19719362},
url = {http://psycnet.apa.org/index.cfm?fa=search.displayRecord&uid=2009-12975-006},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Forero-2009-Psychological%20Methods_Estimation%20of%20IRT%20gr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10570},
rating = {0}
}
@article{Connolly:2006p10990,
author = {Mary B Connolly and Glenda Hendson and Paul Steinbok},
journal = {Childs Nerv Syst},
title = {Tuberous sclerosis complex: a review of the management of epilepsy with emphasis on surgical aspects},
abstract = {OBJECTIVE: To review the management of epilepsy in patients with tuberous sclerosis complex (TSC) with an emphasis on surgical aspects, neuropathology, and pathogenesis. METHODS: Review of the literature and presentation of the authors' experience of surgery for refractory epilepsy in patients with TSC. RESULTS: TSC is a multisystem genetic disorder with variable phenotypic expression. TSC results from a mutation in the TSC1 gene on chromosome 9, which codes for hamartin, or in the TSC 2 gene on chromosome 16 which codes for tuberin. The majority of the patients have TSC as a result of spontaneous genetic mutations while in one-third of the patients, the disorder is inherited in an autosomal dominant manner. Epilepsy is the most common neurological complication, and up to 80-90% of individuals with TSC develop epilepsy at some point in their lifetime. The onset of epilepsy is typically in early childhood. Infantile spasms are a very common early seizure type although partial seizures may occur. Developmental delay, intellectual impairment, autism, behavioral problems, and neuropsychiatric disorders occur commonly in individuals with TSC and may be associated with poorly controlled epilepsy. Antiepileptic drugs are the first-line management for epilepsy but the ketogenic diet, resection of one or more tubers, corpus callosotomy, and vagus nerve stimulation are other therapeutic options for individuals with poorly controlled epilepsy.},
affiliation = {Division of Pediatric Neurology, Department of Pediatrics, University of British Columbia and British Columbia's Children's Hospital, Vancouver, British Columbia, Canada. mconnolly@cw.bc.ca},
number = {8},
pages = {896--908},
volume = {22},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Psychosurgery, Electroencephalography, Epilepsy, Magnetic Resonance Imaging, Humans, Cognition, Tumor Suppressor Proteins, Tuberous Sclerosis},
date-added = {2010-04-13 16:28:08 +0200},
date-modified = {2010-04-13 16:28:08 +0200},
doi = {10.1007/s00381-006-0130-7},
pmid = {16770618},
url = {http://www.springerlink.com/content/v1880528463n4262/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Connolly-2006-Childs%20Nerv%20Syst_Tuberous%20sclerosis%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10990},
rating = {0}
}
@article{Belfort:2008p5027,
author = {Mandy B Belfort and Sheryl L Rifas-Shiman and Janet W Rich-Edwards and Ken P Kleinman and Emily Oken and Matthew W Gillman},
journal = {Pediatrics},
title = {Infant growth and child cognition at 3 years of age},
abstract = {BACKGROUND: Infancy is a critical period for brain development. Few studies have examined the extent to which infant weight gain is associated with later neurodevelopmental outcomes in healthy populations. OBJECTIVE: The purpose of this work was to examine associations of infant weight gain from birth to 6 months with child cognitive and visual-motor skills at 3 years of age. PATIENTS AND METHODS: We studied 872 participants in Project Viva, an ongoing prospective, longitudinal, prebirth cohort. We abstracted birth weight from the medical chart and weighed infants at 6 months of age. We used the 2000 Centers for Disease Control and Prevention growth charts to derive weight-for-age z scores. Our primary predictor was infant weight gain, defined as the weight-for-age z score at 6 months adjusted for the weight-for-age z score at birth. At 3 years of age, we measured child cognition with the Peabody Picture Vocabulary Test III and visual-motor skills with the Wide Range Assessment of Visual Motor Abilities. RESULTS: Mean Peabody Picture Vocabulary Test III score was 104.2, and mean Wide Range Assessment of Visual Motor Abilities test score was 102.8. Mean birth weight z score was 0.21, and mean 6-month weight z score was 0.39. In multiple linear regression adjusted for child age, gender, gestational age, breastfeeding duration, primary language, and race/ethnicity; maternal age, parity, smoking status, and cognition; and parental education and income level, we found no association of infant weight gain with child Peabody Picture Vocabulary Test III score (-0.4 points per z score weight gain increment, 95% confidence interval -1.3, 0.6) or total Wide Range Assessment of Visual Motor Abilities standard score (-0.4 points, 95% confidence interval -1.2, 0.5). CONCLUSIONS: Slower infant weight gain was not associated with poorer neurodevelopmental outcomes in healthy, term-born 3-year-old children. These results should aid in determining optimal growth patterns in infants to balance risks and benefits of health outcomes through the life course.},
affiliation = {Children's Hospital Boston, Division of Newborn Medicine, Hunnewell 437, 300 Longwood Ave, Boston, MA 02115, USA. mandy.belfort@childrens.harvard.edu},
number = {3},
pages = {e689--95},
volume = {122},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Male, Follow-Up Studies, Female, Prospective Studies, Humans, Child Development, Cognition, Time Factors, Body Weight, Child: Preschool, Pregnancy, Body Height, Parent-Child Relations, Infant, Adult, Massachusetts},
date-added = {2010-02-05 19:58:07 +0100},
date-modified = {2010-02-05 19:58:07 +0100},
doi = {10.1542/peds.2008-0500},
pii = {122/3/e689},
pmid = {18762504},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5027},
rating = {0}
}
@article{Revelle:2007p11672,
author = {W Revelle},
title = {Experimental Approaches to the Study of Personality},
abstract = {A review of the use of experimental techniques to develop and test theories of personality processes. Threats to valid inference including problems of scaling, reliability, and unintended confounds are considered. Basic experi- mental designs are discussed as ways of eliminating some, but not all threats to validity. A number of basic analytical procedures are demonstrated using simulated data that can be accessed from the web based appendix.},
year = {2007},
date-added = {2010-05-14 21:11:35 +0200},
date-modified = {2010-05-14 21:12:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revelle-2007-_Experimental%20Approac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11672},
rating = {0}
}
@article{Bolton:1993,
author = {RN Bolton},
journal = {Marketing Science},
title = {Pretesting questionnaires: Content analysis of respondents' concurrent verbal protocols},
abstract = {Conventional questionnaire pretesting methods focus on directly identifying question defects, such as an ambiguous question. This paper proposes a new method that identifies respondents' cognitive difficulties as they form answers to survey questions. It entails a content analysis of concurrent verbal protocols elicited during pretest interviews. The effectiveness of the methodology is illustrated with pretests of multiple versions of the same survey. The results are used to illustrate how this method yields diagnostic information about questionnaire problems and improvements. Then, the results are compared with the results of observational monitoring by managers. The findings indicate that a questionnaire pretesting methodology that quantifies respondents' cognitive difficulties is a useful enhancement for identifying and "improving" defective questions.},
pages = {280--303},
volume = {12},
year = {1993},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p966},
rating = {0}
}
@article{Lange:1996p4731,
author = {N Lange},
journal = {Stat Med},
title = {Statistical approaches to human brain mapping by functional magnetic resonance imaging},
abstract = {Proper use of functional neuro-imaging through effective experimental design and modern statistical analysis provides new insights in current brain research. This tutorial has two aims: to describe aspects of this technology to applied statisticians and to provide some statistical ideas to neuroscientists unfamiliar with quantitative analytic methods that accommodate randomness. Introductory background material and ample references to current literature on the physics of magnetic resonance imaging, Fourier methods for image reconstruction and measures of image quality are included. Two of the statistical approaches mentioned here are extensions of established methods for longitudinal data analysis to the frequency domain. A recent case study provides real-world instances of approaches, problems and open questions encountered in current functional neuro-imaging research and an introduction to the analysis of spatial time series in this context.},
affiliation = {National Institutes of Health, Bethesda, MD 20892-9135, USA.},
number = {4},
pages = {389--428},
volume = {15},
year = {1996},
month = {Feb},
language = {eng},
keywords = {Fourier Analysis, Magnetic Resonance Imaging, Signal Processing: Computer-Assisted, Algorithms, Stochastic Processes, Gerstmann Syndrome, Research Design, Brain Mapping, Longitudinal Studies, Data Interpretation: Statistical, Humans, Statistics: Nonparametric},
date-added = {2010-01-30 16:20:10 +0100},
date-modified = {2010-01-30 16:20:10 +0100},
doi = {10.1002/(SICI)1097-0258(19960229)15:4<389::AID-SIM285>3.0.CO;2-J},
pii = {10.1002/(SICI)1097-0258(19960229)15:4<389::AID-SIM285>3.0.CO;2-J},
pmid = {8668868},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lange-1996-Stat%20Med_Statistical%20approach.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4731},
rating = {0}
}
@article{vanWalraven:2010p12085,
author = {Carl van Walraven and Peter C Austin and Douglas Manuel and Greg Knoll and Allison Jennings and Alan J Forster},
journal = {Journal of Clinical Epidemiology},
title = {The usefulness of administrative databases for identifying disease cohorts is increased with a multivariate model},
abstract = {BACKGROUND: Administrative databases commonly use codes to indicate diagnoses. These codes alone are often inadequate to accurately identify patients with particular conditions. In this study, we determined whether we could quantify the probability that a person has a particular disease-in this case renal failure-using other routinely collected information available in an administrative data set. This would allow the accurate identification of a disease cohort in an administrative database. METHODS: We determined whether patients in a randomly selected 100,000 hospitalizations had kidney disease (defined as two or more sequential serum creatinines or the single admission creatinine indicating a calculated glomerular filtration rate less than 60mL/min/1.73m(2)). The independent association of patient- and hospitalization-level variables with renal failure was measured using a multivariate logistic regression model in a random 50% sample of the patients. The model was validated in the remaining patients. RESULTS: Twenty thousand seven hundred thirteen patients had kidney disease (20.7%). A diagnostic code of kidney disease was strongly associated with kidney disease (relative risk: 34.4), but the accuracy of the code was poor (sensitivity: 37.9%; specificity: 98.9%). Twenty-nine patient- and hospitalization-level variables entered the kidney disease model. This model had excellent discrimination (c-statistic: 90.1%) and accurately predicted the probability of true renal failure. The probability threshold that maximized sensitivity and specificity for the identification of true kidney disease was 21.3% (sensitivity: 80.0%; specificity: 82.2%). CONCLUSION: Multiple variables available in administrative databases can be combined to quantify the probability that a person has a particular disease. This process permits accurate identification of a disease cohort in an administrative database. These methods may be extended to other diagnoses or procedures and could both facilitate and clarify the use of administrative databases for research and quality improvement.},
affiliation = {Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ontario, Canada; Institute for Clinical Evaluative Sciences, Toronto, Ontario, Canada; Faculty of Medicine, University of Ottawa, Ontario, Canada.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-24 12:31:17 +0200},
date-modified = {2010-05-24 12:31:17 +0200},
doi = {10.1016/j.jclinepi.2010.01.016},
pii = {S0895-4356(10)00095-8},
pmid = {20457509},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Walraven-2010-Journal%20of%20Clinical%20Epidemiology_The%20usefulness%20of%20ad-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12085},
rating = {0}
}
@article{Statnikov:2007p12871,
author = {A Statnikov and C F Aliferis},
title = {Are Random Forests Better than Support Vector Machines for Microarray-Based Cancer Classification?},
abstract = {Cancer diagnosis and clinical outcome prediction are among the most important emerging applications of gene expression microarray technology with sev- eral molecular signatures on their way toward clini- cal deployment. Use of the most accurate decision support algorithms available for microarray gene expression data is a critical ingredient in order to develop the best possible molecular signatures for patient care. As suggested by a large body of litera- ture to-date, support vector machines can be consi- dered ``best of class'' algorithms for classification of such data. Recent work however found that random forest classifiers outperform support vector ma- chines. In the present paper we point to several bi- ases of this prior work and conduct a new unbiased evaluation of the two algorithms. Our experiments using 18 diagnostic and prognostic datasets show that support vector machines outperform random forests often by a large margin.},
year = {2007},
date-added = {2010-06-24 12:54:06 +0200},
date-modified = {2010-06-24 12:54:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Statnikov-2007-_Are%20Random%20Forests%20B.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12871},
rating = {0}
}
@article{Schemper:1997p4699,
author = {M Schemper and G Heinze},
journal = {Stat Med},
title = {Probability imputation revisited for prognostic factor studies},
abstract = {The analysis of prognostic factor studies by Cox or logistic regression models is often impeded by missing covariate values. In 1990 Schemper and Smith recommended a conditional probability imputation technique (PIT) for the analysis of treatment studies which can be easily applied using standard software and which has been demonstrated to outperform the complete case and omission of covariates strategies. Recent research, however, showed that PIT cannot universally be recommended and it was concluded that model-based methods should be preferred. We agree with these conclusions but also think that there is enough empirical evidence to judge the performance of PIT to be satisfactory in typical prognostic factor studies. Furthermore, comparisons of PIT with multiple imputation in the same context did not indicate an advantage of the latter more involved technique. By means of an analysis of a prostate cancer data set various aspects of application of PIT are discussed, in particular that PIT permits direct comparability of marginal and partial effects analyses. We conclude that PIT continues to be an appropriate and attractive choice for analyses of prognostic factor studies.},
affiliation = {Department of Medical Computer Sciences, Vienna University, Austria.},
number = {1-3},
pages = {73--80},
volume = {16},
year = {1997},
month = {Jan},
language = {eng},
keywords = {Probability, Prostatic Neoplasms, Monte Carlo Method, Randomized Controlled Trials as Topic, Male, Likelihood Functions, Logistic Models, Prognosis, Prospective Studies, Data Interpretation: Statistical, Survival Analysis, Humans},
date-added = {2010-01-30 16:18:30 +0100},
date-modified = {2010-01-30 16:18:30 +0100},
pii = {10.1002/(SICI)1097-0258(19970115)16:1<73::AID-SIM472>3.0.CO;2-Z},
pmid = {9004384},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schemper-1997-Stat%20Med_Probability%20imputati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4699},
rating = {0}
}
@article{Anonymous:2010p1846,
title = {A computerized adaptive testing procedure applied to ordinal polytomous personality item response},
date-added = {2010-01-10 10:44:58 +0100},
date-modified = {2010-01-10 19:36:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/A%20computerized%20adapt.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1846},
read = {Yes},
rating = {0}
}
@misc{Geerlings:2005,
author = {H Geerlings},
journal = {Miscellaneous},
title = {The accuracy of estimation procedures based on the imputation of plausible values},
year = {2005},
month = {Sep},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Geerlings-2005-Miscellaneous_The%20accuracy%20of%20esti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1920},
rating = {0}
}
@article{GlezPena:2009p11613,
author = {Daniel Glez-Pe{\~n}a and Rodrigo Alvarez and Fernando D{\'\i}az and Florentino Fdez-Riverola},
journal = {BMC Bioinformatics},
title = {DFP: a Bioconductor package for fuzzy profile identification and gene reduction of microarray data},
abstract = {BACKGROUND: Expression profiling assays done by using DNA microarray technology generate enormous data sets that are not amenable to simple analysis. The greatest challenge in maximizing the use of this huge amount of data is to develop algorithms to interpret and interconnect results from different genes under different conditions. In this context, fuzzy logic can provide a systematic and unbiased way to both (i) find biologically significant insights relating to meaningful genes, thereby removing the need for expert knowledge in preliminary steps of microarray data analyses and (ii) reduce the cost and complexity of later applied machine learning techniques being able to achieve interpretable models. RESULTS: DFP is a new Bioconductor R package that implements a method for discretizing and selecting differentially expressed genes based on the application of fuzzy logic. DFP takes advantage of fuzzy membership functions to assign linguistic labels to gene expression levels. The technique builds a reduced set of relevant genes (FP, Fuzzy Pattern) able to summarize and represent each underlying class (pathology). A last step constructs a biased set of genes (DFP, Discriminant Fuzzy Pattern) by intersecting existing fuzzy patterns in order to detect discriminative elements. In addition, the software provides new functions and visualisation tools that summarize achieved results and aid in the interpretation of differentially expressed genes from multiple microarray experiments. CONCLUSION: DFP integrates with other packages of the Bioconductor project, uses common data structures and is accompanied by ample documentation. It has the advantage that its parameters are highly configurable, facilitating the discovery of biologically relevant connections between sets of genes belonging to different pathologies. This information makes it possible to automatically filter irrelevant genes thereby reducing the large volume of data supplied by microarray experiments. Based on these contributions GENECBR, a successful tool for cancer diagnosis using microarray datasets, has recently been released.},
affiliation = {Escuela Superior de Ingenier{\'\i}a Inform{\'a}tica, University of Vigo, Edificio Polit{\'e}cnico, Campus Universitario As Lagoas s/n, 32004 Ourense, Spain. dgpena@uvigo.es},
pages = {37},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Gene Expression Profiling, Fuzzy Logic, Genomics, Oligonucleotide Array Sequence Analysis, Software},
date-added = {2010-05-11 21:43:47 +0200},
date-modified = {2010-07-29 20:21:12 +0200},
doi = {10.1186/1471-2105-10-37},
pii = {1471-2105-10-37},
pmid = {19178723},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glez-Pe%C3%B1a-2009-BMC%20Bioinformatics_DFP%20a%20Bioconductor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11613},
rating = {0}
}
@article{Dunlop:2010p12761,
author = {Boadie W Dunlop and Thomas Li and Susan G Kornstein and Edward S Friedman and Anthony J Rothschild and Ron Pedersen and Philip Ninan and Martin Keller},
journal = {Psychiatry Res},
title = {Correlation between patient and clinician assessments of depression severity in the PREVENT study},
abstract = {BACKGROUND: The degree of agreement between patient- and clinician-rated scales of depressive severity varies widely. This study analyzed agreement between commonly used depression rating scales in the Prevention of Recurrent Episodes of Depression with Venlafaxine Extended Release (ER) for Two Years (PREVENT) trial. METHODS: The PREVENT trial was a multiphase, randomized, double-blind study of patients with recurrent major depressive disorder. This secondary analysis evaluated acute (10weeks) and continuation phase (6months) data. Pearson correlation coefficients at each acute-phase (weekly) and continuation-phase (monthly) visit were calculated for patient-rated (30-item Inventory of Depressive Symptomatology-Self-Rated [IDS-SR30] and clinician-rated (17-item Hamilton Rating Scale for Depression [HAM-D17] and Clinical Global Impressions-Severity [CGI-S]) measures and for response and remission. RESULTS: Data from 1,047 patients were analyzed. The respective correlation coefficients at baseline, week 10, and month 6 were: IDS-SR30: HAM-D17: 0.46, 0.75, 0.70; and for IDS-SR30: CGI-S 0.28, 0.67, 0.65. Agreement between IDS-SR30- and HAM-D17-defined remission and response was relatively poor: week 10, 0.52 and 0.34, respectively; month 6, 0.45 and 0.32, respectively. CONCLUSIONS: These findings suggest that patient-rated measures of depression severity do not correspond strongly with clinician ratings, and are particularly poor prior to the initiation of treatment.},
affiliation = {Department of Psychiatry, Emory University School of Medicine, Atlanta, GA, USA. bdunlop@emory.edu},
number = {1-2},
pages = {177--83},
volume = {177},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-06-15 22:52:41 +0200},
date-modified = {2010-06-15 22:52:54 +0200},
doi = {10.1016/j.psychres.2010.02.008},
pii = {S0165-1781(10)00054-5},
pmid = {20304503},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dunlop-2010-Psychiatry%20Res_Correlation%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12761},
rating = {4}
}
@article{Newsom:2010p6790,
author = {Newsom},
title = {Some Clarifications and Recommendations on Fit Indices},
year = {2010},
date-added = {2010-03-05 22:28:10 +0100},
date-modified = {2010-03-05 22:28:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newsom-2010-_Some%20Clarifications.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6790},
rating = {0}
}
@article{McArdle:2006p4943,
author = {John J McArdle},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Latent curve analyses of longitudinal twin data using a mixed-effects biometric approach},
abstract = {In a recent article McArdle and Prescott (2005) showed how simultaneous estimation of the biometric parameters can be easily programmed using current mixed-effects modeling programs (e.g., SAS PROC MIXED). This article extends these concepts to deal with mixed-effect modeling of longitudinal twin data. The biometric basis of a polynomial growth curve model was used by Vandenberg and Falkner (1965) and this general class of longitudinal models was represented in structural equation form as a latent curve model by McArdle (1986). The new mixed-effects modeling approach presented here makes it easy to analyze longitudinal growth-decline models with biometric components based on standard maximum likelihood estimation and standard indices of goodness-of-fit (i.e., chi(2), df, epsilon(a)). The validity of this approach is first checked by the creation of simulated longitudinal twin data followed by numerical analysis using different computer programs (i.e., Mplus, Mx, MIXED, NLMIXED). The practical utility of this approach is examined through the application of these techniques to real longitudinal data from the Swedish Adoption/Twin Study of Aging (Pedersen et al., 2002). This approach generally allows researchers to explore the genetic and nongenetic basis of the latent status and latent changes in longitudinal scores in the absence of measurement error. These results show the mixed-effects approach easily accounts for complex patterns of incomplete longitudinal or twin pair data. The results also show this approach easily allows a variety of complex latent basis curves, such as the use of age-at-testing instead of wave-of-testing. Natural extensions of this mixed-effects longitudinal approach include more intensive studies of the available data, the analysis of categorical longitudinal data, and mixtures of latent growth-survival/frailty models.},
affiliation = {Department of Psychology, University of Southern California, Los Angeles, 90089, USA. jmcardle@usc.edu},
number = {3},
pages = {343--59},
volume = {9},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Models: Statistical, Humans, Longitudinal Studies, Biometry, Cognition Disorders, Twin Studies as Topic, Software, Models: Genetic},
date-added = {2010-02-03 20:58:47 +0100},
date-modified = {2010-07-29 19:54:54 +0200},
doi = {10.1375/183242706777591263},
pmid = {16790145},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4943},
rating = {0}
}
@article{Neale:2003p7556,
author = {Michael C Neale},
journal = {Twin Res},
title = {A finite mixture distribution model for data collected from twins},
abstract = {Most analyses of data collected from a classical twin study of monozygotic (MZ) and dizygotic (DZ) twins assume that zygosity has been diagnosed without error. However, large scale surveys frequently resort to questionnaire-based methods of diagnosis which classify twins as MZ or DZ with less than perfect accuracy. This article describes a mixture distribution approach to the analysis of twin data when zygosity is not perfectly diagnosed. Estimates of diagnostic accuracy are used to weight the likelihood of the data according to the probability that any given pair is either MZ or DZ. The performance of this method is compared to fully accurate diagnosis, and to the analysis of samples that include some misclassified pairs. Conventional analysis of samples containing misclassified pairs yields biased estimates of variance components, such that additive genetic variance (A) is underestimated while common environment (C) and specific environment (E) components are overestimated. The bias is non-trivial; for 10% misclassification, true values of Additive genetic: Common environment: Specific Environment variance components of.6:.2:.2 are estimated as.48:.29:.23, respectively. The mixture distribution yields unbiased estimates, while showing relatively little loss of statistical precision for misclassification rates of 15% or less. The method is shown to perform quite well even when no information on zygosity is available, and may be applied when pair-specific estimates of zygosity probabilities are available.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, Richmond 23298, USA. neale@hsc.vcu.edu},
number = {3},
pages = {235--9},
volume = {6},
year = {2003},
month = {Jun},
language = {eng},
keywords = {Humans, Research Design, Twins, Models: Statistical, Twin Studies as Topic},
date-added = {2010-03-14 10:54:47 +0100},
date-modified = {2010-03-14 10:54:59 +0100},
doi = {10.1375/136905203765693898},
pmid = {12855073},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Neale-2003-Twin%20Res_A%20finite%20mixture%20dis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7556},
rating = {3}
}
@article{Maas:2005,
author = {H L J van der Maas and M E J Raijmakers and I Visser},
journal = {Behavior research methods},
title = {Inferring the structure of latent class models using a genetic algorithm},
number = {2},
pages = {340--352},
volume = {37},
year = {2005},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-07-29 19:18:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maas-2005-Behavior%20research%20methods_Inferring%20the%20struct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2140},
rating = {0}
}
@article{Krummenauer:2002p4605,
author = {F Krummenauer and B Dick and O Schwenn and N Pfeiffer},
journal = {British Journal of Ophtalmology},
title = {The determination of sample size in
controlled clinical trials in
ophthalmology},
pages = {946--947},
volume = {86},
year = {2002},
date-added = {2010-01-29 22:46:39 +0100},
date-modified = {2010-01-29 22:47:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Krummenauer-2002-British%20Journal%20of%20Ophtalmology_The%20determination%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4605},
rating = {0}
}
@article{Whitley:2002p8045,
author = {Elise Whitley and Jonathan Ball},
journal = {Crit Care},
title = {Statistics review 4: sample size calculations},
abstract = {The present review introduces the notion of statistical power and the hazard of under-powered studies. The problem of how to calculate an ideal sample size is also discussed within the context of factors that affect power, and specific methods for the calculation of sample size are presented for two common scenarios, along with extensions to the simplest case.},
affiliation = {Medical Statistics, University of Bristol, Bristol, UK.},
number = {4},
pages = {335--41},
volume = {6},
year = {2002},
month = {Aug},
language = {eng},
keywords = {Research Design, Humans, Statistics as Topic, Clinical Trials as Topic, Shock: Septic, Sample Size, Respiratory Distress Syndrome: Adult},
date-added = {2010-03-20 19:44:05 +0100},
date-modified = {2010-03-20 19:44:22 +0100},
pmid = {12225610},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Whitley-2002-Crit%20Care_Statistics%20review%204.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8045},
rating = {5}
}
@article{Mccrae:2010p11675,
author = {R R Mccrae and O P John},
title = {An Introduction to the Five-Factor Model and Its Applications},
abstract = {The five-factor model of personality is a hierarchical organi- zation of personality traits in terms of five basic dimensions: Extraversion, Agreeableness, Conscientiousness, Neuroticism, and Openness to Experience. Research using both natural language adjectives and theoretically based per- sonality questionnaires supports the comprehensiveness of the model and its applicability across observers and cultures. This article summarizes the history of the model and its supporting evidence; discusses conceptions of the nature of the factors; and outlines an agenda for theorizing about the origins and operation of the factors. We argue that the model should prove useful both for individual assessment and for the elucidation of a number of topics of interest to personality psychologists.},
date-added = {2010-05-14 21:14:55 +0200},
date-modified = {2010-05-14 21:15:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mccrae--_An%20Introduction%20to%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11675},
rating = {4}
}
@article{Hattie:1985p2685,
author = {J Hattie},
journal = {Applied Psychological Measurement},
title = {Methodology Review: Assessing Unidimensionality of Tests and ltems},
number = {2},
pages = {139--164},
volume = {9},
year = {1985},
date-added = {2010-01-13 10:02:35 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hattie-1985-Applied%20Psychological%20Measurement_Methodology%20Review.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2685},
rating = {0}
}
@article{Horton:2004p860,
author = {N J Horton and E R Brown and Linuan Qian},
journal = {The American Statistician},
title = {Use of R as a Toolbox for Mathematical Statistics Exploration},
abstract = {The R language, a freely available environment for statistical computing and graphics is widely used in many fields. This ``expert-friendly'' system has a powerful command language and programming environment, combined with an active user community. We discuss how R is ideal as a platform to support experimentation in mathematical statistics, both at the undergraduate and graduate levels. Using a series of case studies and activities, we describe how R can be used in a mathematical statistics course as a toolbox for experimentation. Examples include the calculation of a running average, maximization of a nonlinear function, resampling of a statistic, simple Bayesian modeling, sampling from multivariate normal, and estimation of power. These activities, often requiring only a few dozen lines of code, offer students the opportunity to explore statistical concepts and experiment. In addition, they provide an introduction to the framework and idioms available in this rich environment.},
number = {4},
pages = {343--357},
volume = {58},
year = {2004},
keywords = {Statistical computing, Mathematical statistics education},
date-added = {2010-01-03 17:51:50 +0100},
date-modified = {2010-01-03 17:53:53 +0100},
doi = {10.1198/000313004X5572},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Horton-2004-The%20American%20Statistician_Use%20of%20R%20as%20a%20Toolbo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p860},
rating = {0}
}
@article{Harrison:2009p11767,
author = {Mark J Harrison and Linda M Davies and Nick J Bansback and Melanie J McCoy and Tracey M Farragher and Suzanne M M Verstappen and Andrew Hassell and Deborah P M Symmons},
journal = {Value Health},
title = {Why do patients with inflammatory arthritis often score states "worse than death" on the EQ-5D? An Investigation of the EQ-5D classification system},
abstract = {OBJECTIVE: Using inflammatory arthritis patients as an example, we investigate EuroQol-5D (EQ-5D) profiles resulting in states worse than death (WTD), and the heath status of patients occupying these states. METHODS: Baseline data from two UK trials were used that reflected the range of arthritis states/severity found in routine practice. EQ-5D profiles resulting in negative valuations (i.e., states WTD) based on UK weights were identified. EQ-5D scores for these profiles from alternative valuation sets, including a reanalysis of the UK weights, were compared. The health status and characteristics of patients, and factors associated with patients in the low distribution of the EQ-5D and those with WTD EQ-5D scores were identified. RESULTS: Seven hundred patients were included in the analysis. Sixty-two (9%) patients occupied states WTD. Patients occupied 9 of the possible 84 health profiles with negative scores (53% occupied one profile); this profile was not rated WTD by any of the alternative EQ-5D scoring algorithms. All WTD profiles included severe pain/discomfort plus moderate problems in >or=3 other domains. Patients with WTD valuations reported higher levels of pain, and feeling downhearted and low on alternative health status measures. CONCLUSIONS: Pain was the predominant factor in the WTD EQ-5D profiles occupied by arthritis patients. Patients occupying states WTD have poorer health-related quality of life than patients in low "better than death" states. Valuations of profiles vary according to how sets of preference weights for health profiles were developed. Further research should explore whether WTD valuations are supported by qualitative evidence and reflect the patient's health and experience of disease.},
affiliation = {arc Epidemiology Unit, The University of Manchester, Manchester, UK. mark.harrison@manchester.ac.uk},
number = {6},
pages = {1026--34},
volume = {12},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Multicenter Studies as Topic, Logistic Models, Severity of Illness Index, Middle Aged, Aged, Death, Quality of Life, Female, Depression, Arthritis, Health Status, Randomized Controlled Trials as Topic, Arthritis: Rheumatoid, Sickness Impact Profile, Humans, Great Britain, Male, Pain},
date-added = {2010-05-23 10:36:26 +0200},
date-modified = {2010-05-23 10:36:27 +0200},
doi = {10.1111/j.1524-4733.2009.00565.x},
pii = {VHE565},
pmid = {19473335},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harrison-2009-Value%20Health_Why%20do%20patients%20with.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11767},
rating = {0}
}
@article{Hofstee:1992p13834,
author = {W K Hofstee and B de Raad and L R Goldberg},
journal = {J Pers Soc Psychol},
title = {Integration of the big five and circumplex approaches to trait structure},
abstract = {To integrate the 5-dimensional simple-structure and circumplex models of personality, the Abridged Big Five Dimensional Circumplex (AB5C) taxonomy of personality traits was developed, consisting of the 10 circumplexes that can be formed by pitting each of the Big Five factors against one another. The model maps facets of the Big Five dimensions as blends of 2 factors. An application to data consisting of 636 self-ratings and peer ratings on 540 personality trait adjectives yielded 34 well-defined facets out of a possible 45. The AB5C solution is compared with simple-structure and lower dimensional circumplex solutions, and its integrative and corrective potential are discussed, as well as its limitations.},
affiliation = {Department of Psychology, University of Groningen, The Netherlands.},
number = {1},
pages = {146--63},
volume = {63},
year = {1992},
month = {Jul},
language = {eng},
keywords = {Models: Psychological, Adult, Personality Inventory, Humans, Psychometrics, Personality Assessment},
date-added = {2010-07-29 17:15:09 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
pmid = {1494982},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hofstee-1992-J%20Pers%20Soc%20Psychol_Integration%20of%20the%20b.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13834},
rating = {0}
}
@article{King:2010p6517,
author = {Madeleine T King and Martin R Stockler and David F Cella and David Osoba and David T Eton and Joanna Thompson and Amy R Eisenstein},
journal = {Journal of Clinical Epidemiology},
title = {Meta-analysis provides evidence-based effect sizes for a cancer-specific quality-of-life questionnaire, the FACT-G},
abstract = {OBJECTIVE: To compare Cohen's guidelines for small (0.2), medium (0.5), and large (0.8) effect sizes with empirical estimates for a cancer-specific health-related quality-of-life questionnaire (HRQOL), the Functional Assessment of Cancer Therapy - General (FACT-G). METHODS: Seventy-one papers satisfied inclusion criteria for meta-analysis. Blinded to the HRQOL results, three "experts" (with expertise in interpreting the FACT-G questionnaire and managing cancer patients), predicted the relative magnitude of HRQOL mean differences. Size classes (small, medium, large) were defined in terms of relevance to clinical decision making. The experts worked independently and based their predictions on patient characteristics and clinical circumstances. Their judgments were linked with FACT-G results and inverse-variance-weighted mean effect sizes calculated for each size class. RESULTS: At least two experts were perfectly concordant and up to one was discordant by at most one size category for 833 of the mean differences; for these, weighted kappas were generally in the "substantial" range (0.60-0.79). Of these mean differences, 617 were cross-sectional; small, medium, and large mean effect sizes were physical well-being 0.42, 0.87, 1.6; functional well-being 0.37, 0.71, 1.6; emotional well-being 0.32, 0.40, no large differences; and social well-being 0.14, 0.23, no large differences. Two hundred and sixteen longitudinal mean differences yielded small and medium effect sizes: physical well-being 0.26, 0.34; functional well-being 0.14, 0.28; emotional well-being 0.27, 0.23; and social well-being 0.08, 0.01. There was virtually no evidence for large longitudinal effects. CONCLUSION: These results provide specific, evidence-based alternatives to Cohen's generic guidelines, for use in sample-size calculations for the FACT-G and interpretation of the clinical significance of effects measured with FACT-G.},
affiliation = {Quality of Life Office, Psycho-oncology Co-operative Research Group, School of Psychology, University of Sydney, Sydney, NSW 2006, Australia; Centre for Health Economics Research and Evaluation, University of Technology, Sydney, NSW, Australia.},
number = {3},
pages = {270--281},
volume = {63},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-02-23 08:41:39 +0100},
date-modified = {2010-02-23 08:41:39 +0100},
doi = {10.1016/j.jclinepi.2009.05.001},
pii = {S0895-4356(09)00149-8},
pmid = {19716264},
local-url = {file://localhost/Users/chl/Dropbox/Papers/King-2010-Journal%20of%20Clinical%20Epidemiology_Meta-analysis%20provid-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6517},
rating = {0}
}
@article{Medvedev:2009p9911,
author = {Paul Medvedev and Monica Stanciu and Michael Brudno},
journal = {Nat Methods},
title = {Computational methods for discovering structural variation with next-generation sequencing},
abstract = {In the last several years, a number of studies have described large-scale structural variation in several genomes. Traditionally, such methods have used whole-genome array comparative genome hybridization or single-nucleotide polymorphism arrays to detect large regions subject to copy-number variation. Later techniques have been based on paired-end mapping of Sanger sequencing data, providing better resolution and accuracy. With the advent of next-generation sequencing, a new generation of methods is being developed to tackle the challenges of short reads, while taking advantage of the high coverage the new sequencing technologies provide. In this survey, we describe these methods, including their strengths and their limitations, and future research directions.},
affiliation = {Department of Computer Science, University of Toronto, Toronto, Ontario, Canada.},
number = {11 Suppl},
pages = {S13--20},
volume = {6},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Computational Biology, Genomics, Genome, Sequence Analysis: DNA, Humans, Algorithms, Genetic Variation, Base Sequence},
date-added = {2010-03-31 16:06:25 +0200},
date-modified = {2010-03-31 16:06:25 +0200},
doi = {10.1038/nmeth.1374},
pii = {nmeth.1374},
pmid = {19844226},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Medvedev-2009-Nat%20Methods_Computational%20method.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9911},
rating = {0}
}
@article{Manning:2009p3374,
author = {Alisa K Manning and Julius Suh Ngwa and Audrey E Hendricks and Ching-Ti Liu and Andrew D Johnson and Jos{\'e}e Dupuis and L Adrienne Cupples},
journal = {BMC Proc},
title = {Incorporating biological knowledge in the search for gene x gene interaction in genome-wide association studies},
abstract = {ABSTRACT : We sought to find significant gene x gene interaction in a genome-wide association analysis of rheumatoid arthritis (RA) by performing pair-wise tests of interaction among collections of single-nucleotide polymorphisms (SNPs) obtained by one of two methods. The first method involved screening the results of the genome-wide association analysis for main effects p-values < 1 x 10-4. The second method used biological databases such as the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes to define gene collections that each contained one of four genes with known associations with RA: PTPN22, STAT4, TRAF1, and C5. We used a permutation approach to determine whether any of these SNP sets had empirical enrichment of significant interaction effects. We found that the SNP set obtained by the first method was significantly enriched with significant interaction effects (empirical p = 0.003). Additionally, we found that the "protein complex assembly" collection of genes from the Gene Ontology collection containing the TRAF1 gene was significantly enriched with interaction effects with p-values < 1 x 10-8 (empirical p = 0.012).},
affiliation = {School of Public Health, Boston University, 715 Albany Street, Boston, Massachusetts 02118, USA. amanning@bu.edu.},
pages = {S81},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-15 14:40:54 +0100},
date-modified = {2010-01-15 14:40:56 +0100},
pmid = {20018077},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3374},
rating = {3}
}
@article{MorenoJimenez:2007p13048,
author = {Bernardo Moreno-Jim{\'e}nez and Balbina L{\'o}pez Blanco and Alfredo Rodr{\'\i}guez-Mu{\~n}oz and Eva Garrosa Hern{\'a}ndez},
journal = {J Psychosom Res},
title = {The influence of personality factors on health-related quality of life of patients with inflammatory bowel disease},
abstract = {OBJECTIVE: The aim of the study was to examine the influence of personality factors on health-related quality of life (HRQOL) in patients with inflammatory bowel disease (IBD). METHODS: A total of 120 individuals, 60 with ulcerative colitis and 60 with Crohn's disease, filled out the Inflammatory Bowel Disease Questionnaire, the Rosenberg Self-Esteem Scale, the Neuroticism scale of the Eysenck Personality Inventory, and a scale about difficulty describing feelings to other people. Sociodemographic and clinical information was also collected. RESULTS: Results of hierarchical regression analysis, after controlling for possible confounder effects of demographic and clinical variables, showed the predictive power of the block of personality variables, accounting for significant amounts (13-22%) of variance across the four HRQOL measures. Except for self-esteem, which was the factor most closely related to social functioning, neuroticism seemed to be the most closely related to the four indicators of quality of life. It was also found that greater difficulty in describing feelings was linked to poorer HRQOL. CONCLUSION: In summary, some personality factors are useful for understanding the process of HRQOL in patients with IBD. Recognizing these differences may enrich clinical research and may be crucial when designing interventions aimed at treatment effectiveness.},
affiliation = {Department of Biological and Health Psychology, Faculty of Psychology, Autonomous University of Madrid, Madrid, Spain. bernardo.moreno@uam.es},
number = {1},
pages = {39--46},
volume = {62},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Psychotherapy, Male, Adaptation: Psychological, Aged, Patient Satisfaction, Adult, Female, Neurotic Disorders, Middle Aged, Colitis: Ulcerative, Quality of Life, Affective Symptoms, Humans, Character, Self Concept, Needs Assessment, Sick Role, Crohn Disease},
date-added = {2010-06-26 09:44:13 +0200},
date-modified = {2010-06-26 09:44:13 +0200},
doi = {10.1016/j.jpsychores.2006.07.026},
pii = {S0022-3999(06)00355-2},
pmid = {17188119},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moreno-Jim%C3%A9nez-2007-J%20Psychosom%20Res_The%20influence%20of%20per.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13048},
rating = {0}
}
@article{Hernandez:2006,
author = {JM Hernandez and Victor J Rubio and Javier Revuelta and Jos{\'e} Santacreu},
journal = {Educational and Psychological Measurement},
title = {A Procedure for Estimating Intrasubject Behavior Consistency},
abstract = {Trait psychology implicitly assumes consistency of the personal traits. Mischel, however, argued against the idea of a general consistency of human beings. The present article aims to design a statistical procedure based on an adaptation of the {\$}\pi^*{\$} statistic to measure the degree of intraindividual consistency independently of the measure used. Three studies were carried out for testing the suitability of the {\$}\pi^*{\$} statistic and the proportion of subjects who act consistently. Results have shown the appropriateness of the statistic proposed and that the percentage of consistent individuals depends on whether test items can be assumed as equivalents and the number of response alternatives they contained. The results suggest that the percentage of consistent subjects is far from 100%, and this percentage decreases when items are equivalent. Moreover, the greater the number of response options, the lesser the percentage of consistent individuals.},
number = {3},
pages = {417--434},
volume = {66},
year = {2006},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-08-22 20:58:04 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2086},
rating = {0}
}
@article{Wicherts:2010p5615,
author = {J M Wicherts and D Borsboom and C V Dolan},
journal = {Personality and Individual Differences},
title = {Why national IQs do not support evolutionary theories of intelligence},
abstract = {Kanazawa (2008), Templer (2008), and Templer and Arikawa (2006) claimed to have found empirical support for evolutionary theories of race differences in intelligence by correlating estimates of national IQ with indicators of reproductive strategies, temperature, and geographic distance from Africa. In this paper we criticize these studies on methodological, climatic, and historical grounds. We show that these studies assume that the Flynn Effect is either nonexistent or invariant with respect to different regions of the world, that there have been no migrations and climatic changes over the course of evolution, and that there have been no trends over the last century in indicators of reproductive strategies (e.g., declines in fertility and infant mortality). In addition, we show that national IQs are strongly confounded with the current developmental status of countries. National IQs correlate with all the variables that have been suggested to have caused the Flynn Effect in the developed world.},
pages = {91--96},
volume = {48},
year = {2010},
date-added = {2010-02-12 15:50:51 +0100},
date-modified = {2010-02-12 15:51:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wicherts-2010-Personality%20and%20Individual%20Differences_Why%20national%20IQs%20do.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5615},
rating = {0}
}
@article{Hardouin:2007a,
author = {Jean-Benoit Hardouin},
journal = {Journal of Statistical Software},
title = {Non parametric item response theory with SAS and Stata},
year = {2007},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardouin-2007-Journal%20of%20Statistical%20Software_Non%20parametric%20item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2228},
rating = {0}
}
@article{Eriksson:2010p13488,
author = {Nicholas Eriksson and J Michael Macpherson and Joyce Y Tung and Lawrence S Hon and Brian Naughton and Serge Saxonov and Linda Avey and Anne Wojcicki and Itsik Pe'er and Joanna Mountain},
journal = {PLoS Genet},
title = {Web-based, participant-driven studies yield novel genetic associations for common traits},
abstract = {Despite the recent rapid growth in genome-wide data, much of human variation remains entirely unexplained. A significant challenge in the pursuit of the genetic basis for variation in common human traits is the efficient, coordinated collection of genotype and phenotype data. We have developed a novel research framework that facilitates the parallel study of a wide assortment of traits within a single cohort. The approach takes advantage of the interactivity of the Web both to gather data and to present genetic information to research participants, while taking care to correct for the population structure inherent to this study design. Here we report initial results from a participant-driven study of 22 traits. Replications of associations (in the genes OCA2, HERC2, SLC45A2, SLC24A4, IRF4, TYR, TYRP1, ASIP, and MC1R) for hair color, eye color, and freckling validate the Web-based, self-reporting paradigm. The identification of novel associations for hair morphology (rs17646946, near TCHH; rs7349332, near WNT10A; and rs1556547, near OFCC1), freckling (rs2153271, in BNC2), the ability to smell the methanethiol produced after eating asparagus (rs4481887, near OR2M7), and photic sneeze reflex (rs10427255, near ZEB2, and rs11856995, near NR2F2) illustrates the power of the approach.},
affiliation = {23andMe, Mountain View, California, United States of America. nick@23andme.com},
number = {6},
pages = {e1000993},
volume = {6},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-07-01 22:22:45 +0200},
date-modified = {2010-07-01 22:22:50 +0200},
doi = {10.1371/journal.pgen.1000993},
pmid = {20585627},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eriksson-2010-PLoS%20Genet_Web-based%20participa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13488},
rating = {3}
}
@article{Kakade:2010p1550,
author = {S M Kakade and D P Foster},
title = {Multi-View Regression via Canonical Correlation Analysis},
abstract = {In the multi-view regression problem, we have a regression problem where the input variable (which is a real vector) can be par- titioned into two different views, where it is assumed that either view of the input is sufficient to make accurate predictions --- this is essen- tially (a significantly weaker version of) the co-training assumption for the regression problem.
We provide a semi-supervised algorithm which first uses unlabeled data to learn a norm (or, equivalently, a kernel) and then uses labeled data in a ridge regression algorithm (with this induced norm) to provide the predictor. The unlabeled data is used via canonical correlation analysis (CCA, which is a closely related to PCA for two random variables) to derive an appropriate norm over functions. We are able to character- ize the intrinsic dimensionality of the subsequent ridge regression prob- lem (which uses this norm) by the correlation coefficients provided by CCA in a rather simple expression. Interestingly, the norm used by the ridge regression algorithm is derived from CCA, unlike in standard ker- nel methods where a special apriori norm is assumed (i.e. a Banach space is assumed). We discuss how this result shows that unlabeled data can decrease the sample complexity.},
date-added = {2010-01-07 16:35:22 +0100},
date-modified = {2010-07-11 09:51:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kakade--_Multi-View%20Regressio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1550},
rating = {4}
}
@article{Orlando:2003p2694,
author = {M Orlando and D Thissen},
journal = {Applied Psychological Measurement},
title = {Further Investigation of the Performance of S-X2: An Item Fit Index for Use With Dichotomous Item Response Theory Models},
abstract = {This study presents new findings on the utility of S − X2 as an item fit index for dichotomous item response theory models. Results are based on a simulation study in which item responses were generated and calibrated for 100 tests under each of 27 conditions. The item fit indices S − X2 and Q1 − X2 were calculated for each item. ROC curves were constructed based on the hit and false alarm rates of the two indices. Examination of these curves indicated that in general, the performance of S − X2 improved with test length and sample size. The performance of S − X2 was superior to that of Q1 − X2 under most but not all conditions. Results from this study imply that
S − X2 may be a useful tool in detecting the misfit of one item contained in an otherwise well-fitted test, lending additional support to the utility of the index for use with dichotomous item response theory models.},
number = {4},
pages = {289--298},
volume = {27},
year = {2003},
date-added = {2010-01-13 10:13:19 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orlando-2003-Applied%20Psychological%20Measurement_Further%20Investigatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2694},
rating = {0}
}
@article{Trull:1997p8316,
author = {T J Trull and D C Geary},
journal = {J Pers Assess},
title = {Comparison of the big-five factor structure across samples of Chinese and American adults},
abstract = {We compared the factor structure of Goldberg's (1992) 50-item Bipolar Rating Scale (50-BRS) in samples of Chinese (n = 198) and American (n = 303) students. Results confirmed the hypothesized five-factor pattern for the U.S. sample, and a simultaneous multisample confirmatory factor analysis showed that the same five-factor pattern fit the item covariances in the Chinese sample. High levels of internal consistency were found within each sample, and a high degree of congruency of corresponding item factor loadings was obtained across samples. Overall, results supported the potential utility of the Five-Factor Model and the 50-BRS for assessing personality dimensions in Chinese culture.},
affiliation = {Department of Psychology, University of Missouri-Columbia, USA.},
number = {2},
pages = {324--41},
volume = {69},
year = {1997},
month = {Oct},
language = {eng},
keywords = {Models: Statistical, Humans, Psychometrics, Adult, United States, Students, Ethnic Groups, Personality Inventory, Personality Assessment, Personality Disorders, Male, Reproducibility of Results, Adolescent, Female, China, Observer Variation, Cross-Cultural Comparison},
date-added = {2010-03-20 20:11:33 +0100},
date-modified = {2010-03-20 20:11:35 +0100},
pmid = {9392894},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8316},
rating = {5}
}
@article{Hampshire:2010p11857,
author = {Adam Hampshire and Samuel R Chamberlain and Martin M Monti and John Duncan and Adrian M Owen},
journal = {Neuroimage},
title = {The role of the right inferior frontal gyrus: inhibition and attentional control},
abstract = {There is growing interest regarding the role of the right inferior frontal gyrus (RIFG) during a particular form of executive control referred to as response inhibition. However, tasks used to examine neural activity at the point of response inhibition have rarely controlled for the potentially confounding effects of attentional demand. In particular, it is unclear whether the RIFG is specifically involved in inhibitory control, or is involved more generally in the detection of salient or task relevant cues. The current fMRI study sought to clarify the role of the RIFG in executive control by holding the stimulus conditions of one of the most popular response inhibition tasks-the Stop Signal Task-constant, whilst varying the response that was required on reception of the stop signal cue. Our results reveal that the RIFG is recruited when important cues are detected, regardless of whether that detection is followed by the inhibition of a motor response, the generation of a motor response, or no external response at all.},
affiliation = {Medical Research Council Cognition and Brain Sciences Unit, Cambridge, UK. adam.hampshire@mrc-cbu.cam.ac.uk},
number = {3},
pages = {1313--9},
volume = {50},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-05-23 11:43:38 +0200},
date-modified = {2010-05-23 11:43:38 +0200},
doi = {10.1016/j.neuroimage.2009.12.109},
pii = {S1053-8119(09)01398-6},
pmid = {20056157},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hampshire-2010-Neuroimage_The%20role%20of%20the%20righ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11857},
rating = {0}
}
@article{Shimizu:2009p1816,
author = {Shohei Shimizu and Takashi Washio and Aapo Hyvarinen and Seiya Imoto},
journal = {arXiv},
title = {Finding Exogenous Variables in Data with Many More Variables than Observations},
abstract = { Many statistical methods have been proposed to estimate causal models in classical situations with fewer variables than observations (p>n). In this paper, we propose a method to find exogenous variables in a linear non-Gaussian causal model, which requires much smaller sample sizes than conventional methods and works even when p>>n. The key idea is to identify which variables are exogenous based on non-Gaussianity instead of estimating the entire structure of the model. Exogenous variables work as triggers that activate a causal chain in the model, and their identification leads to more efficient experimental designs and better understanding of the causal mechanism. We present experiments with artificial data and real-world gene expression data to evaluate the method. },
note = {13 pages, 1 igure},
eprint = {0904.0838v1},
volume = {stat.ML},
year = {2009},
month = {Jan},
keywords = {stat.ML},
date-added = {2010-01-09 22:50:53 +0100},
date-modified = {2010-01-09 22:50:53 +0100},
pmid = {0904.0838v1},
url = {http://arxiv.org/abs/0904.0838v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shimizu-2009-arXiv_Finding%20Exogenous%20Va.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1816},
rating = {0}
}
@misc{Montanari:2000,
author = {A Montanari and D G Calo and C Viroli},
journal = {Miscellaneous},
title = {Independent Factor Discriminant Analysis},
year = {2000},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Montanari-2000-Miscellaneous_Independent%20Factor%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2020},
rating = {0}
}
@article{Elatki:2000p7858,
author = {S Elatki},
journal = {Neuropsychiatrie:TendancesetD{\'e}bats},
title = {Episode d{\'e}pressif majeur du post-partum},
pages = {35--39},
volume = {8},
year = {2000},
date-added = {2010-03-18 21:07:45 +0100},
date-modified = {2010-03-18 21:08:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Elatki-2000-NeuropsychiatrieTendancesetDe%CC%81bats_Episode%20de%CC%81pressif%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7858},
rating = {0}
}
@article{Kwee:2008p3292,
author = {Lydia Coulter Kwee and Dawei Liu and Xihong Lin and Debashis Ghosh and Michael P Epstein},
journal = {American Journal of Human Genetics},
title = {A powerful and flexible multilocus association test for quantitative traits},
abstract = {Association mapping of complex traits typically employs tagSNP genotype data to identify a trait locus within a region of interest. However, considerable debate exists regarding the most powerful strategy for utilizing such tagSNP data for inference. A popular approach tests each tagSNP within the region individually, but such tests could lose power as a result of incomplete linkage disequilibrium between the genotyped tagSNP and the trait locus. Alternatively, one can jointly test all tagSNPs simultaneously within the region (by using genotypes or haplotypes), but such multivariate tests have large degrees of freedom that can also compromise power. Here, we consider a semiparametric model for quantitative-trait mapping that uses genetic information from multiple tagSNPs simultaneously in analysis but produces a test statistic with reduced degrees of freedom compared to existing multivariate approaches. We fit this model by using a dimension-reducing technique called least-squares kernel machines, which we show is identical to analysis using a specific linear mixed model (which we can fit by using standard software packages like SAS and R). Using simulated SNP data based on real data from the International HapMap Project, we demonstrate that our approach often has superior performance for association mapping of quantitative traits compared to the popular approach of single-tagSNP testing. Our approach is also flexible, because it allows easy modeling of covariates and, if interest exists, high-dimensional interactions among tagSNPs and environmental predictors.},
affiliation = {Department of Biostatistics, Emory University, Atlanta, GA 30322, USA.},
number = {2},
pages = {386--97},
volume = {82},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Quantitative Trait Loci, Chromosome Mapping, Models: Genetic, Computer Simulation, Polymorphism: Single Nucleotide, Quantitative Trait: Heritable},
date-added = {2010-01-14 21:23:16 +0100},
date-modified = {2010-01-14 21:23:16 +0100},
doi = {10.1016/j.ajhg.2007.10.010},
pii = {S0002-9297(08)00088-8},
pmid = {18252219},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kwee-2008-American%20Journal%20of%20Human%20Genetics_A%20powerful%20and%20flexi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3292},
rating = {0}
}
@article{Borgers:2001p13825,
author = {N Borgers and J J Hox},
title = {Reliability of responses in quesitonnaire research with children},
year = {2001},
date-added = {2010-07-29 17:02:00 +0200},
date-modified = {2010-07-29 17:02:51 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borgers-2001-_Reliability%20of%20respo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13825},
rating = {0}
}
@article{Janssen:1999p12900,
author = {R Janssen and Paul De Boeck},
journal = {Multivariate Behavioral Research},
title = {Confirmatory Analyses of Componential Test Structure Using Multidimensional Item Response Theory},
abstract = {The componential structure of synonym tasks is investigated using confirmatory multidimensional two-parameter IRT models. It was hypothesized that an open synonym task is decomposable into generating synonym candidates and evaluating these candidate words with respect to their synonymy with the stimulus word. Two subtasks were constructed to identify these two components. Different confirmatory models were estimated both with TESTMAP and with NOHARM. The componential hypothesis was supported, but it was found that the generation subtask also involved some evaluation and that generation and evaluation were highly correlated.},
number = {2},
pages = {245--268},
volume = {34},
year = {1999},
date-added = {2010-06-24 14:02:53 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Janssen-1999-Multivariate%20Behavioral%20Research_Confirmatory%20Analyse-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12900},
rating = {0}
}
@article{Verstralen:1998aa,
author = {H H F M Verstralen},
title = {A Latent IRT Model for Options of Multiple Choice Items},
abstract = {A latent IRT model for the analysis of multiple choice questions is proposed. The incorrect options of an item are associated with a decreasing logistic function that models the probability of being judged correct. It is assumed that the correct option is always recognized as such. According to the model a subject selects randomly from the subset of options considered correct. Like its companion treated in Verstralen (1997) the model can be viewed as a generalization of Nedelsky's (1954) method to determine a pass/fail score. With this other model it has in common that the ML latent variable estimator gains some precision compared to binary scoring. Both models also share some other favorable psychometric properties.},
year = {1998},
month = {Sep},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-1998-_A%20Latent%20IRT%20Model%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1193},
rating = {0}
}
@article{Medland:2002p1851,
author = {S E Medland and G Geffen and K McFarland},
journal = {Neuropsychologia},
title = {Lateralization of speech production using verbal/manual dual tasks: meta-analysis of sex differences and practice effects},
abstract = {The present paper reviews the findings of 30 years of verbal/manual dual task studies, the method most commonly used to assess lateralization of speech production in non-clinical samples. Meta-analysis of 64 results revealed that both the type of manual task used and the nature of practice that is given influence the size of the laterality effect. A meta-analysis of 36 results examining the effect size of sex differences in estimates of lateralization of speech production indicated that males appear to show slightly larger laterality effects than females.},
affiliation = {Cognitive Psychophysiology Laboratory, School of Psychology, University of Queensland and Queensland Health, Edith Caval Building, Herston, Brisbane, Australia.},
number = {8},
pages = {1233--9},
volume = {40},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Dominance: Cerebral, Female, Verbal Behavior, Attention, Practice (Psychology), Sex Factors, Humans, Psychomotor Performance, Neuropsychological Tests, Male},
date-added = {2010-01-10 11:28:14 +0100},
date-modified = {2010-01-10 11:28:14 +0100},
pii = {S0028393201002287},
pmid = {11931926},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Medland-2002-Neuropsychologia_Lateralization%20of%20sp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1851},
rating = {0}
}
@article{Glas:2009p1824,
author = {Cees A W Glas and Hanneke Geerlings and Mart A F J van de Laar and Erik Taal},
journal = {Contemporary clinical trials},
title = {Analysis of longitudinal randomized clinical trials using item response models},
abstract = {Patient-relevant outcomes, such as impairments, disability and health-related quality of life, are becoming increasingly popular as outcome measures in clinical research. These outcomes are generally assessed using questionnaires. In a longitudinal randomized clinical trial where the outcome is measured by a questionnaire or some other instrument consisting of a set of discretely scored items, treatment effects can be analyzed using item response theory. The problem addressed is how to take the estimation error in the estimates of the latent outcome variables into account in the estimation of the treatment effects. Three approaches are compared: plausible value imputation (PVI), concurrent marginal maximum likelihood (MML) estimation and a limited information two-step marginal maximum likelihood method. The results show that the power of the former two methods to detect small and moderate effect sizes is considerably larger than the power of the latter approach. An additional advantage of the PVI method as compared to MML is that the treatment effects can be estimated with standard software. An example using data from a longitudinal randomized clinical trial illustrates the use of the methods in a practical setting. It is shown that even when responses on different sets of items for different groups of patients are used for the data analysis, the power to detect the experimental effects is comparable to the power obtained when responses to all items for all patients are used in the analysis. This creates considerable flexibility in the design and use of measures in experiments.},
affiliation = {University of Twente, The Netherlands. c.a.w.glas@gw.utwente.nl},
number = {2},
pages = {158--70},
volume = {30},
year = {2009},
month = {Mar},
language = {eng},
date-added = {2010-01-09 22:59:49 +0100},
date-modified = {2010-01-09 22:59:49 +0100},
doi = {10.1016/j.cct.2008.12.003},
pii = {S1551-7144(08)00153-5},
pmid = {19146991},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1824},
rating = {0}
}
@article{Kahler:2003p7348,
author = {Christopher W Kahler and David R Strong and Jumi Hayaki and Susan E Ramsey and Richard A Brown},
journal = {J Stud Alcohol},
title = {An item response analysis of the Alcohol Dependence Scale in treatment-seeking alcoholics},
abstract = {OBJECTIVE: In this study we use methods based on Item Response Theory to examine in depth the psychometric properties of the Alcohol Dependence Scale (ADS). In particular, we examine the ability of each ADS item to discriminate among individuals across the continuum of alcohol dependence severity and also examine the extent to which item-response options provide useful and reliable information about the level of alcohol dependence. METHOD: Participants were 166 alcohol-dependent patients with elevated depressive symptoms. We conducted a maximum likelihood common factors analysis on the ADS, and then used a nonparametric kernel smoothing method to create Item Characteristic Curves (ICC) and Option Characteristic Curves (OCC) for each ADS item. On the basis of these curves, we identified items showing at least fair discrimination and modified the scoring of response options where indicated. We then created an empirically derived ADS score and correlated it with the original ADS and with other measures of alcohol involvement. RESULTS: Replicating previous studies, our results indicated a primarily unidimensional factor structure. A total of 12 of the 25 ADS items showed good discrimination, and examination of the OCC indicated that dichotomous scoring was most appropriate for these items. This 12-item abbreviation of the ADS was highly correlated with the original scale (r = 0.91), and showed similar patterns of correlations with other measures of alcohol involvement. CONCLUSIONS: Results suggest potential gains in measurement efficiency using methods based on Item Response Theory and indicate potential ordering of dependence symptoms based on item severities.},
affiliation = {Center for Alcohol and Addiction Studies, Brown University, Box G-BH, Providence, Rhode Island 02912, USA. Christopher_Kahler@brown.edu},
number = {1},
pages = {127--36},
volume = {64},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Severity of Illness Index, Questionnaires, Demography, Female, Adult, Humans, Adolescent, Male, Patient Acceptance of Health Care, Factor Analysis: Statistical, Alcoholism, Middle Aged, Aged},
date-added = {2010-03-10 20:23:39 +0100},
date-modified = {2010-03-10 20:23:39 +0100},
pmid = {12608493},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7348},
rating = {0}
}
@article{Broccoli:2010p12793,
author = {S Broccoli and G Cavrini},
title = {A Bayesian IRT model for mixed responses and skew latent variable},
abstract = {The aim of this study is to formulate a flexible Item Response Theory (IRT) based model for mixed responses questionnaires and relaxing the hypothesis of normal distributed latent variable. The new model is a combination of two models already presented in literature, that is, a latent trait model for mixed responses and an IRT model for Skew Normal latent variable. It is developed in a Bayesian framework, a Markov chain Monte Carlo procedure is used to generate samples of the posterior distribution of the parameters of interest. The proposed model is test on a questionnaire composed by 5 discrete items and one continuous to measure HRQoL in children, the EQ-5D-Y questionnaire. A large sample of children collected in the schools was used. In comparison with a model for only discrete responses and a model for mixed responses and normal latent variable, the new model has better performances, in term of deviance information criterion (DIC), chain convergences times and precision of the estimates.},
date-added = {2010-06-18 21:13:56 +0200},
date-modified = {2010-06-18 21:14:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Broccoli--_A%20Bayesian%20IRT%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12793},
rating = {3}
}
@article{Milfont:2010p13803,
author = {T L Milfont and R Fischer},
journal = {International Journal of Psychological Research},
title = {Testing measurement invariance across groups: Applications in cross-cultural research},
number = {1},
pages = {112--131},
volume = {3},
year = {2010},
date-added = {2010-07-29 12:18:37 +0200},
date-modified = {2010-07-29 12:19:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Milfont-2010-International%20Journal%20of%20Psychological%20Research_Testing%20measurement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13803},
rating = {0}
}
@article{Green:2008p12974,
author = {D Green and M E Chambers and D A Sugden},
journal = {Human Movement Science},
title = {Does subtype of developmental coordination disorder count: is there a differential effect on outcome following intervention?},
abstract = {It is well known that developmental coordination disorder (DCD) is a heterogeneous condition in which children frequently present with co-occurring conditions in addition to their motor difficulties. This study considered whether there would be a differential effect of a group treatment program on subtypes of perceptual and movement problems or associated co-occurring conditions. A subset of children (n=43) from a larger clinical sample (n=100) with DCD participated in a 214 year cross-over intervention study which followed the cognitive orientation to daily occupational performance (CO-OP) approach. Original subtypes were determined by contrasting the current sample with previously published subtyping studies in DCD [Hoare, D. (1994). Subtypes of developmental coordination disorder. Adapted Physical Activity Quarterly, 11, 158-169; Macnab, J. J., Miller, L. T., {\&} Polatajko, H. J. (2001). The search for subtypes of DCD: Is cluster analysis the answer? Human Movement Science, 20, 49-72]. No advantage was conferred to any subtype although children with more profound and complex difficulties at initial assessment, despite progress following intervention, were most likely to have continuing difficulties at the end of the project.},
affiliation = {Newcomen Centre, Guy's Hospital, St. Thomas Street, London SE1 9RT, UK. dido.green@gstt.nhs.uk},
number = {2},
pages = {363--82},
volume = {27},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Male, Attitude, Motor Skills Disorders, Diagnosis: Differential, Treatment Outcome, Female, Cognition, Child, Child: Preschool, Humans, Adolescent, Physical Therapy Modalities},
date-added = {2010-06-25 22:29:08 +0200},
date-modified = {2010-06-25 22:29:08 +0200},
doi = {10.1016/j.humov.2008.02.009},
pii = {S0167-9457(08)00019-5},
pmid = {18400322},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Green-2008-Human%20Movement%20Science_Does%20subtype%20of%20deve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12974},
rating = {0}
}
@article{Mann:2007p14111,
author = {G S Mann and A McCallum},
journal = {Proceedings of the 24th International Conference on Machine Learning},
title = {Simple, Robust, Scalable Semi-supervised Learning via Expectation Regularization},
abstract = {Although semi-supervised learning has been an active area of research, its use in de- ployed applications is still relatively rare because the methods are often difficult to implement, fragile in tuning, or lacking in scalability. This paper presents expecta- tion regularization, a semi-supervised learn- ing method for exponential family paramet- ric models that augments the traditional conditional label-likelihood objective func- tion with an additional term that encour- ages model predictions on unlabeled data to match certain expectations---such as la- bel priors. The method is extremely easy to implement, scales as well as logistic regres- sion, and can handle non-independent fea- tures. We present experiments on five dif- ferent data sets, showing accuracy improve- ments over other semi-supervised methods.},
year = {2007},
date-added = {2010-08-18 17:01:29 +0200},
date-modified = {2010-08-18 17:02:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mann-2007-Proceedings%20of%20the%2024th%20International%20Conference%20on%20Machine%20Learning_Simple%20Robust%20Scal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14111},
rating = {0}
}
@article{Mechelli:2010p7650,
author = {Andrea Mechelli and Essi Viding and Atul Kumar and Stefania Tognin and Fergus Kane and Philip McGuire},
journal = {Behav Genet},
title = {Influence of neuregulin1 genotype on neural substrate of perceptual matching in children},
abstract = {Adult psychopathology is often rooted early in life and first emerges during childhood and adolescence. However, as most imaging genetic research to date has involved adult participants, little is known about how risk genes affect brain function to influence biological vulnerability in childhood. We examined the impact of neuregulin1 (NRG1), a probable susceptibility gene for schizophrenia and bipolar disorder, on brain function in a sample of 102 healthy 10-12 year old boys including 18 pairs of monozygotic twins, 24 pairs of dizygotic twins and 18 singletons. Each participant performed a perceptual matching task, while brain responses were measured using functional magnetic resonance imaging. Response accuracy and reaction times did not differ as a function of NRG1 genotype; however, individuals with two high-risk alleles showed relatively increased brain activation in a distributed network comprising the precuneus bilaterally, and the left cuneus, middle occipital gyrus, angular gyrus and caudate nucleus. These results indicate that genetic variation in NRG1 significantly affects cortical function during perceptual and monitoring processes in healthy children as young as 10-12 years of age.},
affiliation = {Department of Psychology, Institute of Psychiatry, King's College London, 103 Denmark Hill, PO BOX 67, London, SE5 8AF, UK. a.mechelli@kcl.ac.uk},
number = {2},
pages = {157--66},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:20:05 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9317-5},
pmid = {19967439},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mechelli-2010-Behav%20Genet_Influence%20of%20neuregu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7650},
rating = {0}
}
@article{Sun:2008p3344,
author = {L Sun and S Ji and J Ye},
journal = {Proceedings of the 25th International Conference on Machine Learning},
title = {A Least Squares Formulation for Canonical Correlation Analysis},
abstract = {Canonical Correlation Analysis (CCA) is a well-known technique for finding the correlations between two sets of multi-dimensional variables. It projects both sets of variables into a lower-dimensional space in which they are maximally correlated. CCA is commonly applied for supervised dimensionality reduction, in which one of the multi-dimensional variables is derived from the class label. It has been shown that CCA can be formulated as a least squares problem in the binary-class case. However, their relationship in the more general setting remains unclear. In this paper, we show that, under a mild condition which tends to hold for high-dimensional data, CCA in multi-label classifications can be formulated as a least squares problem. Based on this equivalence relationship, we propose several CCA extensions including sparse CCA using 1-norm regularization. Experiments on multi-label data sets confirm the established equivalence relationship. Results also demonstrate the effectiveness of the proposed CCA extensions.},
year = {2008},
date-added = {2010-01-15 12:18:28 +0100},
date-modified = {2010-01-15 12:20:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sun-2008-Proceedings%20of%20the%2025th%20International%20Conference%20on%20Machine%20Learning_A%20Least%20Squares%20Form.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3344},
rating = {0}
}
@article{Knottnerus:2003p7435,
author = {J A Knottnerus and J W Muris},
journal = {Journal of Clinical Epidemiology},
title = {Assessment of the accuracy of diagnostic tests: the cross-sectional study},
abstract = {In diagnostic accuracy studies, the contrast of interest can be one of the following: one single test contrast; comparing two or more single tests; further testing in addition to previous diagnostics; and comparing alternative diagnostic strategies. The clinical diagnostic problem under study must be specified. Studies of "extreme contrasts" (as early phase evaluations) and studies in "clinical practice" settings (assessing clinical value) should be distinguished. Design options are (1) survey of the total study population, (2) case-referent approach, or (3) test-based enrollment. Data collection should generally be prospective, but ambispective and retrospective approaches are sometimes appropriate. In addition to determinants of primary interest [the test(s) under study] possible modifiers of test accuracy and confounding variables must be specified. The reference standard procedure should be independent from the test results. Applying a reference standard can be difficult in case of classification errors, lack of a clear pathophysiologic concept, incorporation bias, or invasive or complex investigations. Possible solutions are: an independent expert panel, and the delayed type cross-sectional study (clinical follow-up). Also, a prognostic criterion can be chosen. For studies to be relevant for practice, inclusion criteria must be based on "intention to diagnose" or "intention to screen." The recruitment procedure is preferably a consecutive series of presenting patients or a target population screening, respectively. Sample size estimation should be routine. Analysis has to be focused on the contrast of interest. Estimating test accuracy and prediction of outcome need different approaches. External (clinical) validation requires repeated studies in other, similar populations. Also, systematic reviews and meta-analysis have a role. To enable readers of diagnostic research reports to evaluate whether methodological key issues were addressed, authors are advised to follow the STARD guidelines.},
affiliation = {University of Maastricht, Netherlands School of Primary Care Research, Post Office Box 616, 6200 MD Maastricht, The Netherlands. andre.knottnerus@hag.unimaas.nl},
number = {11},
pages = {1118--28},
volume = {56},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Reproducibility of Results, Cross-Sectional Studies, Sensitivity and Specificity, Humans, Diagnostic Techniques and Procedures, Sample Size, Data Interpretation: Statistical},
date-added = {2010-03-10 20:38:45 +0100},
date-modified = {2010-03-10 20:38:45 +0100},
pii = {S0895435603002063},
pmid = {14615003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Knottnerus-2003-Journal%20of%20Clinical%20Epidemiology_Assessment%20of%20the%20ac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7435},
rating = {4}
}
@misc{Junker:1996,
author = {Brian W Junker},
journal = {Miscellaneous},
title = {Exploring monotonicity in polytomous item response data},
year = {1996},
month = {Apr},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Junker-1996-Miscellaneous_Exploring%20monotonici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2135},
rating = {0}
}
@article{Lu:2007p7015,
author = {L Lu and N Shara},
journal = {NESUG},
title = {Reliability analysis: Calculate and Compare Intra-class Correlation Coefficients (ICC) in SAS},
abstract = {Reliability studies are widely used to assess the measurement reproducibility of human observers, laboratory assays or diagnostic tests. For quantitative measures, intra-class correlation coefficient (ICC) is the principal measurement of reliability. In this paper, a SAS macro is provided to calculate the ICC and its confidence limits. The application of the macro is demonstrated in a clinical reliability case study, the comparison of two ICCs is discussed.},
year = {2007},
date-added = {2010-03-06 19:53:17 +0100},
date-modified = {2010-03-06 19:53:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lu-2007-NESUG_Reliability%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7015},
rating = {0}
}
@article{Patz:2002p6292,
author = {R J Patz and B W Junker and M S Johnson and L T Mariano},
journal = {Journal of Educational and Behavioral Statistics},
title = {The Hierarchical Rater Model for Rated Test Items and its Application to Large-Scale Educational Assessment Data},
abstract = {Open-ended or ``constructed'' student responses to test items have become a stock component of standardized educational assessments. Digital imaging of examinee work now enables a distributed rating process to be flexibly managed, and alloca- tion designs that involve as many as six or more ratings for a subset of responses are now feasible. In this article we develop Patz' s (1996) hierarchical rater model (HRM) for polytomous item response data scored by multiple raters, and show how it can be used to scale examinees and items, to model aspects of consensus among raters, and to model individual rater severity and consistency effects. The HRM treats examinee responses to open-ended items as unobsered discrete varibles, and it explicitly models the ``proficiency'' of raters in assigning accurate scores as well as the proficiency of examinees in providing correct responses. We show how the HRM ``fits in'' to the generalizability theory framework that has been the traditional tool of analysis for rated item response data, and give some relationships between the HRM, the design effects correction of Bock, Brennan and Muraki (1999), and the rater bundle model of Wilson and Hoskens (2002). Using simulated and real data, we compare the HRM to the conventional IRT Facets model for rating data (e.g., Linacre, 1989; Engelhard, 1994, 1996), and we explore ways that informa- tion from HRM analyses may improved the quality of the rating process.},
number = {4},
pages = {341--384},
volume = {27},
year = {2002},
date-added = {2010-02-20 20:03:13 +0100},
date-modified = {2010-02-20 20:04:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patz-2002-Journal%20of%20Educational%20and%20Behavioral%20Statistics_The%20Hierarchical%20Rat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6292},
rating = {0}
}
@article{Parnas:2002p14051,
author = {Josef Parnas and Pierre Bovet and Dan Zahavi},
journal = {World Psychiatry},
title = {Schizophrenic autism: clinical phenomenology and pathogenetic implications},
affiliation = {Cognitive Research Unit, Copenhagen University Department of Psychiatry, Hvidovre Hospital, 2650 Hvidovre, Denmark.},
number = {3},
pages = {131--6},
volume = {1},
year = {2002},
month = {Oct},
language = {eng},
date-added = {2010-08-18 09:59:29 +0200},
date-modified = {2010-08-18 09:59:29 +0200},
pmid = {16946833},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parnas-2002-World%20Psychiatry_Schizophrenic%20autism.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14051},
rating = {0}
}
@article{Gonzalez:2009p12905,
author = {J Gonzalez and F Tuerlinckx and Paul De Boeck},
journal = {Applied Multivariate Research},
title = {Analyzing structural relations in multi-variate dyadic binary data},
abstract = {In social network studies, most often only a single relation (or link) between the actors is investigated. When more than one link has been recorded, the two- way sociomatrix becomes a three-way array with the set of links being the third way. In this paper, we present a model which simultaneously accounts for the three ways in the data. Random effects are used to model the between-actor variability, both on senders and receivers side. In addition, structural relations between the linking variables are investigated. The model is applied to a study of popularity and strength in a class of students. It is shown that popularity can be seen as a linear function of strength on the receivers' side, but not on the senders' side.},
number = {1},
pages = {77--92},
volume = {13},
year = {2009},
date-added = {2010-06-24 17:29:05 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonzalez-2009-Applied%20Multivariate%20Research_Analyzing%20structural.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12905},
rating = {0}
}
@article{Wu:2005,
author = {C Wu},
journal = {Techniques d'enqu{\^e}te},
title = {Algorithmes et codes R pour la m{\'e}thode de la pseudo-vraisemblance empirique dans les sondages},
number = {2},
pages = {261--266},
volume = {31},
year = {2005},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2005-Techniques%20d'enqu%C3%AAte_Algorithmes%20et%20codes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2122},
rating = {0}
}
@inproceedings{Hofmann:1999,
author = {Thomas Hofmann},
journal = {Proceedings},
title = {Probabilistic latent semantic analysis},
year = {1999},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hofmann-1999-Proceedings_Probabilistic%20latent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2187},
rating = {0}
}
@article{Fraley:2007p3691,
author = {C Fraley and A E Raftery},
title = {MCLUST Version 3 for R: Normal Mixture Modeling and Model-Based Clustering},
abstract = {MCLUST is a contributed R package for normal mixture modeling and model-based clus- tering. It provides functions for parameter estimation via the EM algorithm for normal mixture models with a variety of covariance structures, and functions for simulation from these models. Also included are functions that combine model-based hierarchical clustering, EM for mixture estimation and the Bayesian Information Criterion (BIC) in comprehensive strategies for clustering, density estimation and discriminant analysis. There is additional functionality for displaying and visualizing the models along with clustering and classifica- tion results. A number of features of the software have been changed in this version, and the functionality has been expanded to include regularization for normal mixture models via a Bayesian prior. A web page with related links including license information can be found at http://www.stat.washington.edu/mclust.},
year = {2007},
date-added = {2010-01-16 20:31:12 +0100},
date-modified = {2010-01-16 20:31:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fraley-2007-_MCLUST%20Version%203%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3691},
rating = {0}
}
@article{Chamberlain:2009p9706,
author = {Samuel R Chamberlain and Lara Menzies},
journal = {Expert Rev Neurother},
title = {Endophenotypes of obsessive-compulsive disorder: rationale, evidence and future potential},
abstract = {Obsessive-compulsive disorder (OCD) is a heritable and debilitating neuropsychiatric condition. Attempts to delineate genetic contributions have met with limited success, and there is an ongoing search for intermediate trait or vulnerability markers rooted in the neurosciences. Such markers would be valuable for detecting people at risk of developing the condition, clarifying etiological factors and targeting novel treatments. This review begins with brief coverage of the epidemiology of OCD, and presents a hierarchical model of the condition. The advantages of neuropsychological assessment and neuroimaging as objective measures of brain integrity and function are discussed. We describe the concept of endophenotypes and examples of their successful use in medicine and psychiatry. Key areas of focus in the search for OCD endophenotypes are identified, such as measures of inhibitory control and probes of the integrity of orbitofrontal and posterior parietal cortices. Finally, we discuss exciting findings in unaffected first-degree relatives of patients with OCD that have led to the identification of several candidate endophenotypes of the disorder, with important implications for neurobiological understanding and treatment of this and related conditions.},
affiliation = {Department of Psychiatry, University of Cambridge, Addenbrooke's Hospital, Cambridge, CB2 2QQ, UK. srchamb@gmail.com},
number = {8},
pages = {1133--46},
volume = {9},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Risk Factors, Cognition Disorders, Humans, Frontal Lobe, Obsessive-Compulsive Disorder, Phenotype, Brain Mapping, Models: Biological, Neural Pathways, Corpus Striatum},
date-added = {2010-03-25 15:13:31 +0100},
date-modified = {2010-03-25 15:13:31 +0100},
doi = {10.1586/ern.09.36},
pmid = {19673603},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chamberlain-2009-Expert%20Rev%20Neurother_Endophenotypes%20of%20ob.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9706},
rating = {0}
}
@article{Shiely:2010p13254,
author = {Frances Shiely and Mary Horgan and Kevin Hayes},
journal = {Eur J Public Health},
title = {Increased sexually transmitted infection incidence in a low risk population: identifying the risk factors},
abstract = {BACKGROUND: Between 1994 and 2006, the incidence of sexually transmitted infections (STIs) in Ireland has increased by over 300%. Recent literature would suggest that this figure is an underestimation of the true scale of infection. Our objective was to determine the risk factors associated with STI diagnosis in a population with a rapidly increasing STI incidence. METHODS: Using diagnostic, demographic and behavioural information from three STI clinics (January 1999 to December 2006), multivariable logistic regression models were used to identify risk factors associated with STI diagnosis. RESULTS: Age, smoking and inconsistent condom use are the dominant risk factors. Males aged 20-24 years and females aged <20 years being at greatest risk of STI acquisition. Having three or more partners was not associated with an elevated risk of STI diagnosis. At univariate level, homosexuals and bisexuals have a decreased risk of STI acquisition compared with heterosexuals. Rate of consistent condom use was low < or =13.3%. CONCLUSIONS: Age, condom use and number of sexual partners are important risk factors for STI diagnosis. Contrary to international STI literature, having multiple sexual partners does not increase STI incidence. Age specific behavioural interventions that target increased condom use may be effective in reducing STIs in Ireland. At policy level, a reduction in the taxation on condoms from 13.5 to 5% is needed to lower the prohibitive cost and increase their use.},
affiliation = {Department of Epidemiology and Public Health, University College Cork, Cork, Ireland. f.shiely@ucc.ie},
number = {2},
pages = {207--12},
volume = {20},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-07-01 18:17:21 +0200},
date-modified = {2010-07-01 18:17:21 +0200},
doi = {10.1093/eurpub/ckp142},
pii = {ckp142},
pmid = {19767398},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shiely-2010-Eur%20J%20Public%20Health_Increased%20sexually%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13254},
rating = {0}
}
@article{Hagekull:2003p13153,
author = {Berit Hagekull and Gunilla Bohlin},
journal = {Attach Hum Dev},
title = {Early temperament and attachment as predictors of the Five Factor Model of personality},
abstract = {To increase our understanding of developmental aspects of the Five Factor Model (FFM) of personality, prospective relations from infant temperament and attachment security to the 'Big Five' dimensions of personality in middle childhood were studied in a sample of 85 Swedish middle class children. Combined maternal and paternal temperament ratings at infant age 20 months and Strange Situation attachment to mother at 15 months were used as predictors of mother and teacher ratings of personality at child age 8 - 9 years. Also the A1 - B2 versus B3 - C2 classification grouping was used as a measure of infant negative emotionality. The results showed extraversion/surgency to be the dimension most clearly related to infancy data; it was predicted by both temperament and attachment security. Attachment security also predicted neuroticism and openness. The emotionality shown in the Strange Situation was not related to the 'Big Five'. The results were discussed in terms of approach and anxiety systems and internal working models as foundations for the FFM personality traits.},
affiliation = {Department of Psychology, Uppsala, Sweden. Berit.Hagekull@psyk.uu.se},
number = {1},
pages = {2--18},
volume = {5},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Sampling Studies, Male, Child Development, Longitudinal Studies, Personality, Object Attachment, Female, Emotions, Child, Infant, Predictive Value of Tests, Humans, Temperament, Personality Development, Personality Assessment},
date-added = {2010-06-26 11:12:37 +0200},
date-modified = {2010-06-26 11:12:38 +0200},
doi = {10.1080/1461673031000078643},
pii = {RW1G73NT9NNMWKAU},
pmid = {12745826},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13153},
rating = {0}
}
@article{Schuman:1966,
author = {H Schuman},
journal = {American Sociological Review},
title = {The random probe: A technique for evaluating the validity of closed questions},
abstract = {The familiar dilemna of open versus closed interview questions becomes especially acute when surveys are undertaken outside middle-class American society. Inevitable ignorance of the subtleties of another culture leads the researcher toward an open-ended approach, while his experience with the difficulties of channeling diverse free responses into a useful frame of reference and of coding enormous masses of verbal data encourages him to rely on closed questions. The method of ``random probes'' suggested here is intended to allow a survey researcher to eat his cake and still have a litlle left over.},
pages = {218--222},
volume = {21},
year = {1966},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p963},
rating = {0}
}
@article{Perkins:2009p2981,
author = {Neil J Perkins and Enrique F Schisterman and Albert Vexler},
journal = {Stat Med},
title = {Generalized ROC curve inference for a biomarker subject to a limit of detection and measurement error},
abstract = {The receiver operating characteristic (ROC) curve is a tool commonly used to evaluate biomarker utility in clinical diagnosis of disease, especially during biomarker development research. Emerging biomarkers are often measured with random measurement error and subject to limits of detection that hinder their potential utility or mask an ability to discriminate by negatively biasing the estimates of ROC curves and subsequent area under the curve. Methods have been developed to correct the ROC curve for each of these types of sources of bias but here we develop a method by which the ROC curve is corrected for both simultaneously through replicate measures and maximum likelihood. Our method is evaluated via simulation study and applied to two potential discriminators of women with and without preeclampsia.},
affiliation = {Division of Epidemiology, Statistics and Prevention Research, National Institute of Child Health and Human Development, National Institutes of Health, DHHS, 6100 Executive BLVD, Rm 7B03, Bethesda, MD 20852, U.S.A. perkinsn@mail.nih.gov},
number = {13},
pages = {1841--60},
volume = {28},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Pregnancy, ROC Curve, Female, Pre-Eclampsia, Vascular Endothelial Growth Factor A, Biometry, Models: Statistical, Likelihood Functions, Vascular Endothelial Growth Factor Receptor-1, Biological Markers, Humans},
date-added = {2010-01-13 23:13:31 +0100},
date-modified = {2010-01-13 23:13:31 +0100},
doi = {10.1002/sim.3575},
pmid = {19340817},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Perkins-2009-Stat%20Med_Generalized%20ROC%20curv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2981},
rating = {0}
}
@article{Kontodimopoulos:2009p11804,
author = {Nick Kontodimopoulos and Vassilis H Aletras and Dimitris Paliouras and Dimitris Niakas},
journal = {Value Health},
title = {Mapping the Cancer-Specific EORTC QLQ-C30 to the Preference-Based EQ-5D, SF-6D, and 15D Instruments},
abstract = {ABSTRACT Objectives: To estimate models, via ordinary least squares regression, for predicting Euro Qol 5D (EQ-5D), Short Form 6D (SF-6D), and 15D utilities from scale scores of the European Organization for Research and Treatment of Cancer Quality of Life Questionnaire (EORTC QLQ-C30). Methods: Forty-eight gastric cancer patients, split up into equal subgroups by age, sex, and chemotherapy scheme, were interviewed, and the survey included the QLQ-C30, SF-36, EQ-5D, and 15D instruments, along with sociodemographic and clinical data. Model predictive ability and explanatory power were assessed by root mean square error (RMSE) and adjusted R(2) values, respectively. Pearson's r between predicted and reported utility indices was compared. Three random subsamples, half in size the initial sample, were created and used for "external" validation of the modeling equations. Results: Explanatory power was high, with adjusted R(2) reaching 0.909, 0.833, and 0.611 for 15D, SF-6D, and EQ-5D, respectively. After normalization of RMSE to the range of possible values, the prediction errors were 12.0, 5.4, and 5.6% for EQ-5D, SF-6D, and 15D, respectively. The estimation equations produced a range of utility scores similar to those achievable by the standard scoring algorithms. Predicted and reported indices from the validation samples were comparable thus confirming the previous results. Conclusions: Evidence on the ability of QLQ-C30 scale scores to validly predict 15D and SF-6D utilities, and to a lesser extent, EQ-5D, has been provided. The modeling equations must be tried in future studies with larger and more diverse samples to confirm their appropriateness for estimating quality-adjusted life-year in cancer-patient trials including only the QLQ-C30.},
affiliation = {Hellenic Open University, Faculty of Social Sciences, Patras, Greece.},
pages = {},
year = {2009},
month = {Jun},
language = {ENG},
date-added = {2010-05-23 10:41:55 +0200},
date-modified = {2010-05-23 10:41:55 +0200},
doi = {10.1111/j.1524-4733.2009.00569.x},
pii = {VHE569},
pmid = {19558372},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kontodimopoulos-2009-Value%20Health_Mapping%20the%20Cancer-S.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11804},
rating = {0}
}
@article{Callahan:2002p7866,
author = {Christopher M Callahan and Frederick W Unverzagt and Siu L Hui and Anthony J Perkins and Hugh C Hendrie},
journal = {Med Care},
title = {Six-item screener to identify cognitive impairment among potential subjects for clinical research},
abstract = {OBJECTIVE: To design a brief cognitive screener with acceptable sensitivity and specificity for identifying subjects with cognitive impairment. DESIGN: Cohort one is assembled from a community-based survey coupled with a second-stage diagnostic evaluation using formal diagnostic criteria for dementia. Cohort two is assembled from referrals to a specialty clinic for dementing disorders that completed the same diagnostic evaluation. SETTING: Urban neighborhoods in Indianapolis, Indiana and the Indiana Alzheimer Disease Center. PATIENTS: Cohort one consists of 344 community-dwelling black persons identified from a random sample of 2212 black persons aged 65 and older residing in Indianapolis; cohort two consists of 651 subject referrals to the Alzheimer Disease Center. MEASUREMENTS: Formal diagnostic clinical assessments for dementia including scores on the Mini-mental state examination (MMSE), a six-item screener derived from the MMSE, the Blessed Dementia Rating Scale (BDRS), and the Word List Recall. Based on clinical evaluations, subjects were categorized as no cognitive impairment, cognitive impairment-not demented, or demented. RESULTS: The mean age of the community-based sample was 74.4 years, 59.4% of the sample were women, and the mean years of education was 10.1. The prevalence of dementia in this sample was 4.3% and the prevalence of cognitive impairment was 24.6%. Using a cut-off of three or more errors, the sensitivity and specificity of the six-item screener for a diagnosis of dementia was 88.7 and 88.0, respectively. In the same sample, the corresponding sensitivity and specificity for the MMSE using a cut-off score of 23 was 95.2 and 86.7. The performance of the two scales was comparable across the two populations studied and using either cognitive impairment or dementia as the gold standard. An increasing number of errors on the six-item screener is highly correlated with poorer scores on longer measures of cognitive impairment. CONCLUSIONS: The six-item screener is a brief and reliable instrument for identifying subjects with cognitive impairment and its diagnostic properties are comparable to the full MMSE. It can be administered by telephone or face-to-face interview and is easily scored by a simple summation of errors.},
affiliation = {Indiana University Center for Aging Research, Indianapolis 46202, USA. ccallahan@regenstrief.org},
number = {9},
pages = {771--81},
volume = {40},
year = {2002},
month = {Sep},
language = {eng},
keywords = {African Americans, Aged, Urban Population, Female, Cognition Disorders, Indiana, Dementia, Cohort Studies, ROC Curve, Male, Sensitivity and Specificity, Humans, Mass Screening, Prevalence},
date-added = {2010-03-20 19:03:17 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.MLR.0000024610.33213.C8},
pmid = {12218768},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Callahan-2002-Med%20Care_Six-item%20screener%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7866},
rating = {0}
}
@article{Kirk:1996,
author = {R Kirk},
journal = {Educational and Psychological Measurement},
title = {Practical significance: A concept whose time has come},
pages = {746--759},
volume = {56},
year = {1996},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2026},
rating = {0}
}
@article{Yoon:2006p11604,
author = {S E Yoon and D Manocha},
journal = {Eurographics},
title = {Cache-Efficient Layouts of Bounding Volume Hierarchies},
abstract = {We present a novel algorithm to compute cache-efficient layouts of bounding volume hierarchies (BVHs) of polygonal models. Our approach does not make any assumptions about the cache parameters or block sizes of the memory hierarchy. We introduce a new probabilistic model to predict the runtime access patterns of a BVH. Our layout computation algorithm utilizes parent-child and spatial localities between the accessed nodes to reduce both the number of cache misses and the size of the working set. Our algorithm also works well for spatial partitioning hierarchies including kd-trees. We use our algorithm to compute layouts of BVHs and spatial partitioning hierarchies of large models composed of millions of triangles. We compare our cache-efficient layouts with other layouts in the context of collision detection and ray tracing. In our benchmarks, our layouts consistently show better performance over other layouts and improve the performance of these applications by 26%--300% without any modification of the underlying algorithms or runtime applications.},
number = {3},
volume = {25},
year = {2006},
date-added = {2010-05-09 21:38:22 +0200},
date-modified = {2010-05-09 21:39:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yoon-2006-Eurographics_Cache-Efficient%20Layo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11604},
rating = {0}
}
@article{Burnett:2009p4831,
author = {Stephanie Burnett and Geoffrey Bird and Jorge Moll and Chris Frith and Sarah-Jayne Blakemore},
journal = {J Cogn Neurosci},
title = {Development during adolescence of the neural processing of social emotion},
abstract = {In this fMRI study, we investigated the development between adolescence and adulthood of the neural processing of social emotions. Unlike basic emotions (such as disgust and fear), social emotions (such as guilt and embarrassment) require the representation of another's mental states. Nineteen adolescents (10-18 years) and 10 adults (22-32 years) were scanned while thinking about scenarios featuring either social or basic emotions. In both age groups, the anterior rostral medial prefrontal cortex (MPFC) was activated during social versus basic emotion. However, adolescents activated a lateral part of the MPFC for social versus basic emotions, whereas adults did not. Relative to adolescents, adults showed higher activity in the left temporal pole for social versus basic emotions. These results show that, although the MPFC is activated during social emotion in both adults and adolescents, adolescents recruit anterior (MPFC) regions more than do adults, and adults recruit posterior (temporal) regions more than do adolescents.},
affiliation = {University College London, Institute of Cognitive Neuroscience, London, UK. s.burnett@ucl.ac.uk},
number = {9},
pages = {1736--50},
volume = {21},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Image Processing: Computer-Assisted, Mother-Child Relations, Brain Mapping, Oxygen, Adolescent, Young Adult, Age Factors, Neuropsychological Tests, Brain, Self Concept, Female, Magnetic Resonance Imaging, Social Perception, Emotions, Humans, Adult, Adolescent Development},
date-added = {2010-02-01 20:21:57 +0100},
date-modified = {2010-02-01 20:21:57 +0100},
doi = {10.1162/jocn.2009.21121},
pmid = {18823226},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4831},
rating = {0}
}
@inbook{Groves:1996,
author = {RM Groves},
journal = {Book},
title = {Answering questions: Methodology for determining cognitive and communicative processes in survey research},
chapter = {How do we know what we think they think is really what they think?},
pages = {389--402},
year = {1996},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p988},
rating = {0}
}
@article{Lee:2009p1778,
author = {Keunbaik Lee and Yongsung Joo and Jae Keun Yoo and JungBok Lee},
journal = {Stat Med},
title = {Marginalized random effects models for multivariate longitudinal binary data},
abstract = {Generalized linear models with random effects are often used to explain the serial dependence of longitudinal categorical data. Marginalized random effects models (MREMs) permit likelihood-based estimations of marginal mean parameters and also explain the serial dependence of longitudinal data. In this paper, we extend the MREM to accommodate multivariate longitudinal binary data using a new covariance matrix with a Kronecker decomposition, which easily explains both the serial dependence and time-specific response correlation. A maximum marginal likelihood estimation is proposed utilizing a quasi-Newton algorithm with quasi-Monte Carlo integration of the random effects. Our approach is applied to analyze metabolic syndrome data from the Korean Genomic Epidemiology Study for Korean adults.},
affiliation = {Biostatistics Program, School of Public Health, Louisiana State University Health Science Center, New Orleans, LA 70112, USA.},
number = {8},
pages = {1284--300},
volume = {28},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Adult, Metabolic Syndrome X, Aged, Middle Aged, Monte Carlo Method, Humans, Multivariate Analysis, Models: Statistical, Data Interpretation: Statistical, Computer Simulation, Longitudinal Studies},
date-added = {2010-01-09 21:45:53 +0100},
date-modified = {2010-01-09 21:45:53 +0100},
doi = {10.1002/sim.3534},
pmid = {19156673},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2009-Stat%20Med_Marginalized%20random.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1778},
rating = {0}
}
@article{Roberts:1992p12032,
author = {L W Roberts and R A Clifton},
journal = {Canadian Journal of Education},
title = {Measuring the Cognitive Domain of the Quality of Student Life: An Instrument for Faculties of Education},
abstract = {This study presents an instrument for measuring the cognitive domain of the quality of student life in faculties of education, developed using a representative sample of undergraduate and graduate students at a major Canadian university. The findings suggest there are three dimensions of the cognitive domain of the quality of student life: Development of Pupils, Subject Expertise, and the Methodology of Teaching. Alpha reliability coefficients for these scales ranged from 0.72 to 0.75.},
number = {2},
pages = {176--191},
volume = {17},
year = {1992},
date-added = {2010-05-24 10:27:31 +0200},
date-modified = {2010-05-24 10:28:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roberts-1992-Canadian%20Journal%20of%20Education_Measuring%20the%20Cognit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12032},
rating = {4}
}
@article{Arora:2009p9447,
author = {Neeraj K Arora},
journal = {Qual Life Res},
title = {Importance of patient-centered care in enhancing patient well-being: a cancer survivor's perspective},
abstract = {In this narrative article, the author, a long-term cancer survivor, reflects on his personal interactions with the healthcare system over a period of 14 years in order to highlight the importance of delivering patient-centered care. He makes a case for why quality of care assessments are incomplete if they focus on clinical indicators of quality alone and exclude systematic assessment of the patient-centered aspects of care from the patient's perspective. The important role played by patient-centered care in reducing patient suffering and enhancing well-being is underscored in this commentary.},
affiliation = {Outcomes Research Branch, Applied Research Program, Division of Cancer Control and Population Sciences, National Cancer Institute, 6130 Executive Blvd., Bethesda, MD 20892-7344, USA. aroran@mail.nih.gov},
number = {1},
pages = {1--4},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Quality of Life, Neoplasms, Quality of Health Care, Physician-Patient Relations, Patient-Centered Care, Survivors, Humans, Anecdotes as Topic, Patient Satisfaction},
date-added = {2010-03-23 19:37:56 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
doi = {10.1007/s11136-008-9415-5},
pmid = {19005778},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arora-2009-Qual%20Life%20Res_Importance%20of%20patien.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9447},
rating = {0}
}
@article{Hooker:2010p11589,
author = {G Hooker and M Finkelman and A Scwartzman},
title = {Paradoxical Results in Multidimensional Item Response Theory},
abstract = {In multidimensional item response theory (MIRT), it is possible for the estimate of a subject's ability in some dimension to decrease after they have answered a question correctly. This paper investigates how and when this type of paradoxical result can occur. We demonstrate that many response models and statistical estimates can produce paradoxical results and that in the popular class of linearly com- pensatory models, maximum likelihood estimates are guaranteed to do so. In light of these findings, the appropriateness of multidimensional item response methods for assigning scores in high-stakes testing is called into question.},
date-added = {2010-05-09 21:11:32 +0200},
date-modified = {2010-05-09 21:12:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hooker--_Paradoxical%20Results.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11589},
rating = {0}
}
@article{Concato:2000,
author = {J Concato and N Shah and RI Horwitz},
journal = {N Engl J Med},
title = {Randomised controlled trials, observational studies and the hierarchy of research designs},
abstract = {Background In the hierarchy of research designs, the results of randomized, controlled trials are considered to be evidence of the highest grade, whereas observational studies are viewed as having less validity because they reportedly overestimate treatment effects. We used published meta-analyses to identify randomized clinical trials and observational studies that examined the same clinical topics. We then compared the results of the original reports according to the type of research design. Methods A search of the Medline data base for articles published in five major medical journals from 1991 to 1995 identified meta-analyses of randomized, controlled trials and meta-analyses of either cohort or case--control studies that assessed the same intervention. For each of five topics, summary estimates and 95 percent confidence intervals were calculated on the basis of data from the individual randomized, controlled trials and the individual observational studies. Results For the five clinical topics and 99 reports evaluated, the average results of the observational studies were remarkably similar to those of the randomized, controlled trials. For example, analysis of 13 randomized, controlled trials of the effectiveness of bacille Calmette--Gu{\'e}rin vaccine in preventing active tuberculosis yielded a relative risk of 0.49 (95 percent confidence interval, 0.34 to 0.70) among vaccinated patients, as compared with an odds ratio of 0.50 (95 percent confidence interval, 0.39 to 0.65) from 10 case--control studies. In addition, the range of the point estimates for the effect of vaccination was wider for the randomized, controlled trials (0.20 to 1.56) than for the observational studies (0.17 to 0.84). Conclusions The results of well-designed observational studies (with either a cohort or a case--control design) do not systematically overestimate the magnitude of the effects of treatment as compared with those in randomized, controlled trials on the same topic.},
pages = {1887--1892},
volume = {342},
year = {2000},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1057},
rating = {0}
}
@article{Nelson:2007p2592,
author = {K P Nelson and D Edwards},
title = {A model and measure of agreement for population-based studies},
abstract = {Agreement between physicians in their classification of items such as mammograms for the presence of disease is an important tool in assessing the reliability of a diagnostic procedure, and the modeling of agreement data is a popular topic in the biomedical and social sciences. Interest often lies in assessing agreement in the underlying diagnostic procedure and making inferences for the populations of raters and items typically involved in the rating process. However, the majority of methods currently available are limited to inference for the specific groups of raters and items selected for study, and most do not apply when many raters are involved. In this paper we describe the use of generalized linear mixed models with crossed random effects to model agreement between many raters and items over the long-run for classifications made on a binary scale. These models flexibly allow for missing and unbalanced data, many raters and items, the inclusion of covariates that may influence the agreement process and most importantly, provides inference regarding the underlying diagnostic process and the populations of the typical raters and items involved in such classifications. To provide an overall measure of agreement we propose a summary model-based statistic which is easily interpretable in a manner similar to Cohen's kappa statistic, while avoiding some of the biases that arise in Cohen's kappa usage. The proposed agreement measure can also be used to describe agreement between subgroups of raters and items by utilizing available covariate information. Simulation studies demonstrate that the proposed approach provides unbiased chance-corrected estimates of agreement. The methods are applied to an agreement dataset involving the classification of mammograms for the presence/absence of breast cancer (Beam 2003).},
year = {2007},
keywords = {model-based kappa, crossed random effects, Cohen's kappa, generalized linear mixed model, agreement},
date-added = {2010-01-12 22:36:47 +0100},
date-modified = {2010-01-12 22:38:23 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nelson-2007-_A%20model%20and%20measure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2592},
rating = {0}
}
@article{Gordon:2007p3065,
author = {E Gordon},
title = {Genomics and neuromarkers are both required for the era of brain-related `Personalized Medicine'},
abstract = {The harsh reality is that many treatments do not work as expected in a significant percentage of patients and occasionally there are serious side effects. A new paradigm of `Personalized Medicine' is emerging, which proactively tailors treatment to each individual's biological and psychological profile. The first `Proof of Concept' phase of Personalized Medicine has now been achieved. But it has thus far focused on the use of genomic `markers' and on disorders of the body. The complexity of the brain is likely to require a shift from a single genetic marker focus to a more integrated approach, in which additional brain-related information (neuromarkers) is taken into account. Co-development of genomic-neuromarkers with new compounds in a Personalized Medicine approach, will lead to increased drug R{\&}D and treatment benefits. The emerging genomic-neuromarker potential has begun to be incorporated into the template for the next version of the DSM (DSM V). The statistical power of large subject numbers in databases in general (and standardized databases in particular), provide an ideal source for elucidating the best genomic-neuromarker profiles (explaining most of the main-effects variance) that will empower a brain-related Personalized Medicine into mainstream clinical practice.},
year = {2007},
date-added = {2010-01-14 11:31:17 +0100},
date-modified = {2010-01-14 11:31:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gordon-2007-_Genomics%20and%20neuroma.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3065},
rating = {0}
}
@article{Mair:2007p11668,
author = {P Mair},
journal = {Austrian Journal of Statistics},
title = {A Framework to Interpret Nonstandard Log-Linear Models},
abstract = {The formulation of log-linear models within the framework of Generalized Linear Models offers new possibilities in modeling categorical data. The resulting models are not restricted to the analysis of contingency tables in terms of ordinary hierarchical interactions. Such models are con- sidered as the family of nonstandard log-linear models. The problem that can arise is an ambiguous interpretation of parameters. In the current paper this problem is solved by looking at the effects coded in the design matrix and determining the numerical contribution of single effects. Based on these results, stepwise approaches are proposed in order to achieve parsimonious models. In addition, some testing strategies are presented to test such (eventu- ally non-nested) models against each other. As a result, a whole interpretation framework is elaborated to examine nonstandard log-linear models in depth.},
number = {2},
pages = {89--103},
volume = {36},
year = {2007},
date-added = {2010-05-14 21:06:21 +0200},
date-modified = {2010-05-14 21:07:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mair-2007-Austrian%20Journal%20of%20Statistics_A%20Framework%20to%20Inter.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11668},
rating = {0}
}
@article{Verhelst:1998aa,
author = {N D Verhelst and H H F M Verstralen},
title = {Modeling Sums of Binary Responses by the Partial Credit Model},
abstract = {The Partial Credit Model (PCM) is sometimes interpreted as a model for stepwise solution of polytomously scored items, where the item parameters are interpreted as difficulties of the steps. It is argued that this interpretation is not justified. A model for stepwise solution is discussed. It is shown that the PCM is suited to model sums of binary responses which are not supposed to be stochastically independent. As a practical result, a statistical test of stochastic independence in the Rasch model is derived.},
year = {1998},
month = {Sep},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verhelst-1998-_Modeling%20Sums%20of%20Bin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1215},
rating = {0}
}
@inbook{Hill:2004,
author = {C R Hill and B Thompson},
journal = {Book},
title = {Higher education: Handbook of theory and research},
chapter = {Computing and interpreting effect sizes},
pages = {175--196},
volume = {19},
year = {2004},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2038},
rating = {0}
}
@article{Wang:2009p2377,
author = {Jun Wang and Xiaobo Zhou and Fuhai Li and Pamela L Bradley and Shih-Fu Chang and Norbert Perrimon and Stephen T C Wong},
journal = {J Biomed Inform},
title = {An image score inference system for RNAi genome-wide screening based on fuzzy mixture regression modeling},
abstract = {With recent advances in fluorescence microscopy imaging techniques and methods of gene knock down by RNA interference (RNAi), genome-scale high-content screening (HCS) has emerged as a powerful approach to systematically identify all parts of complex biological processes. However, a critical barrier preventing fulfillment of the success is the lack of efficient and robust methods for automating RNAi image analysis and quantitative evaluation of the gene knock down effects on huge volume of HCS data. Facing such opportunities and challenges, we have started investigation of automatic methods towards the development of a fully automatic RNAi-HCS system. Particularly important are reliable approaches to cellular phenotype classification and image-based gene function estimation. We have developed a HCS analysis platform that consists of two main components: fluorescence image analysis and image scoring. For image analysis, we used a two-step enhanced watershed method to extract cellular boundaries from HCS images. Segmented cells were classified into several predefined phenotypes based on morphological and appearance features. Using statistical characteristics of the identified phenotypes as a quantitative description of the image, a score is generated that reflects gene function. Our scoring model integrates fuzzy gene class estimation and single regression models. The final functional score of an image was derived using the weighted combination of the inference from several support vector-based regression models. We validated our phenotype classification method and scoring system on our cellular phenotype and gene database with expert ground truth labeling. We built a database of high-content, 3-channel, fluorescence microscopy images of Drosophila Kc(167) cultured cells that were treated with RNAi to perturb gene function. The proposed informatics system for microscopy image analysis is tested on this database. Both of the two main components, automated phenotype classification and image scoring system, were evaluated. The robustness and efficiency of our system were validated in quantitatively predicting the biological relevance of genes.},
affiliation = {Department of Electrical Engineering, Columbia University, 1300 S.W. Mudd, 500 West 120th Street, New York, NY 10027, USA. jwang@columbia.edu},
number = {1},
pages = {32--40},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Regression Analysis, Gene Knockdown Techniques, Phenotype, Drosophila, Cells: Cultured, Genomics, Fuzzy Logic, Microscopy: Fluorescence, Image Processing: Computer-Assisted, Algorithms, Animals, Reproducibility of Results, Models: Genetic, Databases: Genetic, Genome, Pattern Recognition: Automated, RNA Interference, Information Storage and Retrieval},
date-added = {2010-01-10 19:29:21 +0100},
date-modified = {2010-01-10 19:29:21 +0100},
doi = {10.1016/j.jbi.2008.04.007},
pii = {S1532-0464(08)00057-9},
pmid = {18547870},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2009-J%20Biomed%20Inform_An%20image%20score%20infer.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2377},
rating = {0}
}
@article{Schonemann:1997p5304,
author = {P H Sch{\"o}nemann},
journal = {Genetica},
title = {On models and muddles of heritability},
abstract = {One reason for the astonishing persistence of the IQ myth in the face of overwhelming prior and posterior odds against it may be the unbroken chain of excessive heritability claims for 'intelligence', which IQ tests are supposed to 'measure'. However, if, as some critics insist, 'intelligence' is undefined, and Spearman's g is beset with numerous problems, not the least of which is universal rejection of Spearman's model by the data, then how can the heritability of 'intelligence' exceed that of milk production of cows and egg production of hens? The thesis of the present review paper is that the answer to this riddle has two parts: (a) the technical basis of heritability claims for human behavior is just as shaky as that of Spearman's g. For example, a once widely used 'heritability estimate' turns out to be mathematically invalid, while another such estimate, though mathematically valid, never fits any data; and (b) valid technical criticisms of flawed heritability claims typically are met with stubborn editorial resistance in the main stream journals, which tends to calcify such misinformation.},
affiliation = {Department of Psychological Sciences, Purdue University, West Lafayette, IN 47907, USA.},
number = {2-3},
pages = {97--108},
volume = {99},
year = {1997},
month = {Jan},
language = {eng},
keywords = {Female, Animals, Models: Statistical, Intelligence, Humans, Genetics: Behavioral, Models: Genetic, Twins, Data Interpretation: Statistical, Male},
date-added = {2010-02-10 19:48:17 +0100},
date-modified = {2010-02-10 19:48:17 +0100},
pmid = {9463078},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sch%C3%B6nemann-1997-Genetica_On%20models%20and%20muddle.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5304},
rating = {0}
}
@article{LeCao:2007p12960,
author = {Kim-Anh L{\^e} Cao and Olivier Gon{\c c}alves and Philippe Besse and S{\'e}bastien Gadat},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Selection of biologically relevant genes with a wrapper stochastic algorithm},
abstract = {We investigate an important issue of a meta-algorithm for selecting variables in the framework of microarray data. This wrapper method starts from any classification algorithm and weights each variable (i.e. gene) relative to its efficiency for classification. An optimization procedure is then inferred which exhibits important genes for the studied biological process. Theory and application with the SVM classifier were presented in Gadat and Younes, 2007 and we extend this method with CART. The classification error rates are computed on three famous public databases (Leukemia, Colon and Prostate) and compared with those from other wrapper methods (RFE, lo norm SVM, Random Forests). This allows the assessment of the statistical relevance of the proposed algorithm. Furthermore, a biological interpretation with the Ingenuity Pathway Analysis software outputs clearly shows that the gene selections from the different wrapper methods raise very relevant biological information, compared to a classical filter gene selection with T-test.},
affiliation = {Universit{\'e} de Toulouse, CNRS (UMR 5219) and INRA. Kim-Anh.Le-Cao@toulouse.inra.fr},
pages = {Article29},
volume = {6},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Reproducibility of Results, Genetic Techniques, Algorithms, Databases: Genetic, Oligonucleotide Array Sequence Analysis, Models: Genetic, Stochastic Processes},
date-added = {2010-06-25 22:08:26 +0200},
date-modified = {2010-06-25 22:08:26 +0200},
doi = {10.2202/1544-6115.1312},
pmid = {18052912},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12960},
rating = {0}
}
@misc{Liu:2007,
author = {I Liu and T Suesse},
journal = {Miscellaneous},
title = {The analysis of stratified multiple responses},
year = {2007},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2007-Miscellaneous_The%20analysis%20of%20stra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1952},
rating = {0}
}
@article{HugonotDiener:2003p4619,
author = {L Hugonot-Diener and M Verny and E Devouche and J Saxton and P Mecocci and F Boller},
journal = {Psyhcologie et Neuropsychiatrie du Vieilissement},
title = {Version abr{\'e}g{\'e}e de la severe impairment battery (SIB)},
pages = {273--283},
volume = {4},
year = {2003},
date-added = {2010-01-30 15:26:38 +0100},
date-modified = {2010-07-29 19:48:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hugonot-Diener-2003-Psyhcologie%20et%20Neuropsychiatrie%20du%20Vieilissement_Version%20abr%C3%A9g%C3%A9e%20de%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4619},
rating = {0}
}
@article{Wu:2010p11220,
author = {Jing Wu and Bernie Devlin and Steven Ringquist and Massimo Trucco and Kathryn Roeder},
journal = {Genet Epidemiol},
title = {Screen and clean: a tool for identifying interactions in genome-wide association studies},
abstract = {Epistasis could be an important source of risk for disease. How interacting loci might be discovered is an open question for genome-wide association studies (GWAS). Most researchers limit their statistical analyses to testing individual pairwise interactions (i.e., marginal tests for association). A more effective means of identifying important predictors is to fit models that include many predictors simultaneously (i.e., higher-dimensional models). We explore a procedure called screen and clean (SC) for identifying liability loci, including interactions, by using the lasso procedure, which is a model selection tool for high-dimensional regression. We approach the problem by using a varying dictionary consisting of terms to include in the model. In the first step the lasso dictionary includes only main effects. The most promising single-nucleotide polymorphisms (SNPs) are identified using a screening procedure. Next the lasso dictionary is adjusted to include these main effects and the corresponding interaction terms. Again, promising terms are identified using lasso screening. Then significant terms are identified through the cleaning process. Implementation of SC for GWAS requires algorithms to explore the complex model space induced by the many SNPs genotyped and their interactions. We propose and explore a set of algorithms and find that SC successfully controls Type I error while yielding good power to identify risk loci and their interactions. When the method is applied to data obtained from the Wellcome Trust Case Control Consortium study of Type 1 Diabetes it uncovers evidence supporting interaction within the HLA class II region as well as within Chromosome 12q24.},
affiliation = {Department of Statistics, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA.},
number = {3},
pages = {275--85},
volume = {34},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-04-25 21:27:49 +0200},
date-modified = {2010-04-25 21:27:49 +0200},
doi = {10.1002/gepi.20459},
pmid = {20088021},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11220},
rating = {0}
}
@article{deVet:2010p6526,
author = {Henrica C W de Vet and Berend Terluin and Dirk L Knol and Leo D Roorda and Lidwine B Mokkink and Raymond W J G Ostelo and Erik J M Hendriks and Lex M Bouter and Caroline B Terwee},
journal = {Journal of Clinical Epidemiology},
title = {Three ways to quantify uncertainty in individually applied "minimally important change" values},
abstract = {OBJECTIVE: Determining "minimally important change" (MIC) facilitates the interpretation of change scores on multi-item instruments. This article focuses on how MIC values should be interpreted when applied to individual patients. STUDY DESIGN AND SETTING: The MIC value of a hypothetical questionnaire "Q" was determined in a sample of 400 patients who improved and 100 patients who did not improve, using the receiver operating characteristic (ROC) method, and three methods to quantify the uncertainty. RESULTS: The MIC value on questionnaire Q was 10.5. Firstly, the 95% confidence interval (CI) of the MIC value (for questionnaire Q: 5.6-14.2) quantifies the uncertainty of the estimation of the MIC value. Secondly, "how sure we are that this MIC value holds for every patient" is quantified by the values for sensitivity (74%) and specificity (91%). Thirdly, the smallest detectable change (SDC) on questionnaire Q is calculated (16.0) to consider whether the MIC value (10.5) falls outside or within the measurement error. CONCLUSION: For application in clinical research and practice, MIC values are always considered at the individual level, but determined in groups of patients. The interpretation comes with different forms of uncertainty. To appreciate the uncertainty, knowledge of the underlying distributions of change scores is indispensable.},
affiliation = {EMGO Institute for Health and Care Research, VU University Medical Center, 1081 BT Amsterdam, The Netherlands. hcw.devet@vumc.nl},
number = {1},
pages = {37--45},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:34:04 +0100},
date-modified = {2010-02-24 20:34:04 +0100},
doi = {10.1016/j.jclinepi.2009.03.011},
pii = {S0895-4356(09)00078-X},
pmid = {19540720},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Vet-2010-Journal%20of%20Clinical%20Epidemiology_Three%20ways%20to%20quanti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6526},
rating = {0}
}
@article{Hollander:2010p5612,
author = {E Hollander and R J Harvey},
title = {Generalizability Theory Analysis of Item-Level O*NET Database Ratings},
abstract = {The developers of the O*NET system have suggested using incumbent raters instead of expert analysts as rating sources for their new database of occupational information. However, in our view a sufficiently thorough analysis of the existing O*NET database (collected using teams of ``expert'' analysts) has yet to be conducted, and should be performed before any further evolution of the O*NET is undertaken. This study examined the experts' ratings in the O*NET database for the Abilities, GWA, Knowledge, and Skills surveys using generalizability theory, profile shape, and interrater variance. Results suggested that caution should be exercised when using these ratings: many items and occupations exhibited questionably low levels of interrater agreement. Given the debatable quality of the experts' ratings, the advisability of switching to instrument-na{\"\i}ve, questionably motivated incumbents was questioned.},
date-added = {2010-02-12 15:48:49 +0100},
date-modified = {2010-02-12 15:49:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hollander--_Generalizability%20The.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5612},
rating = {0}
}
@article{Carr:2002p1774,
author = {D Carr},
title = {Graphical displays},
year = {2002},
date-added = {2010-01-09 21:33:04 +0100},
date-modified = {2010-01-09 21:33:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carr-2002-_Graphical%20displays.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1774},
rating = {0}
}
@article{Hviid:2007p5043,
author = {Anders Hviid and Mads Melbye},
journal = {Am J Epidemiol},
title = {The impact of birth weight on infectious disease hospitalization in childhood},
abstract = {Low birth weight, a result of preterm birth or intrauterine growth restriction, is a well-established indicator of survival in childhood. However, corresponding epidemiologic studies of the association between low birth weight and morbidity from infections throughout childhood are sparse. The authors evaluated the relation between birth weight and infectious diseases throughout childhood in a population-based cohort study comprising all children born in Denmark from 1977 through 2004 (n = 1.7 million). Information on birth weight, gestational age, and potential confounding variables was linked to the children in the cohort, together with information on hospitalization with infectious disease. Poisson regression yielded rate ratios of hospitalization according to birth weight. The authors found that birth weight was inversely associated with risk of infectious disease hospitalization; among children aged 0-14 years, the risk of hospitalization increased 9% for each 500-g reduction in birth weight (increase in rate ratio = 1.09, 95% confidence interval: 1.09, 1.11). The effect was found to peak in infancy and to persist until 10 years of age. It was present also in children born at term (37-41 weeks of gestation). The present study is the first to demonstrate the measurable impact of birth weight on infectious diseases throughout childhood.},
affiliation = {Department of Epidemiology Research, Statens Serum Institut, Copenhagen, Denmark. aii@ssi.dk},
number = {7},
pages = {756--61},
volume = {165},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Infant: Newborn, Risk Factors, Male, Child: Hospitalized, Birth Weight, Humans, Female, Child, Infant: Premature, Gestational Age, Child: Preschool, Adolescent, Communicable Diseases, Poisson Distribution, Infant: Low Birth Weight, Infant, Denmark, Registries},
date-added = {2010-02-05 19:59:44 +0100},
date-modified = {2010-02-05 19:59:44 +0100},
doi = {10.1093/aje/kwk064},
pii = {kwk064},
pmid = {17189591},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hviid-2007-Am%20J%20Epidemiol_The%20impact%20of%20birth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5043},
rating = {0}
}
@article{Carvalho:2010p5898,
author = {C Carvalho and J Chang and J Lucas and J R Nevins and Q Wang and M West},
title = {High-Dimensional Sparse Factor Modelling: Applications in Gene Expression Genomics},
abstract = {In studies of molecular profiling and biological pathway analysis using DNA microarray gene expression data we are utilising a broad class of sparse latent factor and regression models for large-scale multivariate analysis and regression prediction. We present examples of these applica- tions with discussion of key aspects of the modelling and computational methodology. Our case studies are drawn from breast cancer genomics, where we are concerned with the investigation and characterisation of heterogeneity of structure related to specific oncogenic pathways, as well as predictive/prognostic uses of aggregate patterns in gene expression profiles in clinical contexts. Based on the metaphor of statistically derived ``factors'' as representing biological ``subpathway'' structure, we explore the decomposition of fitted sparse factor models into pathway subcompo- nents, and how these components overlay multiple aspects of known biological structure in this network. We discuss the discovery and predictive uses of this approach, and the ability to use such models to generate enrichment of existing biological descriptions through identification of interactions between factors and subsequent experimental validation. We further illustrate the cou- pled use of predictive factor regression models with the high-dimensional sparse factor analysis of expression profiles.
Our methodology is based on sparsity modelling of multivariate regression, anova and latent factor models, and a general class of models that combines all components. Novel and effec- tive sparsity priors address the inherent questions of dimension reduction and multiple compar- isons, as well as scalability of the methodology. The models include practically relevant non- Gaussian/non-parametric components for modelling latent structure underlying often quite com- plex non-Gaussianity in multivariate expression patterns related to underlying biology. Model search and fitting are addressed through stochastic simulation and evolutionary stochastic search methods that are exemplified in oncogenic pathway studies. Supplementary supporting material provides more details of the applications as well as examples of the use of freely available soft- ware tools implementing the methodology.},
date-added = {2010-02-17 21:21:12 +0100},
date-modified = {2010-02-17 21:30:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carvalho--_High-Dimensional%20Spa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5898},
rating = {0}
}
@article{Freedman:2010p4290,
author = {L S Freedman and V Kipnis and A Schatzkin and N Tasevska and N Potischman},
journal = {Epidemiologic Perspectives {\&} Innovations},
title = {Can we use biomarkers in combination with self-reports to strengthen the analysis of nutritional epidemiologic studies?},
abstract = {Identifying diet-disease relationships in nutritional cohort studies is plagued by the measurement error in self-reported intakes. The authors propose using biomarkers known to be correlated with dietary intake, so as to strengthen analyses of diet-disease hypotheses. The authors consider combining self- reported intakes and biomarker levels using principal components, Howe's method, or a joint statistical test of effects in a bivariate model. They compared the statistical power of these methods with that of conventional univariate analyses of self-reported intake or of biomarker level. They used computer simulation of different disease risk models, with input parameters based on data from the literature on the relationship between lutein intake and age-related macular degeneration. The results showed that if the dietary effect on disease was fully mediated through the biomarker level, then the univariate analysis of the biomarker was the most powerful approach. However, combination methods, particularly principal components and Howe's method, were not greatly inferior in this situation, and were as good as, or better than, univariate biomarker analysis if mediation was only partial or non-existent. In some circumstances sample size requirements were reduced to 20-50% of those required for conventional analyses of self-reported intake. The authors conclude that (i) including biomarker data in addition to the usual dietary data in a cohort could greatly strengthen the investigation of diet-disease relationships, and (ii) when the extent of mediation through the biomarker is unknown, use of principal components or Howe's method appears a good strategy.},
number = {2},
volume = {7},
year = {2010},
date-added = {2010-01-25 20:30:33 +0100},
date-modified = {2010-01-25 20:32:00 +0100},
doi = {10.1186/1742-5573-7-2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Freedman-2010-Epidemiologic%20Perspectives%20&%20Innovations_Can%20we%20use%20biomarker.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4290},
rating = {0}
}
@article{Matthey:2001p12747,
author = {S Matthey and B Barnett and D J Kavanagh and P Howie},
journal = {J Affect Disord},
title = {Validation of the Edinburgh Postnatal Depression Scale for men, and comparison of item endorsement with their partners},
abstract = {BACKGROUND: The Edinburgh Postnatal Depression Scale (EPDS) has been validated and used extensively in screening for depression in new mothers, both in English speaking and non-English speaking communities. While some studies have reported the use of the EPDS with fathers, none have validated it for this group, and thus the appropriate cut-off score for screening for depression or anxiety caseness for this population is not known. METHODS: Couples were recruited antenatally and interviewed at six weeks postpartum. EPDS scores and distress caseness (depression or anxiety disorders) for 208 fathers and 230 mothers were determined using the Diagnostic Interview Schedule. RESULTS: Analyses of the EPDS for fathers using distress caseness (depression or anxiety disorders) as the criterion shows that a cut-off of 5/6 has optimum receiver operating characteristics. Furthermore acceptable reliability (split-half and internal consistency) and validity (concurrent) coefficients were obtained. For mothers the optimum cut-off screening value to detect distress caseness was 7/8. Item analysis revealed that fathers endorsed seven of the ten items at lower rates to mothers, with the most significant being that referring to crying. CONCLUSIONS: The EPDS is a reliable and valid measure of mood in fathers. Screening for depression or anxiety disorders in fathers requires a two point lower cut-off than screening for depression or anxiety in mothers, and we recommend this cut-off to be 5/6.},
affiliation = {Department of Psychology, University of Sydney, South West Sydney Area Health Service, Sydney, Australia. pmhs@unsw.edu.au},
number = {2-3},
pages = {175--84},
volume = {64},
year = {2001},
month = {May},
language = {eng},
keywords = {Female, Fathers, Mothers, Male, Depression: Postpartum, Questionnaires, Reproducibility of Results, Depressive Disorder, Severity of Illness Index, Sensitivity and Specificity, Humans, Culture},
date-added = {2010-06-15 22:50:11 +0200},
date-modified = {2010-06-15 22:50:17 +0200},
pii = {S0165032700002366},
pmid = {11313084},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Matthey-2001-J%20Affect%20Disord_Validation%20of%20the%20Ed.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12747},
rating = {3}
}
@article{Schwarz:1995,
author = {N Schwarz},
journal = {International Statistical Review},
title = {What respondents learn from questionnaires: The survey interview and the logic},
number = {2},
pages = {153--177},
volume = {63},
year = {1995},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1919},
rating = {0}
}
@article{Westfall:2010p4030,
author = {P H Westfall and R D Wolfinger},
title = {Closed Multiple Testing Procedures and PROC MULTTEST},
abstract = {Multiple comparisons and multiple testing problems arise frequently in statistical data analysis, and it is important to address them appropriately. Closed testing methods are among the most powerful multiple inference methods available, and are therefore gaining rapidly in popularity. The purpose of this article is to explain what a closed testing procedure is, why such methods are desirable, and explicitly identify situations for which the MULTTEST procedure provides a closed testing procedure.},
date-added = {2010-01-19 08:24:30 +0100},
date-modified = {2010-01-19 08:25:11 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Westfall--_Closed%20Multiple%20Test.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4030},
rating = {0}
}
@article{Janssens:2009p4209,
author = {Astrid Janssens and Dirk Deboutte},
journal = {Eur Child Adolesc Psychiatry},
title = {Screening for psychopathology in child welfare: the Strengths and Difficulties Questionnaire (SDQ) compared with the Achenbach System of Empirically Based Assessment (ASEBA)},
abstract = {Whilst children in child welfare suffer more psychopathology than their community peers, only a small percentage of them actually receive mental health care. Previous literature suggested that all children entering child welfare should be screened. This study evaluated whether the Strengths and Difficulties Questionnaire (SDQ) could be used for this purpose. The extended version of the SDQ and the Achenbach System of Empirically Based Assessment (ASEBA) questionnaire were administered to parents and caregivers of 292 children in child welfare. Children older than 11 years also completed the SDQ self-report and the Youth Self Report (YSR). Furthermore, the child's history of service use was recorded and informants were asked if the actual care was sufficient. Inter-informant correlations for the scores from the SDQ and ASEBA were high and comparable or favoured the use of the SDQ (for parents and caregivers). Internal consistency was satisfactory to good. For all informants, high correlations were found between SDQ and ASEBA. Despite high scores on the SDQ, only 29% of the children had received mental health care. Service use was only correlated with the parent SDQ and the CBCL and TRF. Additional help, as requested by 21% of the parents and 37% of the caregivers, correlated moderately with the SDQ and ASEBA scores. Compared to the total difficulties score, the impact supplement is a better predictor of service use and the informant's request for additional help. This study illustrates that the Dutch version of the SDQ, similar to the English and German versions, has equal validity as the Dutch ASEBA for screening children. Caution is warranted when the SDQ is the only source of information for referrals to specialized care.},
affiliation = {University Centre Child and Adolescent Psychiatry Antwerp (UCKJA), Collaborative Antwerp Psychiatric Research Institute (CAPRI), University of Antwerp, 2610 Antwerp, Belgium. astrid.janssens@ua.ac.be},
number = {11},
pages = {691--700},
volume = {18},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Psychometrics, Reproducibility of Results, Personality Inventory, Mental Disorders, Male, Child Welfare, Child: Preschool, Female, Humans, Adolescent, Child, Questionnaires, Health Surveys},
date-added = {2010-01-21 08:01:25 +0100},
date-modified = {2010-07-29 19:26:12 +0200},
doi = {10.1007/s00787-009-0030-y},
pmid = {19462154},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4209},
rating = {0}
}
@article{Grilli:2007p6462,
author = {L Grilli and C Rampichini},
journal = {Statistical methodology {\&} Applications},
title = {A multilevel multinomial logit model for the analysis of graduates' skills},
abstract = {The main goal of the paper is to specify a suitable multivariate multilevel model for polytomous responses with a non-ignorable missing data mechanism in order to determine the factors which influence the way of acquisi- tion of the skills of the graduates and to evaluate the degree programmes on the basis of the adequacy of the skills they give to their graduates. The application is based on data gathered by a telephone survey conducted, about two years after the degree, on the graduates of year 2000 of the University of Florence. A multilevel multinomial logit model for the response of interest is fitted simul- taneously with a multilevel logit model for the selection mechanism by means of maximum likelihood with adaptive Gaussian quadrature. In the application the multilevel structure has a crucial role, while selection bias results negligible. The analysis of the empirical Bayes residuals allows to detect some extreme degree programmes to be further inspected.},
pages = {381--393},
volume = {16},
year = {2007},
date-added = {2010-02-23 08:31:39 +0100},
date-modified = {2010-02-23 08:32:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grilli-2007-Statistical%20methodology%20&%20Applications_A%20multilevel%20multino.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6462},
rating = {0}
}
@article{Massaro:1993p11860,
author = {D W Massaro and N Cowan},
journal = {Annual Review of Psychology},
title = {Information processing models: microscopes of the mind},
affiliation = {Program in Experimental Psychology, University of California, Santa Cruz 95064.},
pages = {383--425},
volume = {44},
year = {1993},
month = {Jan},
language = {eng},
keywords = {Female, Cognition, Speech Perception, Models: Psychological, Decision Making, Memory, Reading, Humans, Perception, Male, Psychophysics, Visual Perception},
date-added = {2010-05-23 11:44:30 +0200},
date-modified = {2010-05-23 11:44:30 +0200},
doi = {10.1146/annurev.ps.44.020193.002123},
pmid = {8434893},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Massaro-1993-Annual%20Review%20of%20Psychology_Information%20processi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11860},
rating = {0}
}
@article{Gonzalez:2007p2284,
author = {Juan R Gonz{\'a}lez and Llu{\'\i}s Armengol and Xavier Sol{\'e} and Elisabet Guin{\'o} and Josep M Mercader and Xavier Estivill and V{\'\i}ctor Moreno},
journal = {Bioinformatics},
title = {SNPassoc: an R package to perform whole genome association studies},
abstract = {The popularization of large-scale genotyping projects has led to the widespread adoption of genetic association studies as the tool of choice in the search for single nucleotide polymorphisms (SNPs) underlying susceptibility to complex diseases. Although the analysis of individual SNPs is a relatively trivial task, when the number is large and multiple genetic models need to be explored it becomes necessary a tool to automate the analyses. In order to address this issue, we developed SNPassoc, an R package to carry out most common analyses in whole genome association studies. These analyses include descriptive statistics and exploratory analysis of missing values, calculation of Hardy-Weinberg equilibrium, analysis of association based on generalized linear models (either for quantitative or binary traits), and analysis of multiple SNPs (haplotype and epistasis analysis). AVAILABILITY: Package SNPassoc is available at CRAN from http://cran.r-project.org. SUPPLEMENTARY INFORMATION: A tutorial is available on Bioinformatics online and in http://davinci.crg.es/estivill_lab/snpassoc.},
affiliation = {Genes and Disease Program, Centre for Genomic Regulation, IDIBELL, Catalan Institute of Oncology, Barcelona, Spain. juanramon.gonzalez@crg.es},
number = {5},
pages = {644--5},
volume = {23},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Software, Polymorphism: Single Nucleotide, Genomics, Databases: Genetic, Haplotypes, Linear Models},
date-added = {2010-01-10 12:01:36 +0100},
date-modified = {2010-01-10 12:01:36 +0100},
doi = {10.1093/bioinformatics/btm025},
pii = {btm025},
pmid = {17267436},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonz%C3%A1lez-2007-Bioinformatics_SNPassoc%20an%20R%20packa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2284},
rating = {0}
}
@article{Verbyla:1997p3694,
author = {A P Verbyla and B R Cullis and M G Kenward and S J Welham},
title = {The analysis of designed experiments and longitudinal data using smoothing splines},
abstract = {Smoothing splines and other non-parametric smoothing methods are well accepted for exploratory data analysis. These methods have been used in regression, in repeated measures or longitudinal data analysis, and in generalized linear models. However, a major drawback is the lack of a formal inferential framework. An exception which has not been fully exploited is the cubic smoothing spline. The cubic smoothing spline admits a mixed model formulation, which places this non-parametric smoother firmly in a parametric setting. The formulation presented in this paper provides the mechanism for including cubic smoothing splines in models for the analysis of designed experiments and longitudinal data. Thus nonlinear curves can be included with random effects and random coefficients, and this leads to very flexible and informative modelling within the linear mixed model framework. Variance heterogeneity can also be accommodated. The advantage of using the cubic smoothing spline in the case of longitudinal data is particularly pronounced, because covariance modelling is achieved implicitly as for random coefficient models. Several examples are considered to illustrate the ideas.},
year = {1997},
date-added = {2010-01-16 20:33:25 +0100},
date-modified = {2010-01-16 20:34:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verbyla-1997-_The%20analysis%20of%20desi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3694},
rating = {0}
}
@article{Gottesman:2003p10394,
author = {Irving I Gottesman and Todd D Gould},
journal = {Am J Psychiatry},
title = {The endophenotype concept in psychiatry: etymology and strategic intentions},
abstract = {Endophenotypes, measurable components unseen by the unaided eye along the pathway between disease and distal genotype, have emerged as an important concept in the study of complex neuropsychiatric diseases. An endophenotype may be neurophysiological, biochemical, endocrinological, neuroanatomical, cognitive, or neuropsychological (including configured self-report data) in nature. Endophenotypes represent simpler clues to genetic underpinnings than the disease syndrome itself, promoting the view that psychiatric diagnoses can be decomposed or deconstructed, which can result in more straightforward-and successful-genetic analysis. However, to be most useful, endophenotypes for psychiatric disorders must meet certain criteria, including association with a candidate gene or gene region, heritability that is inferred from relative risk for the disorder in relatives, and disease association parameters. In addition to furthering genetic analysis, endophenotypes can clarify classification and diagnosis and foster the development of animal models. The authors discuss the etymology and strategy behind the use of endophenotypes in neuropsychiatric research and, more generally, in research on other diseases with complex genetics.},
affiliation = {Department of Psychiatry, University of Minnesota Medical School, Minneapolis 55454, USA. Gotte003@UMN.edu},
number = {4},
pages = {636--45},
volume = {160},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Prefrontal Cortex, Schizophrenia, Family, Humans, Saccades, Pursuit: Smooth, Research Design, Mental Disorders, Genetic Predisposition to Disease, Models: Biological, Terminology as Topic, Phenotype, Risk, Models: Genetic, Schizophrenic Psychology, Memory Disorders, Disease Models: Animal, Psychiatry},
date-added = {2010-04-07 10:53:35 +0200},
date-modified = {2010-07-29 19:51:28 +0200},
pmid = {12668349},
url = {http://ajp.psychiatryonline.org/cgi/content/full/160/4/636},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gottesman-2003-Am%20J%20Psychiatry_The%20endophenotype%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10394},
read = {Yes},
rating = {5}
}
@article{Neyman:1934p6325,
author = {J Neyman},
journal = {Journal of the Royal Statistical Society},
title = {On the Two Different Aspects of the Representative Method: The Method of Stratified Sampling and the Method of Purposive Selection},
number = {4},
pages = {558--625},
volume = {97},
year = {1934},
date-added = {2010-02-20 21:19:03 +0100},
date-modified = {2010-02-20 21:19:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Neyman-1934-Journal%20of%20the%20Royal%20Statistical%20Society_On%20the%20Two%20Different.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6325},
rating = {0}
}
@article{Scharpf:2008p2942,
author = {Robert B Scharpf and Giovanni Parmigiani and Jonathan Pevsner and Ingo Ruczinski},
journal = {arXiv},
title = {Hidden Markov models for the assessment of chromosomal alterations using high-throughput SNP arrays},
abstract = { Chromosomal DNA is characterized by variation between individuals at the level of entire chromosomes (e.g., aneuploidy in which the chromosome copy number is altered), segmental changes (including insertions, deletions, inversions, and translocations), and changes to small genomic regions (including single nucleotide polymorphisms). A variety of alterations that occur in chromosomal DNA, many of which can be detected using high density single nucleotide polymorphism (SNP) microarrays, are linked to normal variation as well as disease and are therefore of particular interest. These include changes in copy number (deletions and duplications) and genotype (e.g., the occurrence of regions of homozygosity). Hidden Markov models (HMM) are particularly useful for detecting such alterations, modeling the spatial dependence between neighboring SNPs. Here, we improve previous approaches that utilize HMM frameworks for inference in high throughput SNP arrays by integrating copy number, genotype calls, and the corresponding measures of uncertainty when available. Using simulated and experimental data, we, in particular, demonstrate how confidence scores control smoothing in a probabilistic framework. Software for fitting HMMs to SNP array data is available in the R package VanillaICE. },
annote = {Published in: Annals of Applied Statistics 2008, Vol. 2, No. 2, 687-713
Published in at http://dx.doi.org/10.1214/07-AOAS155 the Annals of
Applied Statistics (http://www.imstat.org/aoas/) by the Institute of
Mathematical Statistics (http://www.imstat.org)},
eprint = {0807.4649v1},
volume = {stat.AP},
year = {2008},
month = {Jan},
keywords = {stat.AP},
date-added = {2010-01-13 23:00:55 +0100},
date-modified = {2010-01-13 23:00:55 +0100},
doi = {10.1214/07-AOAS155},
pmid = {0807.4649v1},
url = {http://arxiv.org/abs/0807.4649v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharpf-2008-arXiv_Hidden%20Markov%20models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2942},
rating = {0}
}
@article{Lloyd:2010p12858,
author = {C J Lloyd and M V Moldovan},
title = {More powerful exact noninferiority and equivalence tests based on binary matched pairs},
abstract = {Assessing the therapeutic noninferiority or equivalence of one medical treat- ment compared to another is often based on the difference of response rates from a matched binary pairs design. This paper develops new exact unconditional tests for noninferiority and equivalence that are more powerful than available alternatives. There are three new elements presented in this paper. First we introduce the LR statistic as an alternative to the previously proposed score sta- tistic of Nam (1997). Second, we eliminate the nuisance parameter by estimation followed by maximization as an alternative to the partial maximization of Berger and Boos (1994) or traditional full maximization. Third, for testing equivalence it is standard to combine two one-sided tests (TOST). We point out that even if the one-sided tests are exact and efficient, the TOST will be conservative and re- quires a further adjustment to remove this conservatism. Based on an extensive numerical study, we recommend tests based on the score statistic, the nuisance parameter being controlled by estimation followed by maximization.},
date-added = {2010-06-22 08:19:24 +0200},
date-modified = {2010-06-22 08:20:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lloyd--_More%20powerful%20exact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12858},
rating = {0}
}
@article{Shea:2009,
author = {Tracey L Shea and Alan Tennant and Julie F Pallant},
journal = {BMC Psychiatry},
title = {Rasch model analysis of the Depression, Anxiety and Stress Scales (DASS).},
abstract = {BACKGROUND: There is a growing awareness of the need for easily administered, psychometrically sound screening tools to identify individuals with elevated levels of psychological distress. Although support has been found for the psychometric properties of the Depression, Anxiety and Stress Scales (DASS) using classical test theory approaches it has not been subjected to Rasch analysis. The aim of this study was to use Rasch analysis to assess the psychometric properties of the DASS-21 scales, using two different administration modes. METHODS: The DASS-21 was administered to 420 participants with half the sample responding to a web-based version and the other half completing a traditional pencil-and-paper version. Conformity of DASS-21 scales to a Rasch partial credit model was assessed using the RUMM2020 software. RESULTS: To achieve adequate model fit it was necessary to remove one item from each of the DASS-21 subscales. The reduced scales showed adequate internal consistency reliability, unidimensionality and freedom from differential item functioning for sex, age and mode of administration. Analysis of all DASS-21 items combined did not support its use as a measure of general psychological distress. A scale combining the anxiety and stress items showed satisfactory fit to the Rasch model after removal of three items. CONCLUSION: The results provide support for the measurement properties, internal consistency reliability, and unidimensionality of three slightly modified DASS-21 scales, across two different administration methods. The further use of Rasch analysis on the DASS-21 in larger and broader samples is recommended to confirm the findings of the current study.},
affiliation = {Swinburne University of Technology, P.O. Box 218, Hawthorn, Victoria 3122, Australia. tracey.shea@buseco.monash.edu.au},
pages = {21},
volume = {9},
year = {2009},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1186/1471-244X-9-21},
pii = {1471-244X-9-21},
pmid = {19426512},
url = {http://dx.doi.org/10.1186/1471-244X-9-21},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1141},
rating = {0}
}
@article{Taylor:2008p10334,
author = {Steven Taylor and Kerry L Jang and Sherry H Stewart and Murray B Stein},
journal = {J Anxiety Disord},
title = {Etiology of the dimensions of anxiety sensitivity: a behavioral-genetic analysis},
abstract = {Evidence suggests that anxiety sensitivity (AS) contributes to individual differences in fearfulness and to the risk of developing anxiety disorders. To investigate the origins of AS we administered the Anxiety Sensitivity Index to 245 monozygotic and 193 dizygotic twin pairs, comprising 658 women and 218 men. Scores were calculated for the most widely replicated AS dimensions; physical, cognitive, and social concerns. For women, each dimension was influenced by a combination of genetic and environmental factors. Heritability in women significantly increased with AS scores, indicating that severe forms of AS, compared to milder forms, are more strongly influenced by genetic factors. Correlations among AS dimensions for women could be explained by genetic and environmental factors influencing all three dimensions. For men, dimensions were influenced by environmental but not genetic factors. Correlations among dimensions for men could be explained by environmental factors influencing all dimensions. Overall, the findings reveal that AS has more complex etiology than previously recognized; its dimensions appear to arise from a mix of dimension-specific and non-specific etiologic factors, whose importance vary as a function of sex and severity.},
affiliation = {Department of Psychiatry, University of British Columbia, Vancouver, BC V6T 2A1, Canada. taylor@unixg.ubc.ca},
number = {5},
pages = {899--914},
volume = {22},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Individuality, Anxiety, Adult, Questionnaires, Diseases in Twins, Female, Personality, Aged: 80 and over, Sex Factors, Middle Aged, Genetics: Behavioral, Risk Factors, Anxiety Disorders, Male, Humans, Aged, Social Environment, Twins: Monozygotic, Twins: Dizygotic, Adolescent},
date-added = {2010-04-02 18:15:38 +0200},
date-modified = {2010-07-29 19:31:53 +0200},
doi = {10.1016/j.janxdis.2007.09.005},
pii = {S0887-6185(07)00175-2},
pmid = {18029140},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10334},
rating = {0}
}
@article{Thomas:1992p6646,
author = {D Thomas and B Langholz and D Clayton and J Pitk{\"a}niemi and E Tuomilehto-Wolf and J Tuomilehto},
journal = {Ann Med},
title = {Empirical Bayes methods for testing associations with large numbers of candidate genes in the presence of environmental risk factors, with applications to HLA associations in IDDM},
abstract = {Standard regression models for disease incidence data can be used to test for associations between a disease and measured genetic and environmental factors and their interactions. Complications arise when the gene is not observed, requiring segregation and linkage analysis approaches, or when the candidate gene(s) are found to be highly polymorphic, as in the HLA region. We propose a Bayesian approach to the latter problem, in which the log relative risks for all alleles at a given locus are taken to be independent and exchangeable, assuming there is no preferential zygotic assortment and negligible recombination. Multi-locus problems can be addressed either by adding exchangeable interaction terms or by adopting a multivariate prior for haplotype effects. Some simulations based on our current work on family studies of IDDM are discussed.},
affiliation = {Department of Preventive Medicine, University of Southern California, Los Angeles 90033-9987.},
number = {5},
pages = {387--92},
volume = {24},
year = {1992},
month = {Oct},
language = {eng},
keywords = {Bayes Theorem, Genes, Triplets, Risk Factors, Likelihood Functions, Haplotypes, Alleles, Humans, Diabetes Mellitus: Type 1, HLA Antigens, Child, Models: Genetic},
date-added = {2010-03-03 20:35:30 +0100},
date-modified = {2010-03-03 20:35:31 +0100},
pmid = {1418924},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6646},
rating = {0}
}
@article{Davier:2004p3602,
author = {M von Davier and K Yamamoto},
journal = {Applied Psychological Measurement},
title = {Partially Observed Mixtures of IRT Models: An Extension of the Generalized Partial-Credit Model},
abstract = {The generalized partial-credit model (GPCM) is used frequently in educational testing and in large-scale assessments for analyzing polytomous data. Special cases of the generalized partial-credit model are the partial-credit model---or Rasch model for ordinal data---and the two-parameter logistic (2PL) model. This article extends the GPCM to the class of discrete mixture distribution models. The developments presented here extend models such as the mixed Rasch model and dichotomous multiparameter item response theory (IRT) mixture models. In addition, the model proposed here allows estimation of multigroup models with partially missing grouping information. An application of the proposed partially observed mixture IRT model to a sparse matrix sample of item responses from a national large-scale assessment program is also presented.},
affiliation = {Educational Testing Service, Princeton, NJ},
number = {6},
pages = {389--406},
volume = {28},
year = {2004},
date-added = {2010-01-15 21:41:45 +0100},
date-modified = {2010-01-15 21:43:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Davier-2004-Applied%20Psychological%20Measurement_Partially%20Observed%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3602},
rating = {0}
}
@article{Buil:2009p2394,
author = {Alfonso Buil and Angel Martinez-Perez and Alexandre Perera-Lluna and Leonor Rib and Pere Caminal and Jose Manuel Soria},
journal = {BMC Proc},
title = {A new gene-based association test for genome-wide association studies},
abstract = {ABSTRACT : Genome-wide association studies are widely used today to discover genetic factors that modify the risk of complex diseases. Usually, these methods work in a SNP-by-SNP fashion. We present a gene-based test that can be applied in the context of genome-wide association studies. We compare both strategies, SNP-based and gene-based, in a sample of cases and controls for rheumatoid arthritis.We obtained different results using each strategy. The SNP-based test found the PTPN22 gene while the gene-based test found the PHF19-TRAF1-C5 region. That suggests that no single strategy performs better than another in all cases and that a certain underlying genetic architecture can be delineated more easily with one strategy rather than with another.},
affiliation = {Unitat de Genomica de Malalties Complexes, Institut de Recerca de l'Hospital de la Santa Creu i Sant Pau, Barcelona, 08025, Spain. abuil@santpau.cat.},
pages = {S130},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-11 19:52:35 +0100},
date-modified = {2010-07-29 19:21:19 +0200},
pmid = {20017997},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buil-2009-BMC%20Proc_A%20new%20gene-based%20ass.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2394},
rating = {0}
}
@article{Gillespie:2009p7879,
author = {Charles F Gillespie and Justine Phifer and Bekh Bradley and Kerry J Ressler},
journal = {Depress Anxiety},
title = {Risk and resilience: genetic and environmental influences on development of the stress response},
abstract = {Exposure to stressful events during development has consistently been shown to produce long-lasting alterations in the hypothalamic-pituitary-adrenal (HPA) axis, which may increase vulnerability to disease, including posttraumatic stress disorder and other mood and anxiety disorders. Recently reported genetic association studies indicate that these effects may be mediated, in part, by genexenvironment interactions involving polymorphisms within two key genes, CRHR1 and FKBP5. Data suggest that these genes regulate HPA axis function in conjunction with exposure to child maltreatment or abuse. In addition, a large and growing body of preclinical research suggests that increased activity of the amygdala-HPA axis induced by experimental manipulation of the amygdala mimics several of the physiological and behavioral symptoms of stress-related psychiatric illness in humans. Notably, interactions between the developing amygdala and HPA axis underlie critical periods for emotional learning, which are modulated by developmental support and maternal care. These translational findings lead to an integrated hypothesis: high levels of early life trauma lead to disease through the developmental interaction of genetic variants with neural circuits that regulate emotion, together mediating risk and resilience in adults.},
affiliation = {Department of Psychiatry and Behavioral Sciences, Emory University School of Medicine, Atlanta, Georgia 30329, USA.},
number = {11},
pages = {984--92},
volume = {26},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Resilience: Psychological, Polymorphism: Genetic, Social Environment, Humans, Receptors: Corticotropin-Releasing Hormone, Arousal, Mood Disorders, Anxiety Disorders, Life Change Events, Stress Disorders: Post-Traumatic, Child Abuse, Tacrolimus Binding Proteins, Adult, Child, Nerve Net, Socioeconomic Factors, Pituitary-Adrenal System, Emotions, Hypothalamo-Hypophyseal System, Genetic Predisposition to Disease, Amygdala},
date-added = {2010-03-20 19:18:51 +0100},
date-modified = {2010-03-20 19:18:51 +0100},
doi = {10.1002/da.20605},
pmid = {19750552},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7879},
rating = {0}
}
@article{DiGiorgio:2008p8877,
author = {Annabella Di Giorgio and Giuseppe Blasi and Fabio Sambataro and Antonio Rampino and Apostolos Papazacharias and Francesco Gambi and Raffaella Romano and Grazia Caforio and Miriam Rizzo and Valeria Latorre and Teresa Popolizio and Bhaskar Kolachana and Joseph H Callicott and Marcello Nardini and Daniel R Weinberger and Alessandro Bertolino},
journal = {Eur J Neurosci},
title = {Association of the SerCys DISC1 polymorphism with human hippocampal formation gray matter and function during memory encoding},
abstract = {A common nonsynonymous single nucleotide polymorphism leading to a serine-to-cysteine substitution at amino acid 704 (Ser(704)Cys) in the DISC1 protein sequence has been recently associated with schizophrenia and with specific hippocampal abnormalities. Here, we used multimodal neuroimaging to investigate in a large sample of healthy subjects the putative association of the Ser(704)Cys DISC1 polymorphism with in vivo brain phenotypes including hippocampal formation (HF) gray matter volume and function (as assessed with functional MRI) as well as HF functional coupling with the neural network engaged during encoding of recognition memory. Individuals homozygous for DISC1 Ser allele relative to carriers of the Cys allele showed greater gray matter volume in the HF. Further, Ser/Ser subjects exhibited greater engagement of the HF together with greater HF-dorsolateral prefrontal cortex functional coupling during memory encoding, in spite of similar behavioral performance. These findings consistently support the notion that Ser(704)Cys DISC1 polymorphism is physiologically relevant. Moreover, they support the hypothesis that genetic variation in DISC1 may affect the risk for schizophrenia by modifying hippocampal gray matter and function.},
affiliation = {Psychiatric Neuroscience Group, Section on Mental Disorders, Department of Neurological and Psychiatric Sciences, University of Bari, Bari, Italy.},
number = {10},
pages = {2129--36},
volume = {28},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Amino Acid Sequence, Schizophrenia, Young Adult, DNA Mutational Analysis, Nerve Tissue Proteins, Adult, Alleles, Hippocampus, Amino Acid Substitution, Cysteine, Serine, Prefrontal Cortex, Genetic Variation, Male, Female, Humans, Neural Pathways, Memory, Genetic Predisposition to Disease, Polymorphism: Genetic, Memory Disorders, Genotype, Magnetic Resonance Imaging},
date-added = {2010-03-22 12:49:19 +0100},
date-modified = {2010-03-22 12:49:20 +0100},
doi = {10.1111/j.1460-9568.2008.06482.x},
pii = {EJN6482},
pmid = {19046394},
url = {http://www3.interscience.wiley.com/journal/121493816/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Di%20Giorgio-2008-Eur%20J%20Neurosci_Association%20of%20the%20S.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8877},
rating = {0}
}
@article{Christensen:2007p14105,
author = {K B Christensen and S Kreiner},
title = {Exact tests of the Rasch model based on scalability coefficients},
abstract = {For item responses fitting the Rasch model, the assumptions under- lying the Mokken model of double monotonicity are met. This makes nonparametric item response theory a natural starting point for Rasch item analysis. This paper studies scalability coefficients based on Lo- evingers H coefficient that summarize the number of Guttman errors in the data matrix. These coefficients are shown to yield efficient tests of the Rasch model using exact p-values computed using Markov Chain Monte Carlo methods. The power of the tests of unequal item discrimination, and their ability to distinguish between local depen- dence and unequal item discrimination is discussed. The methods are illustrated and motivated using a simulation study and a real data example.},
year = {2007},
date-added = {2010-08-18 11:21:24 +0200},
date-modified = {2010-08-18 11:22:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Christensen-2007-_Exact%20tests%20of%20the%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14105},
rating = {0}
}
@article{Rapee:2009p5944,
author = {Ronald M Rapee and Carolyn A Schniering and Jennifer L Hudson},
journal = {Annual review of clinical psychology},
title = {Anxiety disorders during childhood and adolescence: origins and treatment},
abstract = {The present review summarizes our current knowledge of the development and management of anxiety in children and adolescents. Consideration is given to limitations of this knowledge and directions for future research. The review begins with coverage of the development and demographic correlates of anxiety in young people and then moves to systematic discussion of some of the key etiological factors, including genetics, temperament, parenting, and individual experiences. The second part of the review describes current treatment strategies and efficacy as well as factors thought to influence treatment outcome, including treatment features, child factors, and parent factors. The review concludes with brief coverage of some more recent developments in treatment including alternative models of delivery and prevention strategies.},
affiliation = {Center for Emotional Health, Macquarie University, Sydney, NSW 2109 Australia. Ron.Rapee@mq.edu.au},
pages = {311--41},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Adolescent, Parenting, Parent-Child Relations, Temperament, Anxiety Disorders, Treatment Outcome, Bibliotherapy, Genetic Predisposition to Disease, Child, Risk Factors, Cognitive Therapy, Humans, Life Change Events},
date-added = {2010-02-18 23:17:56 +0100},
date-modified = {2010-02-18 23:17:56 +0100},
doi = {10.1146/annurev.clinpsy.032408.153628},
pii = {10.1146/annurev.clinpsy.032408.153628},
pmid = {19152496},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rapee-2009-Annual%20review%20of%20clinical%20psychology_Anxiety%20disorders%20du.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5944},
rating = {0}
}
@article{Crews:2009p3073,
author = {Fulton Timm Crews and Charlotte Ann Boettiger},
journal = {Pharmacol Biochem Behav},
title = {Impulsivity, frontal lobes and risk for addiction},
abstract = {Alcohol and substance abuse disorders involve continued use of substances despite negative consequences, i.e. loss of behavioral control of drug use. The frontal-cortical areas of the brain oversee behavioral control through executive functions. Executive functions include abstract thinking, motivation, planning, attention to tasks and inhibition of impulsive responses. Impulsiveness generally refers to premature, unduly risky, poorly conceived actions. Dysfunctional impulsivity includes deficits in attention, lack of reflection and/or insensitivity to consequences, all of which occur in addiction [Evenden JL. Varieties of impulsivity. Psychopharmacology (Berl) 1999;146:348-361.; de Wit H. Impulsivity as a determinant and consequence of drug use: a review of underlying processes. Addict Biol 2009;14:22-31]. Binge drinking models indicate chronic alcohol damages in the corticolimbic brain regions [Crews FT, Braun CJ, Hoplight B, Switzer III RC, Knapp DJ. Binge ethanol consumption causes differential brain damage in young adolescent rats compared with adult rats. Alcohol Clin Exp Res 2000;24:1712-1723] causing reversal learning deficits indicative of loss of executive function [Obernier JA, White AM, Swartzwelder HS, Crews FT. Cognitive deficits and CNS damage after a 4-day binge ethanol exposure in rats. Pharmacol Biochem Behav 2002b;72:521-532]. Genetics and adolescent age are risk factors for alcoholism that coincide with sensitivity to alcohol-induced neurotoxicity. Cortical degeneration from alcohol abuse may increase impulsivity contributing to the development, persistence and severity of alcohol use disorders. Interestingly, abstinence results in bursts of neurogenesis and brain regrowth [Crews FT, Nixon K. Mechanisms of neurodegeneration and regeneration in alcoholism. Alcohol Alcohol 2009;44:115-127]. Treatments for alcoholism, including naltrexone pharmacotherapy and psychotherapy may work through improving executive functions. This review will examine the relationships between impulsivity and executive function behaviors to changes in cortical structure during alcohol dependence and recovery.},
affiliation = {Bowles Center for Alcohol Studies, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, United States. ftcrews@med.unc.edu},
number = {3},
pages = {237--47},
volume = {93},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Brain, Humans, Impulsive Behavior, Frontal Lobe, Rats, Psychomotor Performance, Nerve Degeneration, Behavior: Addictive, Risk, Adolescent, Adult, Animals},
date-added = {2010-01-14 19:55:01 +0100},
date-modified = {2010-01-14 19:55:03 +0100},
doi = {10.1016/j.pbb.2009.04.018},
pii = {S0091-3057(09)00136-1},
pmid = {19410598},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3073},
rating = {3}
}
@article{Hoff:2002p6282,
author = {P D Hoff and A E Raftery and M S Handcock},
journal = {JAMA},
title = {Latent Space Approaches to Social Network Analysis},
abstract = {Network models are widely used to represent relational information among interacting units. In studies of social networks, recent emphasis has been placed on random graph models where the nodes usually represent individual social actors and the edges represent the presence of a speci ed relation between actors. We develop a class of models where the probability of a relation between actors depends on the positions of individuals in an unobserved ``social space.'' We make inference for the social space within maximum likelihood and Bayesian frameworks, and propose Markov chain Monte Carlo procedures for making inference on latent positions and the effects of observed covariates. We present analyses of three standard datasets from the social networks literature, and compare the method to an alternative stochastic blockmodeling approach. In addition to improving on model t for these datasets, our method provides a visual and interpretable model-based spatial representation of social relationships and improves on existing methods by allowing the statistical uncertainty in the social space to be quanti ed and graphically represented.},
number = {460},
pages = {1090--1098},
volume = {97},
year = {2002},
date-added = {2010-02-20 18:06:11 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoff-2002-JAMA_Latent%20Space%20Approac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6282},
rating = {0}
}
@article{Sullivan:2009p819,
author = {P F Sullivan and E J C de Geus and G Willemsen and M R James and J H Smit and T Zandbelt and V Arolt and B T Baune and D Blackwood and S Cichon and W L Coventry and K Domschke and A Farmer and M Fava and S D Gordon and Q He and A C Heath and P Heutink and F Holsboer and W J Hoogendijk and J J Hottenga and Y Hu and M Kohli and D Lin and S Lucae and D J Macintyre and W Maier and K A McGhee and P McGuffin and G W Montgomery and W J Muir and W A Nolen and M M N{\"o}then and R H Perlis and K Pirlo and D Posthuma and M Rietschel and P Rizzu and A Schosser and A B Smit and J W Smoller and J-Y Tzeng and R van Dyck and M Verhage and F G Zitman and N G Martin and N R Wray and Dorret I Boomsma and B W J H Penninx},
journal = {Mol Psychiatry},
title = {Genome-wide association for major depressive disorder: a possible role for the presynaptic protein piccolo},
abstract = {Major depressive disorder (MDD) is a common complex trait with enormous public health significance. As part of the Genetic Association Information Network initiative of the US Foundation for the National Institutes of Health, we conducted a genome-wide association study of 435 291 single nucleotide polymorphisms (SNPs) genotyped in 1738 MDD cases and 1802 controls selected to be at low liability for MDD. Of the top 200, 11 signals localized to a 167 kb region overlapping the gene piccolo (PCLO, whose protein product localizes to the cytomatrix of the presynaptic active zone and is important in monoaminergic neurotransmission in the brain) with P-values of 7.7 x 10(-7) for rs2715148 and 1.2 x 10(-6) for rs2522833. We undertook replication of SNPs in this region in five independent samples (6079 MDD independent cases and 5893 controls) but no SNP exceeded the replication significance threshold when all replication samples were analyzed together. However, there was heterogeneity in the replication samples, and secondary analysis of the original sample with the sample of greatest similarity yielded P=6.4 x 10(-8) for the nonsynonymous SNP rs2522833 that gives rise to a serine to alanine substitution near a C2 calcium-binding domain of the PCLO protein. With the integrated replication effort, we present a specific hypothesis for further studies.},
affiliation = {Department of Genetics, University of North Carolina, Chapel Hill, NC 27599-7264, USA. pfsulliv@med.unc.edu},
number = {4},
pages = {359--75},
volume = {14},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Neuropeptides, Linkage (Genetics), Genome-Wide Association Study, Cytoskeletal Proteins, Cohort Studies, Genetic Predisposition to Disease, Depressive Disorder: Major, Female, Adult, Humans, Middle Aged, Polymorphism: Single Nucleotide, Case-Control Studies, Male},
date-added = {2010-01-03 17:26:54 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1038/mp.2008.125},
pii = {mp2008125},
pmid = {19065144},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sullivan-2009-Mol%20Psychiatry_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p819},
rating = {0}
}
@article{Wuang:2009p12846,
author = {Yee-Pay Wuang and Chwen-Yng Su},
journal = {Res Dev Disabil},
title = {Rasch analysis of the Developmental Test of Visual-Motor Integration in children with intellectual disabilities},
abstract = {The purpose of this study was to examine the measurement properties of the Developmental Test of Visual-Motor Integration (VMI) in children with intellectual disabilities (ID) ages 4-12 years using the dichotomous Rasch model. The VMI was administered individually to 454 children with ID. Rasch analysis was applied to investigate unidimensionality, item fit to the model, differential item functioning (DIF), and item targeting. Discriminative validity was obtained by receiver operating characteristic (ROC) curve analysis. Items were eliminated if the task was too easy or too difficult, or showed misfit to the Rasch model. The remaining items fitted the unidimensional construct the test was intended to measure and were free of DIF. The Rasch reduced version of the VMI with 9 items appeared to be suited to measure mild degrees of perceptual-motor impairment and demonstrated excellent reliability (0.91). VMI-9 had a larger area under the ROC curve in its ability to differentiate mild versus moderate to severe ID compared with the original version. Taken together, the VMI-9 provides a quick, reliable and valid measure for screening and identifying perceptual-motor deficits in children with ID.},
affiliation = {Department of Occupational Therapy, Kaohsiung Medical University, Kaohsiung, Taiwan.},
number = {5},
pages = {1044--53},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Intelligence, Reproducibility of Results, Motor Skills Disorders, Psychological Tests, Child, Psychomotor Performance, Mentally Disabled Persons, Child Development, Disability Evaluation, Child: Preschool, Vision Screening, Perceptual Disorders, Visual Perception},
date-added = {2010-06-21 20:11:49 +0200},
date-modified = {2010-06-21 20:11:52 +0200},
doi = {10.1016/j.ridd.2009.02.007},
pii = {S0891-4222(09)00029-8},
pmid = {19297129},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12846},
rating = {3}
}
@article{Gerber:2007p12879,
author = {G K Gerber and R D Dowell and T S Jaakkola and D K Gifford},
title = {Hierarchical Dirichlet Process-Based
Models For Discovery of Cross-species
Mammalian Gene Expression},
abstract = {An important research problem in computational biology is the identification of expression pro- grams, sets of co-activated genes orchestrating physiological processes, and the characterization of the functional breadth of these programs. The use of mammalian expression data compendia for discov- ery of such programs presents several challenges, including: 1) cellular inhomogeneity within samples, 2) genetic and environmental variation across samples, and 3) uncertainty in the numbers of programs and sample populations. We developed GeneProgram, a new unsupervised computational framework that uses expression data to simultaneously organize genes into overlapping programs and tissues into groups to produce maps of inter-species expression programs, which are sorted by generality scores that exploit the automatically learned groupings. Our method addresses each of the above challenges by us- ing a probabilistic model that: 1) allocates mRNA to different expression programs that may be shared across tissues, 2) is hierarchical, treating each tissue as a sample from a population of related tissues, and 3) uses Dirichlet Processes, a non-parametric Bayesian method that provides prior distributions over numbers of sets while penalizing model complexity. Using real gene expression data, we show that GeneProgram outperforms several popular expression analysis methods in recovering biologically in- terpretable gene sets. From a large compendium of mouse and human expression data, GeneProgram discovers 19 tissue groups and 100 expression programs active in mammalian tissues. Our method au- tomatically constructs a comprehensive, body-wide map of expression programs and characterizes their functional generality. This map can be used for guiding future biological experiments, such as discovery of genes for new drug targets that exhibit minimal ``cross-talk'' with unintended organs, or genes that maintain general physiological responses that go awry in disease states. Further, our method is general, and can be applied readily to novel compendia of biological data.},
year = {2007},
date-added = {2010-06-24 13:02:56 +0200},
date-modified = {2010-06-24 13:03:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gerber-2007-_Hierarchical%20Dirichl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12879},
rating = {0}
}
@article{Baena:2010p10539,
author = {Elsa Baena and Philip A Allen and Kevin P Kaut and Rosalie J Hall},
journal = {Neuropsychologia},
title = {On age differences in prefrontal function: the importance of emotional/cognitive integration},
abstract = {Evidence of prefrontal cortex decline among healthy older adults has been widely reported, although many questions remain regarding the functional heterogeneity of the prefrontal lobes and the uniformity (or lack thereof) with which discrete regions decline with age. MacPherson, Phillips, and Della Sala (2002) previously reported age differences in tasks associated with dorsolateral prefrontal cortex (DLPFC) function (executive control), but not for tasks associated with ventromedial prefrontal cortex (VMPFC) function (emotional/cognitive integration). The present study, conducted using 39 younger adults and 39 older adults, replicates the MacPherson et al. findings regarding DLPFC functioning. However, and perhaps due to the use of more sensitive tasks, we also find age differences in tasks associated with VMPFC function. Specifically, both univariate and multivariate analyses indicated older adults showed deficits across the DLPFC and VMPFC tasks. Exploratory factor analysis of the task performance scores indicated four underlying dimensions, two related to DLPFC functioning and two related to VMPFC functioning. A set of structural equation models specifying age effects on the four task performance factors was tested, in order to contrast models of process-specific vs. common age effects. Our results suggest that older adults show deficits in emotional/cognitive integration as well as in executive function, and that those effects do include process-specific age deficits.},
affiliation = {Department of Psychology, University of Arizona, AZ, USA.},
number = {1},
pages = {319--33},
volume = {48},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Aged: 80 and over, Prefrontal Cortex, Middle Aged, Male, Aged, Cognition, Models: Psychological, Adolescent, Neuropsychological Tests, Emotions, Young Adult, Aging, Games: Experimental, Female, Age Factors, Analysis of Variance, Adult, Reaction Time, Humans},
date-added = {2010-04-07 11:31:32 +0200},
date-modified = {2010-04-07 11:31:32 +0200},
doi = {10.1016/j.neuropsychologia.2009.09.021},
pii = {S0028-3932(09)00377-7},
pmid = {19786039},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T0D-4X9TV2R-3&_user=2432700&_coverDate=01%252F31%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=2302d2e6c9a3b708b1f80ae064ede47d},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baena-2010-Neuropsychologia_On%20age%20differences%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10539},
rating = {0}
}
@article{Chiquet:2009p4291,
author = {J Chiquet},
title = {Analyse des donn{\'e}es prostate: quelques m{\'e}thodes de r{\'e}gularisation l1},
year = {2009},
date-added = {2010-01-25 20:32:05 +0100},
date-modified = {2010-01-25 20:32:43 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chiquet-2009-_Analyse%20des%20donn%C3%A9es.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4291},
rating = {0}
}
@article{Dias:2009p6245,
author = {J G Dias and J K Vermunt},
journal = {Computational Statistics},
title = {A bootstrap-based aggregate classifier for model-based clustering},
abstract = {In model-based clustering, a situation in which true class labels are unknown and that is therefore also referred to as unsupervised learning, observations are typically classified by the Bayes modal rule. In this study, we assess whether alter- native classifiers from the classification or supervised-learning literature---developed for situations in which class labels are known---can improve the Bayes rule. More specifically, we investigate the performance of bootstrap-based aggregate (bagging) rules after adapting these to the model-based clustering context. It is argued that spe- cific issues, such as the label-switching problem, have to be carefully addressed when using bootstrap methods in model-based clustering. Our two Monte Carlo studies show that classification based on the Bayes rule is rather stable and difficult to improve by bootstrap-based aggregate rules, even for sparse data. An empirical example illustrates the various approaches described in this paper.},
pages = {643--659},
volume = {23},
year = {2009},
date-added = {2010-02-19 21:22:19 +0100},
date-modified = {2010-07-29 19:24:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dias-2009-Computational%20Statistics_A%20bootstrap-based%20ag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6245},
rating = {4}
}
@article{Latvala:2009p6740,
author = {Antti Latvala and Annamari Tuulio-Henriksson and Jonna Per{\"a}l{\"a} and Samuli I Saarni and Terhi Aalto-Set{\"a}l{\"a} and Hillevi Aro and Tellervo Korhonen and Seppo Koskinen and Jouko L{\"o}nnqvist and Jaakko Kaprio and Jaana Suvisaari},
journal = {BMC Psychiatry},
title = {Prevalence and correlates of alcohol and other substance use disorders in young adulthood: A population-based study},
abstract = {BACKGROUND: Several risk factors for alcohol and other substance use disorders (SUDs) have been identified, but it is not well understood whether their associations with SUD are independent of each other. In particular, it is not well known, whether the associations between behavioral and affective factors and SUDs are independent of other risk factors. The incidence of SUDs peaks by young adulthood making epidemiological studies of SUDs in young adults informative. METHODS: In a comprehensive population-based survey of mental health in Finnish young adults (aged 21-35 years, n = 605), structured clinical interview (SCID-I) complemented by medical record data from all lifetime hospital and outpatient treatments were used to diagnose SUDs. We estimated the prevalences of lifetime DSM-IV SUDs, and investigated their associations with correlates from four domains representing: (1) behavioral and affective factors, (2) parental factors, (3) early initiation of substance use, and (4) educational factors. Independence of the association of behavioral and affective factors with SUD was investigated. RESULTS: Lifetime prevalences of abuse or dependence of any substance, alcohol, and any illicit substance were 14.2%, 13.1%, and 4.4%, respectively. Correlates from all four domains were associated with SUD. The associations between behavioral and affective factors (attention or behavior problems at school, aggression, anxiousness) and SUD were largely independent of other correlates, whereas only daily smoking and low education associated with SUD after adjustment for behavioral and affective factors. CONCLUSION: Alcohol use disorders are common in Finnish young adults, whereas other SUDs are less common than in many other developed countries. Our cross-sectional analyses suggested that the association between behavioral and affective factors and SUD was only partly accounted for by other correlates, such as early initiation of substance use and parental alcohol problems. In contrast, associations between many other factors and SUD were non-significant when adjusted for behavioral and affective factors.},
affiliation = {Department of Mental Health and Substance Abuse Services, National Institute for Health and Welfare, Helsinki, Finland. antti.latvala@thl.fi},
pages = {73},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Male, Age Factors, Health Status, Age of Onset, Diagnostic and Statistical Manual of Mental Disorders, Questionnaires, Alcoholism, Humans, Psychiatric Status Rating Scales, Comorbidity, Finland, Young Adult, Adult, Prevalence, Child, Mental Disorders, Child of Impaired Parents, Alcohol-Related Disorders, Substance-Related Disorders, Parents, Risk Factors, Female},
date-added = {2010-03-05 22:11:55 +0100},
date-modified = {2010-03-21 12:35:12 +0100},
doi = {10.1186/1471-244X-9-73},
pii = {1471-244X-9-73},
pmid = {19925643},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Latvala-2009-BMC%20Psychiatry_Prevalence%20and%20corre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6740},
rating = {4}
}
@article{Nicolae:2006p4649,
author = {Dan L Nicolae},
journal = {Genet Epidemiol},
title = {Testing untyped alleles (TUNA)-applications to genome-wide association studies},
abstract = {The large number of tests performed in analyzing data from genome-wide association studies has a large impact on the power of detecting risk variants, and analytic strategies specifying the optimal set of hypotheses to be tested are necessary. We propose a genome-wide strategy that is based on one degree of freedom tests for all the genotyped variants, and for all the untyped variants for which there is sufficient information in the observed data. The set of untyped variants to be tested is found using multi-locus measures of linkage disequilibrium and haplotype frequencies from a reference database such as HapMap (The International HapMap Consortium [2003] Nature 426:789-796). We introduce a novel statistic for testing differences in allele frequencies for untyped variation that is based on linear combinations of estimable haplotype frequencies. Algorithms for finding the sets of genotyped markers to be used in testing an untyped allele, and ways of incorporating haplotypes observed in the study data but not in the reference database are also described. The proposed testing strategy can be used as the first step in the analysis of genome-wide association data, and, because every performed test is directed to a marker, it can be used to specify the set of polymorphisms to genotype in follow-up studies. The described methodology provides also a tool for joint analysis of data from studies done on different platforms.},
affiliation = {Departments of Medicine and Statistics, The University of Chicago, Illinois 60637, USA.},
number = {8},
pages = {718--27},
volume = {30},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Alleles, Algorithms, Genotype, Polymorphism: Genetic, Linkage Disequilibrium, Risk, Software, Genome, Chromosome Mapping, Gene Frequency, Models: Statistical, Models: Genetic, Haplotypes, Humans, Genetic Variation},
date-added = {2010-01-30 16:06:11 +0100},
date-modified = {2010-01-30 16:06:11 +0100},
doi = {10.1002/gepi.20182},
pmid = {16986160},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicolae-2006-Genet%20Epidemiol_Testing%20untyped%20alle.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4649},
rating = {0}
}
@article{Marshall:2006p7329,
author = {Susan Marshall and Kirstie Haywood and Ray Fitzpatrick},
journal = {J Eval Clin Pract},
title = {Impact of patient-reported outcome measures on routine practice: a structured review},
abstract = {RATIONALE, AIMS AND OBJECTIVES: Regular use of patient-reported outcome measures (PROMs) by health care providers in their routine practice may help to improve the quality of care, but more evidence is needed before routine use of PROMs can be recommended. A structured review was undertaken to examine whether and how regular use of PROMs might improve routine practice. METHODS: A systematic search of Medline accessed through Webspirs Silverplatter was undertaken for the years 1976-2004. Controlled trials in English evaluating the impact of clinical use of PROMs on routine practice were included. Data regarding study design, characteristics of PROMs feedback, patient populations and study results were extracted by three reviewers. RESULTS: Feedback of PROMs results to health care providers appears to have a substantial impact on some processes of care, particularly on diagnosis of mental health conditions. However, the impact on patient health status is less consistent. Most of the published studies evaluated PROMs as a one-off screening technology and measured only provider behaviours and patient health outcomes. CONCLUSIONS: The pattern of results suggests a general lack of clarity in the field, especially regarding appropriate goals for PROMs and the mechanisms by which they might achieve them. To fully evaluate their role in routine practice, studies need to use PROMs that capture issues of importance to patients and to measure impacts relating to the patient-provider relationship and patient contributions to their well-being. Until studies evaluate PROMs as a means facilitate patient-centred care, their full potential in clinical practice will remain unknown.},
affiliation = {Patient-reported Health Instruments Group, National Centre for Health Outcomes Development, Unit of Health-Care Epidemiology, Department of Public Health, University of Oxford, Oxford, UK.},
number = {5},
pages = {559--68},
volume = {12},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Physician's Practice Patterns, Great Britain, Outcome Assessment (Health Care), Humans, Patient Satisfaction},
date-added = {2010-03-10 20:21:46 +0100},
date-modified = {2010-03-10 20:21:46 +0100},
doi = {10.1111/j.1365-2753.2006.00650.x},
pii = {JEP650},
pmid = {16987118},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7329},
rating = {0}
}
@article{Raychaudhuri:2009p4886,
author = {Soumya Raychaudhuri and Brian P Thomson and Elaine F Remmers and Stephen Eyre and Anne Hinks and Candace Guiducci and Joseph J Catanese and Gang Xie and Eli A Stahl and Robert Chen and Lars Alfredsson and Christopher I Amos and Kristin G Ardlie and BIRAC Consortium and Anne Barton and John Bowes and Noel P Burtt and Monica Chang and Jonathan Coblyn and Karen H Costenbader and Lindsey A Criswell and J Bart A Crusius and Jing Cui and Phillip L De Jager and Bo Ding and Paul Emery and Edward Flynn and Pille Harrison and Lynne J Hocking and Tom W J Huizinga and Daniel L Kastner and Xiayi Ke and Fina A S Kurreeman and Annette T Lee and Xiangdong Liu and Yonghong Li and Paul Martin and Ann W Morgan and Leonid Padyukov and David M Reid and Mark Seielstad and Michael F Seldin and Nancy A Shadick and Sophia Steer and Paul P Tak and Wendy Thomson and Annette H M van der Helm-van Mil and Irene E van der Horst-Bruinsma and Michael E Weinblatt and Anthony G Wilson and Gert Jan Wolbink and Paul Wordsworth and YEAR Consortium and David M Altshuler and Elizabeth W Karlson and Rene E M Toes and Niek de Vries and Ann B Begovich and Katherine A Siminovitch and Jane Worthington and Lars Klareskog and Peter K Gregersen and Mark J Daly and Robert M Plenge},
journal = {Nat Genet},
title = {Genetic variants at CD28, PRDM1 and CD2/CD58 are associated with rheumatoid arthritis risk},
abstract = {To discover new rheumatoid arthritis (RA) risk loci, we systematically examined 370 SNPs from 179 independent loci with P < 0.001 in a published meta-analysis of RA genome-wide association studies (GWAS) of 3,393 cases and 12,462 controls. We used Gene Relationships Across Implicated Loci (GRAIL), a computational method that applies statistical text mining to PubMed abstracts, to score these 179 loci for functional relationships to genes in 16 established RA disease loci. We identified 22 loci with a significant degree of functional connectivity. We genotyped 22 representative SNPs in an independent set of 7,957 cases and 11,958 matched controls. Three were convincingly validated: CD2-CD58 (rs11586238, P = 1 x 10(-6) replication, P = 1 x 10(-9) overall), CD28 (rs1980422, P = 5 x 10(-6) replication, P = 1 x 10(-9) overall) and PRDM1 (rs548234, P = 1 x 10(-5) replication, P = 2 x 10(-8) overall). An additional four were replicated (P < 0.0023): TAGAP (rs394581, P = 0.0002 replication, P = 4 x 10(-7) overall), PTPRC (rs10919563, P = 0.0003 replication, P = 7 x 10(-7) overall), TRAF6-RAG1 (rs540386, P = 0.0008 replication, P = 4 x 10(-6) overall) and FCGR2A (rs12746613, P = 0.0022 replication, P = 2 x 10(-5) overall). Many of these loci are also associated to other immunologic diseases.},
affiliation = {Division of Rheumatology, Immunology, and Allergy, Brigham and Women's Hospital, Boston, Massachusetts, USA. soumya@broad.mit.edu},
number = {12},
pages = {1313--8},
volume = {41},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Genetic Variation, Polymorphism: Single Nucleotide, Antigens: CD2, Genetic Predisposition to Disease, Arthritis: Rheumatoid, Case-Control Studies, Genotype, Risk Factors, Antigens: CD28, Antigens: CD58, Repressor Proteins, Humans},
date-added = {2010-02-02 11:25:18 +0100},
date-modified = {2010-07-29 20:42:16 +0200},
doi = {10.1038/ng.479},
pii = {ng.479},
pmid = {19898481},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raychaudhuri-2009-Nat%20Genet_Genetic%20variants%20at.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4886},
rating = {0}
}
@book{Foulkes2009,
author = {A S Foulkes},
journal = {Book},
title = {Applied Statistical Genetics with R},
year = {2009},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2513},
rating = {0}
}
@article{Hoexter:2009p8506,
author = {Marcelo Queiroz Hoexter and Roseli Gedanke Shavitt and Carina Chaubet D'Alcante and Janaina Philippi Cecconi and Juliana Belo Diniz and Cristina Belotto-Silva and Ana Gabriela Hounie and Sonia Borcato and Ivanil Moraes and Marines Alves Joaquim and Carolina Cappi and Aline Santos Sampaio and Maria Alice de Mathis and Marcelo Camargo Batistuzzo and Antonio Carlos Lopes and Ana Carolina Ferreira Rosa and Renan Kawano Muniz and Andrea Horvath Marques and Luciana Cristina Santos and Anita Taub and F{\'a}bio Lu{\'\i}s de Souza Duran and Darin Dean Dougherty and Geraldo Filho Busatto and Rodrigo Affonseca Bressan and Euripedes Constantino Miguel},
journal = {Rev Bras Psiquiatr},
title = {The drug-na{\"\i}ve OCD patients imaging genetics, cognitive and treatment response study: methods and sample description},
abstract = {OBJECTIVE: To describe a protocol that was based on an integrative neurobiological model of scientific investigation to better understand the pathophysiology of obsessive-compulsive disorder and to present the clinical and demographic characteristics of the sample. METHOD: A standardized research protocol that combines different methods of investigation (genetics, neuropsychology, morphometric magnetic resonance imaging and molecular neuroimaging of the dopamine transporter) obtained before and after treatment of drug-na{\"\i}ve adult obsessive-compulsive disorder patients submitted to a sequentially allocated 12-week clinical trial with a selective serotonin reuptake inhibitor (fluoxetine) and group cognitive-behavioral therapy. RESULTS: Fifty-two treatment-na{\"\i}ve obsessive-compulsive disorder patients entered the clinical trial (27 received fluoxetine and 25 received group cognitive-behavioral therapy). At baseline, 47 blood samples for genetic studies, 50 neuropsychological evaluations, 50 morphometrical magnetic resonance images and 48 TRODAT-1 single-photon emission computed tomography (SPECT) exams were obtained. After 12 weeks, 38 patients completed the protocol (fluoxetine = 20 and GCBT = 18). Thirty-eight neuropsychological evaluations, 31 morphometrical magnetic resonance images and 34 TRODAT-1 SPECT exams were obtained post-treatment. Forty-one healthy controls matched for age, gender, socioeconomic status, level of education and laterality were submitted to the same research procedures at baseline. CONCLUSION: The comprehensive treatment response protocol applied in this project allowing integration on genetic, neuropsychological, morphometrical and molecular imaging of the dopamine transporter data in drug-na{\"\i}ve patients has the potential to generate important original information on the neurobiology of obsessive-compulsive disorder, and at the same time be clinically meaningful.},
affiliation = {Department {\&} Institute of Psychiatry, Clinical Hospital, Medical School, Universidade de S{\~a}o Paulo, S{\~a}o Paulo, SP, Brazil.},
number = {4},
pages = {349--53},
volume = {31},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-03-21 19:31:24 +0100},
date-modified = {2010-03-21 19:31:24 +0100},
pii = {S1516-44462009000400011},
pmid = {20098825},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoexter-2009-Rev%20Bras%20Psiquiatr_The%20drug-na%C3%AFve%20OCD%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8506},
rating = {0}
}
@article{Cornes:2005p1855,
author = {Belinda K Cornes and Sarah E Medland and Manuel A R Ferreira and Katherine I Morley and David L Duffy and Bastiaan T Heijmans and Grant W Montgomery and Nicholas G Martin},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Sex-limited genome-wide linkage scan for body mass index in an unselected sample of 933 Australian twin families},
abstract = {Genes involved in pathways regulating body weight may operate differently in men and women. To determine whether sex-limited genes influence the obesity-related phenotype body mass index (BMI), we have conducted a general nonscalar sex-limited genome-wide linkage scan using variance components analysis in Mx (Neale, 2002). BMI measurements and genotypic data were available for 2053 Australian female and male adult twins and their siblings from 933 families. Clinical measures of BMI were available for 64.4% of these individuals, while only self-reported measures were available for the remaining participants. The mean age of participants was 39.0 years of age (SD 12.1 years). The use of a sex-limited linkage model identified areas on the genome where quantitative trait loci (QTL) effects differ between the sexes, particularly on chromosome 8 and 20, providing us with evidence that some of the genes responsible for BMI may have different effects in men and women. Our highest linkage peak was observed at 12q24 (-log10p = 3.02), which was near the recommended threshold for suggestive linkage (-log10p = 3.13). Previous studies have found evidence for a quantitative trait locus on 12q24 affecting BMI in a wide range of populations, and candidate genes for noninsulin-dependent diabetes mellitus, a consequence of obesity, have also been mapped to this region. We also identified many peaks near a -log10p of 2 (threshold for replicating an existing finding) in many areas across the genome that are within regions previously identified by other studies, as well as in locations that harbor genes known to influence weight regulation.},
affiliation = {Genetic Epidemiology, Queensland Institute of Medical Research, Post Office Royal Brisbane Hospital, QLD, Australia},
number = {6},
pages = {616--32},
volume = {8},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Male, Linkage (Genetics), Diabetes Mellitus: Type 2, Quantitative Trait Loci, Twins, Chromosomes: Human, Sex Factors, Genome: Human, Humans, Body Mass Index, Obesity},
date-added = {2010-01-10 11:32:42 +0100},
date-modified = {2010-01-10 11:32:42 +0100},
pmid = {16363087},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cornes-2005-Twin%20research%20and%20human%20genetics%20the%20official%20journal%20of%20the%20International%20Society%20for%20Twin%20Studies_Sex-limited%20genome-w.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1855},
rating = {0}
}
@article{Johnson:2009p5713,
author = {Andrew D Johnson and Christopher J O'Donnell},
journal = {BMC Med Genet},
title = {An open access database of genome-wide association results},
abstract = {BACKGROUND: The number of genome-wide association studies (GWAS) is growing rapidly leading to the discovery and replication of many new disease loci. Combining results from multiple GWAS datasets may potentially strengthen previous conclusions and suggest new disease loci, pathways or pleiotropic genes. However, no database or centralized resource currently exists that contains anywhere near the full scope of GWAS results. METHODS: We collected available results from 118 GWAS articles into a database of 56,411 significant SNP-phenotype associations and accompanying information, making this database freely available here. In doing so, we met and describe here a number of challenges to creating an open access database of GWAS results. Through preliminary analyses and characterization of available GWAS, we demonstrate the potential to gain new insights by querying a database across GWAS. RESULTS: Using a genomic bin-based density analysis to search for highly associated regions of the genome, positive control loci (e.g., MHC loci) were detected with high sensitivity. Likewise, an analysis of highly repeated SNPs across GWAS identified replicated loci (e.g., APOE, LPL). At the same time we identified novel, highly suggestive loci for a variety of traits that did not meet genome-wide significant thresholds in prior analyses, in some cases with strong support from the primary medical genetics literature (SLC16A7, CSMD1, OAS1), suggesting these genes merit further study. Additional adjustment for linkage disequilibrium within most regions with a high density of GWAS associations did not materially alter our findings. Having a centralized database with standardized gene annotation also allowed us to examine the representation of functional gene categories (gene ontologies) containing one or more associations among top GWAS results. Genes relating to cell adhesion functions were highly over-represented among significant associations (p < 4.6 x 10(-14)), a finding which was not perturbed by a sensitivity analysis. CONCLUSION: We provide access to a full gene-annotated GWAS database which could be used for further querying, analyses or integration with other genomic information. We make a number of general observations. Of reported associated SNPs, 40% lie within the boundaries of a RefSeq gene and 68% are within 60 kb of one, indicating a bias toward gene-centricity in the findings. We found considerable heterogeneity in information available from GWAS suggesting the wider community could benefit from standardization and centralization of results reporting.},
affiliation = {National Heart, Lung, and Blood Institute's Framingham Heart Study, Framingham, MA, USA. johnsonad2@nhlbi.nih.gov},
pages = {6},
volume = {10},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Genome-Wide Association Study, Access to Information, Computational Biology, Databases: Genetic},
date-added = {2010-02-15 12:12:21 +0100},
date-modified = {2010-08-18 17:07:40 +0200},
doi = {10.1186/1471-2350-10-6},
pii = {1471-2350-10-6},
pmid = {19161620},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnson-2009-BMC%20Med%20Genet_An%20open%20access%20datab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5713},
rating = {4}
}
@article{BongioviGarcia:2009p2655,
author = {Mary E Bongiovi-Garcia and Jessica Merville and M Goretti Almeida and Ainsley Burke and Steven Ellis and Barbara H Stanley and Kelly Posner and J John Mann and Maria A Oquendo},
journal = {J Affect Disord},
title = {Comparison of clinical and research assessments of diagnosis, suicide attempt history and suicidal ideation in major depression},
abstract = {A number of studies have compared clinical diagnostic and suicide assessments to standardized schedules to determine the level of agreement. At best there is only moderate diagnostic agreement, but most often it is fair. There are only a few reports comparing clinical assessments for suicidal behavior with standardized schedules. We present the data from 201 inpatient admissions for major depression that had both clinical diagnostic and suicide evaluations by PGYII resident physicians under supervision from an attending psychiatrist and research evaluations using standardized schedules for diagnosis and suicide by at least masters' level clinicians. There was moderate agreement for diagnosis and suicide attempt history but only fair agreement for the presence of suicidal ideation using Cohen's kappa statistic. In regards to suicide attempt history a cross-tabulation demonstrated that 18.7% of those patients identified by a research schedule as having a past suicide attempt were not identified as such by the clinicians. A cross-tabulation demonstrated that 29.7% of those patients identified by structured interview as having suicidal ideation were not identified as such by the clinician. There was a statistically significant difference in the level of agreement for suicide attempt history between clinical and research assessments for attempts within a year of admission and those beyond a year. These findings suggest the importance of adding a structured diagnostic and suicide assessment to routine clinical care to improve the reliability and validity of clinical evaluations and to inform treatment planning to benefit our patients.},
affiliation = {New York State Psychiatric Institute and Columbia University 1051 Riverside Drive NY, NY 10032, United States. meb9@columbia.edu},
number = {1-2},
pages = {183--8},
volume = {115},
year = {2009},
month = {May},
language = {eng},
keywords = {Female, Research Personnel, Personality Tests, Young Adult, Aged, Adolescent, Psychiatry, Internship and Residency, Humans, Suicide: Attempted, Diagnosis: Differential, Risk Factors, Reproducibility of Results, Adult, Psychometrics, Male, Bipolar Disorder, Depressive Disorder: Major, Observer Variation, Middle Aged, Interview: Psychological},
date-added = {2010-01-12 22:46:00 +0100},
date-modified = {2010-01-12 22:46:00 +0100},
doi = {10.1016/j.jad.2008.07.026},
pii = {S0165-0327(08)00323-6},
pmid = {18814917},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2655},
rating = {0}
}
@article{Teresi:2007,
author = {J A Teresi and J A Fleishman},
journal = {Qual Life Res},
title = {Differential item functioning and health assessment},
abstract = {Establishing measurement equivalence is important because inaccurate assessment may lead to incorrect estimates of effects in research, and to suboptimal decisions at the individual, clinical level. Examination of differential item functioning (DIF) is a method for studying measurement equivalence. An item (i.e., one question in a longer scale) exhibits DIF if the item response differs across groups (e.g., gender, race), controlling for an estimate of the construct being measured. A distinction between applications in health, as contrasted with other settings such as educational and aptitude testing, is that there are many health-related constructs and multiple measures of each, few of which have received much critical evaluation. Discussed in this article are several methods for detection of differential item functioning (DIF), including non-parametric and parametric methods such as logistic regression, and those based on item response theory. Basic definitions and criteria for DIF detection are provided, as are steps in performing the analyses. Recommendations are presented and future directions discussed.},
number = {Supplement 1},
pages = {33--42},
volume = {16},
year = {2007},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1126},
rating = {4}
}
@article{Revicki:2009p5915,
author = {Dennis A Revicki and Wen-Hung Chen and Neesha Harnam and Karon F Cook and Dagmar Amtmann and Leigh F Callahan and Mark P Jensen and Francis J Keefe},
journal = {Pain},
title = {Development and psychometric analysis of the PROMIS pain behavior item bank},
abstract = {The measurement of pain behavior is a key component of the assessment of persons with chronic pain; however, few self-reported pain behavior instruments have been developed. We developed a pain behavior item bank as part of the Patient-Reported Outcome Measurement Information System (PROMIS). For the Wave I testing, because of the large number of PROMIS items, a complex sampling approach was used where participants were randomly assigned to either respond to two full-item banks or to multiple 7-item blocks of items. A web-based survey was designed and completed by 15,528 members of the general population and 967 individuals with different types of chronic pain. Item response theory (IRT) analysis models were used to evaluate item characteristics and to scale both items and individuals on the pain behavior domain. The pain behavior item bank demonstrated good fit to a unidimensional model (Comparative Fit Index = 0.94). Several iterations of IRT analyses resulted in a final 39-item pain behavior bank, and different IRT models were fit to the total sample and to those participants who experienced some pain. The results indicated that these items demonstrated good coverage of the pain behavior construct. Pain behavior scores were strongly related to pain intensity and moderately related to self-reported general health status. Mean pain behavior scores varied significantly by groups based on pain severity and general health status. The PROMIS pain behavior item bank can be used to develop static short-form and dynamic measures of pain behavior for clinical studies.},
affiliation = {Center for Health Outcomes Research, United BioSource Corporation, 7101 Wisconsin Ave., Suite 600, Bethesda, MD 20814, USA. Dennis.Revicki@unitedbiosource.com},
number = {1-2},
pages = {158--69},
volume = {146},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Female, Adolescent, Behavior, Pain, Humans, Male, Reproducibility of Results, Treatment Outcome, Socioeconomic Factors, Aged, Data Interpretation: Statistical, Middle Aged, Adult, Pain Measurement, Psychometrics, Young Adult, Chronic Disease},
date-added = {2010-02-18 23:15:26 +0100},
date-modified = {2010-02-18 23:15:26 +0100},
doi = {10.1016/j.pain.2009.07.029},
pii = {S0304-3959(09)00409-6},
pmid = {19683873},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5915},
rating = {0}
}
@article{Lim:2009p13124,
author = {Yi-Jing Lim and Sui-Yung Chan and Yu Ko},
journal = {Epilepsy Res},
title = {Stigma and health-related quality of life in Asian adults with epilepsy},
abstract = {This study aims to (1) review the impact of epilepsy on the health-related quality of life (HRQoL) of Asian adult persons with epilepsy (PWE), and (2) identify the extent of stigma they experience and the associated factors. The electronic databases Medline, PsycINFO, ISI Web of Science, and the International Pharmaceutical Abstracts were searched using a combination of keywords to identify relevant journal articles published before October 2007, and supplemental manual searches of article bibliographies and the journal Neurology Asia were conducted. Thirty-six articles that met the predetermined inclusion criteria were selected and reviewed. The HRQoL of Asian adult PWE was lower than that of the general population. These PWE had difficulties in both physical and psychosocial functioning. Psychosocial factors appeared to have a more significant impact on PWE's HRQoL than physical factors. Stigma and negative attitudes towards marriage and employment of PWE was prevalent in many Asian countries, and the stigma's associated factors were multifaceted. Given the prevalent negative attitudes towards epilepsy, public education campaigns targeting misconceptions and associated factors may help reduce stigma and, together with psychosocial support, the HRQoL of Asian adult PWE can be improved.},
affiliation = {Department of Pharmacy, Faculty of Science, National University of Singapore, Singapore.},
number = {2-3},
pages = {107--19},
volume = {87},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Adult, Asian Continental Ancestry Group, Prejudice, Quality of Life, Epilepsy, Stereotyping, Health Status, Humans, Activities of Daily Living, Social Perception, Attitude to Health},
date-added = {2010-06-26 10:49:08 +0200},
date-modified = {2010-06-26 10:49:08 +0200},
doi = {10.1016/j.eplepsyres.2009.08.014},
pii = {S0920-1211(09)00236-8},
pmid = {19782536},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lim-2009-Epilepsy%20Res_Stigma%20and%20health-re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13124},
rating = {0}
}
@article{Paschou:2007p3861,
author = {Peristera Paschou and Elad Ziv and Esteban G Burchard and Shweta Choudhry and William Rodriguez-Cintron and Michael W Mahoney and Petros Drineas},
journal = {PLoS Genet},
title = {PCA-correlated SNPs for structure identification in worldwide human populations},
abstract = {Existing methods to ascertain small sets of markers for the identification of human population structure require prior knowledge of individual ancestry. Based on Principal Components Analysis (PCA), and recent results in theoretical computer science, we present a novel algorithm that, applied on genomewide data, selects small subsets of SNPs (PCA-correlated SNPs) to reproduce the structure found by PCA on the complete dataset, without use of ancestry information. Evaluating our method on a previously described dataset (10,805 SNPs, 11 populations), we demonstrate that a very small set of PCA-correlated SNPs can be effectively employed to assign individuals to particular continents or populations, using a simple clustering algorithm. We validate our methods on the HapMap populations and achieve perfect intercontinental differentiation with 14 PCA-correlated SNPs. The Chinese and Japanese populations can be easily differentiated using less than 100 PCA-correlated SNPs ascertained after evaluating 1.7 million SNPs from HapMap. We show that, in general, structure informative SNPs are not portable across geographic regions. However, we manage to identify a general set of 50 PCA-correlated SNPs that effectively assigns individuals to one of nine different populations. Compared to analysis with the measure of informativeness, our methods, although unsupervised, achieved similar results. We proceed to demonstrate that our algorithm can be effectively used for the analysis of admixed populations without having to trace the origin of individuals. Analyzing a Puerto Rican dataset (192 individuals, 7,257 SNPs), we show that PCA-correlated SNPs can be used to successfully predict structure and ancestry proportions. We subsequently validate these SNPs for structure identification in an independent Puerto Rican dataset. The algorithm that we introduce runs in seconds and can be easily applied on large genome-wide datasets, facilitating the identification of population substructure, stratification assessment in multi-stage whole-genome association studies, and the study of demographic history in human populations.},
affiliation = {Department of Molecular Biology and Genetics, Democritus University of Thrace, Alexandroupoli, Greece. ppaschou@mbg.duth.gr},
number = {9},
pages = {1672--86},
volume = {3},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Genetics: Population, Humans, Principal Component Analysis, Algorithms, Polymorphism: Single Nucleotide},
date-added = {2010-01-16 21:02:49 +0100},
date-modified = {2010-01-16 21:02:49 +0100},
doi = {10.1371/journal.pgen.0030160},
pii = {07-PLGE-RA-0231},
pmid = {17892327},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3861},
rating = {0}
}
@article{Goldbeck:2001p8459,
author = {L Goldbeck},
journal = {Psycho-Oncology},
title = {Parental coping with the diagnosis of childhood cancer: gender effects, dissimilarity within couples, and quality of life},
abstract = {OBJECTIVE: Considering coping as dynamic process within the family, effects of gender and diagnosis are investigated. Dissimilarity within couples in coping with childhood cancer is studied longitudinally in its effects on quality of life of mothers, fathers, and the sick children. METHODS: A total of 108 parents out of 54 complete families participated in a prospective study. Twenty-five families had a child newly diagnosed with cancer, 29 families had a child newly diagnosed with juvenile diabetes or epilepsy. The Coping Health Inventory for Parents, the Trier Coping Scales, and the Ulm Quality-of-Life Inventory for Parents were employed 1-2 weeks after diagnosis and again 10-12 weeks after diagnosis. RESULTS: In face of childhood cancer, parents develop more rumination, defense, and information seeking, and less social support seeking strategies compared to the control group. Mothers report more frequent and more effective coping compared with fathers, but mothers and fathers do not differ in their self-reported quality of life. No convergence within couples could be demonstrated in most of the corresponding coping styles. The strongest correlation between mothers and fathers appeared in the religious coping style (r=0.60, p<0.001). Coping dissimilarity within couples in social support seeking and religion is correlated with an improvement of parental quality of life. Parental dissimilarity in information seeking is correlated with a decrease in the child's quality of life. CONCLUSION: Coping dissimilarities between fathers and mothers have differential effects on the family members. For this reason, psychosocial interventions should support dis-synchrony when it appears adaptive, and they should help parents to overcome those differences that negatively affect their child.},
affiliation = {Department of Pediatrics, University Clinic Ulm, Germany. lutz.goldbeck@medizin.uni-ulm.de},
number = {4},
pages = {325--35},
volume = {10},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Social Support, Neoplasms, Parent-Child Relations, Parents, Personality Inventory, Adolescent, Quality of Life, Female, Adult, Gender Identity, Prospective Studies, Child: Preschool, Male, Adaptation: Psychological, Child, Humans, Infant},
date-added = {2010-03-21 17:59:59 +0100},
date-modified = {2010-03-21 17:59:59 +0100},
pii = {10.1002/pon.530},
pmid = {11462231},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8459},
rating = {0}
}
@article{Trinchera:2010p4086,
author = {L Trinchera and S Squillacciotti and V Esposito Vinzi},
title = {PLS Typological Path Modeling: a model-based approach to classification},
date-added = {2010-01-19 20:00:23 +0100},
date-modified = {2010-01-19 20:01:15 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Trinchera--_PLS%20Typological%20Path.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4086},
rating = {0}
}
@article{Assaf:2007,
author = {A V Assaf and E P da Silva Tagliaferro and M de Castro Meneghim and C Tengan and A C Pereira and G M B Ambrosano and F L Mialhe},
journal = {Journal of Applied Oral Science},
title = {A new approach for interexaminer reliability data analysis on dental caries calibration},
number = {6},
volume = {15},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1916},
rating = {0}
}
@article{Fox:2002p4630,
author = {J Fox},
title = {Linear Mixed Models},
year = {2002},
date-added = {2010-01-30 15:34:31 +0100},
date-modified = {2010-01-30 15:34:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2002-_Linear%20Mixed%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4630},
rating = {0}
}
@article{Greenhalgh:2009p7311,
author = {Joanne Greenhalgh},
journal = {Qual Life Res},
title = {The applications of PROs in clinical practice: what are they, do they work, and why?},
abstract = {BACKGROUND: Precisely defining the different applications of patient-reported outcome measures (PROs) in clinical practice can be difficult. This is because the intervention is complex and varies amongst different studies in terms of the type of PRO used, how the PRO is fed back, and to whom it is fed back. METHODS: A theory-driven approach is used to describe six different applications of PROs in clinical practice. The evidence for the impact of these applications on the process and outcomes of care are summarised. Possible explanations for the limited impact of PROs on patient management are then discussed and directions for future research are highlighted. RESULTS: The applications of PROs in clinical practice include screening tools, monitoring tools, as a method of promoting patient-centred care, as a decision aid, as a method of facilitating communication amongst multidisciplinary teams (MDTs), and as a means of monitoring the quality of patient care. Evidence from randomised controlled trials suggests that the use of PROs in clinical practice is valuable in improving the discussion and detection of HRQoL problems but has less of an impact on how clinicians manage patient problems or on subsequent patient outcomes. Many of the reasons for this may lie in the ways in which PROs fit (or do not fit) into the routine ways in which patients and clinicians communicate with each other, how clinicians make decisions, and how healthcare as a whole is organised. CONCLUSIONS: Future research needs to identify ways in with PROs can be better incorporated into the routine care of patients by combining qualitative and quantitative methods and adopting appropriate trial designs.},
affiliation = {School of Healthcare, University of Leeds, LS2 9UT, Leeds, UK. j.greenhalgh@leeds.ac.uk},
number = {1},
pages = {115--23},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Decision Making, Patient Satisfaction, Delivery of Health Care, Humans, Outcome Assessment (Health Care), Models: Theoretical, Questionnaires},
date-added = {2010-03-10 20:20:19 +0100},
date-modified = {2010-07-29 19:48:31 +0200},
doi = {10.1007/s11136-008-9430-6},
pmid = {19105048},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7311},
rating = {0}
}
@article{Durston:2010p8817,
author = {Sarah Durston},
journal = {Neuroimage},
title = {Imaging genetics in ADHD},
abstract = {Attention Deficit Hyperactivity Disorder (ADHD) is a prevalent neuropsychiatric disorder, with 5% of school age children affected. Up to 80% of the phenotypic variance can be explained by genetic factors. The intermediate or endophenotype approach allows for mapping of the effect of individual risk genes on neurobiological parameters, such as brain structure, chemistry and, ultimately, function. There are two obvious advantages of applying such an approach to complex disorders: first, these measures are causally closer to genes and gene expression than behavior, meaning that gene effects should be magnified. Second, neuroimaging provides a means to uncover the neurobiological mechanisms by which gene variants impact the brain. To date, only fourteen studies have applied an imaging genetics approach to ADHD. Eight of these used MRI, four SPECT and two EEG. These imaging modalities have afforded us a window on the brain, permitting a glimpse of how genetic changes can affect brain structure, chemistry and function. The studies to date have often focused on two prime candidate genes in the dopamine system, the DRD4 and DAT1 genes. However, the effects of neither are yet fully understood. Imaging genetics in ADHD is in its infancy. While attempts to integrate the findings to date are hinting at how genes may impact various aspects of neural functioning, studies testing clear model-based hypotheses, using multimodal approaches may provide a means to link various windows on the brain.},
affiliation = {Department of Child and Adolescent Psychiatry, Rudolf Magnus Institute of Neuroscience, University Medical Center Utrecht - HP A 01.468, Heidelberglaan 100, 3584 CX Utrecht, The Netherlands.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-22 12:31:27 +0100},
date-modified = {2010-03-22 12:31:27 +0100},
doi = {10.1016/j.neuroimage.2010.02.071},
pii = {S1053-8119(10)00258-2},
pmid = {20206707},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4YHT7TG-6&_user=2432700&_coverDate=03%252F04%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=8a9c36ab5f66244f31bf7e65d7aa290c},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Durston-2010-Neuroimage_Imaging%20genetics%20in-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8817},
rating = {0}
}
@article{Hall:2007p6071,
author = {Geoffrey B C Hall and C Dianne West and Peter Szatmari},
journal = {Brain Cogn},
title = {Backward masking: evidence of reduced subcortical amygdala engagement in autism},
abstract = {Recent data suggest that subthreshold presentation of emotional information is relayed to the amygdala along subcortical pathways. We examined the effect of backward masked neutral and anxious faces on the social decisions of a group of high functioning children with autism ages 7-13 years and matched controls. Participants were asked to select the friendliest of two faces, one of which was associated with the subthreshold (33 ms) presentation of an anxious face (A/N) and the other a subthreshold neutral face (N/N). Neutral paired faces were selected more often than A/N paired faces by both groups. However, children with autism selected significantly fewer N/N stimuli and more A/N stimuli than controls. These results suggest that the social choices of children with autism were influenced less by emotional information presented subconsciously and suggest a subcortical contribution to the social/emotional processing deficits observed in autism.},
affiliation = {Department of Psychiatry and Behavioural Neurosciences, McMaster University, Hamilton, Canada. hallg@mcmaster.ca},
number = {1},
pages = {100--6},
volume = {65},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Autistic Disorder, Child, Male, Matched-Pair Analysis, Functional Laterality, Visual Perception, Subliminal Stimulation, Perceptual Masking, Case-Control Studies, Photic Stimulation, Adolescent, Amygdala, Humans, Emotions, Pattern Recognition: Visual, Statistics: Nonparametric, Facial Expression, Reference Values},
date-added = {2010-02-19 17:02:52 +0100},
date-modified = {2010-02-19 17:02:52 +0100},
doi = {10.1016/j.bandc.2007.01.010},
pii = {S0278-2626(07)00066-8},
pmid = {17629385},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6071},
rating = {0}
}
@article{Wuang:2009p5129,
author = {Yee-Pay Wuang and Yueh-Hsien Lin and Chwen-Yng Su},
journal = {Res Dev Disabil},
title = {Rasch analysis of the Bruininks-Oseretsky Test of Motor Proficiency-Second Edition in intellectual disabilities},
abstract = {The Bruininks-Oseretsky Test of Motor Proficiency-Second Edition (BOT-2) is widely used to assess motor skills for both clinical and research purposes; however, its validity has not been adequately assessed in intellectual disabilities (ID). This study used partial credit Rasch model to examine the measurement properties of the BOT-2 among 446 children and adolescents with ID aged 4-18 years. Seventeen items were identified as problematic in the Rasch modeling. After removal of these items, the appropriateness of the response categories was examined in the 36 remaining items. Where the item response categories failed to express an increasing level of the trait (disordered thresholds), collapsing adjacent categories was performed to address this issue. After rescoring most items, items in each composite of the revised BOT-2 showed good fit to the Rasch model and demonstrated excellent reliability (range 0.90-0.97). No differential item functioning was detected with respect to age and gender. The ability of the revised composites to differentiate between mild versus moderate to severe ID was better than those of the original BOT-2. Items from the manual coordination and strength and agility composites were well targeted to the sample, whereas items from fine manual control and body coordination composites were mostly targeted at the lower levels of ability in these domains. Items of higher difficulty may be supplemented to increase the range of ability levels of the people to whom these two composites can be applied with precision.},
affiliation = {Department of Occupational Therapy, Kaohsiung Medical University, 100 Shih-Chuan 1st Road, Kaohsiung 807, Taiwan.},
number = {6},
pages = {1132--44},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Disabled Children, Humans, Adolescent, Psychomotor Performance, Perceptual Disorders, Motor Skills Disorders, Mentally Disabled Persons, Child, Disability Evaluation, Motor Skills, Child: Preschool},
date-added = {2010-02-05 20:20:06 +0100},
date-modified = {2010-02-05 20:20:07 +0100},
doi = {10.1016/j.ridd.2009.03.003},
pii = {S0891-4222(09)00055-9},
pmid = {19395233},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5129},
rating = {0}
}
@article{Hofvander:2009p8925,
author = {Bj{\"o}rn Hofvander and Daniel Ossowski and Sebastian Lundstr{\"o}m and Henrik Anckars{\"a}ter},
journal = {Int J Law Psychiatry},
title = {Continuity of aggressive antisocial behavior from childhood to adulthood: The question of phenotype definition},
abstract = {Aiming to clarify the adult phenotype of antisocial personality disorder (ASPD), the empirical literature on its childhood background among the disruptive behaviour disorders, such as attention deficit/hyperactivity disorder (AD/HD), oppositional defiant disorder (ODD), conduct disorder (CD), or hyperkinetic conduct disorder (HKCD), was reviewed according to the Robins and Guze criteria for nosological validity. At least half of hyperactive children develop ODD and about a third CD (i.e. AD/HD+CD or HKCD) before puberty. About half of children with this combined problem constellation develop antisocial personality disorder (ASPD) in adulthood. Family and adoption/twin studies indicate that AD/HD and CD share a high heritability and that, in addition, there may be specific environmental effects for criminal behaviours. "Zones of rarity" delineating the disorders from each other, or from the normal variation, have not been identified. Neurophysiology, brain imaging, neurochemistry, neurocognition, or molecular genetics have not provided "external validity" for any of the diagnostic categories used today. Deficient mental functions, such as inattention, poor executive functions, poor verbal learning, and impaired social interaction (empathy), seem to form unspecific susceptibility factors. As none of today's proposed syndromes (e.g. AD/HD or psychopathy) seems to describe a natural category, a dimensional behavioural phenotype reflecting aggressive antisocial behaviours assessed by numbers of behaviours, the severity of their consequences and how early is their age at onset, which will be closely related to childhood hyperactivity, would bring conceptual clarity, and may form the basis for further probing into mental, cognitive, biological and treatment-related co-varying features.},
affiliation = {Forensic Psychiatry, Lund University, Sweden. Bjorn.Hofvander@med.lu.se},
number = {4},
pages = {224--34},
volume = {32},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Conduct Disorder, Adolescent, Child, Phenotype, Adult, Antisocial Personality Disorder, Attention Deficit Disorder with Hyperactivity, Young Adult, Aggression, Humans},
date-added = {2010-03-22 13:02:27 +0100},
date-modified = {2010-03-22 13:02:27 +0100},
doi = {10.1016/j.ijlp.2009.04.004},
pii = {S0160-2527(09)00047-8},
pmid = {19428109},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6V7W-4W80C96-1&_user=2432700&_coverDate=08%252F31%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=02dbb972999b29fcd44a3cc7aa412418},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hofvander-2009-Int%20J%20Law%20Psychiatry_Continuity%20of%20aggres.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8925},
rating = {0}
}
@article{Vermunt:2010p11749,
author = {J K Vermunt and J Magidson},
title = {Factor Analysis with Categorical Indicators: A Comparison Between Traditional and
Latent Class Approaches},
date-added = {2010-05-14 21:55:42 +0200},
date-modified = {2010-05-14 21:56:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt--_Factor%20Analysis%20with.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11749},
rating = {5}
}
@article{Dickinson:2010p8338,
author = {Heather O Dickinson and Susan Hrisos and Martin P Eccles and Jill Francis and Marie Johnston},
journal = {Implementation science : IS},
title = {Statistical considerations in a systematic review of proxy measures of clinical behaviour},
abstract = {ABSTRACT: BACKGROUND: Studies included in a related systematic review used a variety of statistical methods to summarise clinical behaviour and to compare proxy (or indirect) and direct (observed) methods of measuring it. The objective of the present review was to assess the validity of these statistical methods and make appropriate recommendations. METHODS: Electronic bibliographic databases were searched to identify studies meeting specified inclusion criteria. Potentially relevant studies were screened for inclusion independently by two reviewers. This was followed by systematic abstraction and categorization of statistical methods, as well as critical assessment of these methods. RESULTS: Fifteen reports (of 11 studies) met the inclusion criteria. Thirteen analysed individual clinical actions separately and presented a variety of summary statistics: sensitivity was available in eight reports and specificity in six, but four reports treated different actions interchangeably. Seven reports combined several actions into summary measures of behaviour: five reports compared means on direct and proxy measures using analysis of variance or t-tests; four reported the Pearson correlation; none compared direct and proxy measures over the range of their values. Four reports comparing individual items used appropriate statistical methods, but reports that compared summary scores did not. CONCLUSIONS: We recommend sensitivity and positive predictive value as statistics to assess agreement of direct and proxy measures of individual clinical actions. Summary measures should be reliable, repeatable, capture a single underlying aspect of behaviour, and map that construct onto a valid measurement scale. The relationship between the direct and proxy measures should be evaluated over the entire range of the direct measure and describe not only the mean of the proxy measure for any specific value of the direct measure, but also the range of variability of the proxy measure. The evidence about the relationship between direct and proxy methods of assessing clinical behaviour is weak.},
number = {1},
pages = {20},
volume = {5},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-21 12:40:08 +0100},
date-modified = {2010-03-21 12:40:08 +0100},
doi = {10.1186/1748-5908-5-20},
pii = {1748-5908-5-20},
pmid = {20187923},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dickinson-2010-Implementation%20science%20IS_Statistical%20consider.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8338},
rating = {0}
}
@article{Crager:2010p1708,
author = {Michael R Crager},
journal = {Stat Med},
title = {Gene identification using true discovery rate degree of association sets and estimates corrected for regression to the mean},
abstract = {Analyses intended to identify genes with expression that is associated with some clinical outcome or state are often based on ranked p-values from tests of point null hypotheses of no association. Van de Wiel and Kim take the innovative approach of testing the interval null hypotheses that the degree of association for a gene is less than some value of interest against the alternative that it is greater. Combining this idea with the false discovery rate controlling methods of Storey, Taylor and Siegmund gives a computationally simple way to identify true discovery rate degree of association (TDRDA) sets of genes among which a specified proportion are expected to have an absolute association of a specified degree or more. This leads to a gene ranking method that uses the maximum lower bound degree of association for which each gene belongs to a TDRDA set. Estimates of each gene's actual degree of association with approximate correction for 'selection bias' due to regression to the mean (RM) can be derived using simple bivariate normal theory and Efron and Tibshirani's empirical Bayes approach. For a given data set, all possible TDRDA sets can be displayed along with the gene ranking and the RM-corrected estimates of degree of association in a concise graphical summary.},
affiliation = {Department of Biostatistics, Genomic Health, Inc., Redwood City, CA 94063, USA. MCrager@genomichealth.com},
number = {1},
pages = {33--45},
volume = {29},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-09 19:23:04 +0100},
date-modified = {2010-01-09 19:23:04 +0100},
doi = {10.1002/sim.3789},
pmid = {19960511},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crager-2010-Stat%20Med_Gene%20identification.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1708},
rating = {0}
}
@article{Peer:2008p3819,
author = {Itsik Pe'er and Roman Yelensky and David M Altshuler and Mark J Daly},
journal = {Genet Epidemiol},
title = {Estimation of the multiple testing burden for genomewide association studies of nearly all common variants},
abstract = {Genomewide association studies are an exciting strategy in genetics, recently becoming feasible and harvesting many novel genes linked to multiple phenotypes. Determining the significance of results in the face of testing a genomewide set of multiple hypotheses, most of which are producing noisy, null-distributed association signals, presents a challenge to the wide community of association researchers. Rather than each study engaging in independent evaluation of significance standards, we have undertaken the task of developing such standards for genomewide significance, based on data collected by the International Haplotype Map Consortium. We report an estimated testing burden of a million independent tests genomewide in Europeans, and twice that number in Africans. We further identify the sensitivity of the testing burden to the required significance level, with implications to staged design of association studies.},
affiliation = {Department of Computer Science, Columbia University, New York, New York, USA.},
number = {4},
pages = {381--5},
volume = {32},
year = {2008},
month = {May},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, African Continental Ancestry Group, Biometry, Databases: Genetic, European Continental Ancestry Group, Humans, Models: Genetic, Epidemiologic Methods, Genetic Techniques, Genetic Variation},
date-added = {2010-01-16 21:01:23 +0100},
date-modified = {2010-07-29 20:21:03 +0200},
doi = {10.1002/gepi.20303},
pmid = {18348202},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3819},
rating = {0}
}
@article{Brant:2009p7615,
author = {Angela M Brant and Brett C Haberstick and Robin P Corley and Sally J Wadsworth and John C DeFries and John K Hewitt},
journal = {Behav Genet},
title = {The developmental etiology of high IQ},
abstract = {The genetic and environmental trends in IQ development were assessed in 483 same-sex twin pairs in the Colorado longitudinal twin study using maximum-likelihood model-fitting analysis. The twins were assessed periodically from ages 1 to 16. Results show a decreasing influence of shared environment and an increasing influence of heritability across development, with large and increasing age to age stability of genetic influences. Non-shared environment contributes almost exclusively to age to age change. Similar analyses were conducted designating the top 15% of the sample as having high IQ at each age. The developmental etiology of high IQ did not significantly differ from that found for the continuous measure in this relatively novel analysis. These results demonstrate early stability in etiological influences on IQ and have potential implications for gene-finding efforts, suggesting that samples selected for high IQ can be used to find genetic variation that will be applicable to the full range of the IQ distribution, although conclusive demonstration that the same genes are indeed involved was beyond the scope of this study.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, CO 80309-0447, USA. angela.brant@colorado.edu},
number = {4},
pages = {393--405},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Twins: Dizygotic, Intelligence, Colorado, Genetic Variation, Prospective Studies, Models: Genetic, Adolescent, Male, Epistasis: Genetic, Longitudinal Studies, Twins: Monozygotic, Statistics as Topic, Age Factors, Child: Preschool, Child: Gifted, Female, Child, Phenotype, Social Environment, Infant, Humans},
date-added = {2010-03-15 23:11:12 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9268-x},
pmid = {19377873},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brant-2009-Behav%20Genet_The%20developmental%20et.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7615},
rating = {0}
}
@article{Hesse:2010p8327,
author = {Morten Hesse and Paul Moran},
journal = {BMC Psychiatry},
title = {Screening for personality disorder with the Standardised Assessment of Personality: Abbreviated Scale (SAPAS): further evidence of concurrent validity},
abstract = {BACKGROUND: The assessment of personality disorders (PD) is costly and time-consuming. There is a need for a brief screen for personality disorders that can be used in routine clinical settings and epidemiological surveys. Aims: To test the validity of the Standardised Assessment of Personality: Abbreviated Scale (SAPAS) as a screen for PD in a clinical sample of substance abusers. METHODS: Convergent validity of the SAPAS with both categorical and dimensional representations of personality disorders was estimated. RESULTS: In this sample, the SAPAS correlated well with dimensional representations of cluster A and C personality disorders, even after controlling for ADHD symptoms, anxiety/depression symptoms and recent substance use. The SAPAS was also significantly associated with total number of PD criteria, although correlation with categorical measures of PD was weak. CONCLUSIONS: The SAPAS is an valid brief screen for PD as assessed dimensionally.},
affiliation = {Centre for Alcohol and Drug Research, University of Aarhus, Denmark. mh@crf.au.dk},
pages = {10},
volume = {10},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:33:08 +0100},
date-modified = {2010-03-21 12:33:08 +0100},
doi = {10.1186/1471-244X-10-10},
pii = {1471-244X-10-10},
pmid = {20109169},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hesse-2010-BMC%20Psychiatry_Screening%20for%20person.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8327},
read = {Yes},
rating = {0}
}
@article{Boddaert:2009p6145,
author = {Nathalie Boddaert and M{\^o}nica Zilbovicius and Anne Philipe and Laurence Robel and Marie Bourgeois and Catherine Barth{\'e}lemy and David Seidenwurm and Isabelle Meresse and Laurence Laurier and Isabelle Desguerre and Nadia Bahi-Buisson and Francis Brunelle and Arnold Munnich and Yves Samson and Marie-Christine Mouren and Nadia Chabane},
journal = {PLoS ONE},
title = {MRI findings in 77 children with non-syndromic autistic disorder},
abstract = {BACKGROUND: The clinical relevance of MR scanning in children with autism is still an open question and must be considered in light of the evolution of this technology. MRI was judged to be of insufficient value to be included in the standard clinical evaluation of autism according to the guidelines of the American Academy of Neurology and Child Neurology Society in 2000. However, this statement was based on results obtained from small samples of patients and, more importantly, included mostly insufficient MRI sequences. Our main objective was to evaluate the prevalence of brain abnormalities in a large group of children with a non-syndromic autistic disorder (AD) using T1, T2 and FLAIR MRI sequences. METHODOLOGY: MRI inspection of 77 children and adolescents with non-syndromic AD (mean age 7.4+/-3.6) was performed. All met the DSM-IV and ADI -R criteria for autism. Based on recommended clinical and biological screenings, we excluded patients with infectious, metabolic or genetic diseases, seizures or any other neurological symptoms. Identical MRI inspections of 77 children (mean age 7.0+/-4.2) without AD, developmental or neurological disorders were also performed. All MRIs were acquired with a 1.5-T Signa GE (3-D T1-FSPGR, T2, FLAIR coronal and axial sequences). Two neuroradiologists independently inspected cortical and sub-cortical regions. MRIs were reported to be normal, abnormal or uninterpretable. PRINCIPAL FINDINGS: MRIs were judged as uninterpretable in 10% (8/77) of the cases. In 48% of the children (33/69 patients), abnormalities were reported. Three predominant abnormalities were observed, including white matter signal abnormalities (19/69), major dilated Virchow-Robin spaces (12/69) and temporal lobe abnormalities (20/69). In all, 52% of the MRIs were interpreted as normal (36/69 patients). CONCLUSIONS: An unexpectedly high rate of MRI abnormalities was found in the first large series of clinical MRI investigations in non-syndromic autism. These results could contribute to further etiopathogenetic research into autism.},
affiliation = {INSERM-CEA U 797, Service Hospitalier Fr{\'e}d{\'e}ric Joliot, CEA, Orsay, France. nathalie.boddaert@nck.aphp.fr},
number = {2},
pages = {e4415},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Female, Demography, Brain Mapping, Autistic Disorder, Syndrome, Child, Temporal Lobe, Magnetic Resonance Imaging, Male},
date-added = {2010-02-19 20:11:03 +0100},
date-modified = {2010-02-19 20:11:03 +0100},
doi = {10.1371/journal.pone.0004415},
pmid = {19204795},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boddaert-2009-PLoS%20ONE_MRI%20findings%20in%2077%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6145},
rating = {0}
}
@article{Ji:2010p12745,
author = {Shuang Ji and Qi Long and D Jeffrey Newport and Hyeji Na and Bettina Knight and Elizabeth B Zach and Natalie J Morris and Michael Kutner and Zachary N Stowe},
journal = {J Psychiatr Res},
title = {Validity of depression rating scales during pregnancy and the postpartum period: Impact of trimester and parity},
abstract = {The objective of the current study was to delineate the optimal cutpoints for depression rating scales during pregnancy and the postpartum period and to assess the perinatal factors influencing these scores. Women participating in prospective investigations of maternal mental illness were enrolled prior to 28 weeks gestation and followed through 6 months postpartum. At each visit, subjects completed self-rated depression scales - Edinburgh Postnatal Depression Scale (EPDS) and Beck Depression Inventory (BDI) and clinician-rated scales - Hamilton Rating Scale for Depression (HRSD(17) and HRSD(21)). These scores were compared to the SCID Mood Module for the presence of fulfilling diagnostic criteria for a major depressive episode (MDE) during 6 perinatal windows: preconception; first trimester; 2nd trimester; 3rd trimester; early postpartum; and later postpartum. Optimal cutpoints were determined by maximizing the sum of each scale's sensitivity and specificity. Stratified ROC analyses determined the impact of previous pregnancy and comparison of initial to follow-up visits. A total of 534 women encompassing 640 pregnancies and 4025 follow-up visits were included. ROC analysis demonstrated that all 4 scales were highly predictive of MDE. The AUCs ranged from 0.857 to 0.971 and were all highly significant (p < .0001). Optimal cutpoints were higher at initial visits and for multigravidas and demonstrated more variability for the self-rated scales. These data indicate that both clinician-rated and self-rated scales can be effective tools in identifying perinatal episodes of major depression. However, the results also suggest that prior childbirth experiences and the use of scales longitudinally across the perinatal period influence optimal cutpoints.},
affiliation = {Department of Biostatistics and Bioinformatics, Emory University Rollins School of Public Health, 1518 Clifton Rd NE, Atlanta, GA 30322, USA.},
pages = {},
year = {2010},
month = {Jun},
language = {ENG},
date-added = {2010-06-15 22:49:25 +0200},
date-modified = {2010-06-15 22:49:28 +0200},
doi = {10.1016/j.jpsychires.2010.05.017},
pii = {S0022-3956(10)00177-9},
pmid = {20542520},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ji-2010-J%20Psychiatr%20Res_Validity%20of%20depressi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12745},
rating = {3}
}
@article{Seldin:2006p10039,
author = {Michael F Seldin and Russell Shigeta and Pablo Villoslada and Carlo Selmi and Jaakko Tuomilehto and Gabriel Silva and John W Belmont and Lars Klareskog and Peter K Gregersen},
journal = {PLoS Genet},
title = {European population substructure: clustering of northern and southern populations},
abstract = {Using a genome-wide single nucleotide polymorphism (SNP) panel, we observed population structure in a diverse group of Europeans and European Americans. Under a variety of conditions and tests, there is a consistent and reproducible distinction between "northern" and "southern" European population groups: most individual participants with southern European ancestry (Italian, Spanish, Portuguese, and Greek) have >85% membership in the "southern" population; and most northern, western, eastern, and central Europeans have >90% in the "northern" population group. Ashkenazi Jewish as well as Sephardic Jewish origin also showed >85% membership in the "southern" population, consistent with a later Mediterranean origin of these ethnic groups. Based on this work, we have developed a core set of informative SNP markers that can control for this partition in European population structure in a variety of clinical and genetic studies.},
affiliation = {Rowe Program in Human Genetics, Departments of Biological Chemistry and Medicine, University of California Davis, Davis, California, United States of America. mfseldin@ucdavis.edu},
number = {9},
pages = {e143},
volume = {2},
year = {2006},
month = {Sep},
language = {eng},
keywords = {New York, European Continental Ancestry Group, Genetics: Population, Humans, Reproducibility of Results, Lactase, Jews, Gene Frequency, Genetic Markers, Cluster Analysis, Europe, Polymorphism: Single Nucleotide, Arthritis: Rheumatoid},
date-added = {2010-03-31 20:11:50 +0200},
date-modified = {2010-03-31 20:11:50 +0200},
doi = {10.1371/journal.pgen.0020143},
pii = {06-PLGE-RA-0168R2},
pmid = {17044734},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Seldin-2006-PLoS%20Genet_European%20population.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10039},
rating = {0}
}
@article{Coons:2007p8809,
author = {Stephen Joel Coons},
journal = {Clin Ther},
title = {Health-related quality of life: let's measure and report it appropriately},
number = {12},
pages = {2746--7},
volume = {29},
year = {2007},
month = {Dec},
language = {eng},
keywords = {United States Food and Drug Administration, Pharmaceutical Preparations, Psychometrics, Quality of Life, Outcome Assessment (Health Care), Endpoint Determination, United States, Patient Satisfaction, Humans},
date-added = {2010-03-22 12:10:09 +0100},
date-modified = {2010-07-29 19:23:20 +0200},
doi = {10.1016/j.clinthera.2007.12.031},
pii = {S0149-2918(07)00418-3},
pmid = {18201592},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Coons-2007-Clin%20Ther_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8809},
rating = {0}
}
@article{Edwards:2008p4218,
author = {Todd L Edwards and William S Bush and Stephen D Turner and Scott M Dudek and Eric S Torstenson and Mike Schmidt and Eden Martin and Marylyn D Ritchie},
journal = {Lect Notes Comput Sci},
title = {Generating Linkage Disequilibrium Patterns in Data Simulations using genomeSIMLA},
abstract = {Whole-genome association (WGA) studies are becoming a common tool for the exploration of the genetic components of common disease. The analysis of such large scale data presents unique analytical challenges, including problems of multiple testing, correlated independent variables, and large multivariate model spaces. These issues have prompted the development of novel computational approaches. Thorough, extensive simulation studies are a necessity for methods development work to evaluate the power and validity of novel approaches. Many data simulation packages exist, however, the resulting data is often overly simplistic and does not compare to the complexity of real data; especially with respect to linkage disequilibrium (LD). To overcome this limitation, we have developed genomeSIMLA. GenomeSIMLA is a forward-time population simulation method that can simulate realistic patterns of LD in both family-based and case-control datasets. In this manuscript, we demonstrate how LD patterns of the simulated data change under different population growth curve parameter initialization settings. These results provide guidelines to simulate WGA datasets whose properties resemble the HapMap.},
affiliation = {Center for Human Genetics Research, Department of Molecular Physiology {\&} Biophysics, Vanderbilt University, Nashville, TN, USA, edwards@chgr.mc.vanderbilt.edu , bush@chgr.mc.vanderbilt.edu , stephen@chgr.mc.vanderbilt.edu , dudek@chgr.mc.vanderbilt.edu , torstenson@chgr.mc.vanderbilt.edu , ritchie@chgr.mc.vanderbilt.edu.},
number = {2008},
pages = {24--35},
volume = {4973},
year = {2008},
month = {Jan},
language = {ENG},
date-added = {2010-01-21 08:13:23 +0100},
date-modified = {2010-01-21 08:13:23 +0100},
doi = {10.1007/978-3-540-78757-0_3},
pmid = {19779634},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Edwards-2008-Lect%20Notes%20Comput%20Sci_Generating%20Linkage%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4218},
rating = {0}
}
@article{Meagher:2010p7657,
author = {M W Meagher and A N Sieve and R R Johnson and D Satterlee and M Belyavskyi and W Mi and T W Prentice and T H Welsh and C J R Welsh},
journal = {Behav Genet},
title = {Neonatal maternal separation alters immune, endocrine, and behavioral responses to acute theiler's virus infection in adult mice},
abstract = {Previous studies have established a link between adverse early life events and subsequent disease vulnerability. The present study assessed the long-term effects of neonatal maternal separation on the response to Theiler's murine encephalomyelitis virus infection, a model of multiple sclerosis. Balb/cJ mouse pups were separated from their dam for 180-min/day (180-min MS), 15-min/day (15-min MS), or left undisturbed from postnatal days 2-14. During adolescence, mice were infected with Theiler's virus and sacrificed at days 14, 21, or 35 post-infection. Prolonged 180-min MS increased viral load and delayed viral clearance in the spinal cords of males and females, whereas brief 15-min MS increased the rate of viral clearance in females. The 15-min and 180-min MS mice exhibited blunted corticosterone responses during infection, suggesting that reduced HPA sensitivity may have altered the immune response to infection. These findings demonstrate that early life events alter vulnerability to CNS infection later in life. Therefore, this model could be used to study gene-environment interactions that contribute to individual differences in susceptibility to infectious and autoimmune diseases of the CNS.},
affiliation = {Department of Psychology, College of Liberal Arts, Texas A{\&}M University, College Station, TX, 77843-4235, USA. M-Meagher@tamu.edu},
number = {2},
pages = {233--49},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:25:24 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9333-5},
pmid = {20135342},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meagher-2010-Behav%20Genet_Neonatal%20maternal%20se.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7657},
rating = {0}
}
@article{Tang:1996p11592,
author = {K L Tang},
journal = {TOEFL Monograph Series},
title = {Polytomous item response theory and their applications in large-scale testing programs: Review of litterature},
number = {2},
year = {1996},
date-added = {2010-05-09 21:14:38 +0200},
date-modified = {2010-05-09 21:15:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tang-1996-TOEFL%20Monograph%20Series_Polytomous%20item%20resp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11592},
rating = {4}
}
@article{Benaglia:2009p3198,
author = {T Benaglia and D Chauveau and D R Hunter and D S Young},
title = {mixtools: An R Package for Analyzing Finite Mixture Models},
abstract = {The mixtools package for the R statistical software (R Development Core Team, 2008) provides a set of functions for analyzing a variety of finite mixture models. These functions include both traditional methods, such as EM algorithms for univariate and multivariate normal mixtures, and newer methods that reflect some recent research in finite mixture models. In the latter category, mixtools provides algorithms for estimating parameters in a wide range of different mixture-of-regression contexts, in multinomial mixtures such as those arising from discretizing continuous multivariate data, in nonparametric situations where the multivariate component densities are completely unspecified, and in semiparametric situations such as a univariate location mixture of symmetric but otherwise unspecified densities. Many of the algorithms of the mixtools package are EM algorithms or are based on EM-like ideas, so this article includes an overview of EM algorithms for finite mixture models.},
year = {2009},
date-added = {2010-01-14 20:57:31 +0100},
date-modified = {2010-01-14 20:58:07 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Benaglia-2009-_mixtools%20An%20R%20Packa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3198},
rating = {0}
}
@article{Gentleman:2004p3297,
author = {R Gentleman and D T Lang},
journal = {Bioconductor Project Working Papers},
title = {Statistical Analyses and Reproducible Research},
abstract = {For various reasons, it is important, if not essential, to integrate the computa- tions and code used in data analyses, methodological descriptions, simulations, etc. with the documents that describe and rely on them. This integration allows readers to both verify and adapt the statements in the documents. Authors can easily reproduce them in the future, and they can present the document's con- tents in a different medium, e.g. with interactive controls. This paper describes a software framework for authoring and distributing these integrated, dynamic doc- uments that contain text, code, data, and any auxiliary content needed to recreate the computations. The documents are dynamic in that the contents, including figures, tables, etc., can be recalculated each time a view of the document is gen- erated. Our model treats a dynamic document as a master or ``source'' document from which one can generate different views in the form of traditional, derived documents for different audiences.
We introduce the concept of a compendium as both a container for the different elements that make up the document and its computations (i.e. text, code, data, ...), and as a means for distributing, managing and updating the collection.
The step from disseminating analyses via a compendium to reproducible research is a small one. By reproducible research, we mean research papers with accom- panying software tools that allow the reader to directly reproduce the results and employ the methods that are presented in the research paper. Some of the issues in- volved in paradigms for the production, distribution and use of such reproducible research are discussed.},
number = {2},
year = {2004},
date-added = {2010-01-14 21:26:06 +0100},
date-modified = {2010-07-29 19:19:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gentleman-2004-Bioconductor%20Project%20Working%20Papers_Statistical%20Analyses.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3297},
rating = {0}
}
@misc{Petridou:2006,
author = {Alexandra Petridou and Julian Williams},
journal = {Miscellaneous},
title = {Instability of person misfit and ability estimates subject to assessment modality},
year = {2006},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petridou-2006-Miscellaneous_Instability%20of%20perso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1932},
rating = {0}
}
@article{Sullivan:2000p6662,
author = {M D Sullivan and G I Kempen and E Van Sonderen and J Ormel},
journal = {Qual Life Res},
title = {Models of health-related quality of life in a population of community-dwelling Dutch elderly},
abstract = {OBJECTIVE: Though health-related quality of life (HRQoL) is now commonly measured as an outcome in clinical trials, the relationships between its components remain unclear. The relation of physical symptoms, physical function, and psychological symptoms to each other and to overall quality of life is of special interest. METHOD: Cross-sectional data from 5,279 community-dwelling elders who participated in the Groningen Longitudinal Aging Study were analyzed using structural equation modeling techniques. Three models were examined. One "Linear" model included: number of chronic medical conditions, physical symptoms, physical functioning, activity interference, social function, perceived health and overall quality of life in a simple linear progression. Another 'non-linear' model included these variables, but allowed effects between non-adjacent variables. A third 'non-linear' model included these variables plus anxiety and depressive symptoms. RESULTS: The Linear Model did not satisfactorily account for the observed data [X2(15df) = 2946.96], so the saturated Non-Linear Model, incorporating paths between non-adjacent components, is described. When anxiety and depressive symptoms were added to this Non-Linear Model, they fit best in a position mediating the relation between perceived health and overall quality of life [X2(5df) = 136.78]. CONCLUSIONS: Overall quality of life appears to be related to symptom status as directly as it is related to functional status. Anxiety and depressive symptoms appear to mediate the relation between general health perceptions and overall quality of life. Quality of life measures should therefore include assessments of physical and psychological symptom severity as well as functional status if they are to truly reflect what matters to patients. The disability-adjusted life year (DALY) measure used by the WHO may inadequately reflect the effect of symptoms on patient's quality of life.},
affiliation = {Psychiatry and Behavioral Sciences, University of Washington, Seattle 98195, USA. sullimar@u.washington.edu},
number = {7},
pages = {801--10},
volume = {9},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Chi-Square Distribution, Health Status, Female, Linear Models, Middle Aged, Aging, Netherlands, Male, Aged, Humans, Quality of Life, Depression, Longitudinal Studies, Anxiety, Cross-Sectional Studies},
date-added = {2010-03-03 20:43:40 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
pmid = {11297022},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sullivan-2000-Qual%20Life%20Res_Models%20of%20health-rel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6662},
rating = {0}
}
@article{Diehr:2006p3304,
author = {P Diehr and L Chen and D L Patrick and Z Feng and Y Yasui},
journal = {UW Biostatistics Working Paper Series},
title = {Reliability, Effect Size, and Responsiveness and Intraclass
Correlation of Health Status Measures Used in Randomized and Cluster-Randomized Trials},
abstract = {Background: New health status instruments are described by psychometric properties, such as Reliability, Effect Size, and Responsiveness. For cluster- randomized trials, another important statistic is the Intraclass Correlation for the instrument within clusters. Studies using better instruments can be per- formed with smaller sample sizes, but better instruments may be more expen- sive in terms of dollars, lost opportunities, or poorer data quality due to the response burden of longer instruments. Investigators often need to estimate the psychometric properties of a new instrument, or of an established instrument in a new setting. Optimal sample sizes for estimating these properties have not been studied in detail.
Methods: We examined the power of a two-sample test as a function of the Reliability, Effect Size, Responsiveness, and Intraclass Correlation of the instru- ment. We calculated the ``cost-effectiveness'' of using a 1-item versus a 5-item measure of mental health status. We also used simulation to determine formu- las for the sample size needed to estimate the psychometric statistics accurately.
Findings: Under the usual model for measurement error, the psychometric statistics are all functions of the same error term. In randomized trials, a poorer instrument can achieve the desired power if the number of persons per treat- ment group is increased. In cluster-randomized trials, adequate power may be obtained by increasing the number of clusters per treatment group (and often the number of persons per cluster), as well as by choosing a better instrument. The 1-item measure of mental health status may be more cost-effective than the 5-item measure in some settings. Most published psychometric values are situation-specific. Very large samples are required to estimate Responsiveness and the Intraclass Correlation accurately.
Conclusion: If the goal is to diagnose or refer individual patients, an instru- ment with high Validity and Reliability is needed. In settings where the sample sizes can be increased easily, less reliable instruments may be cost-effective. It is likely that many values of published psychometric statistics were derived from samples too small to provide accurate values, or are importantly specific to the setting in which they were derived.
Note: A paper based on some of the material in this technical report has been published. (Diehr P, Chen L, Patrick D, Feng Z, Yasui Y. Reliability, effect size, and responsiveness of health status measures in the design of randomized and cluster-randomized trials. Contemporary Clinical Trials. 2005; 26:45-58. B). That paper does not include the material on estimating the sample size required to provide an accurate estimate of the reliability of a new instrument. That material is included in this technical report.},
number = {284},
year = {2006},
date-added = {2010-01-14 21:31:29 +0100},
date-modified = {2010-03-21 19:39:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diehr-2006-UW%20Biostatistics%20Working%20Paper%20Series_Reliability%20Effect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3304},
read = {Yes},
rating = {4}
}
@article{Wickham:2006p10900,
author = {H Wickham and H Hofmann and D Cook},
title = {Exploring cluster analysis},
abstract = {This paper presents a set of tools to explore the re- sults of cluster analysis. We use R to cluster the data, and explore it with textual summaries and static graph- ics. Using Rggobi2 we have linked R to GGobi so that we can use the dynamic and interactive graphics ca- pabilities of GGobi. We then use these tools to inves- tigate clustering results from the three major families of clustering algorithms.},
year = {2006},
date-added = {2010-04-11 13:47:24 +0200},
date-modified = {2010-07-11 09:35:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham-2006-_Exploring%20cluster%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10900},
read = {Yes},
rating = {3}
}
@article{Regnault:2007p2323,
author = {A R{\'e}gnault},
title = {M{\'e}thodes quantitatives pour l'{\'e}valuation de la validit{\'e} interculturelle des instruments de mesure subjective {\'e}valu{\'e}e par les patients},
year = {2007},
date-added = {2010-01-10 12:48:47 +0100},
date-modified = {2010-01-10 12:49:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/R%C3%A9gnault-2007-_M%C3%A9thodes%20quantitativ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2323},
rating = {0}
}
@inbook{Schober:1999,
author = {MF Schober},
journal = {Book},
title = {Cognition and survey research},
chapter = {Making sense of questions: An interactional approach},
pages = {77--93},
year = {1999},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p997},
rating = {0}
}
@article{Vittinghoff:2007p4736,
author = {Eric Vittinghoff and Charles E McCulloch},
journal = {Am J Epidemiol},
title = {Relaxing the rule of ten events per variable in logistic and Cox regression},
abstract = {The rule of thumb that logistic and Cox models should be used with a minimum of 10 outcome events per predictor variable (EPV), based on two simulation studies, may be too conservative. The authors conducted a large simulation study of other influences on confidence interval coverage, type I error, relative bias, and other model performance measures. They found a range of circumstances in which coverage and bias were within acceptable levels despite less than 10 EPV, as well as other factors that were as influential as or more influential than EPV. They conclude that this rule can be relaxed, in particular for sensitivity analyses undertaken to demonstrate adequate control of confounding.},
affiliation = {Department of Epidemiology and Biostatistics, University of California-San Francisco, 185 Berry Street, San Francisco, CA 94107, USA. eric@biostat.ucsf.edu},
number = {6},
pages = {710--8},
volume = {165},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Bias (Epidemiology), Case-Control Studies, Prevalence, Sensitivity and Specificity, Multivariate Analysis, Confidence Intervals, Proportional Hazards Models, Sample Size, Logistic Models, Predictive Value of Tests, Data Interpretation: Statistical, Humans, Confounding Factors (Epidemiology), Factor Analysis: Statistical},
date-added = {2010-01-30 16:23:02 +0100},
date-modified = {2010-01-30 16:23:02 +0100},
doi = {10.1093/aje/kwk052},
pii = {kwk052},
pmid = {17182981},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vittinghoff-2007-Am%20J%20Epidemiol_Relaxing%20the%20rule%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4736},
rating = {0}
}
@article{DiStefano:2005p1756,
author = {J Di Stefano and F Fidler and G Cumming},
title = {Effect size estimates and confidence intervals: An alternative focus for the presentation and interpretation of ecological data},
abstract = {Since the development and popularisation of statistical science during the 1930s, the uptake of statistical hypothesis tests in major science disciplines like psychology, medicine and biology has been rapid. Hypothesis tests did not become common in the ecological literature until the 1960s but, since then, testing zero null hypotheses and using P-values to make dichotomous decisions about rejecting them has become routine. Recent surveys of the ecological literature show that P-values are reported in the vast majority of published research articles.
We believe that the focus on tests of zero null hypotheses and the reliance on P-values is inappropriate and argue that ecological data are more relevant to both ecologists and applied users if a priori sample size determination procedures are conducted, and effect size estimates and their associated confidence intervals are used to present results. We report evidence that effect sizes, associated uncertainty estimates and sample size calculations are missing from a large number of publications in two leading conservation biology journals. An overwhelming majority (92%) of surveyed articles reported P-values, but only 3% of these reported statistical power. Furthermore, many articles were missing at least one estimate of effect size (43%) or measure of variance (67%). Confidence intervals were reported in only 19% of articles and, when reported, were often inadequately interpreted.
An ecological data set is analysed using both P-values and confidence intervals, and the results from these two approached compared. We also demonstrate a novel precision-based approach for a priori sample size calculations that is consistent with the philosophy of interval estimation. Although we advocate the use of confidence intervals, recent research shows that they are often incorrectly interpreted. Two major problems are (a) under estimation of the degree to which two confidence intervals must overlap before their associated means are statistically different and (b) overestimation of the proportion of future means enclosed by a sample interval. We provide guidelines for the interpretation and presentation of confidence intervals so that users of ecological data can make the most of the information they contain.},
year = {2005},
date-added = {2010-01-09 21:10:43 +0100},
date-modified = {2010-01-09 21:11:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Di%20Stefano-2005-_Effect%20size%20estimate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1756},
rating = {0}
}
@article{Chakravarty:2007p5959,
author = {Eliza F Chakravarty and Jakob B Bjorner and James F Fries},
journal = {J Rheumatol},
title = {Improving patient reported outcomes using item response theory and computerized adaptive testing},
abstract = {OBJECTIVE: Patient reported outcomes (PRO) are considered central outcome measures for both clinical trials and observational studies in rheumatology. More sophisticated statistical models, including item response theory (IRT) and computerized adaptive testing (CAT), will enable critical evaluation and reconstruction of currently utilized PRO instruments to improve measurement precision while reducing item burden on the individual patient. METHODS: We developed a domain hierarchy encompassing the latent trait of physical function/disability from the more general to most specific. Items collected from 165 English-language instruments were evaluated by a structured process including trained raters, modified Delphi expert consensus, and then patient evaluation. Each item in the refined data bank will undergo extensive analysis using IRT to evaluate response functions and measurement precision. CAT will allow for real-time questionnaires of potentially smaller numbers of questions tailored directly to each individual's level of physical function. RESULTS: Physical function/disability domain comprises 4 subdomains: upper extremity, trunk, lower extremity, and complex activities. Expert and patient review led to consensus favoring use of present-tense "capability" questions using a 4- or 5-item Likert response construct over past-tense "performance"items. Floor and ceiling effects, attribution of disability, and standardization of response categories were also addressed. CONCLUSION: By applying statistical techniques of IRT through use of CAT, existing PRO instruments may be improved to reduce questionnaire burden on the individual patients while increasing measurement precision that may ultimately lead to reduced sample size requirements for costly clinical trials.},
affiliation = {Division of Immunology and Rheumatology, Department of Medicine, Stanford University School of Medicine, Palo Alto, California, USA.},
number = {6},
pages = {1426--31},
volume = {34},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Clinical Trials as Topic, Patient Participation, Humans, Outcome Assessment (Health Care), Software, Data Interpretation: Statistical, Rheumatic Diseases, Disability Evaluation, International Cooperation, Health Surveys, Research Design},
date-added = {2010-02-18 23:25:16 +0100},
date-modified = {2010-02-18 23:25:16 +0100},
pii = {0315162X-34-1426},
pmid = {17552069},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chakravarty-2007-J%20Rheumatol_Improving%20patient%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5959},
rating = {0}
}
@article{Verschoor:2005aa,
author = {Angela J Verschoor},
title = {An Approximation of Cronbach's α and its Use in Test Assembly},
abstract = {In this paper a new approximation of Cronbach's α is presented. It is especially suited in the context of test assembly. Using this approximation, two test assembly models are introduced. Being non-linear models, they are solved by Genetic Algorithms as the commonly used Linear Programming methods cannot be used here. A comparison is made with existing test assembly models.},
year = {2005},
month = {May},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verschoor-2005-_An%20Approximation%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1207},
rating = {0}
}
@misc{Bentler:2004,
author = {Peter M Bentler},
journal = {Miscellaneous},
title = {Maximal reliability for unit-weighted composites},
year = {2004},
month = {Oct},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 20:44:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bentler-2004-Miscellaneous_Maximal%20reliability.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2043},
rating = {0}
}
@article{May:2006,
author = {Henry May},
journal = {Journal of Educational and Behavioral Statistics},
title = {A multilevel bayesian item response theory method for scaling socioeconomic status in international studies of education},
abstract = {A new method is presented and implemented for deriving a scale of socioeconomic status (SES) from international survey data using a multilevel Bayesian item response theory (IRT) model. The proposed model incorporates both international anchor items and nation-specific items and is able to (a) produce student family SES scores that are internationally comparable, (b) reduce the influence of irrelevant national differences in culture on the SES scores, and (c) effectively and efficiently deal with the problem of missing data in a manner similar to Rubin's (1987) multiple imputation approach. The results suggest that this model is superior to conventional models in terms of its fit to the data and its ability to use information collected via international surveys.},
number = {1},
pages = {63--79},
volume = {31},
year = {2006},
keywords = {Bayesian estimation * item response theory, multilevel modeling, socioeconomic status, missing data},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2010},
rating = {0}
}
@article{Killeen:2007p7072,
author = {P R Killeen},
title = {Replication Statistics},
year = {2007},
date-added = {2010-03-06 20:27:48 +0100},
date-modified = {2010-03-06 20:28:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Killeen-2007-_Replication%20Statisti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7072},
rating = {4}
}
@article{Tominksi:2006p1812,
author = {C Tominksi and J Abello and H Schumann},
title = {Axes-Based Visualizations with Radial Layouts},
abstract = {In the analysis of multidimensional data sets questions involving detection of extremal events, correlations, patterns and trends play an increasingly important role in a variety of applications. Axes- based visualizations like Parallel or Star Coordinates are useful tools for the analysis of multidimensional data sets. In this paper, we present several interactive axes, which can be used to analyze data in an intuitive manner. Furthermore, we present two novel radial visual arrangements of such axes - the TimeWheel and the MultiComb. They focus on data sets with one variable of reference. TimeWheel and MultiComb in combination with interactive axes are part of an interactive framework called VisAxes, which can be used for enhanced multidimensional data browsing and analysis.},
year = {2006},
date-added = {2010-01-09 22:40:27 +0100},
date-modified = {2010-01-09 22:41:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tominksi-2006-_Axes-Based%20Visualiza.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1812},
rating = {0}
}
@article{vanderPlas:2003p4537,
author = {Simone M van der Plas and Bettina E Hansen and Josien B de Boer and Theo Stijnen and Jan Passchier and Robert A de Man and Solko W Schalm},
journal = {BMC Gastroenterol},
title = {Generic and disease-specific health related quality of life in non-cirrhotic, cirrhotic and transplanted liver patients: a cross-sectional study},
abstract = {BACKGROUND: Studies on Health Related Quality of Life (HRQoL) of chronic liver patients were performed in clinical populations. These studies included various disease stages but small variations in aetiology and no transplanted patients. We performed a large HRQoL study in non-cirrhotic, cirrhotic and transplanted liver patients with sufficient variety in aetiology. We compared the generic HRQoL and fatigue between liver patients and healthy controls and compared the disease-specific and generic HRQoL and fatigue between non-cirrhotic, cirrhotic and transplanted liver patients, corrected for aetiology. METHODS: Members of the Dutch liver patient association received the Short Form-36, the Liver Disease Symptom Index and the Multidimensional Fatigue Index-20. Based on reported clinical characteristics we classified respondents (n = 1175) as non-cirrhotic, compensated cirrhotic, decompensated cirrhotic or transplants. We used linear, ordinal and logistic regression to compare the HRQoL between groups. RESULTS: All liver patients showed a significantly worse generic HRQoL and fatigue than healthy controls. Decompensated cirrhotic patients showed a significantly worse disease-specific and generic HRQoL and fatigue than non-cirrhotic patients, while HRQoL differences between non-cirrhotic and compensated cirrhotic patients were predominantly insignificant. Transplanted patients showed a better generic HRQoL, less fatigue and lower probabilities of severe symptoms than non-cirrhotic patients, but almost equal probabilities of symptom hindrance. CONCLUSIONS: HRQoL in chronic liver patients depends on disease stage and transplant history. Non-cirrhotic and compensated cirrhotic patients have a similar HRQoL. Decompensated patients show the worst HRQoL, while transplanted patients show a significantly better HRQoL than cirrhotic and non-cirrhotic patients.},
affiliation = {Department of Epidemiology and Biostatistics, Erasmus Medical Centre Rotterdam, P,O, box 1738, 3000 DR Rotterdam, The Netherlands. s.vanderplas@erasmusmc.nl},
pages = {33},
volume = {3},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Liver Cirrhosis, Liver Diseases, Male, Female, Chronic Disease, Adult, Cross-Sectional Studies, Fatigue, Aged, Case-Control Studies, Humans, Aged: 80 and over, Liver Transplantation, Middle Aged, Regression Analysis, Quality of Life, Adolescent},
date-added = {2010-01-29 22:25:24 +0100},
date-modified = {2010-01-29 22:25:24 +0100},
doi = {10.1186/1471-230X-3-33},
pii = {1471-230X-3-33},
pmid = {14617381},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20der%20Plas-2003-BMC%20Gastroenterol_Generic%20and%20disease.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4537},
read = {Yes},
rating = {0}
}
@article{Bhakta:2005p5906,
author = {Bipin Bhakta and Alan Tennant and Mike Horton and Gemma Lawton and David Andrich},
journal = {BMC Med Educ},
title = {Using item response theory to explore the psychometric properties of extended matching questions examination in undergraduate medical education},
abstract = {BACKGROUND: As assessment has been shown to direct learning, it is critical that the examinations developed to test clinical competence in medical undergraduates are valid and reliable. The use of extended matching questions (EMQ) has been advocated to overcome some of the criticisms of using multiple-choice questions to test factual and applied knowledge. METHODS: We analysed the results from the Extended Matching Questions Examination taken by 4th year undergraduate medical students in the academic year 2001 to 2002. Rasch analysis was used to examine whether the set of questions used in the examination mapped on to a unidimensional scale, the degree of difficulty of questions within and between the various medical and surgical specialties and the pattern of responses within individual questions to assess the impact of the distractor options. RESULTS: Analysis of a subset of items and of the full examination demonstrated internal construct validity and the absence of bias on the majority of questions. Three main patterns of response selection were identified. CONCLUSION: Modern psychometric methods based upon the work of Rasch provide a useful approach to the calibration and analysis of EMQ undergraduate medical assessments. The approach allows for a formal test of the unidimensionality of the questions and thus the validity of the summed score. Given the metric calibration which follows fit to the model, it also allows for the establishment of items banks to facilitate continuity and equity in exam standards.},
affiliation = {Academic Unit of Musculoskeletal and Rehabilitation Medicine, University of Leeds, UK. B.Bhakta@leeds.ac.uk},
number = {1},
pages = {9},
volume = {5},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Clinical Competence, Humans, Probability, Specialties: Surgical, Medicine, Schools: Medical, Educational Measurement, Calibration, Models: Statistical, Data Interpretation: Statistical, Education: Medical, Algorithms, Adult, Western Australia, Psychometrics, Education: Medical: Undergraduate, Specialization},
date-added = {2010-02-18 23:08:54 +0100},
date-modified = {2010-02-18 23:08:54 +0100},
doi = {10.1186/1472-6920-5-9},
pii = {1472-6920-5-9},
pmid = {15752421},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bhakta-2005-BMC%20Med%20Educ_Using%20item%20response.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5906},
rating = {0}
}
@article{Fong:2010p8323,
author = {Daniel Yt Fong and Sy Ho and Th Lam},
journal = {Health Qual Life Outcomes},
title = {Evaluation of internal reliability in the presence of inconsistent responses},
abstract = {ABSTRACT: BACKGROUND: We aimed to assess the impact of inconsistent responses on the internal reliability of a multi-item scale by developing a procedure to adjust Cronbach's alpha. METHODS: A procedure for adjusting Cronbach's alpha when there are inconsistent responses was developed and used to assess the impact of inconsistent responses on internal reliability by evaluating the standard Chinese 12-item Short Form Health Survey in adolescents. RESULTS: Contrary to common belief, random responses may inflate Cronbach's alpha when their mean differ from that of the true responses. Fixed responses inflate Cronbach's alpha except in scales with both positive and negative polarity items. In general, the bias in Cronbach's alpha due to inconsistent responses may change from downward to upward with an increasing number of items in a scale, but the effect of additional items beyond around 10 becomes small. The number of response categories does not have much influence on the impact of inconsistent responses. CONCLUSIONS: Cronbach's alpha can be biased when there are inconsistent responses, and an adjustment is recommended for better assessment of the internal reliability of a multi-item scale.},
number = {1},
pages = {27},
volume = {8},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-21 12:26:00 +0100},
date-modified = {2010-03-21 12:26:03 +0100},
doi = {10.1186/1477-7525-8-27},
pii = {1477-7525-8-27},
pmid = {20226019},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fong-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Evaluation%20of%20intern-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8323},
rating = {4}
}
@article{Decruynaere:2007p12844,
author = {C{\'e}line Decruynaere and Jean-Louis Thonnard and L{\'e}on Plaghki},
journal = {Eur J Pain},
title = {Measure of experimental pain using Rasch analysis},
abstract = {Most common instruments used to assess the painfulness of nociceptive stimuli and the perception of such stimuli are ordinal. This property limits arithmetical operations and statistical procedures that can be applied on their numbers. The Rasch methodology provides mathematical procedures for transforming scores on an ordinal scale into measures on an interval scale. The present paper aims at presenting the basics of this methodology by applying it to the measurement of experimentally induced pain. Six blocks of seven CO(2) laser heat stimuli varying in intensity were delivered on the hand of 100 healthy subjects. They rated their pain perception on a three-level verbal rating scale (not painful, slightly painful, painful). One member of the family of Rasch models, the many-facet model, was applied to the analysis of these ratings. The analysis provided linear measures of the painfulness for each intensity of stimulation, of the pain perception of each subject and of the painfulness of each successive block. All these measures are located on a single pain perception continuum. Advantages and disadvantages of this methodology will be discussed in terms of subsequent possible mathematical analyses, statistical tests and implications for experimental and clinical investigations.},
affiliation = {Unit{\'e} de R{\'e}adaptation et M{\'e}decine Physique (READ 5375), Universit{\'e} catholique de Louvain, Tour Pasteur, Avenue Mounier 53, 1200 Bruxelles, Belgium.},
number = {4},
pages = {469--74},
volume = {11},
year = {2007},
month = {May},
language = {eng},
keywords = {Physical Stimulation, Pain Measurement, Algorithms, Models: Psychological, Male, Pain, Models: Statistical, Middle Aged, Adult, Female, Perception, Lasers, Humans},
date-added = {2010-06-21 20:10:56 +0200},
date-modified = {2010-06-21 20:11:00 +0200},
doi = {10.1016/j.ejpain.2006.07.001},
pii = {S1090-3801(06)00101-7},
pmid = {16914333},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Decruynaere-2007-Eur%20J%20Pain_Measure%20of%20experimen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12844},
rating = {3}
}
@article{Verzilli:2006p3906,
author = {Claudio J Verzilli and Nigel Stallard and John C Whittaker},
journal = {Am J Hum Genet},
title = {Bayesian graphical models for genomewide association studies},
abstract = {As the extent of human genetic variation becomes more fully characterized, the research community is faced with the challenging task of using this information to dissect the heritable components of complex traits. Genomewide association studies offer great promise in this respect, but their analysis poses formidable difficulties. In this article, we describe a computationally efficient approach to mining genotype-phenotype associations that scales to the size of the data sets currently being collected in such studies. We use discrete graphical models as a data-mining tool, searching for single- or multilocus patterns of association around a causative site. The approach is fully Bayesian, allowing us to incorporate prior knowledge on the spatial dependencies around each marker due to linkage disequilibrium, which reduces considerably the number of possible graphical structures. A Markov chain-Monte Carlo scheme is developed that yields samples from the posterior distribution of graphs conditional on the data from which probabilistic statements about the strength of any genotype-phenotype association can be made. Using data simulated under scenarios that vary in marker density, genotype relative risk of a causative allele, and mode of inheritance, we show that the proposed approach has better localization properties and leads to lower false-positive rates than do single-locus analyses. Finally, we present an application of our method to a quasi-synthetic data set in which data from the CYP2D6 region are embedded within simulated data on 100K single-nucleotide polymorphisms. Analysis is quick (<5 min), and we are able to localize the causative site to a very short interval.},
affiliation = {Department of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, UK. claudio.verzilli@lshtm.ac.uk},
number = {1},
pages = {100--12},
volume = {79},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Markov Chains, Phenotype, Genetic Predisposition to Disease, Monte Carlo Method, Case-Control Studies, Models: Genetic, Humans, Bayes Theorem, Genotype},
date-added = {2010-01-16 21:05:00 +0100},
date-modified = {2010-01-16 21:05:02 +0100},
doi = {10.1086/505313},
pii = {S0002-9297(07)60007-X},
pmid = {16773569},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3906},
rating = {3}
}
@article{Bandyopadhyay:2010p13635,
author = {S Bandyopadhyay and B Ganguli and A Chatterjee},
journal = {Stat Methods Med Res},
title = {A review of multivariate longitudinal data analysis},
abstract = {Repeated observation of multiple outcomes is common in biomedical and public health research. Such experiments result in multivariate longitudinal data, which are unique in the sense that they allow the researcher to study the joint evolution of these outcomes over time. Special methods are required to analyse such data because repeated observations on any given response are likely to be correlated over time while multiple responses measured at a given time point will also be correlated. We review three approaches for analysing such data in the light of the associated theory, applications and software. The first method consists of the application of univariate longitudinal tools to a single summary outcome. The second method aims at estimating regression coefficients without explicitly modelling the underlying covariance structure of the data. The third method combines all the outcomes into a single joint multivariate model. We also introduce a multivariate longitudinal dataset and use it to illustrate some of the techniques discussed in the article.},
affiliation = {Indian Institute of Public Health, Hyderabad, India.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-07-11 09:02:11 +0200},
date-modified = {2010-07-11 09:02:11 +0200},
doi = {10.1177/0962280209340191},
pii = {0962280209340191},
pmid = {20212072},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bandyopadhyay-2010-Stat%20Methods%20Med%20Res_A%20review%20of%20multivar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13635},
rating = {0}
}
@article{Groenwold:2010p12283,
author = {Rolf Hh Groenwold and Maroeska M Rovers and Jacobus Lubsen and Geert Jmg van der Heijden},
journal = {BMC Med Res Methodol},
title = {Subgroup effects despite homogeneous heterogeneity test results},
abstract = {ABSTRACT: BACKGROUND: Statistical tests of heterogeneity are very popular in meta-analyses, as heterogeneity might indicate subgroup effects. Lack of demonstrable statistical heterogeneity, however, might obscure clinical heterogeneity, meaning clinically relevant subgroup effects. METHODS: A qualitative, visual method to explore the potential for subgroup effects was provided by a modification of the forest plot, i.e., adding a vertical axis indicating the proportion of a subgroup variable in the individual trials. Such a plot was used to assess the potential for clinically relevant subgroup effects and was illustrated by a clinical example on the effects of antibiotics in children with acute otitis media. RESULTS: Statistical tests did not indicate heterogeneity in the meta-analysis on the effects of amoxicillin on acute otitis media (Q=3.29, p=0.51; I2=0%; T2=0). Nevertheless, in a modified forest plot, in which the individual trials were ordered by the proportion of children with bilateral otitis, a clear relation between bilaterality and treatment effects was observed (which was also found in an individual patient data meta-analysis of the included trials: p-value for interaction 0.021). CONCLUSIONS: A modification of the forest plot, by including an additional (vertical) axis indicating the proportion of a certain subgroup variable, is a qualitative, visual, and easy-to-interpret method to explore potential subgroup effects in studies included in meta-analyses.},
number = {1},
pages = {43},
volume = {10},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-06-09 20:12:53 +0200},
date-modified = {2010-06-09 20:12:53 +0200},
doi = {10.1186/1471-2288-10-43},
pii = {1471-2288-10-43},
pmid = {20478021},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Groenwold-2010-BMC%20Med%20Res%20Methodol_Subgroup%20effects%20des.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12283},
rating = {0}
}
@article{Parkhomenko:2008p2580,
author = {E Parkhomenko},
title = {Sparse Canonical Correlation Analysis},
year = {2008},
date-added = {2010-01-12 22:27:20 +0100},
date-modified = {2010-01-12 22:27:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parkhomenko-2008-_Sparse%20Canonical%20Cor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2580},
rating = {0}
}
@article{Newell:1958p4738,
author = {A Newell and J C Shaw},
journal = {Psychological Review},
title = {Elements of a theory of human problem solving},
number = {3},
pages = {151--166},
volume = {65},
year = {1958},
date-added = {2010-01-30 16:24:55 +0100},
date-modified = {2010-01-30 16:25:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newell-1958-Psychological%20Review_Elements%20of%20a%20theory.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4738},
rating = {0}
}
@article{Mulligan:2003,
author = {K Mulligan and JT Grant and ST Mockabee and JQ Monson},
journal = {Political Analysis},
title = {Response Latency Methodology for Survey Research: Measurement and Modeling Strategies},
abstract = {In public opinion research, response latency is a measure of attitude accessibility, which is the ease or swiftness with which an attitude comes to mind when a respondent is presented with a survey question. Attitude accessibility represents the strength of the association in memory between an attitude object and an evaluation of the object. Recent research shows that attitude accessibility, as measured by response latency, casts light on a wide range of phenomena of public opinion and political behavior. We discuss response latency methodology for survey research and advocate the use of latent response latency timers (which are invisible both to respondents and interviewers) as a low cost, low-maintenance alternative to traditional methods of measuring response latency in public opinion surveys. We show that with appropriate model specification latent response latency timers may provide a suitable alternative to the more complicated and expensive interviewer-activated timers.},
number = {3},
pages = {289--301},
volume = {11},
year = {2003},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p979},
rating = {0}
}
@article{Rioux:2007p5521,
author = {John D Rioux and Ramnik J Xavier and Kent D Taylor and Mark S Silverberg and Philippe Goyette and Alan Huett and Todd Green and Petric Kuballa and M Michael Barmada and Lisa Wu Datta and Yin Yao Shugart and Anne M Griffiths and Stephan R Targan and Andrew F Ippoliti and Edmond-Jean Bernard and Ling Mei and Dan L Nicolae and Miguel Regueiro and L Philip Schumm and A Hillary Steinhart and Jerome I Rotter and Richard H Duerr and Judy H Cho and Mark J Daly and Steven R Brant},
journal = {Nat Genet},
title = {Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis},
abstract = {We present a genome-wide association study of ileal Crohn disease and two independent replication studies that identify several new regions of association to Crohn disease. Specifically, in addition to the previously established CARD15 and IL23R associations, we identified strong and significantly replicated associations (combined P < 10(-10)) with an intergenic region on 10q21.1 and a coding variant in ATG16L1, the latter of which was also recently reported by another group. We also report strong associations with independent replication to variation in the genomic regions encoding PHOX2B, NCF4 and a predicted gene on 16q24.1 (FAM92B). Finally, we demonstrate that ATG16L1 is expressed in intestinal epithelial cell lines and that functional knockdown of this gene abrogates autophagy of Salmonella typhimurium. Together, these findings suggest that autophagy and host cell responses to intracellular microbes are involved in the pathogenesis of Crohn disease.},
affiliation = {Universit{\'e} de Montr{\'e}al and the Montreal Heart Institute, Research Center, 5000 rue Belanger, Montreal, Quebec H1T 1C8, Canada. rioux@broad.mit.edu},
number = {5},
pages = {596--604},
volume = {39},
year = {2007},
month = {May},
language = {eng},
keywords = {Gene Expression Profiling, Polymorphism: Single Nucleotide, Chromosomes: Human: Pair 10, RNA Interference, Mice, North America, Homeodomain Proteins, Crohn Disease, NADPH Oxidase, Autophagy, Humans, Carrier Proteins, Immunohistochemistry, Genetic Predisposition to Disease, Transcription Factors, Animals, Hela Cells},
date-added = {2010-02-12 15:04:15 +0100},
date-modified = {2010-02-12 15:04:16 +0100},
doi = {10.1038/ng2032},
pii = {ng2032},
pmid = {17435756},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rioux-2007-Nat%20Genet_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5521},
rating = {0}
}
@book{Fowler:1990,
author = {FJ Fowler and T Mangione},
journal = {Book},
title = {Standardized survey interviewing: Minimizing interviewer-related error},
abstract = {Accuracy, reliability, verifiable and error-free results - these are the goals that anyone involved in survey interviewing desires. A practical guide to producing standardized - and reliable - interviews, this volume represents a blending of social science theories of interviewing dynamics, the authors' own extensive research on interview-related error and a compilation of research evidence from other prominent methodologists. How to avoid errors, sampling design issues, question construction methods, supervision techniques, training methods and the organization of data collection staffs are all thoroughly examined. In addition, prescriptions for improving the quality of survey data results are clear and concise. Both students learning survey research methods for the first time and experienced, active researchers will find this volume indispensable.},
year = {1990},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p968},
rating = {0}
}
@article{Woodward:2006p5042,
author = {Lianne J Woodward and Peter J Anderson and Nicola C Austin and Kelly Howard and Terrie E Inder},
journal = {N Engl J Med},
title = {Neonatal MRI to predict neurodevelopmental outcomes in preterm infants},
abstract = {BACKGROUND: Very preterm infants are at high risk for adverse neurodevelopmental outcomes. Magnetic resonance imaging (MRI) has been proposed as a means of predicting neurodevelopmental outcomes in this population. METHODS: We studied 167 very preterm infants (gestational age at birth, 30 weeks or less) to assess the associations between qualitatively defined white-matter and gray-matter abnormalities on MRI at term equivalent (gestational age of 40 weeks) and the risks of severe cognitive delay, severe psychomotor delay, cerebral palsy, and neurosensory (hearing or visual) impairment at 2 years of age (corrected for prematurity). RESULTS: At two years of age, 17 percent of infants had severe cognitive delay, 10 percent had severe psychomotor delay, 10 percent had cerebral palsy, and 11 percent had neurosensory impairment. Moderate-to-severe cerebral white-matter abnormalities present in 21 percent of infants at term equivalent were predictive of the following adverse outcomes at two years of age: cognitive delay (odds ratio, 3.6; 95 percent confidence interval, 1.5 to 8.7), motor delay (odds ratio, 10.3; 95 percent confidence interval, 3.5 to 30.8), cerebral palsy (odds ratio, 9.6; 95 percent confidence interval, 3.2 to 28.3), and neurosensory impairment (odds ratio, 4.2; 95 percent confidence interval, 1.6 to 11.3). Gray-matter abnormalities (present in 49 percent of infants) were also associated, but less strongly, with cognitive delay, motor delay, and cerebral palsy. Moderate-to-severe white-matter abnormalities on MRI were significant predictors of severe motor delay and cerebral palsy after adjustment for other measures during the neonatal period, including findings on cranial ultrasonography. CONCLUSIONS: Abnormal findings on MRI at term equivalent in very preterm infants strongly predict adverse neurodevelopmental outcomes at two years of age. These findings suggest a role for MRI at term equivalent in risk stratification for these infants.},
affiliation = {Canterbury Child Development Research Group, Department of Psychology, University of Canterbury and the Van der Veer Institute for Parkinson's and Brain Research, Christchurch, New Zealand. lianne.woodward@canterbury.ac.nz},
number = {7},
pages = {685--94},
volume = {355},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Longitudinal Studies, Infant: Newborn, Male, Developmental Disabilities, Predictive Value of Tests, Magnetic Resonance Imaging, Humans, Cerebral Palsy, Gestational Age, Infant: Premature, Cognition, Brain, Child: Preschool, Female, Psychomotor Performance, Risk Factors, Echoencephalography},
date-added = {2010-02-05 19:59:19 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
doi = {10.1056/NEJMoa053792},
pii = {355/7/685},
pmid = {16914704},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Woodward-2006-N%20Engl%20J%20Med_Neonatal%20MRI%20to%20pred.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5042},
rating = {0}
}
@article{Matthews:2007p7511,
author = {Scott C Matthews and Alan N Simmons and Irina Strigo and Kerry Jang and Murray B Stein and Martin P Paulus},
journal = {Neuroimage},
title = {Heritability of anterior cingulate response to conflict: an fMRI study in female twins},
abstract = {Interference processing requires increased focus on relevant dimensions of environmental stimuli and selective allocation of attentional resources, in order to filter extraneous information and inhibit non-adaptive responses. This process is important in everyday life and is necessary for responding to novel and challenging situations. Dorsal anterior cingulate cortex (dACC) is involved in this process, and behavioral twin studies indicate that performance on interference processing tasks is highly heritable. However, the extent to which dACC activation related to such tasks is influenced by genetic factors has not been reported. In the current study, 10 pairs of monozygotic and 10 pairs of dizygotic female twins performed a validated interference processing task during fMRI. There were three main results: (1) increased dACC activation for incongruent (INC) minus congruent (CON) trials was observed; (2) dACC activation for INC minus CON trials was both moderately heritable and significantly correlated with the difference in reaction time (RT) between INC and CON trials; (3) RT for INC trials was moderately heritable. RT for CON trials and the latency difference between INC and CON trials were not influenced significantly by genetic factors. The current study provides the first functional imaging evidence that dACC activation during interference processing is significantly influenced by genes. These results suggest an endophenotype that may be applied to various psychiatric disorders that are both highly heritable and associated with altered dACC function.},
affiliation = {Laboratory of Biological Dynamics and Theoretical Medicine, CA, USA. scmatthews@ucsd.edu},
number = {1},
pages = {223--7},
volume = {38},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Conflict (Psychology), Brain, Quantitative Trait: Heritable, Cognition, Decision Making, Female, Adult, Humans, Twins: Monozygotic, Brain Mapping, Magnetic Resonance Imaging, Middle Aged, Gyrus Cinguli, Twins: Dizygotic},
date-added = {2010-03-10 20:52:43 +0100},
date-modified = {2010-03-10 20:52:43 +0100},
doi = {10.1016/j.neuroimage.2007.07.015},
pii = {S1053-8119(07)00676-3},
pmid = {17707125},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Matthews-2007-Neuroimage_Heritability%20of%20ante.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7511},
rating = {0}
}
@article{Matsumoto:2006p11623,
author = {D Matsumoto},
journal = {JCCP},
title = {Are cultural differences in emotion regulation mediated by personality traits?},
abstract = {This article reports a study that documents United States--Japan differences in emotion regulation and demonstrates that those differences are entirely accounted for by individual differences in personality. These findings raise questions about studies that merely document cross-national differences in a psy- chological variable yet attribute the source of the observed differences to cultural variables without empir- ical justification to do so. Such differences may be accounted for by aggregate differences in personality.},
year = {2006},
date-added = {2010-05-11 22:40:25 +0200},
date-modified = {2010-05-11 22:41:16 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Matsumoto-2006-JCCP_Are%20cultural%20differe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11623},
rating = {4}
}
@article{Skodova:2010p13147,
author = {Zuzana Skodov{\'a} and Jitse P van Dijk and Iveta Nagyov{\'a} and Jaroslav Rosenberger and Daniela Ondu{\v s}ov{\'a} and Berrie Middel and Sijmen A Reijneveld},
journal = {Heart {\&} lung : the journal of critical care},
title = {Psychosocial predictors of change in quality of life in patients after coronary interventions},
abstract = {OBJECTIVE: Health-related quality of life (HRQOL) after coronary interventions (coronary artery bypass grafting, percutaneous transluminal coronary angioplasty) usually improves in patients, but not in all patients. Some patients actually show a significant decline in HRQOL. Our aim was to explore the potential of psychologic well-being (anxiety, depression), vital exhaustion, Type D personality, and socioeconomic position as predictors of HRQOL in patients with coronary disease. METHODS: A total of 106 patients scheduled for coronary angiography were interviewed before (baseline) and 12 to 24 months after coronary angiography. Socioeconomic status was evaluated by education. The General Health Questionnaire 28 was used for measuring psychologic well-being (anxiety, depression), the Maastricht interview was used for measuring vital exhaustion, and the Type D questionnaire was used for measuring personality. HRQOL was assessed using the Short Form-36 (physical and mental components) questionnaire. Functional status was assessed with a combination of New York Heart Association and Canadian Cardiovascular Society classifications. Linear regressions were used to analyze data. RESULTS: A change in physical HRQOL was predicted by baseline psychologic well-being (beta = -.39; 95% confidence interval [CI], -1.00 to -.16) and baseline HRQOL (beta = -.61; 95% CI, -.83 to -.34). A change in mental HRQOL was predicted by (baseline) psychologic well-being (beta = -.37; 95% CI, -.99 to -.09), vital exhaustion (beta = -.21; 95% CI, -.69 to -.03), and baseline HRQOL (beta = -.76; 95% CI, -1.03 to -.44). Ejection fraction did not significantly predict HRQOL. CONCLUSION: Psychosocial factors (psychologic well-being, vital exhaustion) seem to be more important predictors of change in HRQOL compared with some objective medical indicators (ejection fraction) among patients with coronary disease.},
affiliation = {University of PJ Safarik, KISH-Kosice Institute for Society and Health, Kosice, Slovakia; Comenius University, Jessenius Faculty of Medicine in Martin, Department of Non-Medical Study Programmes, Martin, Slovakia.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-06-26 11:07:18 +0200},
date-modified = {2010-06-26 11:07:19 +0200},
doi = {10.1016/j.hrtlng.2009.12.007},
pii = {S0147-9563(09)00324-0},
pmid = {20561888},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Skodov%C3%A1-2010-Heart%20&%20lung%20the%20journal%20of%20critical%20care_Psychosocial%20predict.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13147},
rating = {0}
}
@article{Labelle:2001p2240,
author = {M Labelle},
title = {Trente ans de psycholinguistique},
year = {2001},
date-added = {2010-01-10 11:59:20 +0100},
date-modified = {2010-01-10 11:59:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Labelle-2001-_Trente%20ans%20de%20psycho.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2240},
rating = {0}
}
@article{Nobile:2009p4203,
author = {Maria Nobile and Marianna Rusconi and Monica Bellina and Cecilia Marino and Roberto Giorda and Ombretta Carlet and Laura Vanzin and Massimo Molteni and Marco Battaglia},
journal = {Eur Child Adolesc Psychiatry},
title = {COMT Val158Met polymorphism and socioeconomic status interact to predict attention deficit/hyperactivity problems in children aged 10-14},
abstract = {The functional Val158Met COMT polymorphism appears to affect a host of behaviours mediated by the pre-frontal cortex, and has been found associated to the risk for disruptive behaviours including ADHD. Parental socioeconomic status (SES) has also been reported as a predictor for the same childhood disorders. In a general population sample of 575 Italian pre-adolescents aged 10-14, we examined the association of the functional Val158Met COMT polymorphism and SES-both as linear and interactive effects-with oppositional defiant problems, conduct problems, and attention deficit/hyperactivity problems, as defined by the newly established Child Behaviour Check-List/6-18 DSM oriented scales. Multivariate- and subsequent univariate-analysis of covariance showed a significant association of COMT x SES interaction with CBCL 6/18 DOS attention deficit/hyperactivity problems (p = 0.004), and revealed higher scores among those children with Val/Val COMT genotype who belonged to low-SES families. We also found a significant association of SES with attention deficit/hyperactivity problems and conduct problems DOS (p = 0.04 and 0.01, respectively). Our data are consistent with a bulk of recent literature suggesting a role of environmental factors in moderating the contribution of specific genetic polymorphisms to human variability in ADHD. While future investigations will refine and better clarify which specific environmental and genetic mechanisms are at work in influencing the individual risk to ADHD in pre-adolescence, these data may contribute to identify/prevent the risk for ADHD problems in childhood.},
affiliation = {Department of Child Psychiatry, Eugenio Medea Scientific Institute, via Don Luigi Monza 20, 23842, Bosisio Parini (LC), Italy, mnobile@bp.lnf.it.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-01-21 08:01:38 +0100},
date-modified = {2010-07-29 19:26:12 +0200},
doi = {10.1007/s00787-009-0080-1},
pmid = {19946720},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4203},
rating = {0}
}
@article{Cieza:2009p6388,
author = {Alarcos Cieza and Roger Hilfiker and Annelies Boonen and Somnath Chatterji and Nenad Kostanjsek and Bedirhan T Ust{\"u}n and Gerold Stucki},
journal = {Journal of Clinical Epidemiology},
title = {Items from patient-oriented instruments can be integrated into interval scales to operationalize categories of the International Classification of Functioning, Disability and Health},
abstract = {OBJECTIVE: To exemplify the construction of interval scales for specified categories of the International Classification of Functioning, Disability and Health (ICF) by integrating items from a variety of patient-oriented instruments. STUDY DESIGN AND SETTING: Psychometric study using data from a convenience sample of 122 patients with rheumatoid arthritis. Patients completed six different patient-oriented instruments. The contents of the instrument items were linked to the ICF. Rasch analyses for ordered-response options were used to examine whether the instrument items addressing the ICF category b130: Energy and drive functions constitute a psychometrically sound interval scale. RESULTS: Nineteen items were linked to b130: Energy and drive functions. Sixteen of the 19 items fit the Rasch model according to the chi-square (chi(2)) statistic (chi(2)(df=32)=38.25, P=0.21) and the Z-fit statistic (Z(Mean)=0.451, Z(SD)=1.085 and Z(Mean)=-0.223, Z(SD)=1.132 for items and persons, respectively). The Person Separation Index r(beta) was 0.93. CONCLUSION: The ICF category interval scales to operationalize single ICF categories can be constructed. The original format of the items included in the interval scales remains unchanged. This study represents a step forward in the operationalization and future implementation of the ICF.},
affiliation = {ICF Research Branch, WHO Collaborating Center for the Family of International Classifications, German Institute of Medical Documentation and Information, IHRS, Ludwig-Maximilian University, Munich, Germany.},
number = {9},
pages = {912-21, 921.e1--3},
volume = {62},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Arthritis: Rheumatoid, Adult, Attitude to Health, Humans, Aged, Severity of Illness Index, Psychometrics, Quality of Life, Female, Disability Evaluation, Cross-Sectional Studies, Male, Outcome Assessment (Health Care), Middle Aged},
date-added = {2010-02-23 08:25:07 +0100},
date-modified = {2010-02-23 08:25:07 +0100},
doi = {10.1016/j.jclinepi.2008.04.011},
pii = {S0895-4356(09)00088-2},
pmid = {19541452},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cieza-2009-Journal%20of%20Clinical%20Epidemiology_Items%20from%20patient-o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6388},
rating = {4}
}
@article{Delucchi:2004p9367,
author = {Kevin L Delucchi},
journal = {Am J Public Health},
title = {Sample size estimation in research with dependent measures and dichotomous outcomes},
abstract = {I reviewed sample estimation methods for research designs involving nonindependent data and a dichotomous response variable to examine the importance of proper sample size estimation and the need to align methods of sample size estimation with planned methods of statistical analysis. Examples and references to published literature are provided in this article. When the method of sample size estimation is not in concert with the method of planned analysis, poor estimates may result. The effects of multiple measures over time also need to be considered. Proper sample size estimation is often overlooked. Alignment of the sample size estimation method with the planned analysis method, especially in studies involving nonindependent data, will produce appropriate estimates.},
affiliation = {Department of Psychiatry, University of California, San Francisco, Box 0984-TRC, 401 Parnassus Ave, San Francisco, CA 94143-0984, USA. kdelucc@itsa.ucsf.edu},
number = {3},
pages = {372--7},
volume = {94},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Humans, Sample Size, Epidemiologic Research Design, Longitudinal Studies, Confidence Intervals, Cross-Sectional Studies, Computer Simulation, Public Health Practice, Sensitivity and Specificity, Models: Statistical},
date-added = {2010-03-23 18:41:08 +0100},
date-modified = {2010-07-29 19:14:25 +0200},
pmid = {14998798},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Delucchi-2004-Am%20J%20Public%20Health_Sample%20size%20estimati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9367},
rating = {0}
}
@article{Gill:2010p11760,
author = {J Gill},
title = {Grappling with Fisher's Legacy in Social Science Hypothesis Testing: Some Comments on Denis },
date-added = {2010-05-23 10:07:37 +0200},
date-modified = {2010-05-23 10:08:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gill--_Grappling%20with%20Fishe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11760},
rating = {0}
}
@article{Nisbett:1977,
author = {RE Nisbett and TD Wilson},
journal = {Psychological Review},
title = {Telling more than we know: Verbal reports on mental processes},
abstract = {Evidence is reviewed which suggests that there may be little or no direct introspective access to higher order cognitive processes. It is proposed that when people attempt to report on their cognitive processes they do not do so on the basis of any true introspection.},
pages = {231--259},
volume = {84},
year = {1977},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:45:50 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p995},
rating = {0}
}
@article{Yin:2008p3410,
author = {Zheng Yin and Xiaobo Zhou and Chris Bakal and Fuhai Li and Youxian Sun and Norbert Perrimon and Stephen T C Wong},
journal = {BMC Bioinformatics},
title = {Using iterative cluster merging with improved gap statistics to perform online phenotype discovery in the context of high-throughput RNAi screens},
abstract = {BACKGROUND: The recent emergence of high-throughput automated image acquisition technologies has forever changed how cell biologists collect and analyze data. Historically, the interpretation of cellular phenotypes in different experimental conditions has been dependent upon the expert opinions of well-trained biologists. Such qualitative analysis is particularly effective in detecting subtle, but important, deviations in phenotypes. However, while the rapid and continuing development of automated microscope-based technologies now facilitates the acquisition of trillions of cells in thousands of diverse experimental conditions, such as in the context of RNA interference (RNAi) or small-molecule screens, the massive size of these datasets precludes human analysis. Thus, the development of automated methods which aim to identify novel and biological relevant phenotypes online is one of the major challenges in high-throughput image-based screening. Ideally, phenotype discovery methods should be designed to utilize prior/existing information and tackle three challenging tasks, i.e. restoring pre-defined biological meaningful phenotypes, differentiating novel phenotypes from known ones and clarifying novel phenotypes from each other. Arbitrarily extracted information causes biased analysis, while combining the complete existing datasets with each new image is intractable in high-throughput screens. RESULTS: Here we present the design and implementation of a novel and robust online phenotype discovery method with broad applicability that can be used in diverse experimental contexts, especially high-throughput RNAi screens. This method features phenotype modelling and iterative cluster merging using improved gap statistics. A Gaussian Mixture Model (GMM) is employed to estimate the distribution of each existing phenotype, and then used as reference distribution in gap statistics. This method is broadly applicable to a number of different types of image-based datasets derived from a wide spectrum of experimental conditions and is suitable to adaptively process new images which are continuously added to existing datasets. Validations were carried out on different dataset, including published RNAi screening using Drosophila embryos [Additional files 1, 2], dataset for cell cycle phase identification using HeLa cells [Additional files 1, 3, 4] and synthetic dataset using polygons, our methods tackled three aforementioned tasks effectively with an accuracy range of 85%-90%. When our method is implemented in the context of a Drosophila genome-scale RNAi image-based screening of cultured cells aimed to identifying the contribution of individual genes towards the regulation of cell-shape, it efficiently discovers meaningful new phenotypes and provides novel biological insight. We also propose a two-step procedure to modify the novelty detection method based on one-class SVM, so that it can be used to online phenotype discovery. In different conditions, we compared the SVM based method with our method using various datasets and our methods consistently outperformed SVM based method in at least two of three tasks by 2% to 5%. These results demonstrate that our methods can be used to better identify novel phenotypes in image-based datasets from a wide range of conditions and organisms. CONCLUSION: We demonstrate that our method can detect various novel phenotypes effectively in complex datasets. Experiment results also validate that our method performs consistently under different order of image input, variation of starting conditions including the number and composition of existing phenotypes, and dataset from different screens. In our findings, the proposed method is suitable for online phenotype discovery in diverse high-throughput image-based genetic and chemical screens.},
affiliation = {Center for Bioinformatics, The Methodist Hospital Research Institute and Weill Cornell College of Medicine, 6565 Fannin Street, Houston, TX 77030, USA. ZYin@tmhs.org},
pages = {264},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Drosophila, Computer Simulation, Cytological Techniques, Animals, RNA: Small Interfering, Internet, Phenotype, Pattern Recognition: Automated, Humans, RNA Interference, Cluster Analysis, Hela Cells},
date-added = {2010-01-15 14:47:58 +0100},
date-modified = {2010-01-15 14:47:58 +0100},
doi = {10.1186/1471-2105-9-264},
pii = {1471-2105-9-264},
pmid = {18534020},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yin-2008-BMC%20Bioinformatics_Using%20iterative%20clus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3410},
rating = {0}
}
@article{Bassett:2009p3436,
author = {Danielle S Bassett and Edward T Bullmore},
journal = {Curr Opin Neurol},
title = {Human brain networks in health and disease},
abstract = {PURPOSE OF REVIEW: Recent developments in the statistical physics of complex networks have been translated to neuroimaging data in an effort to enhance our understanding of human brain structural and functional networks. This review focuses on studies using graph theoretical measures applied to structural MRI, diffusion MRI, functional MRI, electroencephalography, and magnetoencephalography data. RECENT FINDINGS: Complex network properties have been identified with some consistency in all modalities of neuroimaging data and over a range of spatial and time scales. Conserved properties include small worldness, high efficiency of information transfer for low wiring cost, modularity, and the existence of network hubs. Structural and functional network metrics have been found to be heritable and to change with normal aging. Clinical studies, principally in Alzheimer's disease and schizophrenia, have identified abnormalities of network configuration in patients. Future work will likely involve efforts to synthesize structural and functional networks in integrated models and to explore the interdependence of network configuration and cognitive performance. SUMMARY: Graph theoretical analysis of neuroimaging data is growing rapidly and could potentially provide a relatively simple but powerful quantitative framework to describe and compare whole human brain structural and functional networks under diverse experimental and clinical conditions.},
affiliation = {Department of Psychiatry, Behavioral and Clinical Neurosciences Institute, Addenbrooke's Hospital, Cambridge, UK.},
number = {4},
pages = {340--7},
volume = {22},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Diffusion Magnetic Resonance Imaging, Electroencephalography, Magnetoencephalography, Brain, Brain Mapping, Magnetic Resonance Imaging, Humans, Brain Diseases},
date-added = {2010-01-15 15:18:19 +0100},
date-modified = {2010-01-15 15:18:19 +0100},
doi = {10.1097/WCO.0b013e32832d93dd},
pmid = {19494774},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3436},
rating = {0}
}
@article{Snaith:2003p8715,
author = {R Philip Snaith},
journal = {Health Qual Life Outcomes},
title = {The Hospital Anxiety And Depression Scale},
abstract = {There is a need to assess the contribution of mood disorder, especially anxiety and depression, in order to understand the experience of suffering in the setting of medical practice. Most physicians are aware of this aspect of the illness of their patients but many feel incompetent to provide the patient with reliable information. The Hospital Anxiety And Depression Scale, or HADS, was designed to provide a simple yet reliable tool for use in medical practice. The term 'hospital' in its title suggests that it is only valid in such a setting but many studies conducted throughout the world have confirmed that it is valid when used in community settings and primary care medical practice. It should be emphasised that self-assessment scales are only valid for screening purposes; definitive diagnosis must rest on the process of clinical examination.},
affiliation = {Senior Lecturer In Psychiatry, University of Leeds, 21 Gledhow Wood Road, Leeds LS8 4BW, UK. psyrps@stjames.leeds.ac.uk},
pages = {29},
volume = {1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Self Assessment (Psychology), Quality of Life, Questionnaires, Psychometrics, Depression, Humans, Hospitalization, Anxiety, Affective Symptoms, Practice Guidelines as Topic},
date-added = {2010-03-22 12:00:37 +0100},
date-modified = {2010-03-22 12:00:37 +0100},
doi = {10.1186/1477-7525-1-29},
pmid = {12914662},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Snaith-2003-Health%20and%20Quality%20of%20Life%20Outcomes_The%20Hospital%20Anxiety.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8715},
rating = {0}
}
@article{Ewing:2005p13807,
author = {M T Ewing and T Salzberger and R R Sinkovics},
journal = {Journal of Advertising},
title = {An alternate approach to assessing cross-cultural measurement equivalence in advertising research},
abstract = {This paper offers a new methodological framework to guide researchers attempting to quantitatively assess how a pluralistic audience perceives a standardized television advertisement. Rasch (1960) measurement theory is introduced as an alternative to the more commonly employed multigroup confirmatory factor analysis (CFA) approach to assessing cross-cultural scalar equivalence. By analyzing a multicultural data set, we are able to make various inferences concerning the scalar equivalence of Schlinger's confusion scale. The methodology reveals the limits of the scale, which in all probability would not have been detected using traditional approaches. For researchers attempting to develop new scales, or even to refine existing scales, strict adherence to established guidelines of item generation together with the application of the proposed methodology should ensure better results for both theorists and practitioners.},
number = {1},
pages = {17--36},
volume = {34},
year = {2005},
date-added = {2010-07-29 12:24:02 +0200},
date-modified = {2010-07-29 12:25:27 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ewing-2005-Journal%20of%20Advertising_An%20alternate%20approac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13807},
read = {Yes},
rating = {0}
}
@article{Kuo:2007p7665,
author = {Po-Hsiu Kuo and J{\'o}zsef Buksz{\'a}r and Edwin J C G van den Oord},
journal = {BMC Proc},
title = {Estimating the number and size of the main effects in genome-wide case-control association studies},
abstract = {It has recently become possible to screen thousands of markers to detect genetic causes of common diseases. Along with this potential comes analytical challenges, and it is important to develop new statistical tools to identify markers with causal effects and accurately estimate their effect sizes. Knowledge of the proportion of markers without true effects (p0) and the effect sizes of markers with effects provides information to control for false discoveries and to design follow-up studies. We apply newly developed methods to simulated Genetic Analysis Workshop 15 genome-wide case-control data sets, including a maximum likelihood (ML) and a quasi-ML (QML) approach that incorporate the test statistic distribution and estimates effect size simultaneously with p0, and two conservative estimators of p0 that do not rely on the test statistic distribution under the alternative. Compared with four existing commonly used estimators for p0, our results illustrated that all of our estimators have favorable properties in terms of the standard deviation with which p0 is estimated. On average, the ML method performed slightly better than the QML method; the conservative method performed well and was even slightly more precise than the ML estimators, and can be more robust in less optimal conditions (small sample sizes and small number of markers). Further improvements and extensions of the proposed methods are conceivable, such as estimating the distribution of effect sizes and taking population stratification into account when obtain estimates of p0 and effect size.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, 800 East Leigh Street, Biotech 1, VIPBG, Suite 1-130, Richmond, Virginia 23219, USA. pkuo@mail.ncku.edu.tw},
pages = {S143},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-03-15 23:44:06 +0100},
date-modified = {2010-03-15 23:44:06 +0100},
pmid = {18466487},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7665},
rating = {0}
}
@article{King:2001,
author = {Gary King and James Honaker and Anne Joseph and Kenneth Scheve},
journal = {American Political Science Review},
title = {Analyzing incomplete political science data: An alternative algorithm for multiple imputation},
number = {1},
pages = {49--69},
volume = {95},
year = {2001},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/King-2001-American%20Political%20Science%20Review_Analyzing%20incomplete.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2144},
rating = {0}
}
@article{Jung:2009p3406,
author = {Sungkyu Jung and J. S Marron},
journal = {arXiv},
title = {PCA consistency in high dimension, low sample size context},
abstract = { Principal Component Analysis (PCA) is an important tool of dimension reduction especially when the dimension (or the number of variables) is very high. Asymptotic studies where the sample size is fixed, and the dimension grows [i.e., High Dimension, Low Sample Size (HDLSS)] are becoming increasingly relevant. We investigate the asymptotic behavior of the Principal Component (PC) directions. HDLSS asymptotics are used to study consistency, strong inconsistency and subspace consistency. We show that if the first few eigenvalues of a population covariance matrix are large enough compared to the others, then the corresponding estimated PC directions are consistent or converge to the appropriate subspace (subspace consistency) and most other PC directions are strongly inconsistent. Broad sets of sufficient conditions for each of these cases are specified and the main theorem gives a catalogue of possible combinations. In preparation for these results, we show that the geometric representation of HDLSS data holds under general conditions, which includes a {\$}\rho{\$}-mixing condition and a broad range of sphericity measures of the covariance matrix. },
annote = {Published in: Annals of Statistics 2009, Vol. 37, No. 6B, 4104-4130
Published in at http://dx.doi.org/10.1214/09-AOS709 the Annals of
Statistics (http://www.imstat.org/aos/) by the Institute of Mathematical
Statistics (http://www.imstat.org)},
eprint = {0911.3827v1},
volume = {math.ST},
year = {2009},
month = {Jan},
keywords = {62H25, 34L20 (Primary) 62F12 (Secondary), math.ST, stat.TH},
date-added = {2010-01-15 14:45:25 +0100},
date-modified = {2010-01-15 14:45:25 +0100},
doi = {10.1214/09-AOS709},
pmid = {0911.3827v1},
url = {http://arxiv.org/abs/0911.3827v1},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3406},
rating = {0}
}
@article{Chessel:1996p12008,
author = {D Chessel and M Hanafi},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Analyse de la co-inertie de K nuages de points},
number = {2},
pages = {35--60},
volume = {44},
year = {1996},
date-added = {2010-05-23 17:37:03 +0200},
date-modified = {2010-05-23 17:37:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chessel-1996-Revue%20de%20Statistique%20Appliqu%C3%A9e_Analyse%20de%20la%20co-ine.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12008},
rating = {5}
}
@article{Roelen:2009p13240,
author = {Corn{\'e} A M Roelen and P C Koopmans and R Hoedeman and U B{\"u}ltmann and J W Groothoff and J J L van der Klink},
journal = {Eur J Public Health},
title = {Trends in the incidence of sickness absence due to common mental disorders between 2001 and 2007 in the Netherlands},
abstract = {BACKGROUND: Mental disorders are an important public health problem because of their prevalence and the probability of long-term work disability. The incidence of sickness absence with mental disorders has increased between 1985 and 2000, but little is known about trends in recent years. This study investigated the incidence of sickness absence due to common mental disorders in the Netherlands from 2001 to 2007. METHODS: Observational study in about 1 million employees, working in various economic sectors, representative for the Dutch workforce. Sickness absence episodes were medically certified by an occupational physician utmost in the fifth week of absence. The 12-month incidence of medically certified sickness absence was calculated for each year by dividing incident episodes by the number of employees. Sick days due to common mental disorders were computed as percentage of the total number of medically certified sick days. RESULTS: The 12-month incidence of sickness absence due to common mental disorders was 2.2% in 2001, increased to 2.7% in 2004 and decreased thereafter to 2.0% in 2007. The percentage of sick days due to common mental disorders was highest in the education sector (39%) followed by financial services (31%) and health care (30%). CONCLUSIONS: In the Netherlands, the incidence of sickness absence with common mental disorders was highest in 2004 and has decreased since then probably because of changes in sick leave compensation, economic market position and company policies.},
affiliation = {ArboNed Corporate Accounts, PO Box 158, 8000 AD Zwolle, The Netherlands. corne.roelen@arboned.nl},
number = {6},
pages = {625--30},
volume = {19},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-07-01 18:13:21 +0200},
date-modified = {2010-07-01 18:13:21 +0200},
doi = {10.1093/eurpub/ckp090},
pii = {ckp090},
pmid = {19581376},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roelen-2009-Eur%20J%20Public%20Health_Trends%20in%20the%20incide.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13240},
rating = {0}
}
@article{Lui:2007p9437,
author = {K J Lui},
journal = {Computational Statistics},
title = {Sample size calculation for non-compliance randomized trials with repeated measurements in binary data},
abstract = {When we have difficulty in recruiting patients into a randomized clinical trial (RCT), we may consider taking more than one measurement per patient to reduce the number of patients needed to achieve a desired power. In this paper, we consider a double blind RCT with two courses of treatment per patient. At each course, a patient assigned to the experimental treatment could switch to receive the placebo if the patient declined his/her assigned (experimental) treatment, and a patient assigned to the placebo could switch to receive the experimental treatment if the patient refused his/her assigned (placebo) treatment as well. Sample size calculation without accounting for this non-compliance can be inadequate when we apply the standard procedure of intention-to-treat analysis for non-compliance trials to test no treatment effect. Based on the simple additive risk model proposed elsewhere, we have incorporated the initial probability of compliance, the dependence of patient's selection of a treatment on his/her previous response, and the variation of probabilities of response between patients into sample size determination. We have included a quantitative discussion that provides an insight into the effect of various parameters on the minimum required sample size. We have also noted the situation in which taking repeated measurements per patient can be most effective to reduce the number of patients needed to maintain a given power.},
pages = {3832--3843},
volume = {51},
year = {2007},
date-added = {2010-03-23 19:02:32 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
doi = {10.1016/j.csda.2006.02.022},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lui-2007-Computational%20Statistics_Sample%20size%20calculat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9437},
rating = {0}
}
@article{Wray:2007p2479,
author = {Naomi R Wray and Michael R James and Steven P Mah and Matthew Nelson and Gavin Andrews and Patrick F Sullivan and Grant W Montgomery and Andrew J Birley and Andreas Braun and Nicholas G Martin},
journal = {Arch Gen Psychiatry},
title = {Anxiety and comorbid measures associated with PLXNA2},
abstract = {CONTEXT: Reduction in adult neurogenesis has been proposed as a mechanism for onset of depression. Semaphorins and their coreceptors, plexins, have been implicated in nervous system development and in adult neurogenesis. A recent genomewide association study of schizophrenia identified a variant of the gene encoding plexin A2 (PLXNA2) to be most consistently associated across study samples. Common genetic liabilities have been reported between psychiatric and psychological measures, but few examples exist of common genetic variants. OBJECTIVE: To perform a genetic association study between 6 single nucleotide polymorphisms from the PLXNA2 gene (rs3736963, rs2767565, rs752016, rs1327175, rs2478813, and rs716461) and anxiety, depression, neuroticism, and psychological distress. DESIGN: Extreme discordant and concordant siblings. SETTING: Australia. PARTICIPANTS: Study participants were selected with respect to extreme neuroticism scores from a population cohort of 18 742 twin individuals and their siblings. The participants and their parents (if blood or buccal samples were available) were genotyped, for a total of 2854 genotyped individuals from 990 families. Of these, 624 individuals with a diagnosis of anxiety or depression from 443 families were used in the association analysis. MAIN OUTCOME MEASURES: All the participants completed the Composite International Diagnostic Interview, the 23-item Neuroticism scale of the revised Eysenck Personality Questionnaire, and the 10-item Kessler Psychological Distress Scale. Diagnoses of DSM-IV depression and anxiety were determined from the Composite International Diagnostic Interview. RESULTS: There was evidence of an allelic association between rs2478813 (and other single nucleotide polymorphisms correlated with it) and anxiety, depression, neuroticism, and psychological distress; the association with anxiety is significant after Bonferroni correction for multiple testing (empirical P<.001). The mouse ortholog of PLXNA2 is located in a highly significant linkage region previously reported for anxiety in mice. CONCLUSION: PLXNA2 is a candidate for causal variation in anxiety and in other psychiatric disorders through its comorbidity with anxiety.},
affiliation = {Queensland Institute of Medical Research, Royal Brisbane Hospital, Brisbane, QLD 4029, Australia. naomi.wray@qimr.edu.au},
number = {3},
pages = {318--26},
volume = {64},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Neurotic Disorders, Stress: Psychological, Chromosome Mapping, Comorbidity, Depressive Disorder: Major, Anxiety Disorders, Genetic Predisposition to Disease, Australia, Semaphorins, Genotype, Pedigree, Humans, Diagnostic and Statistical Manual of Mental Disorders, Receptors: Cell Surface, Cohort Studies, Siblings, Psychiatric Status Rating Scales, Personality Disorders, Phenotype, Linkage Disequilibrium, Genetic Variation, Nerve Tissue Proteins, Diseases in Twins},
date-added = {2010-01-12 13:30:32 +0100},
date-modified = {2010-01-12 13:30:32 +0100},
doi = {10.1001/archpsyc.64.3.318},
pii = {64/3/318},
pmid = {17339520},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wray-2007-Arch%20Gen%20Psychiatry_Anxiety%20and%20comorbid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2479},
rating = {0}
}
@article{Yang:2010p5368,
author = {Seungmi Yang and Robert W Platt and Michael S Kramer},
journal = {Am J Epidemiol},
title = {Variation in child cognitive ability by week of gestation among healthy term births},
abstract = {The authors investigated variations in cognitive ability by gestational age among 13,824 children at age 6.5 years who were born at term with normal weight, using data from a prospective cohort recruited in 1996-1997 in Belarus. The mean differences in the Wechsler Abbreviated Scales of Intelligence were examined by gestational age in completed weeks and by fetal growth after controlling for maternal and family characteristics. Compared with the score for those born at 39-41 weeks, the full-scale intelligence quotient (IQ) score was 1.7 points (95% confidence interval (CI): -2.7, -0.7) lower in children born at 37 weeks and 0.4 points (95% CI: -1.1, 0.02) lower at 38 weeks after controlling for confounders. There was also a graded relation in postterm children: a 0.5-points (95% CI: -2.6, 1.6) lower score at 42 weeks and 6.0 points (95% CI: -15.1, 3.1) lower at 43 weeks. Compared with children born large for gestational age (>90th percentile), children born small for gestational age (<10th percentile) had the lowest IQ, followed by those at the 10th-50th percentile and those at the >50th-90th percentile. These findings suggest that, even among healthy children born at term, cognitive ability at age 6.5 years is lower in those born at 37 or 38 weeks and those with suboptimal fetal growth.},
number = {4},
pages = {399--406},
volume = {171},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-11 09:19:06 +0100},
date-modified = {2010-02-11 09:19:06 +0100},
doi = {10.1093/aje/kwp413},
pii = {kwp413},
pmid = {20080810},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5368},
rating = {0}
}
@article{Leenen:2001,
author = {I Leenen and I Van Mechelen and Paul De Boeck},
journal = {Psychometrika},
title = {Models for ordinal hierarchical classes analysis},
abstract = {This paper proposes an ordinalgeneralizationof the hierarchicalclasses model oriNnallyproposed by De Boeckand Rosenberg(1998).Anyhierarchicalclassesmodelimpliesa decompositionof a two- waytwo-modebinaryarrayM intotwo componentmalrices,calledbundlematrices,whichrepresentthe associationrelationandthe set-theoreticalrelationsamong1heelementsof bothmodesin M. Whereasthe originalmodelrestrictsthe bundlematricesto be binary,lhe ordinalhierarchicalclassesmodelassumes that the bundlesare ordinalvariableswitha prespedfiednumberof values.This generalizationresults in a classificationmodelwithclassesorderedalongordinaldimensions.The ordinalhierarchicalclasses modelisshowntosubsumeCoombsandKao's(1955)modelfornomnetricfactoranalysis.Analgorithm is describedto fit the modelto a givendata set and is subsequentlyevaluatedin an extensivesimulation study. An applicationof the modelto studenthousingdata is discussed.},
number = {3},
pages = {389--404},
volume = {66},
year = {2001},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leenen-2001-Psychometrika_Models%20for%20ordinal%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2224},
rating = {0}
}
@article{Milla:2009p2761,
author = {Rub{\'e}n Milla and Adri{\'a}n Escudero and Jose Mar{\'\i}a Iriondo},
journal = {Ann Bot},
title = {Inherited variability in multiple traits determines fitness in populations of an annual legume from contrasting latitudinal origins},
abstract = {BACKGROUND AND AIMS: Variation in fitness depends on corresponding variation in multiple traits which have both genetically controlled and plastic components. These traits are subjected to varying degrees of local adaptation in specific populations and, consequently, are genetically controlled to different extents. In this study it is hypothesized that modulation of different traits would have contrasting relevance for the fitness of populations of diverse origins. Specifically, assuming that environmental pressures vary across a latitudinal gradient, it is suggested that inherited variation in traits differentially determines fitness in annual Lupinus angustifolius populations from contrasting latitudinal origins in western Spain. METHODS: Seeds of L. angustifolius from three contrasting origins were grown in a common garden. Traits related to more plastic vegetative growth and more genetically conserved phenology were measured, together with estimates of reproductive success. Fitness was estimated by the number of viable seeds per plant. Structural Equation Models were used to infer causal relationships among multiple traits and fitness, separating the direct and indirect effects of morphological, phenological and reproductive traits. KEY RESULTS: Phenological, vegetative and reproductive traits accounted for most of the fitness variation. Fitness was highest in plants of southernmost origin, mainly due to earlier flowering. Fitness within each seed origin was controlled by variation in different traits. Southern origin plants that grew to a larger size achieved higher fitness. However, plant size in plants of northernmost origin was irrelevant, but early flowering promoted higher fitness. Variation in fruit and seed set had a greater effect on the fitness of plants of central origin than phenological and size variation. CONCLUSIONS: It is concluded that modulation of a functional trait can be relevant to fitness in a given population (i.e. affecting intensity and direction), but irrelevant in other populations. This points to the need to consider integrated phenotypes when trying to unravel local adaptation effects over single traits.},
affiliation = {Area de Biodiversidad y Conservaci{\'o}n, Universidad Rey Juan Carlos, c/ Tulip{\'a}n s/n, E-28933 M{\'o}stoles, Madrid, Spain. ruben.milla@gmail.com},
number = {8},
pages = {1279--89},
volume = {103},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Lupinus, Reproduction, Seeds},
date-added = {2010-01-13 14:21:06 +0100},
date-modified = {2010-01-13 14:21:06 +0100},
doi = {10.1093/aob/mcp068},
pii = {mcp068},
pmid = {19318383},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2761},
rating = {0}
}
@article{Kadane:1999p6268,
author = {J B Kadane and M M Meyer and J W Tukey},
journal = {JAMA},
title = {Yule's association paradox and ignored stratum heterogeneity in capture-recapture studies},
number = {447},
pages = {855--859},
volume = {94},
year = {1999},
date-added = {2010-02-19 22:04:40 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kadane-1999-JAMA_Yule's%20association%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6268},
rating = {0}
}
@article{Saunders:2003p4747,
author = {C L Saunders and D T Bishop and J H Barrett},
journal = {The Stata Joumal},
title = {Sample size calculations for main effects and interactions in case--control studies using Stata's nchi2 and npnchi2 functions},
abstract = {The non-central χ2 distribution can be used to calculate power for tests detecting departure from a null hypothesis. Required sample size can also be calculated because it is proportional to the non-centrality parameter for the distribution. We demonstrate how these calculations can be carried out in Stata using the example of calculating power and sample size for case--control studies of gene--gene and gene--environment interactions. Do-files are available for these calculations.},
number = {1},
pages = {47--56},
volume = {3},
year = {2003},
date-added = {2010-02-01 11:58:30 +0100},
date-modified = {2010-07-29 19:53:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saunders-2003-The%20Stata%20Joumal_Sample%20size%20calculat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4747},
rating = {0}
}
@article{Hageman:1993,
author = {WJ Hageman and Arrindell WA},
journal = {Behaviour Research and Therapy},
title = {A further refinement of the reliable change (RC) index by improving the pre-post difference score: introducing RCID},
number = {7},
volume = {31},
year = {1993},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-07-29 19:18:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1016},
rating = {0}
}
@article{Vickers:2001p1751,
author = {A J Vickers and Douglas G Altman},
journal = {BMJ},
title = {Statistics notes: Analysing controlled trials with baseline and follow up measurements},
affiliation = {Integrative Medicine Service, Memorial Sloan-Kettering Cancer Center, New York, NY, 10021, USA. vickersa@mskcc.org},
number = {7321},
pages = {1123--4},
volume = {323},
year = {2001},
month = {Nov},
language = {eng},
keywords = {Chronic Disease, Follow-Up Studies, Humans, Analysis of Variance, Data Interpretation: Statistical, Acupuncture Analgesia, Shoulder Pain, Randomized Controlled Trials as Topic},
date-added = {2010-01-09 20:58:12 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
pmid = {11701584},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vickers-2001-BMJ_Statistics%20notes%20An.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1751},
rating = {0}
}
@article{Hess:2004p14220,
author = {Melinda R Hess and J D Kromrey},
journal = {AERA},
title = {Robust Confidence Intervals for Effect Sizes: A Comparative Study of Cohen's d and Cliff's Delta Under Non-normality and Heterogeneous Variances},
year = {2004},
date-added = {2010-08-22 20:57:01 +0200},
date-modified = {2010-08-22 20:59:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hess-2004-AERA_Robust%20Confidence%20In.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14220},
rating = {0}
}
@article{Marchini:2007p2389,
author = {Jonathan Marchini and Bryan Howie and Simon Myers and Gil McVean and Peter Donnelly},
journal = {Nat Genet},
title = {A new multipoint method for genome-wide association studies by imputation of genotypes},
abstract = {Genome-wide association studies are set to become the method of choice for uncovering the genetic basis of human diseases. A central challenge in this area is the development of powerful multipoint methods that can detect causal variants that have not been directly genotyped. We propose a coherent analysis framework that treats the problem as one involving missing or uncertain genotypes. Central to our approach is a model-based imputation method for inferring genotypes at observed or unobserved SNPs, leading to improved power over existing methods for multipoint association mapping. Using real genome-wide association study data, we show that our approach (i) is accurate and well calibrated, (ii) provides detailed views of associated regions that facilitate follow-up studies and (iii) can be used to validate and correct data at genotyped markers. A notable future use of our method will be to boost power by combining data from genome-wide scans that use different SNP sets.},
affiliation = {Department of Statistics, University of Oxford, 1 South Parks Road, Oxford OX1 3TG, UK.},
number = {7},
pages = {906--13},
volume = {39},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Humans, Genome: Human, Polymorphism: Single Nucleotide, Genetic Markers, Genotype, Case-Control Studies, Models: Genetic, Genomics, Genetics: Population},
date-added = {2010-01-11 19:51:22 +0100},
date-modified = {2010-01-11 19:51:22 +0100},
doi = {10.1038/ng2088},
pii = {ng2088},
pmid = {17572673},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marchini-2007-Nat%20Genet_A%20new%20multipoint%20met.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2389},
rating = {0}
}
@article{Friston:2009p4706,
author = {Karl J Friston},
journal = {Science},
title = {Modalities, modes, and models in functional neuroimaging},
abstract = {In this, the 21st century, human-brain mapping celebrates 21 years of cognitive activation studies. This review looks at imaging neuroscience and key ideas it has pursued; some ideas portend exciting developments, and others have failed gloriously. In terms of achievements, there is much to celebrate, in the sense that it is difficult to imagine modern neuroscience without brain imaging. I will look at recent advances from the perspectives of functional segregation and integration in the brain, paying special attention to approaches that deal with the distributed and integrated nature of neuronal processing and the questions they address.},
affiliation = {Wellcome Trust Centre for Neuroimaging, University College London, Queen Square, London WC1N 3BG, UK. k.friston@fil.ion.ucl.ac.uk},
number = {5951},
pages = {399--403},
volume = {326},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Humans, Mental Processes, Brain, Computational Biology, Neurons, Brain Mapping, Electroencephalography, Models: Statistical, Magnetic Resonance Imaging, Models: Neurological},
date-added = {2010-01-30 16:19:38 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1174521},
pii = {326/5951/399},
pmid = {19833961},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4706},
rating = {0}
}
@article{Elston:2000p9956,
author = {R C Elston},
journal = {Stat Methods Med Res},
title = {Introduction and overview. Statistical methods in genetic epidemiology},
abstract = {Common terms used in genetics with multiple meanings are explained and a brief overview given of the four major areas of genetic epidemiology--the study of familial aggregation, segregation, cosegregation and association. Familial aggregation measures the potential for a trait to have a genetic aetiology. Segregation analysis uncovers single gene segregation. Cosegregation with genetic markers gives rise to linkage, which is used to locate trait genes on the genome. Association analysis is used for fine mapping, but rests on the assumption that linkage disequilibrium exists.},
affiliation = {Department of Epidemiology and Biostatistics, Rammelkamp Center for Education and Research, Case Western Reserve University, Cleveland, Ohio 44109-1998, USA. rce@darwin.cwru.edu},
number = {6},
pages = {527--41},
volume = {9},
year = {2000},
month = {Dec},
language = {eng},
keywords = {Genetics: Medical, Statistics as Topic, Phenotype, Chromosome Mapping, Genetic Predisposition to Disease, Terminology as Topic, Genotype, Humans, Chromosome Segregation, Epidemiologic Methods},
date-added = {2010-03-31 16:09:50 +0200},
date-modified = {2010-03-31 16:09:55 +0200},
pmid = {11308069},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Elston-2000-Stat%20Methods%20Med%20Res_Introduction%20and%20ove.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9956},
read = {Yes},
rating = {4}
}
@article{MayorDubois:2008p10981,
author = {C Mayor-Dubois and M Maeder-Ingvar and T Deonna and E Roulet-Perez},
journal = {Dev Med Child Neurol},
title = {The role of epilepsy in early language development in a child with a congenital lesion in the right hemisphere},
abstract = {Early epilepsy is known to worsen the developmental prognosis of young children with a congenital focal brain lesion, but its direct role is often very difficult to delineate from the other variables. This requires prolonged periods of follow-up with simultaneous serial electrophysiological and developmental assessments which are rarely obtained. We studied a male infant with a right prenatal infarct in the territory of the right middle cerebral artery resulting in a left spastic hemiparesis, and an epileptic disorder (infantile spasms with transient right hemihypsarrhythmia and focal seizures) from the age of 7 months until the age of 4 years. Pregnancy and delivery were normal. A dissociated delay of early language acquisition affecting mainly comprehension without any autistic features was documented. This delay was much more severe than usually expected in children with early focal lesions, and its evolution, with catch-up to normal, was correlated with the active phase of the epilepsy. We postulate that the epilepsy specifically amplified a pattern of delayed language emergence, mainly affecting lexical comprehension, reported in children with early right hemisphere damage.},
affiliation = {Department of Pediatrics, Centre Hospitalier Vaudois, 1011 Lausanne, Switzerland.},
number = {11},
pages = {870--5},
volume = {50},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Valproic Acid, Child, Male, Epilepsy, Electroencephalography, Functional Laterality, Infant, Language Development Disorders, Severity of Illness Index, Anticonvulsants, Brain, Humans, Cognition Disorders, Neuropsychological Tests},
date-added = {2010-04-13 16:26:49 +0200},
date-modified = {2010-04-13 16:26:49 +0200},
doi = {10.1111/j.1469-8749.2008.03162.x},
pii = {DMCN3162},
pmid = {19046180},
url = {http://www3.interscience.wiley.com/journal/121453205/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mayor-Dubois-2008-Developmental%20medicine%20and%20child%20neurology_The%20role%20of%20epilepsy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10981},
rating = {0}
}
@article{Ahdesmaki:2009p1539,
author = {M Ahdesm{\"a}ki and K strimmer},
title = {Feature selection in omics prediction problems using cat scores and false non-discovery rate control},
abstract = {We revisit the problem of feature selection in linear discriminant analysis (LDA), i.e. when features are correlated. First, we introduce a pooled centroids formulation of the multi-class LDA predictor function, in which the relative weights of Mahalanobis-transformed predictors are given by correlation-adjusted t-scores (cat scores). Second, for feature selection we propose thresholding cat scores by controlling false non-discovery rates (FNDR). Third, training of the classifier is based on James-Stein shrinkage estimates of correlations and variances, where regularization parameters are chosen analytically without resampling. Overall, this results in an effective and computationally inexpensive framework for high-dimensional prediction with natural feature selection. The proposed shrinkage discriminant procedures are implemented in the R package ``sda'' available from the R repository CRAN.},
affiliation = {Institute for Medical Informatics, Statistics and Epidemiology, University of Leipzig, H{\"a}rtelstr. 16--18, D-04107 Leipzig, Germany},
year = {2009},
date-added = {2010-01-07 16:22:17 +0100},
date-modified = {2010-03-16 13:09:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ahdesm%C3%A4ki-2009-_Feature%20selection%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1539},
rating = {3}
}
@article{deLeeuw:2010p4264,
author = {Jan de Leeuw},
title = {Geometric Representation of Multivariate Data Frames},
abstract = {We discuss two classes of drawing methods for multivariate categorical data. Both are inspired by multidimensional scaling, and are intimately linked to the notion that similarity in the data is naturally represented as distance in a low-dimensional Euclidean space. The objects that are mea- sured, or categorized, by our variables are represented as points. Each variable defines a partition of the points into subsets corresponding with the values of the variable.
The first class of methods are the clumping methods, that try to represent the objects with the same values on a variable by small compact sub- sets of space. Since there are many ways to measure the size of a point set, there are many clumping methods. The second class are separation methods, which try to construct smooth surfaces from some parametric family to separate points having different values on the variable.
Clumping and separation methods can be implemented using either least squares or likelihood based algorithms, which define the two main ways to measure and minimize badness-of-fit.},
date-added = {2010-01-23 21:25:00 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw--_Geometric%20Representa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4264},
rating = {0}
}
@article{Bhui:2000p6783,
author = {K Bhui and D Bhugra and D Goldberg},
journal = {Soc Psychiatry Psychiatr Epidemiol},
title = {Cross-cultural validity of the Amritsar Depression Inventory and the General Health Questionnaire amongst English and Punjabi primary care attenders},
abstract = {BACKGROUND: In order to estimate the health needs of cultural groups, the cross-cultural validity of instruments requires investigation in distinct cultural rather than ethnic or racial groups. METHOD: We screened 'Punjabi' and 'English' primary care attenders in South London (UK), using the General Health Questionnaire (GHQ-12), an English origin instrument, and the Amritsar Depression Inventory (ADI), which was developed in the Punjab in India. The criterion measure was the Clinical Interview Schedule (CIS-R). We calculated the validity coefficients, optimal thresholds and the area under the 'Receive Operating Characteristic' curve to compare cross-cultural performance. We identified items on each questionnaire that contribute to performance of the instruments. RESULTS: The GHQ-12 has high validity coefficients in both cultural groups. The ADI performs as well amongst English subjects, but among Punjabis it is poorer than the GHQ-12. Among Punjabis who have been resident in the UK for over 30 years, the ADI performs no better than chance. Few items on the ADI or the GHQ are strongly predictive of case status. CONCLUSIONS: The GHQ-12 shows good validity in both cultures. Expressions of distress may change due to acculturation. 'Culturally sensitive' screening instruments need to reflect this. Further work might attend to the changing expressions of distress following migration.},
affiliation = {Institute of Psychiatry, De Crespigny Park, London, UK. K.S.Bhui@mds.qmw.ac.uk},
number = {6},
pages = {248--54},
volume = {35},
year = {2000},
month = {Jun},
language = {eng},
keywords = {Female, Primary Health Care, Male, European Continental Ancestry Group, ROC Curve, Attitude to Health, Adult, Sampling Studies, Humans, London, Prevalence, Depression, Middle Aged, Cultural Characteristics, Reproducibility of Results, Cross-Cultural Comparison, Psychiatric Status Rating Scales, India},
date-added = {2010-03-05 22:24:58 +0100},
date-modified = {2010-03-05 22:24:58 +0100},
pmid = {10939423},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bhui-2000-Soc%20Psychiatry%20Psychiatr%20Epidemiol_Cross-cultural%20valid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6783},
rating = {0}
}
@article{SansonFisher:1998p5875,
author = {R W Sanson-Fisher and J J Perkins},
journal = {Journal of Clinical Epidemiology},
title = {Adaptation and validation of the SF-36 Health Survey for use in Australia},
abstract = {This article reports on the process undertaken to adapt the U.S. version of the SF-36 to an Australian setting. In addition, the results of psychometric testing, using the International Quality of Life Assessment (IQOLA) Project process and standards, is also reported. The adaptation process involved a number of steps including: a series of forward and backward translations; ratings of the difficulty of translating the SF-36 and the quality of the resulting translation. To assess the psychometric properties of the Australian form, a random sample of people residing in the Hunter region of New South Wales, Australia, were invited to complete the SF-36 with 855 respondents consenting to complete the measure. Principal components analyses supported the assumption of two factors underlying the measure with the percentage of variance explained by these factors ranging from between 0.66 and 0.77. Demonstrable internal consistency (both item and scale) and test-retest reliability were also found.},
affiliation = {Faculty of Medicine {\&} Health Science, Newcastle University, Callaghan, NSW, Australia.},
number = {11},
pages = {961--7},
volume = {51},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Quality of Life, Australia, Humans, Health Status Indicators, Psychometrics, Factor Analysis: Statistical},
date-added = {2010-02-17 15:02:21 +0100},
date-modified = {2010-02-17 15:02:21 +0100},
pii = {S0895-4356(98)00087-0},
pmid = {9817113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sanson-Fisher-1998-Journal%20of%20Clinical%20Epidemiology_Adaptation%20and%20valid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5875},
rating = {0}
}
@article{Webster:2009p9918,
author = {Jennifer A Webster and J Raphael Gibbs and Jennifer Clarke and Monika Ray and Weixiong Zhang and Peter Holmans and Kristen Rohrer and Alice Zhao and Lauren Marlowe and Mona Kaleem and Donald S McCorquodale and Cindy Cuello and Doris Leung and Leslie Bryden and Priti Nath and Victoria L Zismann and Keta Joshipura and Matthew J Huentelman and Diane Hu-Lince and Keith D Coon and David W Craig and John V Pearson and NACC-Neuropathology Group and Christopher B Heward and Eric M Reiman and Dietrich Stephan and John Hardy and Amanda J Myers},
journal = {Am J Hum Genet},
title = {Genetic control of human brain transcript expression in Alzheimer disease},
abstract = {We recently surveyed the relationship between the human brain transcriptome and genome in a series of neuropathologically normal postmortem samples. We have now analyzed additional samples with a confirmed pathologic diagnosis of late-onset Alzheimer disease (LOAD; final n = 188 controls, 176 cases). Nine percent of the cortical transcripts that we analyzed had expression profiles correlated with their genotypes in the combined cohort, and approximately 5% of transcripts had SNP-transcript relationships that could distinguish LOAD samples. Two of these transcripts have been previously implicated in LOAD candidate-gene SNP-expression screens. This study shows how the relationship between common inherited genetic variants and brain transcript expression can be used in the study of human brain disorders. We suggest that studying the transcriptome as a quantitative endo-phenotype has greater power for discovering risk SNPs influencing expression than the use of discrete diagnostic categories such as presence or absence of disease.},
affiliation = {Neurogenomics Division, Translational Genomics Research Institute, Phoenix, AZ 85004, USA.},
number = {4},
pages = {445--58},
volume = {84},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Oligonucleotide Array Sequence Analysis, Genome-Wide Association Study, Case-Control Studies, Brain, Female, Aged, Male, Humans, Age of Onset, Gene Expression Profiling, Quantitative Trait Loci, Transcription Initiation Site, Alzheimer Disease, Polymorphism: Single Nucleotide, Transcription: Genetic, Gene Regulatory Networks},
date-added = {2010-03-31 16:07:17 +0200},
date-modified = {2010-03-31 16:07:23 +0200},
doi = {10.1016/j.ajhg.2009.03.011},
pii = {S0002-9297(09)00108-6},
pmid = {19361613},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Webster-2009-Am%20J%20Hum%20Genet_Genetic%20control%20of%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9918},
read = {Yes},
rating = {5}
}
@article{Cordell:2004p5288,
author = {Heather J Cordell},
journal = {Genet Epidemiol},
title = {Properties of case/pseudocontrol analysis for genetic association studies: Effects of recombination, ascertainment, and multiple affected offspring},
abstract = {The case/pseudocontrol approach is a general framework for family-based association analysis, incorporating several previously proposed methods such as the transmission/disequilibrium test and log-linear modelling of parent-of-origin effects. In this report, I examine the properties of methods based on a case/pseudocontrol approach when applied to a linked marker rather than (or in addition to) the true disease locus or loci, and when applied to sibships that have been ascertained on, or that may simply contain, multiple affected sibs. Through simulations and analytical calculations, I show that the expected values of the observed relative risk parameters (estimating quantities such as effects due to a child's own genotype, maternal genotype, and parent-of-origin) depend crucially on the ascertainment scheme used, as well as on whether there is non-negligible recombination between the true disease locus and the locus under study. In the presence of either recombination or ascertainment on multiple affected offspring, methods based on conditioning on parental genotypes are shown to give unbiased genotype relative risk estimates at the true disease locus (or loci) but biased estimates of population genotype relative risks at a linked marker, suggesting that the resulting estimates may be misleading when used to predict the power of future studies. Methods that allow for exchangeability of parental genotypes are shown (in the presence of either recombination or ascertainment on multiple affected offspring) to produce false-positive evidence of maternal genotype effects when there are true parent-of-origin or mother-child interaction effects, even when analyzing the true locus. These results suggest that care should be taken in both the interpretation and application of parameter estimates obtained from family-based genetic association studies.},
affiliation = {Department of Medical Genetics, University of Cambridge, Cambridge, UK. heather.cordell@cimr.cam.ac.uk},
number = {3},
pages = {186--205},
volume = {26},
year = {2004},
month = {Apr},
language = {eng},
keywords = {Haplotypes, Female, Genetic Markers, Male, Humans, Algorithms, Models: Genetic, Recombination: Genetic, Genotype, Linkage Disequilibrium, Linear Models, Computer Simulation, Linkage (Genetics), Logistic Models},
date-added = {2010-02-09 22:29:15 +0100},
date-modified = {2010-02-09 22:29:15 +0100},
doi = {10.1002/gepi.10306},
pmid = {15022206},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5288},
rating = {0}
}
@article{Sauerbrei:2007p4069,
author = {Willi Sauerbrei and Patrick Royston and Harald Binder},
journal = {Stat Med},
title = {Selection of important variables and determination of functional form for continuous predictors in multivariable model building},
abstract = {In developing regression models, data analysts are often faced with many predictor variables that may influence an outcome variable. After more than half a century of research, the 'best' way of selecting a multivariable model is still unresolved. It is generally agreed that subject matter knowledge, when available, should guide model building. However, such knowledge is often limited, and data-dependent model building is required. We limit the scope of the modelling exercise to selecting important predictors and choosing interpretable and transportable functions for continuous predictors. Assuming linear functions, stepwise selection and all-subset strategies are discussed; the key tuning parameters are the nominal P-value for testing a variable for inclusion and the penalty for model complexity, respectively. We argue that stepwise procedures perform better than a literature-based assessment would suggest. Concerning selection of functional form for continuous predictors, the principal competitors are fractional polynomial functions and various types of spline techniques. We note that a rigorous selection strategy known as multivariable fractional polynomials (MFP) has been developed. No spline-based procedure for simultaneously selecting variables and functional forms has found wide acceptance. Results of FP and spline modelling are compared in two data sets. It is shown that spline modelling, while extremely flexible, can generate fitted curves with uninterpretable 'wiggles', particularly when automatic methods for choosing the smoothness are employed. We give general recommendations to practitioners for carrying out variable and function selection. While acknowledging that further research is needed, we argue why MFP is our preferred approach for multivariable model building with continuous covariates.},
affiliation = {Institute of Medical Biometry and Medical Informatics, University Medical Center Freiburg, Stefan-Meier-Strasse 26, 79104 Freiburg, Germany. wfs@imbi.uni-freiburg.de },
number = {30},
pages = {5512--28},
volume = {26},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Alcohol Drinking, Survival Analysis, Models: Statistical, Data Interpretation: Statistical, Cluster Analysis, Glioma, Multivariate Analysis, Mouth Neoplasms, Regression Analysis, Research Design, Prognosis, United States, Epidemiologic Research Design, Predictive Value of Tests, Antineoplastic Agents, Brain Neoplasms, Reproducibility of Results, Confidence Intervals},
date-added = {2010-01-19 15:49:39 +0100},
date-modified = {2010-01-19 15:49:39 +0100},
doi = {10.1002/sim.3148},
pmid = {18058845},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sauerbrei-2007-Stat%20Med_Selection%20of%20importa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4069},
rating = {0}
}
@article{Jombart:2009p4353,
author = {T Jombart and S Dray and A B Dufour},
journal = {Ecography},
title = {Finding essential scales of spatial variation in ecological data: a multivariate approach},
abstract = {The identification of spatial structures is a key step in understanding the ecological processes structuring the distribution of organisms. Spatial patterns in species distributions result from a combination of several processes occuring at different scales: identifying these scales is thus a crucial issue. Recent studies have proposed a new family of spatial predictors (PCNM: principal coordinates of neighbours matrices; MEMs: Moran's eigenvectors maps) that allow for modelling of spatial variation on different scales. To assess the multi-scale spatial patterns in multivariate data, these variables are often used as predictors in constrained ordination methods. However, the selection of the appropriate spatial predictors is still troublesome, and the identification of the main scales of spatial variation remains an open question. This paper presents a new statistical tool to tackle this issue: the multi-scale pattern analysis (MSPA). This ordination method uses MEMs to decompose ecological variability into several spatial scales and then summarizes this decomposition using graphical representations. A canonical form of MSPA can also be used to assess the spatial scales of the species-environment relationships. MSPA is compared to constrained ordination using simulated data, and illustrated using the famous oribatid mites dataset. The method is implemented in the free software R.},
pages = {161--168},
volume = {32},
year = {2009},
date-added = {2010-01-26 15:33:28 +0100},
date-modified = {2010-01-26 15:34:23 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jombart-2009-Ecography_Finding%20essential%20sc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4353},
rating = {0}
}
@article{Poitevineau:2004p11761,
author = {J Poitevineau},
journal = {Mathematics and Social Sciences},
title = {L'usage des tests statistiques par les chercheurs en psychologie : aspects normatif, descriptif et prescriptif},
number = {3},
pages = {5--25},
volume = {167},
year = {2004},
date-added = {2010-05-23 10:08:24 +0200},
date-modified = {2010-05-23 10:09:51 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Poitevineau-2004-Mathematics%20and%20Social%20Sciences_L'usage%20des%20tests%20st.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11761},
rating = {0}
}
@techreport{Pinheiro:1997,
author = {Jos{\'e} C Pinheiro and Chuanhai Liu and Yingnian Wu},
journal = {Techreport},
title = {Robust estimation in linear mixed-effects models using the multivariate t-distribution},
affiliation = {Bell Labs},
year = {1997},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pinheiro-1997-Techreport_Robust%20estimation%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1106},
rating = {0}
}
@article{Junker:1997p6286,
author = {B W Junker and J L Ellis},
journal = {The Annals of Statistics},
title = {A Characterization of Monotone Unidimensional Latent Variable Models},
number = {3},
pages = {1327--1343},
volume = {25},
year = {1997},
date-added = {2010-02-20 19:57:03 +0100},
date-modified = {2010-02-20 19:57:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Junker-1997-The%20Annals%20of%20Statistics_A%20Characterization%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6286},
read = {Yes},
rating = {0}
}
@article{Axelsson:2009p13050,
author = {M Axelsson and M Emilsson and E Brink and J Lundgren and K Tor{\'e}n and J L{\"o}tvall},
journal = {Respir Med},
title = {Personality, adherence, asthma control and health-related quality of life in young adult asthmatics},
abstract = {BACKGROUND: Striving for improved adherence and asthma control is of vital concern in today's asthma management. Several influential factors have been identified, but the importance of personality traits has been insufficiently explored. The aim was first to determine whether personality traits in young adult asthmatics are related to asthma control and health-related quality of life (HRQL), and second to examine the influences of personality traits on adherence to regular asthma medication treatment. METHODS: Young adult asthmatics, 22 years of age (n=268) completed questionnaires. Statistical analyses were performed. RESULTS: The personality traits Negative Affectivity and Impulsivity correlated negatively with asthma control, whereas in women Hedonic Capacity correlated positively with asthma control. Negative Affectivity, Impulsivity, Hedonic Capacity, Alexithymia and asthma control predicted the mental dimension of HRQL. Asthma control and physical activity predicted the physical dimension of HRQL. Among respondents with regular asthma medication (n=109), Impulsivity correlated negatively with adherence. In men, Antagonism and Alexithymia were associated with low adherence. Additionally, Alexithymia, Hedonic Capacity and Negative Affectivity showed non-linear relationships with adherence, meaning that initially increased scores on these personality traits scales were associated with increased adherence but higher scores did not increase adherence. Respondents who were prescribed a single inhaler combining ICS and LABA reported higher adherence than those with monotherapies. CONCLUSION: These data suggest that personality can influence how asthma patients adhere to asthma medication treatment, and report their control and HRQL. Tools determining personality traits may be useful in the future in individualizing management of asthma patients.},
affiliation = {Department of Internal Medicine, Sahlgrenska Academy, University of Gothenburg, SE-405 30 Gothenburg, Sweden. malin.axelsson@hv.se},
number = {7},
pages = {1033--40},
volume = {103},
year = {2009},
month = {Jul},
language = {eng},
date-added = {2010-06-26 10:16:22 +0200},
date-modified = {2010-06-26 10:16:23 +0200},
doi = {10.1016/j.rmed.2009.01.013},
pii = {S0954-6111(09)00030-4},
pmid = {19217764},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Axelsson-2009-Respir%20Med_Personality%20adheren.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13050},
rating = {0}
}
@article{Moonie:2009p6651,
author = {S Moonie and X Huang and D A Sterling},
journal = {GLOBAL HEALTH GOVERNANCE},
title = {Quality of Life Estimation with Structural Equation Modeling in School Aged Children with Asthma},
abstract = {Significant increases in childhood asthma prevalence and mortality has prompted federal and regulatory agencies to work towards a national framework to address childhood asthma. Quality of life is an important component of chronic disease, and the evaluation of healthcare outcomes. There is little discussion in the literature regarding the implications of QoL as a theoretical construct. This study determined the effect of asthma on the QoL of our study population and caregiver's missed workdays on the child's QoL scores. A negative relationship was found between the child's QoL and the caregiver's missed workdays due to their child's asthma. The use of SEM and multiple group analysis can help increase awareness and understanding among the complex issues related to childhood asthma and quality of life constructs.},
number = {1},
volume = {III},
year = {2009},
date-added = {2010-03-03 20:36:48 +0100},
date-modified = {2010-03-03 20:37:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moonie-2009-GLOBAL%20HEALTH%20GOVERNANCE_Quality%20of%20Life%20Esti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6651},
rating = {0}
}
@article{Kontodimopoulos:2009p9446,
author = {Nick Kontodimopoulos and Evelina Pappa and Angelos A Papadopoulos and Yannis Tountas and Dimitris Niakas},
journal = {Qual Life Res},
title = {Comparing SF-6D and EQ-5D utilities across groups differing in health status},
abstract = {OBJECTIVES: To compare the EQ-5D and SF-6D within socio-demographic and clinical groups in a representative sample (n = 1,005) of the Greek general population and to examine mean utility differences across groups differing in health in this population and in a highly morbid disease sample (diabetes, n = 215). METHODS: Association and level of agreement between instruments were estimated with Pearson's r and the intraclass correlation coefficient (ICC), respectively. Paired-samples t-test was used to identify significant score differences, which were regarded as minimally important differences (MID) when they exceeded 0.03. The EQ-VAS was used to classify individuals into health status groups, covering the range from very poor to very good health, and the same classification was used in the diabetes sample. RESULTS: EQ-5D and SF-6D were in agreement and strongly correlated over the entire sample (ICC = 0.536, P < 0.001 and r = 0.662, P < 0.001), but correlation varied according to socio-demographic factors and clinical conditions. In healthier responders, EQ-5D scores were significantly higher than SF-6D scores (P < 0.001) and differences constituted MIDs. Contrarily, in individuals with clinical conditions, SF-6D scores were predominantly higher than EQ-5D. The pattern of results was replicated in the disease sample as well. CONCLUSIONS: The hypotheses that EQ-5D generates higher scores in healthier populations and the SF-6D in less healthier groups were confirmed. Based on the evidence provided here, EQ-5D and SF-6D measuring discrepancies generate utility differences across VAS-based health groups, which warrant further within-sample investigation.},
affiliation = {Hellenic Open University, Patras, Greece. nkontodi@otenet.gr},
number = {1},
pages = {87--97},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Female, Costs and Cost Analysis, Quality of Life, Middle Aged, Adult, Greece, Aged, Humans, Questionnaires, Health Status, Male, Data Interpretation: Statistical, Adolescent, Young Adult},
date-added = {2010-03-23 19:37:37 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
doi = {10.1007/s11136-008-9420-8},
pmid = {19051058},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kontodimopoulos-2009-Qual%20Life%20Res_Comparing%20SF-6D%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9446},
rating = {0}
}
@article{Tanner:1987p6298,
author = {MA Tanner and W H Wong},
journal = {JAMA},
title = {The Calculation of Posterior Distributions by Data Augmentation},
number = {398},
pages = {528--540},
volume = {82},
year = {1987},
date-added = {2010-02-20 20:11:04 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tanner-1987-JAMA_The%20Calculation%20of%20P.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6298},
rating = {0}
}
@article{Anonymous:2006p12022,
title = {Sparse Kernel Orthonormalized PLS for feature extraction in large data sets},
year = {2006},
date-added = {2010-05-24 10:14:43 +0200},
date-modified = {2010-05-24 10:15:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2006-_Sparse%20Kernel%20Orthon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12022},
read = {Yes},
rating = {0}
}
@article{Shaffer:2009p7558,
author = {Michele L Shaffer and Allen R Kunselman and Kristi L Watterberg},
journal = {BMC Med Res Methodol},
title = {Analysis of neonatal clinical trials with twin births},
abstract = {BACKGROUND: In neonatal trials of pre-term or low-birth-weight infants, twins may represent 10-20% of the study sample. Mixed-effects models and generalized estimating equations are common approaches for handling correlated continuous or binary data. However, the operating characteristics of these methods for mixes of correlated and independent data are not well established. METHODS: Simulation studies were conducted to compare mixed-effects models and generalized estimating equations to linear regression for continuous outcomes. Similarly, mixed-effects models and generalized estimating equations were compared to ordinary logistic regression for binary outcomes. The parameter of interest is the treatment effect in two-armed clinical trials. Data from the National Institute of Child Health {\&} Human Development Neonatal Research Network are used for illustration. RESULTS: For continuous outcomes, while the coverage never fell below 0.93, and the type I error rate never exceeded 0.07 for any method, overall linear mixed-effects models performed well with respect to median bias, mean squared error, coverage, and median width. For binary outcomes, the coverage never fell below 0.90, and the type I error rate never exceeded 0.07 for any method. In these analyses, when randomization of twins was to the same treatment group or done independently, ordinary logistic regression performed best. When randomization of twins was to opposite treatment arms, a rare method of randomization in this setting, ordinary logistic regression still performed adequately. Overall, generalized linear mixed models showed the poorest coverage values. CONCLUSION: For continuous outcomes, using linear mixed-effects models for analysis is preferred. For binary outcomes, in this setting where the amount of related data is small, but non-negligible, ordinary logistic regression is recommended.},
affiliation = {Department of Public Health Sciences, Penn State College of Medicine, Hershey, PA, USA. mshaffer@hes.hmc.psu.edu},
pages = {12},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Biometry, Randomized Controlled Trials as Topic, Birth Weight, Analysis of Variance, Twins, Immunoglobulins: Intravenous, Logistic Models, Infant: Newborn, Humans, Algorithms, Bronchopulmonary Dysplasia},
date-added = {2010-03-14 10:55:22 +0100},
date-modified = {2010-03-14 10:55:22 +0100},
doi = {10.1186/1471-2288-9-12},
pii = {1471-2288-9-12},
pmid = {19245713},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shaffer-2009-BMC%20Med%20Res%20Methodol_Analysis%20of%20neonatal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7558},
rating = {0}
}
@article{Dupuy2007,
author = {A Dupuy and R M Simon},
journal = {Journal of The National Cancer Institute},
title = {Critical review of published microarray studies for cancer outcome and guidelines on statistical analysis and reporting},
pages = {147--157},
volume = {99},
year = {2007},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2552},
rating = {0}
}
@article{Bellgrove:2008p3829,
author = {Mark A Bellgrove and Jason B Mattingley},
journal = {Ann N Y Acad Sci},
title = {Molecular genetics of attention},
abstract = {The sequencing of the human genome and the identification of a vast array of DNA polymorphisms has afforded cognitive scientists with the opportunity to interrogate the genetic basis of cognition with renewed vigor. The extant literature on the molecular genetics of sustained and spatial attention is reviewed herein. Advances in our understanding of the neural substrates of sustained and spatial attention arising from the cognitive neurosciences can help guide putative linkages in cognitive genetics. In line with catecholamine models of sustained attention, associations have been reported between sustained attention and allelic variation in the dopamine beta hydroxylase gene (DBH), the dopamine D2 and D4 receptor genes (DRD2; DRD4) and the dopamine transporter gene (DAT1). Much evidence implicates the cholinergic system in spatial attention. Accordingly, individual differences in spatial attention have been associated with variation in an alpha-4 cholinergic receptor gene (CHRNA4). APOE-epsilon4 allele dosage has been shown to influence the speed of attentional reorienting in independent samples of nonaffected individuals. Preliminary evidence in both healthy children and children with attention deficit hyperactivity disorder (ADHD) suggests and association with variants of the DAT1 gene and the control of spatial attention across the hemifields. With the recent development of high-throughput genotyping techniques, such as microarrays, the time seems ripe for a genomewide association study that can identify quantitative trait loci (QTLs) for sustained and spatial attention. The identification of QTLs for attention will provide a range of novel candidate genes for disorders of attention, such as ADHD and schizophrenia, and will drive cognitive neuroscientists to understand how DNA variation influences the neural substrates of attention.},
affiliation = {School of Psychology, University of Queensland, 4072 Queensland, Australia. m.bellgrove@uq.edu.au},
pages = {200--12},
volume = {1129},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genome: Human, Cognition, Models: Biological, Genetic Predisposition to Disease, Attention, Humans, Molecular Biology},
date-added = {2010-01-16 21:01:57 +0100},
date-modified = {2010-01-16 21:01:57 +0100},
doi = {10.1196/annals.1417.013},
pii = {1129/1/200},
pmid = {18591481},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3829},
rating = {0}
}
@article{Blonigen:2005p9130,
author = {Daniel M Blonigen and Brian M Hicks and Robert F Krueger and Christopher J Patrick and William G Iacono},
journal = {Psychol Med},
title = {Psychopathic personality traits: heritability and genetic overlap with internalizing and externalizing psychopathology},
abstract = {BACKGROUND: Little research has examined genetic and environmental contributions to psychopathic personality traits. Additionally, no studies have examined etiological connections between psychopathic traits and the broad psychopathological domains of internalizing (mood and anxiety) and externalizing (antisocial behavior, substance abuse). The current study was designed to fill these gaps in the literature. METHOD: Participants were 626 pairs of 17-year-old male and female twins from the community. Psychopathic traits were indexed using scores on the Multidimensional Personality Questionnaire (MPQ). Symptoms of internalizing and externalizing psychopathology were obtained via structured clinical interviews. Structural equation modeling was used to estimate genetic and environmental influences on psychopathic personality traits as well as the degree of genetic overlap between these traits and composites of internalizing and externalizing. RESULTS: Twin analyses revealed significant genetic influence on distinct psychopathic traits (Fearless Dominance and Impulsive Antisociality). Moreover, Fearless Dominance was associated with reduced genetic risk for internalizing psychopathology, and Impulsive Antisociality was associated with increased genetic risk for externalizing psychopathology. CONCLUSIONS: These results indicate that different psychopathic traits as measured by the MPQ show distinct genetically based relations with broad dimensions of DSM psychopathology.},
affiliation = {Department of Psychology, University of Minnesota, Twin Cities Campus, Minneapolis, MN 55455-0344, USA. bloni001@umn.edu},
number = {5},
pages = {637--48},
volume = {35},
year = {2005},
month = {May},
language = {eng},
keywords = {Questionnaires, Humans, Phenotype, Social Environment, Male, Twins, Antisocial Personality Disorder, Female, Adolescent, Impulse Control Disorders},
date-added = {2010-03-22 13:26:38 +0100},
date-modified = {2010-03-22 13:26:38 +0100},
pmid = {15918340},
url = {http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Retrieve&list_uids=15918340&dopt=abstractplus},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blonigen-2005-Psychol%20Med_Psychopathic%20persona.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9130},
rating = {0}
}
@article{Kleinberg:2004p12860,
author = {J Kleinberg and M Sandler},
journal = {STOC'04},
title = {Using Mixture Models for Collaborative Filtering},
abstract = {A collaborative filtering system at an e-commerce site or similar service uses data about aggregate user behavior to make recommendations tailored to specific user interests. We develop recommendation algorithms with provable per- formance guarantees in a probabilistic mixture model for col- laborative filtering proposed by Hoffman and Puzicha. We identify certain novel parameters of mixture models that are closely connected with the best achievable performance of a recommendation algorithm; we show that for any system in which these parameters are bounded, it is possible to give recommendations whose quality converges to optimal as the amount of data grows.
All our bounds depend on a new measure of independence that can be viewed as an L1-analogue of the smallest sin- gular value of a matrix. Using this, we introduce a tech- nique based on generalized pseudoinverse matrices and lin- ear programming for handling sets of high-dimensional vec- tors. We also show that standard approaches based on L2 spectral methods are not strong enough to yield compara- ble results, thereby suggesting some inherent limitations of spectral analysis.},
year = {2004},
date-added = {2010-06-24 12:37:09 +0200},
date-modified = {2010-06-24 12:37:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kleinberg-2004-STOC%E2%80%9904_Using%20Mixture%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12860},
rating = {0}
}
@article{Martin:2009p5107,
author = {Neilson C Martin and Jan Piek and Grant Baynam and Florence Levy and David Hay},
journal = {Hum Mov Sci},
title = {An examination of the relationship between movement problems and four common developmental disorders},
abstract = {It has been well recognized since the days of "minimal brain dysfunction" (Clements, 1966) that various developmental disorders have a shared aetiology. Poor motor coordination has been implicated as one of the factors in these relationships. This study examines the different patterns in symptomatology of five developmental disorders, namely developmental coordination disorder (DCD), attention-deficit/hyperactivity disorder (ADHD), reading disorder (RD), oppositional defiant disorder (ODD), and conduct disorder (CD) in order to build on the genetic work from Martin, Levy, Piek, and Hay (2006) and Martin, Piek, and Hay (2006) examining the overlap of these disorders. Latent class analysis was used on questionnaire data from 1304 families from the Australian twin ADHD project (ATAP) to examine the patterns of comorbidity of the five disorders. We confirmed and added detail to the shared symptoms between DCD, ADHD, RD, and ODD, but found no links between CD symptoms and any other disorders. Despite the close link previously identified with ODD and CD, this finding suggests a different aetiology for CD.},
affiliation = {Curtin Health Innovation Research Institute, Curtin University of Technology, GPO Box U1987, Perth 6845, Western Australia, Australia.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-02-05 20:17:20 +0100},
date-modified = {2010-02-05 20:17:20 +0100},
doi = {10.1016/j.humov.2009.09.005},
pii = {S0167-9457(09)00100-6},
pmid = {19944472},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5107},
rating = {0}
}
@article{Lu:2010p9438,
author = {K Lu and L Jiang and A A Tsiatis},
journal = {Biometrics},
title = {Multiple Imputation Approaches for the Analysis of Dichotomized Responses in Longitudinal Studies with Missing Data},
abstract = {Often a binary variable is generated by dichotomizing an underlying continuous variable measured at a specific time point according to a prespecified threshold value. In the event that the underlying continuous measurements are from a longitudinal study, one can use the repeated-measures model to impute missing data on responder status as a result of subject dropout and apply the logistic regression model on the observed or otherwise imputed responder status. Standard Bayesian multiple imputation techniques (Rubin, 1987, in Multiple Imputation for Nonresponse in Surveys) that draw the parameters for the imputation model from the posterior distribution and construct the variance of parameter estimates for the analysis model as a combination of within- and between-imputation variances are found to be conservative. The frequentist multiple imputation approach that fixes the parameters for the imputation model at the maximum likelihood estimates and construct the variance of parameter estimates for the analysis model using the results of Robins and Wang (2000, Biometrika 87, 113--124) is shown to be more efficient. We propose to apply (Kenward and Roger, 1997, Biometrics 53, 983--997) degrees of freedom to account for the uncertainty associated with variance--covariance parameter estimates for the repeated measures model.},
year = {2010},
date-added = {2010-03-23 19:04:02 +0100},
date-modified = {2010-03-23 19:34:06 +0100},
doi = {10.1111/j.1541-0420.2010.01405.x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lu-2010-Biometrics_Multiple%20Imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9438},
rating = {0}
}
@article{Janssen:2000p541,
author = {Rianne Janssen and Francis Tuerlinckx and Michel Meulders and Paul De Boeck},
journal = {Journal of Educational and Behavioral Statistics},
title = {A Hierarchical IRT Model for Criterion-Referenced Measurement},
abstract = {A hierarchical IRT model is proposed for mastery classification in criterion- referenced measurement. In this model, items measuring the same criterion are grouped, and a difficulty and discrimination parameter of the criterion is estimated on the same scale as the person and item parameters. The level of proficiency of a student with respect to the criterion is determined by the probability of success on the criterion. Cutoff points on the probability scale can be used to classify respondents into masters and nonmasters. The hierarchical IRT model is estimated using the Gibbs sampler and tested using posterior predictive checks. The model is illustrated with a test measuring the attainment targets of reading comprehension (in Dutch) at the end of primary education.},
affiliation = {University of Leuven},
number = {3},
pages = {285--306},
volume = {25},
year = {2000},
keywords = {hierarchical IRT, Gibbs sampler, posterior predictive checks, criterion-referenced measurement, standard setting},
date-added = {2010-01-03 14:09:08 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Janssen-2000-Journal%20of%20Educational%20and%20Behavioral%20Statistics_A%20Hierarchical%20IRT%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p541},
rating = {0}
}
@article{Horsman:2003p8764,
author = {John Horsman and William Furlong and David Feeny and George Torrance},
journal = {Health Qual Life Outcomes},
title = {The Health Utilities Index (HUI): concepts, measurement properties and applications},
abstract = {This is a review of the Health Utilities Index (HUI) multi-attribute health-status classification systems, and single- and multi-attribute utility scoring systems. HUI refers to both HUI Mark 2 (HUI2) and HUI Mark 3 (HUI3) instruments. The classification systems provide compact but comprehensive frameworks within which to describe health status. The multi-attribute utility functions provide all the information required to calculate single-summary scores of health-related quality of life (HRQL) for each health state defined by the classification systems. The use of HUI in clinical studies for a wide variety of conditions in a large number of countries is illustrated. HUI provides comprehensive, reliable, responsive and valid measures of health status and HRQL for subjects in clinical studies. Utility scores of overall HRQL for patients are also used in cost-utility and cost-effectiveness analyses. Population norm data are available from numerous large general population surveys. The widespread use of HUI facilitates the interpretation of results and permits comparisons of disease and treatment outcomes, and comparisons of long-term sequelae at the local, national and international levels.},
affiliation = {Health Utilities Inc, Dundas, ON, Canada. horsmanj@mcmaster.ca},
pages = {54},
volume = {1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Quality Assurance: Health Care, Questionnaires, Quality of Life, Quality-Adjusted Life Years, Health Status, Male, Outcome Assessment (Health Care), Psychometrics, Reproducibility of Results, Sickness Impact Profile, Female, Humans},
date-added = {2010-03-22 12:06:37 +0100},
date-modified = {2010-03-22 12:06:37 +0100},
doi = {10.1186/1477-7525-1-54},
pii = {1477-7525-1-54},
pmid = {14613568},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Horsman-2003-Health%20and%20Quality%20of%20Life%20Outcomes_The%20Health%20Utilities.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8764},
rating = {0}
}
@article{Cordell:2004p5291,
author = {Heather J Cordell and Bryan J Barratt and David G Clayton},
journal = {Genet Epidemiol},
title = {Case/pseudocontrol analysis in genetic association studies: A unified framework for detection of genotype and haplotype associations, gene-gene and gene-environment interactions, and parent-of-origin effects},
abstract = {Estimation and testing of genetic effects (genotype relative risks) are often performed conditionally on parental genotypes, using data from case-parent trios. This strategy avoids having to estimate nuisance parameters such as parental mating type frequencies, and also avoids generating spurious results due to confounding causes of association such as population stratification. For effects at a single locus, the resulting analysis is equivalent to matched case/control analysis via conditional logistic regression, using the case and three "pseudocontrols" derived from the untransmitted parental alleles. We previously showed that a similar approach can be used for analyzing genotype and haplotype effects at a set of closely linked loci, but with a required adjustment to the conditioning argument that results in varying numbers of pseudocontrols, depending on the disease model that is to be fitted. Here we extend this method to include the analysis of epistatic effects (gene-gene interactions) at unlinked loci, to include parent-of-origin effects at one or more loci, and to allow additional incorporation of gene-environment interactions. The conditional logistic approach provides a natural and flexible framework for incorporating these additional effects. By relaxing the conditioning on parental genotypes to allow exchangeability of parental genotypes, we show how the power of this approach can be increased when studying parent-of-origin effects. Simulations suggest that there is limited power to distinguish between parent-of-origin effects and effects due to interaction between genotypes of mother and child.},
affiliation = {Department of Medical Genetics, University of Cambridge, Cambridge, UK. heather.cordell@cimr.cam.ac.uk},
number = {3},
pages = {167--85},
volume = {26},
year = {2004},
month = {Apr},
language = {eng},
keywords = {Haplotypes, Female, Genotype, Male, Humans, Algorithms, Models: Genetic, Linkage Disequilibrium, Linear Models, Computer Simulation, Pedigree, Logistic Models},
date-added = {2010-02-09 22:29:12 +0100},
date-modified = {2010-02-09 22:29:12 +0100},
doi = {10.1002/gepi.10307},
pmid = {15022205},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5291},
rating = {0}
}
@misc{Lawrence:2000,
author = {E Lawrence and D Bingham and C Liu and V N Nair},
journal = {Miscellaneous},
title = {Bayesian inference for ordinal data using multivariate probit models},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lawrence-2000-Miscellaneous_Bayesian%20inference%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1868},
rating = {0}
}
@article{Shen:2010p5011,
author = {Yijing Shen and Wei Sun and Ker-Chau Li},
journal = {Bioinformatics},
title = {Dynamically weighted clustering with noise set},
abstract = {MOTIVATION: Various clustering methods have been applied to microarray gene expression data for identifying genes with similar expression profiles. As the biological annotation data accumulated, more and more genes have been organized into functional categories. Functionally related genes may be regulated by common cellular signals, thus likely to be co-expressed. Consequently, utilizing the rapidly increasing functional annotation resources such as Gene Ontology (GO) to improve the performance of clustering methods is of great interest. On the opposite side of clustering, there are genes that have distinct expression profiles and do not co-express with other genes. Identification of these scattered genes could enhance the performance of clustering methods. RESULTS: We developed a new clustering algorithm, Dynamically Weighted Clustering with Noise set (DWCN), which makes use of gene annotation information and allows for a set of scattered genes, the noise set, to be left out of the main clusters. We tested the DWCN method and contrasted its results with those obtained using several common clustering techniques on a simulated dataset as well as on two public datasets: the Stanford yeast cell-cycle gene expression data, and a gene expression dataset for a group of genetically different yeast segregants. Conclusion: Our method produces clusters with more consistent functional annotations and more coherent expression patterns than existing clustering techniques. CONTACT: yshen@stat.ucla.edu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.},
affiliation = {Department of Statistics at University of California, Los Angeles, CA 90095, Department of Biostatistics, Genetics, University of North Carolina, NC 27516, USA and Institute of Statistical Science, Academia Sinica, Taipei, Taiwan, Republic of China.},
number = {3},
pages = {341--7},
volume = {26},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-05 19:57:01 +0100},
date-modified = {2010-02-05 19:57:01 +0100},
doi = {10.1093/bioinformatics/btp671},
pii = {btp671},
pmid = {20007256},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shen-2010-Bioinformatics_Dynamically%20weighted.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5011},
rating = {0}
}
@article{Kind:2009p13501,
author = {Paul Kind and Jennifer Elston Lafata and Karl Matuszewski and Dennis Raisch},
journal = {Value Health},
title = {The use of QALYs in clinical and patient decision-making: issues and prospects},
affiliation = {Outcomes Research Group, Centre for Health Economics, Alcuin College, University of York, York, UK. pk1@york.ac.uk},
pages = {S27--30},
volume = {12 Suppl 1},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Resource Allocation, Outcome Assessment (Health Care), Humans, Quality of Life, Health Status, Cost-Benefit Analysis, Decision Making, Quality-Adjusted Life Years},
date-added = {2010-07-07 20:40:15 +0200},
date-modified = {2010-07-07 20:40:15 +0200},
doi = {10.1111/j.1524-4733.2009.00519.x},
pii = {VHE519},
pmid = {19250128},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kind-2009-Value%20Health_The%20use%20of%20QALYs%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13501},
rating = {0}
}
@inproceedings{Thomas:2002a,
author = {D R Thomas and A Cyr},
journal = {Proceedings},
title = {Applying item response theory methods to complex survey data},
year = {2002},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-11 09:27:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thomas-2002-Proceedings_Applying%20item%20respon-2.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2030},
read = {Yes},
rating = {0}
}
@article{Albert:2010p13041,
author = {Umberto Albert and Giuseppe Maina and Filippo Bogetto and Alice Chiarle and David Mataix-Cols},
journal = {Compr Psychiatry},
title = {Clinical predictors of health-related quality of life in obsessive-compulsive disorder},
abstract = {BACKGROUND: Obsessive-compulsive disorder (OCD) is a serious mental disorder that has severe impact on a person's quality of life and those living with a person with OCD. This study systematically examined the clinical variables that are predictive of several domains of quality of life in a large, well-characterized sample of patients attending a specialized treatment unit in Italy. METHODS: The Medical Outcomes Study 36-Item Short-Form Health Survey (SF-36) was administered to 151 patients with OCD and their scores were compared to published Italian norms. A principal component analysis was performed on the 13 major categories of the Yale-Brown Obsessive-Compulsive Scale (YBOCS) Symptom Checklist to derive symptom dimension scores. The association between various domains of quality of life and a wide range of clinical variables, including symptom dimension scores, was examined using multiple regression models. RESULTS: Compared to published Italian norms, patients with OCD showed impairment in most domains of quality of life, particularly social functioning. The principal component analysis of the YBOCS Symptom Checklist yielded 5 symptom dimensions that were identical to those previously identified in the international literature. Fewer years of education, higher depression scores (Hamilton Rating Scale for Depression), higher YBOCS obsessions scores, and higher scores on the contamination/washing symptom dimension independently predicted a poorer score on the physical health component of the SF-36. Higher YBOCS compulsions scores, the presence of a current mood disorder, and higher anxiety scores (Hamilton Rating Scale for Anxiety) predicted a poorer score on the mental health component of the SF-36. CONCLUSIONS: Our study confirms that quality of life is severely impaired in patients with OCD. The identification of predictors of quality of life in OCD can help clinicians to adapt their treatment protocols to cater for the individual needs of their patients.},
affiliation = {Mood and Anxiety Disorders Unit, Department of Neurosciences, University of Turin, 10126 Torino, Italy. umberto_albert@hotmail.com},
number = {2},
pages = {193--200},
volume = {51},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-06-26 09:35:16 +0200},
date-modified = {2010-07-29 19:24:13 +0200},
doi = {10.1016/j.comppsych.2009.03.004},
pii = {S0010-440X(09)00044-3},
pmid = {20152302},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Albert-2010-Compr%20Psychiatry_Clinical%20predictors.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13041},
rating = {0}
}
@article{Cohen:1996p4111,
author = {A S Cohen and S H Kim and J A Wollack},
journal = {Applied Psychological Measurement},
title = {An Investigation of the Likelihood Ratio Test For Detection of Differential Item Functioning},
number = {1},
pages = {15--26},
volume = {20},
year = {1996},
date-added = {2010-01-19 23:57:13 +0100},
date-modified = {2010-01-19 23:58:07 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cohen-1996-Applied%20Psychological%20Measurement_An%20Investigation%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4111},
rating = {0}
}
@article{Dudoit:2000p3404,
author = {S Dudoit and Y H Yang and M J Callow and T P Speed},
title = {Statistical methods for identifying differentially expressed genes in replicated cDNA microarray experiments},
abstract = {Microarrays are part of a new class of biotechnologies which allow the monitoring of expres- sion levels for thousands of genes simultaneously. This paper describes statistical methods for the identification of differentially expressed genes in replicated cDNA microarray experi- ments. Although it is not the main focus of the paper, we stress the importance of issues such as image processing and normalization. Image processing is required to extract measures of transcript abundance for each gene spotted on the array from the laser scan images. Nor- malization is needed to identify and remove systematic sources of variation, such as differing dye labeling efficiencies and scanning properties. There can be many systematic sources of variation and their effects can be large relative to the effects of interest. After a brief presen- tation of our image processing method, we describe a within-slide normalization approach which handles spatial and intensity dependent effects on the measured expression levels.
Given suitably normalized data, our proposed method for the identification of single differ- entially expressed genes is to consider a univariate testing problem for each gene and then correct for multiple testing using adjusted p-values. No specific parametric form is assumed for the distribution of the expression levels and a permutation procedure is used to esti- mate the joint null distribution of the test statistics for each gene. Several data displays are suggested for the visual identification of genes with altered expression and of important features of these genes. The above methods are applied to microarray data from a study of gene expression in two mouse models with very low HDL cholesterol levels. The genes iden- tified using data from replicated slides are compared to those obtained by applying recently published single-slide methods.},
year = {2000},
date-added = {2010-01-15 14:43:38 +0100},
date-modified = {2010-01-15 14:44:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dudoit-2000-_Statistical%20methods.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3404},
rating = {0}
}
@article{Turkheimer:2004p7181,
author = {Federico E Turkheimer and John A D Aston and Vincent J Cunningham},
journal = {Eur J Nucl Med Mol Imaging},
title = {On the logic of hypothesis testing in functional imaging},
abstract = {Statistics is nowadays the customary language of functional imaging. It is common to express an experimental setting as a set of null hypotheses over complex models and to present results as maps of p-values derived from sophisticated probability distributions. However, the growing interest in the development of advanced statistical algorithms is not always paralleled by similar attention to how these techniques may regiment the ways in which users draw inferences from their data. This article investigates the logical bases of current statistical approaches in functional imaging and probes their suitability to inductive inference in neuroscience. The frequentist approach to statistical inference is reviewed with attention to its two main constituents: Fisherian "significance testing" and Neyman-Pearson "hypothesis testing". It is shown that these conceptual systems, which are similar in the univariate testing case, dissociate into two quite different methods of inference when applied to the multiple testing problem, the typical framework of functional imaging. This difference is explained with reference to specific issues, like small volume correction, which are most likely to generate confusion in the practitioner. Further insight into this problem is achieved by recasting the multiple comparison problem into a multivariate Bayesian formulation. This formulation introduces a new perspective where the inferential process is more clearly defined in two distinct steps. The first one, inductive in form, uses exploratory techniques to acquire preliminary notions on the spatial patterns and the signal and noise characteristics. The (smaller) set of likely spatial patterns generated is then tested with newer data and a more rigorous multiple hypothesis testing technique (deductive step).},
affiliation = {Department of Neuropathology, Imperial College London, Charing Cross Hospital, St. Dunstan's Road, London, W6 8RP, UK. federico.turkheimer@imperial.ac.uk},
number = {5},
pages = {725--32},
volume = {31},
year = {2004},
month = {May},
language = {eng},
keywords = {Models: Statistical, Evidence-Based Medicine, Algorithms, Diagnostic Imaging, Data Interpretation: Statistical, Models: Biological, Image Interpretation: Computer-Assisted},
date-added = {2010-03-06 20:32:46 +0100},
date-modified = {2010-03-06 20:32:46 +0100},
doi = {10.1007/s00259-003-1387-7},
pmid = {14730402},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7181},
rating = {0}
}
@article{Plomin:2009p7583,
author = {Robert Plomin and Claire M A Haworth},
journal = {Behav Genet},
title = {Genetics of high cognitive abilities},
number = {4},
pages = {347--9},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Humans, Social Environment, Child, Adolescent, Genotype, Intelligence, Aptitude},
date-added = {2010-03-15 23:09:51 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9277-9},
pmid = {19430899},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Plomin-2009-Behav%20Genet_Genetics%20of%20high%20cog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7583},
rating = {0}
}
@manual{Gruijter:2005,
author = {Dato N M de Gruijter and Leo J Th van der Kamp},
journal = {Manual},
title = {Statistical test theory for education and psychology},
year = {2005},
month = {Oct},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-07-29 19:38:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gruijter-2005-Manual_Statistical%20test%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2186},
rating = {0}
}
@article{Fan:2001p7237,
author = {J Fan and Y Wu and J A Fossella and M I Posner},
journal = {BMC Neurosci},
title = {Assessing the heritability of attentional networks},
abstract = {BACKGROUND: Current efforts to study the genetics of higher functions have been lacking appropriate phenotypes to describe cognition. One of the problems is that many cognitive concepts for which there is a single word (e.g. attention) have been shown to be related to several anatomical networks. Recently we have developed an Attention Network Test (ANT) that provides a separate measure for each of three anatomically defined attention networks. In this small scale study, we ran 26 pairs of MZ and DZ twins in an effort to determine if any of these networks show sufficient evidence of heritability to warrant further exploration of their genetic basis. RESULTS: The efficiency of the executive attention network, that mediates stimulus and response conflict, shows sufficient heritability to warrant further study. Alerting and overall reaction time show some evidence for heritability and in our study the orienting network shows no evidence of heritability. CONCLUSIONS: These results suggest that genetic variation contributes to normal individual differences in higher order executive attention involving dopamine rich frontal areas including the anterior cingulate. At least the executive portion of the ANT may serve as a valid endophenotype for larger twin studies and subsequent molecular genetic analysis in normal subject populations.},
affiliation = {Sackler Institute, Weill Medical College, Cornell University, New York, USA. jif2004@med.cornell.edu},
pages = {14},
volume = {2},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Humans, Neurophysiology, Female, Twins: Monozygotic, Gyrus Cinguli, Attention, Male, Twins: Dizygotic, Adolescent, Cognition, Adult, Genetic Variation, Frontal Lobe, Nerve Net, Reaction Time, Orientation},
date-added = {2010-03-08 20:22:11 +0100},
date-modified = {2010-03-08 20:22:11 +0100},
pmid = {11580865},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fan-2001-BMC%20Neurosci_Assessing%20the%20herita.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7237},
rating = {0}
}
@article{Pober:2001,
author = {JS Pober and CS Neuhauser and JM Pober},
journal = {The FASEB Journal},
title = {Obstacles facing translational research in academic medical centers},
abstract = {Over the last quarter of the 20th century, there has been a boom in biomedical research discoveries that, for the most part, has not been successfully exploited for improving medical therapy or diagnosis. This lack of success is surprising because there is a broad consensus within academic medical centers (AMCs) that a primary mission is to move scientific discoveries into meaningful clinical outcomes, and there are numerous opportunities for doing so. We illustrate the latter point with 10 clinical opportunities for translating scientific discoveries from our field of vascular biology and transplantation. We attribute the limited success of translation to various factors, chief of which is that translation is rarely straightforward and requires continuing research in both the clinic and the laboratory. Translational research is hindered by insufficient targeted resources, a shortage of qualified investigators, an academic culture that hinders collaboration between clinical and laboratory-based investigators, a traditional structure of the AMC that favors departmental efforts over interdisciplinary programs, an increasing regulatory burden, and a lack of specific mechanisms within the AMC for facilitating solutions to these problems. We offer several suggestions to reduce these impediments.---Pober, J. S., Neuhauser, C. S., Pober, J. M. Obstacles facing translational research in academic medical centers.},
number = {13},
pages = {2303--2313},
volume = {15},
year = {2001},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1006},
rating = {0}
}
@article{Samejima:1975p11155,
author = {F Samejima},
title = {Graded response model of the latent trait theory and tailored testing},
year = {1975},
date-added = {2010-04-25 19:23:02 +0200},
date-modified = {2010-04-25 19:23:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Samejima-1975-_Graded%20response%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11155},
rating = {0}
}
@article{AbdElFattah:2007p11579,
author = {S M Abd-El-Fattah},
journal = {International Education Journal},
title = {Is the Aggression Questionnaire bias free? A Rasch analysis},
abstract = {Buss and Perry (1992) developed the Aggression Questionnaire (AQ) to assess aggressiveness as a personality trait in high school and college samples. The AQ has been used by researchers in United States, Italy, Germany, Netherland, Japan, Canada, and Greece. The present study is reported on an Arabic adapted version of the AQ among a sample of 510 Egyptian high school students. An exploratory factor analysis technique defined four factors: physical aggression (9 items), verbal aggression (5 items), anger (7 items), and hostility (8 items). The correlation among the four factors ranged from 0.38 to 0.49. A confirmatory factor analysis revealed that the AQ could be described by four first levels factors that were linked by a higher order factor of general aggression. Rasch analysis showed that the AQ was bias free. Relevance of these findings to the assessment of the trait aggressiveness is discussed.},
number = {2},
pages = {237--248},
volume = {8},
year = {2007},
date-added = {2010-05-09 18:23:59 +0200},
date-modified = {2010-05-23 22:43:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abd-El-Fattah-2007-International%20Education%20Journal_Is%20the%20Aggression%20Qu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11579},
rating = {4}
}
@article{Fava:2005p7470,
author = {Giovanni A Fava and Carlotta Belaise},
journal = {Journal of Clinical Epidemiology},
title = {A discussion on the role of clinimetrics and the misleading effects of psychometric theory},
abstract = {BACKGROUND: Psychometric theory is the basis for the development of assessment instruments in psychiatric research. METHODS: It has produced a number of variable methods for improving the validity and reliability of clinical assessment. However, the psychometric model appears to be largely inadequate in the clinical setting because of its lack of sensitivity to change and its quest for homogeneous components. RESULTS: Clinimetrics offers a viable integration to psychometrics, both from a conceptual and a methodologic viewpoint. CONCLUSION: Without such integration, psychometric rules and methods may lead to misleading effects in clinical research both in psychiatry and medicine.},
affiliation = {Department of Psychology, University of Bologna, viale Berti Pichat 5, 40127 Bologna, Italy. giovanniandrea.fava@unibo.it},
number = {8},
pages = {753--6},
volume = {58},
year = {2005},
month = {Aug},
language = {eng},
keywords = {Medical Informatics, Psychiatric Status Rating Scales, Humans, Mental Disorders, Psychometrics},
date-added = {2010-03-10 20:43:08 +0100},
date-modified = {2010-03-10 20:43:13 +0100},
doi = {10.1016/j.jclinepi.2004.12.006},
pii = {S0895-4356(05)00084-3},
pmid = {16018909},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fava-2005-Journal%20of%20Clinical%20Epidemiology_A%20discussion%20on%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7470},
rating = {3}
}
@article{Friedman:2008p4936,
author = {J H Friedman},
title = {Fast sparse regression and classification},
year = {2008},
date-added = {2010-02-03 11:44:27 +0100},
date-modified = {2010-02-03 11:45:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Friedman-2008-_Fast%20sparse%20regressi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4936},
rating = {0}
}
@article{Strohle:2008p9590,
author = {Andreas Str{\"o}hle and Meline Stoy and Jana Wrase and Steffi Schwarzer and Florian Schlagenhauf and Michael Huss and Jakob Hein and Anke Nedderhut and Britta Neumann and Andreas Gregor and Georg Juckel and Brian Knutson and Ulrike Lehmkuhl and Michael Bauer and Andreas Heinz},
journal = {Neuroimage},
title = {Reward anticipation and outcomes in adult males with attention-deficit/hyperactivity disorder},
abstract = {Attention-deficit/hyperactivity disorder (ADHD) has been suggested to involve deficits in reward processing. We used functional magnetic resonance imaging (fMRI) to compare the neural responses to reward anticipation and outcomes in 10 adults with ADHD and 10 controls as they played a monetary incentive delay task. Adults with ADHD were unmedicated, and groups were matched for age, verbal IQ and smoking habits. Adults with ADHD showed decreased activation in the ventral striatum during the anticipation of gain, but increased activation of the orbitofrontal cortex in response to gain outcomes. Ventral striatal activation in adults with ADHD during gain anticipation was negatively correlated with self-rated symptoms of hyperactivity and impulsivity. These findings suggest that male adults with ADHD show neural signs of abnormal reward processing. Future studies will have to investigate whether these dysfunctional patterns might be normalized by treatment.},
affiliation = {Department of Psychiatry and Psychotherapy, Campus Charit{\'e} Mitte, Charit{\'e}-Universit{\"a}tsmedizin Berlin, Schumannstr. 20/21, 10117 Berlin, Germany. andreas.stroehle@charite.de},
note = {genim},
number = {3},
pages = {966--72},
volume = {39},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Reward, Psychiatric Status Rating Scales, Neostriatum, Prefrontal Cortex, Humans, Male, Motivation, Data Interpretation: Statistical, Adult, Neuropsychological Tests, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-03-25 14:33:26 +0100},
date-modified = {2010-03-25 18:15:47 +0100},
doi = {10.1016/j.neuroimage.2007.09.044},
pii = {S1053-8119(07)00842-7},
pmid = {17996464},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4PTMXTM-3&_user=2432700&_coverDate=02%252F01%252F2008&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=5e09c45c8c36f3e79c3f906076431950},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Str%C3%B6hle-2008-Neuroimage_Reward%20anticipation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9590},
rating = {0}
}
@article{Mitchell:2005p2324,
author = {M N Mitchell},
journal = {Statistical Consulting Group: UCLA Academic Technology Services},
title = {Strategically using General Purpose Statistics Packages: A Look at Stata, SAS and SPSS},
year = {2005},
date-added = {2010-01-10 12:50:08 +0100},
date-modified = {2010-01-10 12:50:51 +0100},
url = {http://www.ats.ucla.edu/stat/technicalreports/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mitchell-2005-Statistical%20Consulting%20Group%20UCLA%20Academic%20Technology%20Services_Strategically%20using.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2324},
rating = {0}
}
@article{Silverstein:2010p1695,
author = {J W Silverstein and Z D Bai},
title = {On the Empirical Distribution of Eigenvalues of a Class of Large Dimensional Random Matrices},
date-added = {2010-01-09 18:50:20 +0100},
date-modified = {2010-01-09 18:51:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Silverstein--_On%20the%20Empirical%20Dis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1695},
rating = {0}
}
@article{Amin:2004p10205,
author = {Z Amin and R T Constable and T Canli},
journal = {Journal of Research in Personality},
title = {Attentional bias for valenced stimuli as a function of personality in the dot-probe task},
abstract = {Extroversion (E) and neuroticism (N) are associated with positive and negative affect, re- spectively. This correspondence between each dimension of personality with each dimension of affect may reflect a common mechanism, such as attentional bias to emotional stimuli. We used functional magnetic resonance imaging (fMRI) while participants were engaged in an attentional task to identify brain regions that may be involved in attentional bias as a func- tion of E or N. By adapting, for the first time, the dot-probe attentional task for use in the scanner, we discovered that activation in the fusiform gyrus is significantly correlated with E. The greatest activation was observed in conditions in which an attentional probe was placed in a section of the visual field least likely to be attended to by highly extroverted individuals. This activation may reflect increased effort related to visual search, autonomic arousal, or detection of an unexpected occurrence.},
pages = {15--23},
volume = {38},
year = {2004},
date-added = {2010-04-01 18:18:37 +0200},
date-modified = {2010-07-29 19:36:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Amin-2004-Journal%20of%20Research%20in%20Personality_Attentional%20bias%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10205},
rating = {0}
}
@article{Carey:2009p522,
author = {V J Carey and R Gentleman},
journal = {Pac Symp Biocomput},
title = {Interpreting genetics of gene expression: Integrative architecture in Bioconductor},
abstract = {Several influential studies of genotypic determinants of gene expression in humans have now been published based on various populations including HapMap cohorts. The magnitude of the analytic task (transcriptome vs. SNP-genome) is a hindrance to dissemination of efficient, thorough, and auditable inference methods for this project. We describe the structure and use of Bioconductor facilities for inference in genetics of gene expression, with simultaneous application to multiple HapMap cohorts. Tools distributed for this purpose are readily adapted for the structure and analysis of privately-generated data in expression genetics.},
pages = {380--390},
volume = {14},
year = {2009},
date-added = {2010-01-03 13:34:05 +0100},
date-modified = {2010-07-29 19:42:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carey-2009-Pac%20Symp%20Biocomput_Interpreting%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p522},
read = {Yes},
rating = {0}
}
@article{Mahata:2006p1615,
author = {P Mahata and W Costa and C Cotta and P Moscato},
title = {Hierarchical Clustering, Languages and Cancer},
abstract = {In this paper, we introduce a novel objective function for the hierarchical clustering of data from distance matrices, a very relevant task in Bioinformatics. To test the robustness of the method, we test it in two areas: (a) the problem of deriving a phylogeny of languages and (b) subtype cancer classification from microarray data. For comparison purposes, we also consider both the use of ultrametric trees (generated via a two-phase evolutionary approach that creates a large number of hypothesis trees, and then takes a consensus), and the best-known results from the literature.
We used a dataset of measured 'separation time' among 84 Indo-European languages. The hierarchy we produce agrees very well with existing data about these languages across a wide range of levels, and it helps to clarify and raise new hypothesis about the evolution of these languages.
Our method also generated a classification tree for the different cancers in the NCI60 microarray dataset (comprising gene expression data for 60 cancer cell lines). In this case, the method seems to support the cur- rent belief about the heterogeneous nature of the ovarian, breast and non-small-lung cancer, as opposed to the relative homogeneity of other types of cancer. However, our method reveals a close relationship of the melanoma and CNS cell-lines. This is in correspondence with the fact that metastatic melanoma first appears in central nervous system (CNS).},
affiliation = {Newcastle Bioinformatics Initiative, School of Electrical Engineering and Computer Science, The University of Newcastle, Callaghan, NSW, 2308, Australia},
year = {2006},
date-added = {2010-01-07 17:15:02 +0100},
date-modified = {2010-01-07 17:16:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mahata-2006-_Hierarchical%20Cluster.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1615},
rating = {0}
}
@article{Imai:2008p3598,
author = {K Imai and G King and O Lau},
journal = {Journal of Computational and Graphical Statistics},
title = {Toward A Common Framework for Statistical Analysis and Development},
abstract = {We develop a general ontology of statistical methods and use it to propose a com- mon framework for statistical analysis and software development built on and within the R language, including R's numerous existing packages. This framework offers a simple unified structure and syntax that can encompass a large fraction of existing sta- tistical procedures. We conjecture that it can be used to encompass and present simply a vast majority of existing statistical methods, without requiring changes in existing approaches, and regardless of the theory of inference on which they are based, notation with which they were developed, and programming syntax with which they have been implemented. This development enabled us, and should enable others, to design statis- tical software with a single, simple, and unified user interface that helps overcome the conflicting notation, syntax, jargon, and statistical methods existing across the methods subfields of numerous academic disciplines. The approach also enables one to build a graphical user interface that automatically includes any method encompassed within the framework. We hope that the result of this line of research will greatly reduce the time from the creation of a new statistical innovation to its widespread use by applied researchers whether or not they use or program in R.},
number = {4},
pages = {1--22},
volume = {17},
year = {2008},
date-added = {2010-01-15 21:30:02 +0100},
date-modified = {2010-01-15 21:30:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Imai-2008-Journal%20of%20Computational%20and%20Graphical%20Statistics_Toward%20A%20Common%20Fram.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3598},
rating = {0}
}
@article{Neeleman:1998,
author = {J Neeleman},
journal = {Int J Epidemiol},
title = {Regional suicide rates in the Netherlands: does religion still play a role?},
abstract = {BACKGROUND: This study examined the nature of ecological associations between `religiousness' and suicide rates (1985--1994) in the 11 provinces in the Netherlands. METHODS: indices of religiousness, obtained from a nationwide survey, were used as aggreg ate predictors of provincial suicide rates in weighted linear regressions, and as individual-level predictors of suicide acceptance in logistic regressions. Socio demographic confounding was controlled for. RESULTS: Orthodox beliefs and religious affiliation were the best predictors of lower suicide acceptance in individuals and of lower suicide rates in provinces. The ecological association was most pronounced in the least religious parts of the country givingrise to a curvilinear ecological regression line. CONCLUSIONS: Curvilinear ecological regression lines arise when mean levels of exposure affect individual risk above and beyond personal exposure i.e. when there is ecological effect modification. This study demonstrates that such contextual effects, respons ible for cross-level bias, apply to the association between suicide and religious ness. Variation, from context to context, of the effects of exposure to psychosocial risk or protective factors for outcomes such as suicide, has important implications for research and prevention.},
pages = {466--472},
volume = {27},
year = {1998},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1093},
rating = {0}
}
@article{Fayers:1998p6832,
author = {P M Fayers and M Groenvold and D J Hand and K Bjordal},
journal = {Journal of Clinical Epidemiology},
title = {Clinical impact versus factor analysis for quality of life questionnaire construction},
number = {3},
pages = {285--6},
volume = {51},
year = {1998},
month = {Mar},
language = {eng},
keywords = {Factor Analysis: Statistical, Humans, Research Design, Questionnaires, Quality of Life},
date-added = {2010-03-06 10:29:35 +0100},
date-modified = {2010-03-06 10:29:35 +0100},
pii = {S0895435697002916},
pmid = {9495694},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6832},
rating = {0}
}
@article{Dolan:2009p13783,
author = {C V Dolan and F J Oort and R D Stoel and J M Wicherts},
journal = {Structural Equation Modeling},
title = {Testing Measurement Invariance in the Target Rotated Multigroup
Exploratory Factor Model},
abstract = {We propose a method to investigate measurement invariance in the multigroup exploratory factor model, subject to target rotation. We consider both oblique and orthogonal target rotation. This method has clear advantages over other approaches, such as the use of congruence measures. We demonstrate that the model can be implemented readily in the freely available Mx program. We present the results of 2 illustrative analyses, one based on artificial data, and the other on real data relating to personality in male and female psychology students.},
pages = {295--314},
volume = {16},
year = {2009},
date-added = {2010-07-29 12:13:17 +0200},
date-modified = {2010-07-29 19:51:13 +0200},
doi = {10.1080/10705510902751416},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dolan-2009-Structural%20Equation%20Modeling_Testing%20Measurement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13783},
rating = {0}
}
@article{Veerkamp:2000,
author = {W Veerkamp and C A W Glas},
journal = {Journal of Behavioral and Educational Statistics},
title = {Detection of known items in adaptive testing with a statistical quality control method},
pages = {373--389},
volume = {25},
year = {2000},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Veerkamp-2000-Journal%20of%20Behavioral%20and%20Educational%20Statistics_Detection%20of%20known%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2196},
rating = {0}
}
@article{AmbesiImpiombato:2006p11868,
author = {Alberto Ambesi-Impiombato and Mukesh Bansal and Pietro Li{\`o} and Diego di Bernardo},
journal = {BMC Neurosci},
title = {Computational framework for the prediction of transcription factor binding sites by multiple data integration},
abstract = {Control of gene expression is essential to the establishment and maintenance of all cell types, and its dysregulation is involved in pathogenesis of several diseases. Accurate computational predictions of transcription factor regulation may thus help in understanding complex diseases, including mental disorders in which dysregulation of neural gene expression is thought to play a key role. However, biological mechanisms underlying the regulation of gene expression are not completely understood, and predictions via bioinformatics tools are typically poorly specific. We developed a bioinformatics workflow for the prediction of transcription factor binding sites from several independent datasets. We show the advantages of integrating information based on evolutionary conservation and gene expression, when tackling the problem of binding site prediction. Consistent results were obtained on a large simulated dataset consisting of 13050 in silico promoter sequences, on a set of 161 human gene promoters for which binding sites are known, and on a smaller set of promoters of Myc target genes. Our computational framework for binding site prediction can integrate multiple sources of data, and its performance was tested on different datasets. Our results show that integrating information from multiple data sources, such as genomic sequence of genes' promoters, conservation over multiple species, and gene expression data, indeed improves the accuracy of computational predictions.},
affiliation = {TIGEM, Telethon Institute of Genetics and Medicine, Naples, Italy. ambesi@unina.it},
pages = {S8},
volume = {7 Suppl 1},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Transcription Factors, Humans, Gene Expression Regulation, Binding Sites, Computer Simulation, Animals, Databases: Genetic, Predictive Value of Tests, Computational Biology, Protein Binding, Neural Networks (Computer)},
date-added = {2010-05-23 11:51:27 +0200},
date-modified = {2010-05-23 11:51:27 +0200},
doi = {10.1186/1471-2202-7-S1-S8},
pii = {1471-2202-7-S1-S8},
pmid = {17118162},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11868},
rating = {0}
}
@article{Spencer:2009p3191,
author = {Chris C A Spencer and Zhan Su and Peter Donnelly and Jonathan Marchini},
journal = {PLoS Genet},
title = {Designing genome-wide association studies: sample size, power, imputation, and the choice of genotyping chip},
abstract = {Genome-wide association studies are revolutionizing the search for the genes underlying human complex diseases. The main decisions to be made at the design stage of these studies are the choice of the commercial genotyping chip to be used and the numbers of case and control samples to be genotyped. The most common method of comparing different chips is using a measure of coverage, but this fails to properly account for the effects of sample size, the genetic model of the disease, and linkage disequilibrium between SNPs. In this paper, we argue that the statistical power to detect a causative variant should be the major criterion in study design. Because of the complicated pattern of linkage disequilibrium (LD) in the human genome, power cannot be calculated analytically and must instead be assessed by simulation. We describe in detail a method of simulating case-control samples at a set of linked SNPs that replicates the patterns of LD in human populations, and we used it to assess power for a comprehensive set of available genotyping chips. Our results allow us to compare the performance of the chips to detect variants with different effect sizes and allele frequencies, look at how power changes with sample size in different populations or when using multi-marker tags and genotype imputation approaches, and how performance compares to a hypothetical chip that contains every SNP in HapMap. A main conclusion of this study is that marked differences in genome coverage may not translate into appreciable differences in power and that, when taking budgetary considerations into account, the most powerful design may not always correspond to the chip with the highest coverage. We also show that genotype imputation can be used to boost the power of many chips up to the level obtained from a hypothetical "complete" chip containing all the SNPs in HapMap. Our results have been encapsulated into an R software package that allows users to design future association studies and our methods provide a framework with which new chip sets can be evaluated.},
affiliation = {Department of Statistics, University of Oxford, Oxford, United Kingdom.},
number = {5},
pages = {e1000477},
volume = {5},
year = {2009},
month = {May},
language = {eng},
keywords = {Sample Size, Humans, Software, Polymorphism: Single Nucleotide, Linkage Disequilibrium, Genotype, Genome-Wide Association Study, Genome: Human},
date-added = {2010-01-14 20:49:50 +0100},
date-modified = {2010-01-14 20:49:50 +0100},
doi = {10.1371/journal.pgen.1000477},
pmid = {19492015},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spencer-2009-PLoS%20Genet_Designing%20genome-wid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3191},
rating = {0}
}
@article{Sintonen:1994p8455,
author = {H Sintonen},
title = {The 15-D Measure of Health Related Quality of Life: Reliability, Validity and Sensitivity of its Health State Descriptive System},
year = {1994},
date-added = {2010-03-21 17:57:54 +0100},
date-modified = {2010-03-21 17:58:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sintonen-1994-_The%2015-D%20Measure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8455},
rating = {0}
}
@article{McDonald:1982p2703,
author = {R P McDonald},
journal = {Applied Psychological Measurement},
title = {Linear Versus Models in Item Response Theory},
number = {4},
pages = {379--396},
volume = {6},
year = {1982},
date-added = {2010-01-13 10:21:58 +0100},
date-modified = {2010-07-29 19:16:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McDonald-1982-Applied%20Psychological%20Measurement_Linear%20Versus%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2703},
rating = {0}
}
@article{Crandall:2008p2801,
author = {R Crandall and J Klivington and D Mitchell},
title = {Large-scale FFTs and convolutions on Apple hardware},
abstract = {Impressive FFT performance for large signal lengths can be achieved via a matrix paradigm that exploits the modern concepts of cache, memory, and multicore/multithreading. Each of the large-scale FFT implementations we report herein is built hierarchically on very fast FFTs from the standard OS X Accelerate library. (The hierarchical ideas should apply equally well for low-level FFTs of, say, the OpenCL/GPU variety.) By building on such established, packaged, small-length FFTs, one can achieve on a single Apple machine---and even for signal lengths into the billions---sustained processing rates in the multi-gigaflop/s region.},
affiliation = {Advanced Computation Group, Apple Inc.},
year = {2008},
date-added = {2010-01-13 14:30:49 +0100},
date-modified = {2010-01-13 14:31:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crandall-2008-_Large-scale%20FFTs%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2801},
rating = {0}
}
@article{Reif:2009p8928,
author = {Andreas Reif and Christian P Jacob and Dan Rujescu and Sabine Herterich and Sebastian Lang and Lise Gutknecht and Christina G Baehne and Alexander Strobel and Christine M Freitag and Ina Giegling and Marcel Romanos and Annette Hartmann and Michael R{\"o}sler and Tobias J Renner and Andreas J Fallgatter and Wolfgang Retz and Ann-Christine Ehlis and Klaus-Peter Lesch},
journal = {Arch Gen Psychiatry},
title = {Influence of functional variant of neuronal nitric oxide synthase on impulsive behaviors in humans},
abstract = {CONTEXT: Human personality is characterized by substantial heritability but few functional gene variants have been identified. Although rodent data suggest that the neuronal isoform of nitric oxide synthase (NOS-I) modifies diverse behaviors including aggression, this has not been translated to human studies. OBJECTIVES: To investigate the functionality of an NOS1 promoter repeat length variation (NOS1 Ex1f variable number tandem repeat [VNTR]) and to test whether it is associated with phenotypes relevant to impulsivity. DESIGN: Molecular biological studies assessed the cellular consequences of NOS1 Ex1f VNTR; association studies were conducted to investigate the impact of this genetic variant on impulsivity; imaging genetics was applied to determine whether the polymorphism is functional on a neurobiological level. SETTING: Three psychiatric university clinics in Germany. PARTICIPANTS: More than 3200 subjects were included in the association study: 1954 controls, 403 patients with personality disorder, 383 patients with adult attention-deficit/hyperactivity disorder (ADHD), 151 with familial ADHD, 189 suicide attempters, and 182 criminal offenders. MAIN OUTCOME MEASURES: For the association studies, the major outcome criteria were phenotypes relevant to impulsivity, namely, the dimensional phenotype conscientiousness and the categorical phenotypes adult ADHD, aggression, and cluster B personality disorder. RESULTS: A novel functional promoter polymorphism in NOS1 was associated with traits related to impulsivity, including hyperactive and aggressive behaviors. Specifically, the short repeat variant was more frequent in adult ADHD, cluster B personality disorder, and autoaggressive and heteroaggressive behavior. This short variant came along with decreased transcriptional activity of the NOS1 exon 1f promoter and alterations in the neuronal transcriptome including RGS4 and GRIN1. On a systems level, it was associated with hypoactivation of the anterior cingulate cortex, which is involved in the processing of emotion and reward in behavioral control. CONCLUSION: These findings implicate deficits in neuronal signaling via nitric oxide in moderation of prefrontal circuits underlying impulsivity-related behavior in humans.},
affiliation = {Department of Psychiatry, Psychosomatics and Psychotherapy, University of W{\"u}rzburg, F{\"u}chsleinstr 15, D-97080 W{\"u}rzburg, Germany. reif_a@klinik.uni-wuerzburg.de},
number = {1},
pages = {41--50},
volume = {66},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Phenotype, Gene Expression Profiling, Attention, Young Adult, Personality Disorders, Prisoners, Electroencephalography, Promoter Regions: Genetic, Adult, Alleles, Middle Aged, Aggression, Neurons, Psychomotor Performance, Prefrontal Cortex, Impulsive Behavior, Suicide: Attempted, Genetic Variation, Male, Humans, Adolescent, Nitric Oxide Synthase Type I, Minisatellite Repeats, Female, Neuropsychological Tests, Event-Related Potentials: P300, Reference Values, Genotype, Attention Deficit Disorder with Hyperactivity, Violence, Child},
date-added = {2010-03-22 13:04:45 +0100},
date-modified = {2010-03-22 13:04:46 +0100},
doi = {10.1001/archgenpsychiatry.2008.510},
pii = {66/1/41},
pmid = {19124687},
url = {http://archpsyc.ama-assn.org/cgi/content/full/66/1/41},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reif-2009-Arch%20Gen%20Psychiatry_Influence%20of%20functio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8928},
rating = {0}
}
@article{Smit:2010p7653,
author = {D J A Smit and M Boersma and C E M van Beijsterveldt and D Posthuma and Dorret I Boomsma and C J Stam and E J C de Geus},
journal = {Behav Genet},
title = {Endophenotypes in a dynamically connected brain},
abstract = {We examined the longitudinal genetic architecture of three parameters of functional brain connectivity. One parameter described overall connectivity (synchronization likelihood, SL). The two others were derived from graph theory and described local (clustering coefficient, CC) and global (average path length, L) aspects of connectivity. We measured resting state EEG in 1,438 subjects from four age groups of about 16, 18, 25 and 50 years. Developmental curves for SL and L indicate that connectivity is more random at adolescence and old age, and more structured in middle-aged adulthood. Individual variation in SL and L were moderately to highly heritable at each age (SL: 40-82%; L: 29-63%). Genetic factors underlying these phenotypes overlapped. CC was also heritable (25-49%) but showed no systematic overlap with SL and L. SL, CC, and L in the alpha band showed high phenotypic and genetic stability from 16 to 25 years. Heritability for parameters in the beta band was lower, and less stable across ages, but genetic stability was high. We conclude that the connectivity parameters SL, CC, and L in the alpha band show the hallmarks of a good endophenotype for behavior and developmental disorders.},
affiliation = {Biological Psychology, VU University Amsterdam, Amsterdam, The Netherlands. dja.smit@psy.vu.nl},
number = {2},
pages = {167--77},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:21:36 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1007/s10519-009-9330-8},
pmid = {20111993},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smit-2010-Behav%20Genet_Endophenotypes%20in%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7653},
read = {Yes},
rating = {4}
}
@book{Diggle:2002,
author = {P J Diggle and P Heagerty and K-Y Liang and S L Zeger},
journal = {Book},
title = {Analysis of longitudinal data},
year = {2002},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1103},
rating = {0}
}
@article{Bach:2008p12310,
author = {F R Bach},
title = {Consistency of the Group Lasso and Multiple Kernel Learning},
abstract = {We consider the least-square regression problem with regularization by a block l1-norm, i.e., a sum of Euclidean norms over spaces of dimensions larger than one. This problem, referred to as the group Lasso, extends the usual regularization by the l1-norm where all spaces have dimension one, where it is commonly referred to as the Lasso. In this paper, we study the asymptotic model consistency of the group Lasso. We derive necessary and sufficient conditions for the consistency of group Lasso under practical assumptions, such as model misspecification. When the linear predictors and Euclidean norms are replaced by functions and reproducing kernel Hilbert norms, the problem is usually referred to as multiple kernel learning and is commonly used for learning from heterogeneous data sources and for non linear variable selection. Using tools from functional analysis, and in particular covariance operators, we extend the consistency results to this infinite dimensional case and also propose an adaptive scheme to obtain a consistent model estimate, even when the necessary condition required for the non adaptive scheme is not satisfied.},
year = {2008},
date-added = {2010-06-12 09:27:12 +0200},
date-modified = {2010-06-12 09:28:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bach-2008-_Consistency%20of%20the%20G.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12310},
rating = {0}
}
@article{Sun:2010p3690,
author = {J Sun and C Loader and W P McCormick},
title = {Confidence bands in Genralized Linear Models},
date-added = {2010-01-16 20:30:26 +0100},
date-modified = {2010-01-16 20:31:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sun--_Confidence%20bands%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3690},
rating = {0}
}
@article{Cremers:2010p12138,
author = {Henk R Cremers and Liliana R Demenescu and Andr{\'e} Aleman and Remco Renken and Marie-Jos{\'e} van Tol and Nic J A van der Wee and Dick J Veltman and Karin Roelofs},
journal = {Neuroimage},
title = {Neuroticism modulates amygdala-prefrontal connectivity in response to negative emotional facial expressions},
abstract = {Neuroticism is associated with the experience of negative affect and the development of affective disorders. While evidence exists for a modulatory role of neuroticism on task induced brain activity, it is unknown how neuroticism affects brain connectivity, especially the crucial coupling between the amygdala and the prefrontal cortex. Here we investigate this relation between functional connectivity and personality in response to negative facial expressions. Sixty healthy control participants, from the Netherlands Study on Depression and Anxiety (NESDA), were scanned during an emotional faces gender decision task. Activity and functional amygdala connectivity (psycho-physiological interaction [PPI]) related to faces of negative emotional valence (angry, fearful and sad) was compared to neutral facial expressions, while neuroticism scores were entered as a regressor. Activity for fearful compared to neutral faces in the dorsomedial prefrontal (dmPFC) cortex was positively correlated with neuroticism scores. PPI analyses revealed that right amygdala-dmPFC connectivity for angry and fearful compared to neutral faces was positively correlated with neuroticism scores. In contrast, left amygdala-anterior cingulate cortex (ACC) connectivity for angry, fearful and sad compared to neutral faces was negatively related to neuroticism levels. DmPFC activity has frequently been associated with self-referential processing in social cognitive tasks. Our results therefore suggest that high neurotic participants display stronger self-referential processing in response to negative emotional faces. Second, in line with previous reports on ACC function, the negative correlation between amygdala-ACC connectivity and neuroticism scores might indicate that those high in neuroticism display diminished control function of the ACC over the amygdala. These connectivity patterns might be associated with vulnerability to developing affective disorders such as depression and anxiety.},
affiliation = {Institute for Psychological Research, Clinical, Health and Neuropsychology Unit, Leiden University, Wassenaarseweg 52, Leiden, The Netherlands. cremershr@fsw.leidenuniv.nl},
number = {1},
pages = {963--70},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Female, Personality, Facial Expression, Magnetic Resonance Imaging, Prefrontal Cortex, Amygdala, Neurotic Disorders, Young Adult, Neural Pathways, Humans, Photic Stimulation, Image Processing: Computer-Assisted, Anger, Emotions, Middle Aged, Fear, Reaction Time, Male, Personality Tests, Adult},
date-added = {2010-05-30 10:35:53 +0200},
date-modified = {2010-05-30 10:35:54 +0200},
doi = {10.1016/j.neuroimage.2009.08.023},
pii = {S1053-8119(09)00902-1},
pmid = {19683585},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12138},
rating = {0}
}
@article{Jombart:2006p12010,
author = {T Jombart and K Moazami-Goudarzi and A B Dufour and D Laloe},
journal = {Les Actes du BRG},
title = {Fr{\'e}quences all{\'e}liques et coh{\'e}rence entre marqueurs mol{\'e}culaires : des outils descriptifs},
abstract = {The genetic resources have been recognized as a valuable tool to determine genetic structuring of a set of populations and, more specifically, the genetic variations within and among breeds. For this purpose, molecular markers have been successfully used. The aim of this paper is, within the framework of a multivariate analysis, to evaluate how a marker contributes to the genetic structuring of a set of populations. First, we propose tools to represent the information coming from a marker that has been genotyped on a set of populations. Data consist in a table of allelic frequencies over several populations (displayed in rows) for the al- leles of a marker (columns). The goal is to find a genetic structuring of the popula- tions. Using a classical Principal Component Analysis (PCA) is not efficient taking into account the nature of the data. Despite PCA provides well-scattered typologies, it doesn't allow to interpret the position of the populations on the factorial plane. However, a Principal Component Analysis on compositional data (%PCA) yields positions of the populations which are understandable in terms of allelic frequen- cies. In such an analysis, the scores of the populations are the means of the coordi- nates of the alleles, weighted by the allelic frequencies. Hence, the populations are displayed close to the alleles for which they have high frequencies. The position of a population may vary from one sample to another, because the allelic frequencies of a sample are only estimates of the true frequencies. To take this fact into account, we provide confidence ellipses to show the precision around the position of a popu- lation. The confidence ellipse is the area in which the actual population (as opposite to the sample drawn from that population) has a given probability to be within. Confidence ellipses can be used to show whether populations are differenciated by the marker. Two populations are separated if their ellipses do not overlap. The % PCA and confidence ellipses are two useful tools to represent the information of a molecular marker. Second, we consider a set of markers, all of which can be repre- sented as above. We raise the question of finding a meaningful consensus among the typologies provided by each marker. The multiple co-inertia analysis (MCOA) is well adapted to answer this question. MCOA coordinates the representation of each marker in order to highlight their common structures. It provides a typology (i.e. a structure of populations) of reference which best summarizes these similarities. We illustrate the interest of this method using microsatellite data of African and Euro- pean cattle breeds. Indeed, we find two structures between the populations, and we show that the markers contribute differently to this structuring. Some seem ineffi- cient to separate the populations, while others are much more informative. This leads to interesting perspectives about a possible definition of the typological value of molecular markers.},
year = {2006},
date-added = {2010-05-23 17:39:17 +0200},
date-modified = {2010-05-23 17:42:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jombart-2006-Les%20Actes%20du%20BRG_Fre%CC%81quences%20alle%CC%81liq.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12010},
rating = {5}
}
@article{Regnault:2010p12924,
author = {Antoine Regnault and Muriel Viala-Danten and H{\'e}l{\`e}ne Gilet and Gilles Berdeaux},
journal = {BMC Ophthalmol},
title = {Scoring and psychometric properties of the Eye-Drop Satisfaction Questionnaire (EDSQ), an instrument to assess satisfaction and compliance with glaucoma treatment},
abstract = {BACKGROUND: The objective of this study was to ascertain the scoring and assess the psychometric properties of the Eye-Drop Satisfaction Questionnaire (EDSQ), a 43-item Patient-Reported Outcome instrument developed to assess patients' satisfaction and compliance with glaucoma treatment. METHODS: The EDSQ was administered during an observational, retrospective study to 184 French patients treated for glaucoma. The hypothesized structure, including six dimensions (patient-clinician relationship; patient experience; patient-treatment interaction; apprehension; patient knowledge; travel), was tested by assessing the internal consistency reliability (Cronbach's alpha) and construct-related validity (item convergent and discriminant validity). As unsatisfactory results were demonstrated, another structure was defined using a principal component analysis (PCA) combined with content of items. Psychometric properties of this new structure were assessed. Scores were compared between low, moderate and high compliance profile groups defined using data collected with the Travalert electronic device. RESULTS: Analyses were performed with the 169 patients who completed at least half of the EDSQ items. The hypothesized structure showed a Cronbach's alpha lower than 0.70 for four dimensions out of six and an overall poor construct-related validity (range of item-scale correlations: 0.00-0.68). The new structure obtained with the PCA included six dimensions: concern about treatment (five items); concern about disease (two items); satisfaction with patient-clinician relationship (five items); positive beliefs (three items); treatment convenience (three items); and self-declared compliance (three items). A score ranging from 0 to 100 was calculated for each dimension, with higher scores indicating more of the attribute referred to in the dimension. Internal consistency reliability was good (Cronbach's alpha greater than 0.70 for five dimensions). The structure offered good construct-related validity (range of item-scale correlations: 0.36-0.82). Ceiling effects of 21% and 49%, were observed for the satisfaction with patient-clinician relationship and self-declared compliance scores. Patients in low compliance profile group reported the lowest score for the satisfaction with patient-clinician relationship, positive beliefs, treatment convenience and self-declared compliance dimensions, and the highest score for the concern about treatment dimension. CONCLUSIONS: The scoring of the EDSQ was developed and the questionnaire proved to have satisfactory psychometric properties. EDSQ scores showed a promising relationship to compliance profiles. The EDSQ could be used in future studies.},
affiliation = {Mapi Values, Lyon, France. antoine.regnault@mapivalues.com},
pages = {1},
volume = {10},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Adult, Physician-Patient Relations, Female, Adolescent, Young Adult, Retrospective Studies, Aged: 80 and over, Middle Aged, Male, Patient Satisfaction, Glaucoma: Open-Angle, Cross-Sectional Studies, Ophthalmic Solutions, Aged, Humans, Reproducibility of Results, Psychometrics, Drug Delivery Systems, Principal Component Analysis, Patient Compliance},
date-added = {2010-06-25 21:42:30 +0200},
date-modified = {2010-06-25 21:42:43 +0200},
doi = {10.1186/1471-2415-10-1},
pii = {1471-2415-10-1},
pmid = {20122146},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Regnault-2010-BMC%20Ophthalmol_Scoring%20and%20psychome.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12924},
rating = {5}
}
@article{Keinan:2010p11308,
author = {Alon Keinan and David Reich},
journal = {PLoS Genet},
title = {Human population differentiation is strongly correlated with local recombination rate},
abstract = {Allele frequency differences across populations can provide valuable information both for studying population structure and for identifying loci that have been targets of natural selection. Here, we examine the relationship between recombination rate and population differentiation in humans by analyzing two uniformly-ascertained, whole-genome data sets. We find that population differentiation as assessed by inter-continental F(ST) shows negative correlation with recombination rate, with F(ST) reduced by 10% in the tenth of the genome with the highest recombination rate compared with the tenth of the genome with the lowest recombination rate (P<<10(-12)). This pattern cannot be explained by the mutagenic properties of recombination and instead must reflect the impact of selection in the last 100,000 years since human continental populations split. The correlation between recombination rate and F(ST) has a qualitatively different relationship for F(ST) between African and non-African populations and for F(ST) between European and East Asian populations, suggesting varying levels or types of selection in different epochs of human history.},
affiliation = {Department of Genetics, Harvard Medical School, Boston, Massachusetts, United States of America. ak735@cornell.edu},
number = {3},
pages = {e1000886},
volume = {6},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-26 23:05:45 +0200},
date-modified = {2010-04-26 23:05:45 +0200},
doi = {10.1371/journal.pgen.1000886},
pmid = {20361044},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keinan-2010-PLoS%20Genet_Human%20population%20dif.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11308},
rating = {0}
}
@misc{Rehder:1998,
author = {B Rehder and M E Schreiner and M B W Wolfe and D Laham},
journal = {Miscellaneous},
title = {Using latent semantic analysis to assess knowledge: Some technical considerations},
year = {1998},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rehder-1998-Miscellaneous_Using%20latent%20semanti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2174},
rating = {0}
}
@article{Grucza:2007p13920,
author = {Richard A Grucza and Lewis R Goldberg},
journal = {J Pers Assess},
title = {The comparative validity of 11 modern personality inventories: predictions of behavioral acts, informant reports, and clinical indicators},
abstract = {In science, multiple measures of the same constructs can be useful, but they are unlikely to all be equally valid indicators. In psychological assessment, the many popular personality inventories available in the marketplace also may be useful, but their comparative validity has long remained unassessed. This is the first comprehensive comparison of 11 such multiscale instruments against each of three types of criteria: clusters of behavioral acts, descriptions by knowledgeable informants, and clinical indicators potentially associated with various types of psychopathology. Using 1,000 bootstrap resampling analyses from a sample of roughly 700 adult research participants, we assess the relative predictability of each criterion and the comparative validity of each inventory. Although there was a wide range of criterion predictability, most inventories exhibited quite similar cross-validities when averaged across all three types of criteria. On the other hand, there were important differences between inventories in their predictive capabilities for particular criteria. We discuss the factors that lead to differential validity across predictors and criteria.},
affiliation = {Department of Psychiatry, Washington University School of Medicine, USA.},
number = {2},
pages = {167--87},
volume = {89},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Male, Humans, Personality Tests, Psychometrics, Oregon, Aged, Reproducibility of Results, Social Behavior, Personality, Middle Aged, Adult, Personality Assessment, Personality Inventory, Regression Analysis, Female},
date-added = {2010-07-29 18:44:11 +0200},
date-modified = {2010-07-29 19:35:42 +0200},
doi = {10.1080/00223890701468568},
pmid = {17764394},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grucza-2007-J%20Pers%20Assess_The%20comparative%20vali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13920},
rating = {4}
}
@article{Kim:2009p1620,
author = {Yoonhee Kim and Robert Wojciechowski and Heejong Sung and Rasika A Mathias and Li Wang and Alison P Klein and Rhoshel K Lenroot and James Malley and Joan E Bailey-Wilson},
journal = {BMC Proc},
title = {Evaluation of random forests performance for genome-wide association studies in the presence of interaction effects},
abstract = {ABSTRACT : Random forests (RF) is one of a broad class of machine learning methods that are able to deal with large-scale data without model specification, which makes it an attractive method for genome-wide association studies (GWAS). The performance of RF and other association methods in the presence of interactions was evaluated using the simulated data from Genetic Analysis Workshop 16 Problem 3, with knowledge of the major causative markers, risk factors, and their interactions in the simulated traits. There was good power to detect the environmental risk factors using RF, trend tests, or regression analyses but the power to detect the effects of the causal markers was poor for all methods. The causal marker that had an interactive effect with smoking did show moderate evidence of association in the RF and regression analyses, suggesting that RF may perform well at detecting such interactions in larger, more highly powered datasets.},
affiliation = {National Human Genome Research Institute, National Institutes of Health, 333 Cassell Drive, Baltimore, MD 21224, USA. kimyoo@mail.nih.gov.},
pages = {S64},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-08 21:49:28 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {20018058},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kim-2009-BMC%20Proc_Evaluation%20of%20random.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1620},
read = {Yes},
rating = {0}
}
@article{Sabb:2009p3015,
author = {F W Sabb and A C Burggren and R G Higier and J Fox and J He and D S Parker and R A Poldrack and W Chu and T D Cannon and N B Freimer and R M Bilder},
journal = {Neuroscience},
title = {Challenges in phenotype definition in the whole-genome era: multivariate models of memory and intelligence},
abstract = {Refining phenotypes for the study of neuropsychiatric disorders is of paramount importance in neuroscience. Poor phenotype definition provides the greatest obstacle for making progress in disorders like schizophrenia, bipolar disorder, Attention Deficit/Hyperactivity Disorder (ADHD), and autism. Using freely available informatics tools developed by the Consortium for Neuropsychiatric Phenomics (CNP), we provide a framework for defining and refining latent constructs used in neuroscience research and then apply this strategy to review known genetic contributions to memory and intelligence in healthy individuals. This approach can help us begin to build multi-level phenotype models that express the interactions between constructs necessary to understand complex neuropsychiatric diseases. These results are available online through the http://www.phenowiki.org database. Further work needs to be done in order to provide consensus-building applications for the broadly defined constructs used in neuroscience research.},
affiliation = {Consortium for Neuropsychiatric Phenomics, Semel Institute for Neuroscience and Human Behavior, David Geffen School of Medicine, UCLA, Los Angeles, CA 90095, USA. fsabb@ucla.edu},
number = {1},
pages = {88--107},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Multivariate Analysis, Genome, Memory, Humans, Models: Genetic, Intelligence, Phenotype},
date-added = {2010-01-14 11:23:42 +0100},
date-modified = {2010-07-29 19:41:38 +0200},
doi = {10.1016/j.neuroscience.2009.05.013},
pii = {S0306-4522(09)00795-7},
pmid = {19450667},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3015},
rating = {0}
}
@article{Wittchen:2009p3957,
author = {Hans-Ulrich Wittchen and Katja Beesdo-Baum and Andrew T Gloster and Michael H{\"o}fler and Jens Klotsche and Roselind Lieb and Andr{\'e} Beauducel and Markus B{\"u}hner and Ronald C Kessler},
journal = {Int J Methods Psychiatr Res},
title = {The structure of mental disorders re-examined: is it developmentally stable and robust against additions?},
abstract = {Previous research suggests that patterns of comorbidity of a limited number of anxiety, depressive, substance use and antisocial personality (ASP) disorders among adults are best reflected by a hierarchical three-factor structure with two correlated factors ('anxious-misery' and 'fear') that are summarized in a second-order 'internalizing' factor and one 'externalizing' factor. It has not been examined whether this structure is developmentally stable and robust against additions of more diagnoses. Using data from a prospective-longitudinal community study of adolescents and young adults we re-evaluate the three-factor model originally proposed by Krueger (Archives of General Psychiatry, 1999; 56, 921-926). Using confirmatory factor analysis with identical conventions as in Krueger's original work we found that the three factor model did not fit robustly across age or a wider range of diagnoses. Using explanatory factor analysis we examined alternative structures. We found various clinically meaningful patterns with good fit that go substantially beyond the original three-factor structure. However, again, there is little consistency in findings when different age groups or different diagnoses are considered. Our findings suggest that psychopathology cannot be reduced to any simple structure.},
affiliation = {Institute of Clinical Psychology and Psychotherapy, Technische Universitaet Dresden, Dresden, Germany. wittchen@psychologie.tu-dresden.de},
number = {4},
pages = {189--203},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-17 11:58:13 +0100},
date-modified = {2010-01-17 11:58:13 +0100},
doi = {10.1002/mpr.298},
pmid = {20033884},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3957},
rating = {0}
}
@article{Buchanan:2005p13883,
author = {T Buchanan and J A Johnson and L R Goldberg},
journal = {European Journal of Psychology of Education},
title = {Implementing a Five-Factor personality inventory for use on the Internet},
number = {2},
pages = {115--127},
volume = {21},
year = {2005},
date-added = {2010-07-29 18:00:27 +0200},
date-modified = {2010-07-29 18:03:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buchanan-2005-European%20Journal%20of%20Psychological%20Assessment_Implementing%20a%20Five.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13883},
rating = {3}
}
@article{Moher:2010p5766,
author = {D Moher and K F Schulz and I Simera and Douglas G Altman},
journal = {PLoS Med},
title = {Guidance for Developers of Health Research Reporting Guidelines},
number = {2},
pages = {e1000217},
volume = {7},
year = {2010},
date-added = {2010-02-16 12:07:42 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moher-2010-PLoS%20Med_Guidance%20for%20Develop.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5766},
rating = {0}
}
@article{DelaTorre:2009p13235,
author = {F De la Torre and T Kanade},
title = {Discriminative Cluster Analysis},
abstract = {Clustering is one of the most widely used statistical tools for data analy- sis. Among all existing clustering techniques, k-means is a very popular method due to its ease of programming and its good trade-off between achieved performance and computational complexity. However, k-means is prone to local minima prob- lems and does not scale well with high dimensional data sets. A common approach to clustering high dimensional data is to project in the space spanned by the prin- cipal components (PC). However, the space of PCs does not necessarily improve the separability of the clusters. In this paper, we propose Discriminative Cluster Analysis (DCA) that clusters data in a low dimensional discriminative that encour- ages cluster separability. DCA simultaneously performs dimensionality reduction and clustering, improving efficiency and cluster performance in comparison with generative approaches (e.g. PC). We exemplify the benefits of DCA versus tradi- tional PCA+k-means clustering through several synthetic and real examples. Addi- tionally, we provide connections with other dimensionality reduction and clustering techniques such as spectral graph methods and linear discriminant analysis.},
year = {2009},
date-added = {2010-07-01 17:43:49 +0200},
date-modified = {2010-07-01 17:44:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20la%20Torre-2009-_Discriminative%20Clust.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13235},
rating = {4}
}
@article{Rogers:2008p5577,
author = {T T Rogers and J L McClelland},
journal = {Behavioral and Brain Sciences},
title = {Pr{\'e}cis of Semantic Cognition: A Parallel Distributed Processing Approach},
abstract = {In this pr{\'e}cis of our recent book, Semantic Cognition: A Parallel Distributed Processing Approach (Rogers {\&} McClelland 2004), we present a parallel distributed processing theory of the acquisition, representation, and use of human semantic knowledge. The theory proposes that semantic abilities arise from the flow of activation among simple, neuron-like processing units, as governed by the strengths of interconnecting weights; and that acquisition of new semantic information involves the gradual adjustment of weights in the system in response to experience. These simple ideas explain a wide range of empirical phenomena from studies of categorization, lexical acquisition, and disordered semantic cognition. In this pre ́cis we focus on phenomena central to the reaction against similarity-based theories that arose in the 1980s and that subsequently motivated the ``theory-theory'' approach to semantic knowledge. Specifically, we consider (1) how concepts differentiate in early development, (2) why some groupings of items seem to form ``good'' or coherent categories while others do not, (3) why different properties seem central or important to different concepts, (4) why children and adults sometimes attest to beliefs that seem to contradict their direct experience, (5) how concepts reorganize between the ages of 4 and 10, and (6) the relationship between causal knowledge and semantic knowledge. The explanations our theory offers for these phenomena are illustrated with reference to a simple feed- forward connectionist model. The relationships between this simple model, the broader theory, and more general issues in cognitive science are discussed.},
pages = {689--749},
volume = {31},
year = {2008},
date-added = {2010-02-12 15:35:45 +0100},
date-modified = {2010-02-12 15:36:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rogers-2008-Behavioral%20and%20Brain%20Sciences_Pr%C3%A9cis%20of%20Semantic%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5577},
rating = {0}
}
@article{Fox:2005a,
author = {Jean-Paul Fox},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Multilevel IRT using dichotomous and polytomous response data},
pages = {145--172},
volume = {58},
year = {2005},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 19:22:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2005-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Multilevel%20IRT%20using.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1942},
rating = {0}
}
@article{Bouchet:1996p9836,
author = {C Bouchet and F Guillemin and T H Hoang Thi and A Cornette and S Brian{\c c}on},
journal = {Revue des Maladies Respiratoires},
title = {Validation du questionnaire St Georges pour mesurer la qualit{\'e} de vie chez les insuffisants respiratoires chroniques},
abstract = {The validity of a French version of a disease specific quality of life instrument, the St George's Respiratory Questionnaire, has been assessed in a sample of 64 patients with chronic respiratory disease undergoing oxygen therapy. The studied properties were internal consistency, test-retest reproducibility and criterion validity. The St Georges showed a good internal consistency with Cronbach's alpha coefficients from 0.61 to 0.95 and a good reproducibility with Intraclass Correlation Coefficients (ICC) from 0.67 to 0.95. High correlation with dyspnea (p = 0.0004 to 0.01) showed a correct criterion validity. So psychometric properties of the French version of the questionnaire are good. However, its administration caused a few problems, and we advice it to be administered by a trained interviewer in such patients.},
pages = {43--46},
volume = {13},
year = {1996},
date-added = {2010-03-26 19:25:49 +0100},
date-modified = {2010-03-26 19:27:00 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bouchet-1996-Revue%20des%20Maladies%20Respiratoires_Validation%20du%20questi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9836},
rating = {0}
}
@article{Gilbert:2009p13491,
author = {E Gilbert and K Karahalios},
title = {Widespread Worry and the Stock Market},
abstract = {Our emotional state influences our choices. Research on how it happens usually comes from the lab. We know rela- tively little about how real world emotions affect real world settings, like financial markets. Here, we demonstrate that estimating emotions from weblogs provides novel informa- tion about future stock market prices. That is, it provides information not already apparent from market data. Specifi- cally, we estimate anxiety, worry and fear from a dataset of over 20 million posts made on the site LiveJournal. Using a Granger-causal framework, we find that increases in expres- sions of anxiety, evidenced by computationally-identified linguistic features, predict downward pressure on the S{\&}P 500 index. We also present a confirmation of this result via Monte Carlo simulation. The findings show how the mood of millions in a large online community, even one that pri- marily discusses daily life, can anticipate changes in a seem- ingly unrelated system. Beyond this, the results suggest new ways to gauge public opinion and predict its impact.},
year = {2009},
date-added = {2010-07-01 22:25:39 +0200},
date-modified = {2010-07-01 22:26:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gilbert-2009-_Widespread%20Worry%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13491},
rating = {0}
}
@article{Nyholt:2005p2235,
author = {Dale R Nyholt and Katherine I Morley and Manuel A R Ferreira and Sarah E Medland and Dorret I Boomsma and Andrew C Heath and Kathleen R Merikangas and Grant W Montgomery and Nicholas G Martin},
journal = {Am J Hum Genet},
title = {Genomewide significant linkage to migrainous headache on chromosome 5q21},
abstract = {Familial typical migraine is a common, complex disorder that shows strong familial aggregation. Using latent-class analysis (LCA), we identified subgroups of people with migraine/severe headache in a community sample of 12,245 Australian twins (60% female), drawn from two cohorts of individuals aged 23-90 years who completed an interview based on International Headache Society criteria. We report results from genomewide linkage analyses involving 756 twin families containing a total of 790 independent sib pairs (130 affected concordant, 324 discordant, and 336 unaffected concordant for LCA-derived migraine). Quantitative-trait linkage analysis produced evidence of significant linkage on chromosome 5q21 and suggestive linkage on chromosomes 8, 10, and 13. In addition, we replicated previously reported typical-migraine susceptibility loci on chromosomes 6p12.2-p21.1 and 1q21-q23, the latter being within 3 cM of the rare autosomal dominant familial hemiplegic migraine gene (ATP1A2), a finding which potentially implicates ATP1A2 in familial typical migraine for the first time. Linkage analyses of individual migraine symptoms for our six most interesting chromosomes provide tantalizing hints of the phenotypic and genetic complexity of migraine. Specifically, the chromosome 1 locus is most associated with phonophobia; the chromosome 5 peak is predominantly associated with pulsating headache; the chromosome 6 locus is associated with activity-prohibiting headache and photophobia; the chromosome 8 locus is associated with nausea/vomiting and moderate/severe headache; the chromosome 10 peak is most associated with phonophobia and photophobia; and the chromosome 13 peak is completely due to association with photophobia. These results will prove to be invaluable in the design and analysis of future linkage and linkage disequilibrium studies of migraine.},
affiliation = {Queensland Institute of Medical Research, Brisbane, Australia. daleN@qimr.edu.au},
number = {3},
pages = {500--12},
volume = {77},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Chromosomes: Human: Pair 5, Middle Aged, Aged: 80 and over, Twin Studies as Topic, Migraine Disorders, Humans, Aged, Cohort Studies, Genetic Predisposition to Disease, Female, Sodium-Potassium-Exchanging ATPase, Genome: Human, Adult, Male, Linkage (Genetics), Photophobia, Interviews as Topic},
date-added = {2010-01-10 11:54:49 +0100},
date-modified = {2010-07-29 19:13:31 +0200},
doi = {10.1086/444510},
pii = {S0002-9297(07)63030-4},
pmid = {16080125},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nyholt-2005-Am%20J%20Hum%20Genet_Genomewide%20significa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2235},
rating = {0}
}
@article{Wetzels:2009p14216,
author = {Ruud Wetzels and Jeroen G W Raaijmakers and Em{\"o}ke Jakab and Eric-Jan Wagenmakers},
journal = {Psychon Bull Rev},
title = {How to quantify support for and against the null hypothesis: a flexible WinBUGS implementation of a default Bayesian t test},
abstract = {We propose a sampling-based Bayesian t test that allows researchers to quantify the statistical evidence in favor of the null hypothesis. This Savage-Dickey (SD) t test is inspired by the Jeffreys-Zellner-Siow (JZS) t test recently proposed by Rouder, Speckman, Sun, Morey, and Iverson (2009). The SD test retains the key concepts of the JZS test but is applicable to a wider range of statistical problems. The SD test allows researchers to test order restrictions and applies to two-sample situations in which the different groups do not share the same variance.},
affiliation = {University of Amsterdam, Amsterdam, The Netherlands. wetzels.ruud@gmail.com},
number = {4},
pages = {752--60},
volume = {16},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Data Collection, Data Interpretation: Statistical, Psychology: Experimental, Bias (Epidemiology), Bayes Theorem, Humans, Models: Statistical, Reproducibility of Results},
date-added = {2010-08-22 20:38:52 +0200},
date-modified = {2010-08-22 20:38:57 +0200},
doi = {10.3758/PBR.16.4.752},
pii = {16/4/752},
pmid = {19648463},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wetzels-2009-Psychon%20Bull%20Rev_How%20to%20quantify%20supp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14216},
rating = {4}
}
@article{Aben:2002p13997,
author = {Ivo Aben and Frans Verhey and Richel Lousberg and Jan Lodder and Adriaan Honig},
journal = {Psychosomatics},
title = {Validity of the beck depression inventory, hospital anxiety and depression scale, SCL-90, and hamilton depression rating scale as screening instruments for depression in stroke patients},
abstract = {Most instruments used to assess poststroke depression have never been specifically validated in stroke patients. This study evaluated the depression screening abilities of three questionnaires and one observer-rated scale in 202 consecutive patients 1 month after they experienced their first-ever ischemic stroke. At their respective optimum cutoff values, the sensitivity of the self-rated scales varied between 80% and 90%, while the specificity was about 60%. For the observer-rated scale (Hamilton Depression Rating Scale), sensitivity was 78.1%, and specificity was 74.6%. The instruments clearly performed better in men than in women. Despite this difference, it was concluded that all scales were acceptable screening instruments for poststroke depression.},
affiliation = {Department of Psychiatry and Neurology, Unversity Hospital Maastricht, The Netherlands.},
number = {5},
pages = {386--93},
volume = {43},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Anxiety Disorders, Hospitalization, Female, Aged, Depressive Disorder: Major, Male, Stroke, Questionnaires, Psychiatric Status Rating Scales, Reproducibility of Results, Humans},
date-added = {2010-08-04 09:24:18 +0200},
date-modified = {2010-08-04 09:24:18 +0200},
pmid = {12297607},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aben-2002-Psychosomatics_Validity%20of%20the%20beck.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13997},
rating = {0}
}
@article{Deditius-Island:2002,
author = {H K Deditius-Island and J C Caruso},
journal = {Educational and Psychological Measurement},
title = {An examination of the reliability of scores from Zuckerman's Sensation Seeking Scales},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2126},
rating = {0}
}
@article{Teo:2010p3966,
author = {Yik Y Teo},
journal = {Biostatistics},
title = {Exploratory data analysis in large-scale genetic studies},
abstract = {Genome-wide association studies (GWAS) have become the method of choice for investigating the genetic basis of common diseases and complex traits. The immense scale of these experiments is unprecedented, involving thousands of samples and up to a million variables. The careful execution of exploratory data analysis (EDA) prior to the actual genotype-phenotype association analysis is crucial as this identifies problematic samples and poorly assayed genetic polymorphisms that, if undetected, can compromise the outcome of the experiment. EDA of such large-scale genetic data sets thus requires specialized numerical and graphical strategies, and this article provides a review of the current exploratory tools commonly used in GWAS.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. teo@well.ox.ac.uk},
number = {1},
pages = {70--81},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-17 21:41:15 +0100},
date-modified = {2010-01-17 21:41:15 +0100},
doi = {10.1093/biostatistics/kxp038},
pii = {kxp038},
pmid = {19828557},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Teo-2010-Biostatistics_Exploratory%20data%20ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3966},
rating = {3}
}
@article{Levy:2007p1554,
author = {R Levy and R J Mislevy and S Sinharay},
title = {Posterior Predictive Model Checking for Conjunctive Multidimensionality in Item Response Theory},
abstract = {If data exhibit multidimensionality, key conditional independence assumptions of
unidimensional models do not hold. The current work pursues posterior predictive model checking as a tool for criticizing models due to unaccounted for dimensions in data structures that follow conjunctive multidimensional models. These pursuits are couched in previous work investigating factors influencing dimensionality and dimensionality assessment. A simulation study investigates the model checking tools in the context of item response theory for dichotomous observables, in which a unidimensional model is fit to data that follow a conjunctive multidimensional model. Key findings include (a) support for the hypothesized effects of the manipulated factors and (b) the superiority of certain discrepancy measures for conducting posterior predictive model checking for dimensionality assessment.},
year = {2007},
date-added = {2010-01-07 16:39:35 +0100},
date-modified = {2010-01-07 16:40:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2007-_Posterior%20Predictive.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1554},
rating = {0}
}
@article{Spence:2009p3090,
author = {John P Spence and Tiebing Liang and Lixiang Liu and Philip L Johnson and Tatiana Foroud and Lucinda G Carr and Anantha Shekhar},
journal = {Curr Drug Abuse Rev},
title = {From QTL to candidate gene: a genetic approach to alcoholism research},
abstract = {A major focus of research in alcohol-related disorders is to identify the genes and pathways that modulate alcohol-seeking behavior. In light of this, animal models have been established to study various aspects of alcohol dependence. The selectively bred alcohol-preferring (P) and -nonpreferring (NP) lines were developed from Wistar rats to model high and low voluntary alcohol consumption, respectively. Using inbred P and NP strains, a strong QTL (LOD-9.2) for alcohol consumption was identified on rat chromosome 4. To search for candidate genes that underlie this chromosomal region, complementary molecular-based strategies were implemented to identify genetic targets that likely contribute to the linkage signal. In an attempt to validate these genetic targets, corroborative studies have been utilized including pharmacological studies, knock-out/transgenic models as well as human association studies. Thus far, three candidate genes, neuropeptide Y (Npy), alpha-synuclein (Snca), and corticotrophin-releasing factor receptor 2 (Crhr2), have been identified that may account for the linkage signal. With the recent advancements in bioinformatics and molecular biology, QTL analysis combined with molecular-based strategies provides a systematic approach to identify candidate genes that contribute to various aspects of addictive behavior.},
affiliation = {Department of Psychiatry, Indiana University School of Medicine, Institute of Psychiatry, Indianapolis, IN 46202, USA. jspence@iupui.edu},
number = {2},
pages = {127--34},
volume = {2},
year = {2009},
month = {May},
language = {eng},
keywords = {Alcohol-Related Disorders, Humans, Receptors: Corticotropin-Releasing Hormone, Chromosome Mapping, Alcoholism, Rats: Wistar, Rats, Alcohol Drinking, Neuropeptide Y, Animals, alpha-Synuclein, Models: Genetic, Quantitative Trait Loci},
date-added = {2010-01-14 19:56:15 +0100},
date-modified = {2010-01-14 19:56:16 +0100},
pmid = {19630743},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3090},
rating = {3}
}
@article{Yuan:2008p2,
author = {Siyang Yuan and Ruth Freeman and Satu Lahti and Ffion Lloyd-Williams and Gerry Humphris},
journal = {Health Qual Life Outcomes},
title = {Some psychometric properties of the Chinese version of the Modified Dental Anxiety Scale with cross validation},
abstract = {OBJECTIVE: To assess the factorial structure and construct validity for the Chinese version of the Modified Dental Anxiety Scale (MDAS). MATERIALS AND METHODS: A cross-sectional survey was conducted in March 2006 from adults in the Beijing area. The questionnaire consisted of sections to assess for participants' demographic profile and dental attendance patterns, the Chinese MDAS and the anxiety items from the Hospital Anxiety and Depression Scale (HADS). The analysis was conducted in two stages using confirmatory factor analysis and structural equation modelling. Cross validation was tested with a North West of England comparison sample. RESULTS: 783 questionnaires were successfully completed from Beijing, 468 from England. The Chinese MDAS consisted of two factors: anticipatory dental anxiety (ADA) and treatment dental anxiety (TDA). Internal consistency coefficients (tau non-equivalent) were 0.74 and 0.86 respectively. Measurement properties were virtually identical for male and female respondents. Relationships of the Chinese MDAS with gender, age and dental attendance supported predictions. Significant structural parameters between the two sub-scales (negative affectivity and autonomic anxiety) of the HADS anxiety items and the two newly identified factors of the MDAS were confirmed and duplicated in the comparison sample. CONCLUSION: The Chinese version of the MDAS has good psychometric properties and has the ability to assess, briefly, overall dental anxiety and two correlated but distinct aspects.},
affiliation = {Dental Health Research Unit, Mackenzie Building, Ninewells Hospital, University of Dundee, UK. s.yuan@chs.dundee.ac.uk},
pages = {22},
volume = {6},
year = {2008},
month = {Jan},
language = {eng},
keywords = {{\&}"HR, Dental Anxiety, China, Manifest Anxiety Scale, Psychometrics, Male, Middle Aged, Factor Analysis: Statistical, Adolescent, Statistics: Nonparametric, Adult, Humans, Reproducibility of Results, Self Assessment (Psychology), Questionnaires, Female, QoL studies"},
date-added = {2009-12-28 20:16:31 +0100},
date-modified = {2009-12-29 10:27:46 +0100},
doi = {10.1186/1477-7525-6-22},
pii = {1477-7525-6-22},
pmid = {18364045},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yuan-2008-Health%20and%20Quality%20of%20Life%20Outcomes_Some%20psychometric%20pr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2},
read = {Yes},
rating = {0}
}
@article{Newson:2003p4748,
author = {R Newson},
journal = {The Stata Joumal},
title = {Multiple-test procedures and smile plots},
abstract = {multproc carries out multiple-test procedures, taking as input a list of p-values and an uncorrected critical p-value, and calculating a corrected overall critical p- value for rejection of null hypotheses. These procedures define a confidence region for a set-valued parameter, namely the set of null hypotheses that are true. They aim to control either the family-wise error rate (FWER) or the false discovery rate (FDR) at a level no greater than the uncorrected critical p-value. smileplot calls multproc and then creates a smile plot, with data points corresponding to estimated parameters, the p-values (on a reverse log scale) on the y-axis, and the parameter estimates (or another variable) on the x-axis. There are y-axis reference lines at the uncorrected and corrected overall critical p-values. The reference line for the corrected overall critical p-value, known as the parapet line, is an informal ``upper confidence limit'' for the set of null hypotheses that are true and defines a boundary between data mining and data dredging. A smile plot summarizes a set of multiple analyses just as a Cochrane forest plot summarizes a meta-analysis.},
number = {2},
pages = {109--132},
volume = {3},
year = {2003},
date-added = {2010-02-01 12:00:13 +0100},
date-modified = {2010-07-29 19:53:40 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Newson-2003-The%20Stata%20Joumal_Multiple-test%20proced.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4748},
rating = {0}
}
@article{Acton:2003p12002,
author = {G Scott Acton},
journal = {Subst Use Misuse},
title = {Measurement of impulsivity in a hierarchical model of personality traits: implications for substance use},
abstract = {This review describes how measures of a prominent three-dimensional hierarchical model of personality traits relate to substance use. H. J. Eysenck proposed a biologically based model of personality that gave rise to related models such as those of J. A. Gray, C. R. Cloninger, and M. Zuckerman. The varying role of impulsivity--a trait related to disinhibition, approach motivation, novelty seeking, and sensation seeking--in successive self-report measures of this model, including the Eysenck Personality Inventory (EPI) and Eysenck Personality Questionnaire (EPQ), is described. It is argued that certain findings in experimental, cross-sectional, and longitudinal research using these measures point to the importance of impulsivity as a temperamental vulnerability factor for substance use.},
affiliation = {Langley Porter Psychiatric Institute, University of California, San Francisco, California 94143-0984, USA. acton@itsa.ucsf.edu},
number = {1},
pages = {67--83},
volume = {38},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Substance-Related Disorders, Longitudinal Studies, Personality Inventory, Models: Psychological, Humans, Impulsive Behavior, Risk Factors},
date-added = {2010-05-23 17:27:54 +0200},
date-modified = {2010-07-29 19:51:18 +0200},
pmid = {12602807},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Acton-2003-Subst%20Use%20Misuse_Measurement%20of%20impul.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12002},
rating = {5}
}
@article{Luciano:2010p11866,
author = {Juan V Luciano and Jose L Ayuso-Mateos and Jaume Aguado and Ana Fernandez and Antoni Serrano-Blanco and Miquel Roca and Josep M Haro},
journal = {BMC Med Res Methodol},
title = {The 12-item World Health Organization Disability Assessment Schedule II (WHO-DAS II): a nonparametric item response analysis},
abstract = {ABSTRACT: BACKGROUND: Previous studies have analyzed the psychometric properties of the World Health Organization Disability Assessment Schedule II (WHO-DAS II) using classical omnibus measures of scale quality. These analyses are sample dependent and do not model item responses as a function of the underlying trait level. The main objective of this study was to examine the effectiveness of the WHO-DAS II items and their options in discriminating between changes in the underlying disability level by means of item response analyses. We also explored differential item functioning (DIF) in men and women. METHODS: The participants were 3615 adult general practice patients from 17 regions of Spain, with a first diagnosed major depressive episode. The 12-item WHO-DAS II was administered by the general practitioners during the consultation. We used a non-parametric item response method (Kernel-Smoothing) implemented with the TestGraf software to examine the effectiveness of each item (item characteristic curves) and their options (option characteristic curves) in discriminating between changes in the underliying disability level. We examined composite DIF to know whether women had a higher probability than men of endorsing each item. RESULTS: Item response analyses indicated that the twelve items forming the WHO-DAS II perform very well. All items were determined to provide good discrimination across varying standardized levels of the trait. The items also had option characteristic curves that showed good discrimination, given that each increasing option became more likely than the previous as a function of increasing trait level. No gender-related DIF was found on any of the items. CONCLUSIONS: All WHO-DAS II items were very good at assessing overall disability. Our results supported the appropriateness of the weights assigned to response option categories and showed an absence of gender differences in item functioning.},
number = {1},
pages = {45},
volume = {10},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-23 11:49:24 +0200},
date-modified = {2010-05-23 11:49:28 +0200},
doi = {10.1186/1471-2288-10-45},
pii = {1471-2288-10-45},
pmid = {20487526},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luciano-2010-BMC%20Med%20Res%20Methodol_The%2012-item%20World%20He.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11866},
rating = {4}
}
@article{Roberts:2007p13918,
author = {B W Roberts and N R Kuncel and R Shiner and A Caspi and L R Goldberg},
journal = {Perspectives on Psychological Science},
title = {The Power of Personality. The Comparative Validity of Personality Traits, Socioeconomic Status, and Cognitive Ability for Predicting Important Life Outcomes},
abstract = {The ability of personality traits to predict im- portant life outcomes has traditionally been questioned because of the putative small effects of personality. In this article, we compare the predictive validity of personality traits with that of socioeconomic status (SES) and cogni- tive ability to test the relative contribution of personality traits to predictions of three critical outcomes: mortality, divorce, and occupational attainment. Only evidence from prospective longitudinal studies was considered. In addi- tion, an attempt was made to limit the review to studies that controlled for important background factors. Results showed that the magnitude of the effects of personality traits on mortality, divorce, and occupational attainment was indistinguishable from the effects of SES and cognitive ability on these outcomes. These results demonstrate the influence of personality traits on important life outcomes, highlight the need to more routinely incorporate measures of personality into quality of life surveys, and encourage further research about the developmental origins of per- sonality traits and the processes by which these traits in- fluence diverse life outcomes.},
number = {4},
pages = {313--345},
volume = {2},
year = {2007},
date-added = {2010-07-29 18:38:52 +0200},
date-modified = {2010-07-29 18:41:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roberts-2007-Perspectives%20on%20Psychological%20Science_The%20Power%20of%20Persona.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13918},
rating = {4}
}
@article{Anonymous:2010p4110,
title = {Analytic Strategies: Simultaneous, Hierarchical, and Stepwise Regression},
date-added = {2010-01-19 23:50:49 +0100},
date-modified = {2010-01-19 23:51:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Analytic%20Strategies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4110},
read = {Yes},
rating = {0}
}
@article{Zijlstra:2008p13811,
author = {W P Zijlstra and L Andries van der Ark and K Sijtsma},
journal = {New Trends in Psychometrics},
title = {Outlier Detection in the Medical Questionnaire Rising and Sitting Down (QR{\&}S)},
abstract = {Outlier detection in item scores from questionnaires for the measurement of medical concepts has to deal with highly discrete data. In this study, two outlier scores are used which both indicate the degree of inconsistency of a subject's item-score vector with the remainder of the data. In two studies, simulated data are used to investigate the error rates and the sensitivity of four statistical tests that are used to decide whether an outlier score is discordant. In the third study, the outlier scores and the discordancy tests are applied to real data obtained by means of the medical Questionnaire Rising and Sitting Down (QR{\&}S)∗.},
year = {2008},
date-added = {2010-07-29 12:32:13 +0200},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zijlstra-2008-New%20Trends%20in%20Psychometrics_Outlier%20Detection%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13811},
rating = {4}
}
@article{Araya:2003p6888,
author = {R Araya and G Lewis and G Rojas and R Fritsch},
journal = {J Epidemiol Community Health},
title = {Education and income: which is more important for mental health?},
abstract = {STUDY OBJECTIVE: To assess which indicators of socioeconomic status are associated with an increased prevalence of common mental disorders. DESIGN: Cross sectional household survey. SETTING: Santiago, Chile. PARTICIPANTS: Random sample of adults aged 16-65 residing in private households. Main results: Less education (odds ratio 2.44, 95% confidence intervals 1.50 to 3.97), a recent income decrease (odds ratio 2.14, 1.70 to 2.70), and poor housing (odds ratio 1.53, 1.05 to 2.23), were the only socioeconomic status variables that remained significantly associated with an increased prevalence of common mental disorders after adjustments. The prevalence of common mental disorders was also higher among people with manual unskilled occupations, overcrowded housing, and lower per capita income but these associations disappeared after adjustment for other explanatory and confounding variables. CONCLUSIONS: There is a strong, inverse, and independent association between education and common mental disorders. However, income was not associated with the prevalence of common mental disorders, after adjusting for other socioeconomic variables. Similar results have been found in other Latin American studies but British studies tend to find the opposite, that income but not education is associated with common mental disorders. Understanding the impact of socioeconomic factors on mental health requires research in poor as well as rich countries.},
affiliation = {University of Bristol, Division of Psychiatry, Bristol, UK. R.Araya@bris.ac.uk},
number = {7},
pages = {501--5},
volume = {57},
year = {2003},
month = {Jul},
language = {eng},
keywords = {Female, Male, Confidence Intervals, Adult, Humans, Adolescent, Odds Ratio, Socioeconomic Factors, Income, Aged, Educational Status, Middle Aged, Risk Factors, Chile, Cross-Sectional Studies, Mental Disorders},
date-added = {2010-03-06 10:56:02 +0100},
date-modified = {2010-03-06 10:56:02 +0100},
pmid = {12821693},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Araya-2003-J%20Epidemiol%20Community%20Health_Education%20and%20income.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6888},
rating = {0}
}
@article{CorbieSmith:2003p7398,
author = {Giselle Corbie-Smith and Diane Marie M St George and Sandra Moody-Ayers and David F Ransohoff},
journal = {Journal of Clinical Epidemiology},
title = {Adequacy of reporting race/ethnicity in clinical trials in areas of health disparities},
abstract = {Although federal initiatives have mandated broader inclusion of minorities in clinical research on diseases that have disparities in health by race and ethnicity, it is not clear whether these initiatives have affected reporting of trial results. The objective of this study was to examine the reporting of race/ethnicity in clinical trials reports in areas of known disparities in health (i.e., diabetes, cardiovascular disease, HIV/AIDS, and cancer) and to determine what factors were associated with reporting of race/ethnicity in results. We performed a Medline search covering the period January 1989 to Oct 2000 to identify clinical trials of diabetes, cardiovascular disease, HIV/AIDS, and cancer published in the Annals of Internal Medicine, JAMA, and New England Journal of Medicine. The main outcome measure was the reporting of participation and of results by race/ethnicity of trial participants. Of 253 eligible trials, 40% (n=102) were non race-focused yet did not report race, while 2% (n=4) were non gender-focused and did not report gender. Forty-six percent of trials that reported the race/ethnicity of the sample reported only one or two racial/ethnic categories, and in 43% of these trials the total number of individuals reported in each race/ethnicity category did not equal the total reported sample size. Analysis of results by race/ethnicity was reported in only two trials, and by gender in only three trials. In diseases with known racial and ethnic disparities, many clinical trials do not report the race/ethnicity of the study participants, and almost none report analyses by race/ethnicity. Although federal initiatives mandate inclusion of minority groups in research, that inclusion has not translated to reporting of results that might guide therapeutic decisions.},
affiliation = {Department of Social Medicine, University of North Carolina at Chapel Hill, CB 7240, Chapel Hill, NC 27599, USA. gcorbie@med.unc.edu },
number = {5},
pages = {416--20},
volume = {56},
year = {2003},
month = {May},
language = {eng},
keywords = {Continental Population Groups, Randomized Controlled Trials as Topic, Minority Groups, Humans, United States, Ethnic Groups, Health Resources, Data Interpretation: Statistical, Data Collection},
date-added = {2010-03-10 20:35:15 +0100},
date-modified = {2010-03-10 20:35:15 +0100},
pii = {S0895435603000313},
pmid = {12812814},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Corbie-Smith-2003-Journal%20of%20Clinical%20Epidemiology_Adequacy%20of%20reportin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7398},
rating = {0}
}
@article{Bock:2002,
author = {R D Bock and R L Brennan and E Muraki},
journal = {Applied Psychological Measurement},
title = {The Information in Multiple Ratings},
pages = {364--375},
volume = {26},
year = {2002},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bock-2002-Applied%20Psychological%20Measurement_The%20Information%20in%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2124},
rating = {0}
}
@article{Kutalik:2008p10152,
author = {Zolt{\'a}n Kutalik and Jacques S Beckmann and Sven Bergmann},
journal = {Nat Biotechnol},
title = {A modular approach for integrative analysis of large-scale gene-expression and drug-response data},
abstract = {High-throughput technologies are now used to generate more than one type of data from the same biological samples. To properly integrate such data, we propose using co-modules, which describe coherent patterns across paired data sets, and conceive several modular methods for their identification. We first test these methods using in silico data, demonstrating that the integrative scheme of our Ping-Pong Algorithm uncovers drug-gene associations more accurately when considering noisy or complex data. Second, we provide an extensive comparative study using the gene-expression and drug-response data from the NCI-60 cell lines. Using information from the DrugBank and the Connectivity Map databases we show that the Ping-Pong Algorithm predicts drug-gene associations significantly better than other methods. Co-modules provide insights into possible mechanisms of action for a wide range of drugs and suggest new targets for therapy.},
affiliation = {Department of Medical Genetics, University of Lausanne, Rue de Bugnon 27 - DGM 328, CH-1005 Lausanne, Switzerland.},
number = {5},
pages = {531--9},
volume = {26},
year = {2008},
month = {May},
language = {eng},
keywords = {Computer Simulation, Biological Assay, Pharmaceutical Preparations, Gene Expression Profiling, Systems Integration, Algorithms, Models: Biological, Drug Evaluation: Preclinical, Signal Transduction},
date-added = {2010-04-01 11:40:02 +0200},
date-modified = {2010-07-29 20:04:19 +0200},
doi = {10.1038/nbt1397},
pii = {nbt1397},
pmid = {18464786},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kutalik-2008-Nat%20Biotechnol_A%20modular%20approach%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10152},
rating = {0}
}
@article{Henson:2001a,
author = {R K Henson and B Thompson},
title = {Characterizing measurement error in scores across studies: Some recommendations for conducting "Reliability Generalization" (RG) studies},
abstract = {Given the potential value of reliability generalization (RG) studies in the development of cumulative psychometric knowledge, the purpose of this paper is to provide a tutorial on how to conduct such studies and to serve as a guide for researchers wishing to use this methodology. After some brief comments on classical test theory, the paper provides a practical framework for structuring an RG study, including: (1) test selection with an eye toward frequency of test use and reporting practices by authors; (2) development of a coding sheet that will capture potential variation in score reliability across studies; (3) procedural recommendations regarding data collection; (4) identification and use of potential dependent variables; and (5) application of general linear model analyses to the data.},
year = {2001},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1947},
rating = {0}
}
@article{Chen:2009p4213,
author = {Yu-Wei Chen and Mei-Hui Tseng and Fu-Chang Hu and Sharon A Cermak},
journal = {Res Dev Disabil},
title = {Psychosocial adjustment and attention in children with developmental coordination disorder using different motor tests},
abstract = {This study examined the consistency between the findings of developmental coordination disorder (DCD) as identified by the Bruininks-Oseretsky Test of Motor Proficiency (BOTMP) and the Movement Assessment Battery for Children (MABC), and explored the psychosocial and attention characteristics of children with DCD identified by the two motor tests, respectively. Participants were 270 children (male: 161, female: 109; age 7.74+/-0.81 years). The association between DCD status identified by each of the motor tests and psychosocial problems measured by the Child Behavioral Checklist-Chinese version (CBCL-C) was examined using multiple logistic regressions. The results showed that DCD identified by the BOTMP was associated with high scores on the Withdrawn and Social Problems, with a higher proportion of females identified. DCD identified by the MABC was associated with high scores on the Withdrawn and Attention Problems and low score on the Aggressive Behavior. The results reaffirmed the lack of consistency between the motor tests and indicated that children identified by the two motor tests showed different profiles of attention and psychosocial adjustment.},
affiliation = {School of Occupational Therapy, College of Medicine, National Taiwan University, Taipei, Taiwan.},
number = {6},
pages = {1367--77},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Motor Skills, Motor Skills Disorders, Logistic Models, Female, Adaptation: Psychological, Child, Humans, Male, Psychomotor Performance},
date-added = {2010-01-21 08:00:13 +0100},
date-modified = {2010-01-21 08:00:13 +0100},
doi = {10.1016/j.ridd.2009.06.004},
pii = {S0891-4222(09)00096-1},
pmid = {19625163},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4213},
rating = {0}
}
@article{Dimitrov:2002,
author = {D M Dimitrov},
journal = {Educational and Psychological Measurement},
title = {Reliability: Arguments for multiple perspectives and potential problems with generalization across studies},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2149},
rating = {0}
}
@article{Donnellan:2008p13154,
author = {M Brent Donnellan and S Alexandra Burt and Alytia A Levendosky and Kelly L Klump},
journal = {Pers Soc Psychol Bull},
title = {Genes, personality, and attachment in adults: a multivariate behavioral genetic analysis},
abstract = {Behavioral genetic methods were used to estimate genetic and environmental contributions to (a) attachment-related anxiety and avoidance and (b) the overlap between these attachment dimensions and the Big Five personality traits. Two major findings emerged from these analyses. First, individual differences in attachment-related anxiety and avoidance were heritable, and second, much of the overlap between adult attachment and the Big Five traits was due to shared genetic influences. Discussion focuses on the implications of these results for attachment theory and research and provides a speculative account of the interplay between temperamental dimensions and internal working models of relationships across the life span.},
affiliation = {Department of Psychology, Michigan State University, East Lansing, MI 48823, USA. donnel59@msu.edu},
number = {1},
pages = {3--16},
volume = {34},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Male, Phenotype, Interpersonal Relations, Object Attachment, Genetic Research, Adult, Personality, Female, Anxiety, Models: Genetic, Humans, Temperament, Questionnaires, Adolescent},
date-added = {2010-06-26 11:12:31 +0200},
date-modified = {2010-06-26 11:12:34 +0200},
doi = {10.1177/0146167207309199},
pii = {34/1/3},
pmid = {18162654},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13154},
rating = {5}
}
@article{Chambers:1998p1704,
author = {J Chambers},
title = {Computing with Data: Concepts and Challenges},
abstract = {This paper examines work in ``computing with data''---in computing sup- port for scientific and other activities to which statisticians can contribute. Relevant computing techniques, besides traditional statistical computing, in- clude data management, visualization, interactive languages and user-interface design. The paper emphasizes the concepts underlying computing with data, with emphasis on how those concepts can help in practical work. We look at past, present, and future: some concepts as they arose in the past and as they have proved valuable in current software; applications in the present, with one example in particular, to illustrate the challenges these present; and new directions for future research, including one exciting joint project.},
affiliation = {Bell Labs, Lucent Technologies},
year = {1998},
date-added = {2010-01-09 19:09:03 +0100},
date-modified = {2010-01-09 19:10:04 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chambers-1998-_Computing%20with%20Data.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1704},
rating = {0}
}
@article{Gerrits:2001,
author = {MH Gerrits and R Voogt and EJCG van den Oord},
journal = {J Child Psychol Psychiatry},
title = {An evaluation of non-response bias in peer, self and teacher ratings of children's psychological adjustment},
abstract = {The last decades have shown a rapid increase in nonresponse rates. For this reason it is important to study nonresponse and think about it critically. In this article we investigated whether nonresponse affected estimates of the levels of adjustment problems in children and the correlations between these outcomes. The nonresponse was caused by parents who refused permission to interview their children at school, parents who did not return a questionnaire, teachers who did not complete the questionnaire, and parents who refused to participate in an in-depth study, with nonresponse rates of 9%, 69%, 25%, and 46% respectively. The sample consisted of 1282 children aged 4-5 years and the dependent measures were peer-rated sociometric status, self-rated wellbeing at school, and teacher-rated behaviour problems. Despite considerable nonresponse in some conditions our results showed hardly any evidence for bias. This suggested that bias cannot simply be inferred from the amount of nonresponse and that standard rules such as nonresponse rates higher than 50 % are not acceptable lack a scientific basis. Instead, we argue that to assess nonresponse bias the specific conditions and analyses of the study will need to be considered and special measures may be required.},
pages = {593--602},
volume = {42},
year = {2001},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1043},
rating = {0}
}
@article{Golestani:2007p4632,
author = {Narly Golestani and Christophe Pallier},
journal = {Cereb Cortex},
title = {Anatomical correlates of foreign speech sound production},
abstract = {Previous work has shown a relationship between brain anatomy and how quickly adults learn to perceive foreign speech sounds. Faster learners have greater asymmetry (left>right) in parietal lobe white matter (WM) volumes and larger WM volumes of left Heschl's gyrus than slower learners. Here, we tested native French speakers who were previously scanned using high-resolution anatomical magnetic resonance imaging. We asked them to pronounce a Persian consonant that does not exist in French but which can easily be distinguished from French speech sounds, the voiced uvular stop. Two judges scored the goodness of the utterances. Voxel-based morphometry revealed that individuals who more accurately pronounce the foreign sound have higher WM density in the left insula/prefrontal cortex and in the inferior parietal cortices bilaterally compared with poorer producers. Results suggest that WM anatomy in brain regions previously implicated in articulation and phonological working memory, or the size/shape of these or adjacent regions, is in part predictive of the accuracy of speech sound pronunciation.},
affiliation = {INSERM Unit{\'e} 562, Service Hospitalier Fr{\'e}d{\'e}ric Joliot, Commissariat {\`a} l'Energie Atomique/D{\'e}partement de la Recherche M{\'e}dicale/Direction des Sciences du Vivant, Orsay Cedex, France, and University College London, UK. n.golestani@ucl.ac.uk},
number = {4},
pages = {929--34},
volume = {17},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Language, Humans, Learning, Adolescent, Nerve Net, Multilingualism, Adult, Statistics as Topic, Phonetics, Speech, Parietal Lobe},
date-added = {2010-01-30 15:36:57 +0100},
date-modified = {2010-07-29 19:22:58 +0200},
doi = {10.1093/cercor/bhl003},
pii = {bhl003},
pmid = {16740583},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Golestani-2007-Cereb%20Cortex_Anatomical%20correlate.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4632},
rating = {0}
}
@article{Massof:2005p12887,
author = {Robert W Massof},
journal = {Ophthalmic Epidemiol},
title = {Application of stochastic measurement models to visual function rating scale questionnaires},
abstract = {PURPOSE: To test hypotheses that low vision patient responses to visual function rating scale questionnaires conform to an additive conjoint structure and that the Likert score is a sufficient statistic for the latent patient trait; to compare results for two competing stochastic measurement models; and to determine if different questionnaires measure the same construct in low vision patients. METHODS: Visual function rating scale questionnaires were administered to 284 low vision subjects by telephone. Each subject was administered two of four questionnaires: ADVS, NEI VFQ-25 plus supplement, expanded VAQ, and VF-14. RESULTS: Data were analyzed with the Muraki item response model and the Andrich measurement model. The estimates of latent person, item, and response threshold measures from the two models are linearly related. The Muraki model produced a better overall fit to the item response data, the Andrich model produced a better fit to the average ratings for each person and item. Fit statistics for the Andrich model were proportional to the item-dependent discrimination parameter in the Muraki model. The ADVS was the most accurate measure and the NEI VFQ was the least. Reliability was similar for all four instruments. Person measures for each pair of instruments were linearly related indicating that all four instruments measured the same construct. The person measure estimate from the Andrich model is monotonic with the average rating. That relationship suggests a transformation of the Likert score that can correct the floor and ceiling effects in rating scale data. CONCLUSIONS: Patient responses to all four questionnaires conform to varying degrees to an additive conjoint structure. The Likert score is a sufficient statistic for the ADVS and the VAQ, but not for the NEI VFQ or VF-14. All four instruments measure the same construct in the low vision population, but they differ in measurement accuracy and precision.},
affiliation = {Lions Vision Research and Rehabilitation Center, Wilmer Ophthalmological Institute, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.},
number = {2},
pages = {103--24},
volume = {12},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Adult, Models: Biological, Aged: 80 and over, Middle Aged, Humans, Visual Acuity, Vision: Low, Questionnaires, Health Status, Stochastic Processes, Aged, Sickness Impact Profile},
date-added = {2010-06-24 13:17:40 +0200},
date-modified = {2010-06-24 13:17:40 +0200},
doi = {10.1080/09286580590932789},
pii = {Q5Q7627700221484},
pmid = {16019693},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12887},
rating = {0}
}
@article{Wasserfallen:2006p3587,
author = {Jean-Blaise Wasserfallen and Micheline Moinat and Georges Halabi and Patrick Saudan and Thomas Perneger and Harold I Feldman and Pierre-Yves Martin and Jean-Pierre Wauters},
journal = {Swiss Med Wkly},
title = {Satisfaction of patients on chronic haemodialysis and peritoneal dialysis},
abstract = {BACKGROUND: In contrast to quality of life, patient satisfaction on chronic haemodialysis (HD) and peritoneal dialysis (PD) has only rarely been studied. PATIENTS AND METHODS: All chronic HD and PD patients of the 19 centres located in western Switzerland were asked to complete a specific questionnaire, assessing dialysis centre characteristics, treatment modalities, and information received before and during dialysis treatment. Comparison between satisfaction with PD and HD was carried out on the patients in the nine centres offering both treatment modalities. RESULTS: Of the 558 questionnaires distributed to chronic HD patients, 455 were returned (response rate 82%). Fifty of 64 PD patients (78%) returned the questionnaire. The two groups were similar in age, gender, and duration of dialysis treatment. Completion rates were >90% for a majority of questions, with the lowest rate for information on sexuality (49% in HD and 54% in PD respectively). The lowest scores were recorded for information received about complications and costs of dialysis, and impact of end-stage kidney disease on sexuality. Satisfaction was lower in anonymous questionnaires. Satisfaction of PD patients was significantly better in 50% of the questions, particularly session tolerance (p<0.001), information about dialysis sessions (p=0.007), and complications (p=0.006). CONCLUSIONS: PD patients were on average more satisfied with their treatment than HD patients. Satisfaction could be improved with more information about potential adverse treatment effects.},
affiliation = {University Hospital Lausanne (CHUV), Lausanne, Switzerland. jwasserf@chuv.hospvd.ch},
number = {13-14},
pages = {210--7},
volume = {136},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Kidney Failure: Chronic, Age Factors, Renal Dialysis, Switzerland, Sex Factors, Male, Middle Aged, Female, Questionnaires, Ambulatory Care Facilities, Peritoneal Dialysis, Humans, Patient Satisfaction, Sexuality, Cross-Sectional Studies, Patient Education as Topic},
date-added = {2010-01-15 21:13:20 +0100},
date-modified = {2010-01-15 21:13:21 +0100},
doi = {2006/13/smw-11180},
pii = {smw-11180},
pmid = {16633970},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wasserfallen-2006-Swiss%20Med%20Wkly_Satisfaction%20of%20pati.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3587},
rating = {0}
}
@article{Abraira:1999,
author = {V Abraira and A P{\'e}rez De Vargas},
journal = {Q{\"u}estiio},
title = {Generalization of the Kappa coefficient for ordinal categorical data, multiple observers and incomplete designs},
number = {3},
pages = {561--571},
volume = {23},
year = {1999},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abraira-1999-Q%C3%BCestiio_Generalization%20of%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1894},
rating = {0}
}
@article{Yin:2000,
author = {P Yin and X Fan},
journal = {Educational and Psychological Measurement},
title = {Assessing the reliability of Beck Depression Inventory scores: Reliability Generalization across studies},
pages = {201--223},
volume = {60},
year = {2000},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2213},
rating = {0}
}
@article{Johnstone:2001p5063,
author = {I M Johnstone},
journal = {The Annals of Statistics},
title = {On the distribution of the largest eigenvalue in principal components analysis},
abstract = {Let x1 denote the square of the largest singular value of an n × p matrix X, all of whose entries are independent standard Gaussian vari- ates. Equivalently, x1 is the largest principal component variance of the covariance matrix X′X, or the largest eigenvalue of a p-variate Wishart distribution on n degrees of freedom with identity covariance.
Consider the limit of large p and n with n/p = γ ≥ 1. When centered by μp = √n−1+√p2 and scaled by σp = √n−1+√p1/√n−1+ 1/√p1/3thedistributionofx1approachestheTracy--Widomlawof order 1, which is defined in terms of the Painleve ́ II differential equation and can be numerically evaluated and tabulated in software. Simulations showtheapproximationtobeinformativefornandpassmallas5.
The limit is derived via a corresponding result for complex Wishart matrices using methods from random matrix theory. The result suggests that some aspects of large p multivariate distribution theory may be easier to apply in practice than their fixed p counterparts.},
number = {2},
pages = {295--327},
volume = {29},
year = {2001},
date-added = {2010-02-05 20:07:28 +0100},
date-modified = {2010-07-11 09:50:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnstone-2001-The%20Annals%20of%20Statistics_On%20the%20distribution-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5063},
rating = {0}
}
@article{Levy:2009p8828,
author = {Susan E Levy and David S Mandell and Robert T Schultz},
journal = {Lancet},
title = {Autism},
abstract = {Autism spectrum disorders are characterised by severe deficits in socialisation, communication, and repetitive or unusual behaviours. Increases over time in the frequency of these disorders (to present rates of about 60 cases per 10,000 children) might be attributable to factors such as new administrative classifications, policy and practice changes, and increased awareness. Surveillance and screening strategies for early identification could enable early treatment and improved outcomes. Autism spectrum disorders are highly genetic and multifactorial, with many risk factors acting together. Genes that affect synaptic maturation are implicated, resulting in neurobiological theories focusing on connectivity and neural effects of gene expression. Several treatments might address core and comorbid symptoms. However, not all treatments have been adequately studied. Improved strategies for early identification with phenotypic characteristics and biological markers (eg, electrophysiological changes) might hopefully improve effectiveness of treatment. Further knowledge about early identification, neurobiology of autism, effective treatments, and the effect of this disorder on families is needed.},
affiliation = {Children's Hospital of Philadelphia, University of Pennsylvania, School of Medicine, Center for Autism Research, Philadelphia, PA 19104, USA. levys@email.chop.edu},
number = {9701},
pages = {1627--38},
volume = {374},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Forecasting, Risk Assessment, Magnetic Resonance Imaging, Neurobiology, Behavior Therapy, Socialization, Prevalence, Stereotyped Behavior, Communication, Genetic Variation, Mass Screening, Causality, Early Intervention (Education), Autistic Disorder, Humans, Child: Preschool, Genetic Predisposition to Disease, Comorbidity, Early Diagnosis, Diagnosis: Differential, Child},
date-added = {2010-03-22 12:33:37 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
doi = {10.1016/S0140-6736(09)61376-3},
pii = {S0140-6736(09)61376-3},
pmid = {19819542},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0140-6736(09)61376-3},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2009-Lancet_Autism.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8828},
rating = {0}
}
@article{Conrod:2010p11980,
author = {Patricia J Conrod and Natalie Castellanos-Ryan and John Strang},
journal = {Arch Gen Psychiatry},
title = {Brief, personality-targeted coping skills interventions and survival as a non-drug user over a 2-year period during adolescence},
abstract = {CONTEXT: Selective interventions targeting personality risk are showing promise in the prevention of problematic drinking behavior, but their effect on illicit drug use has yet to be evaluated. OBJECTIVE: To investigate the efficacy of targeted coping skills interventions on illicit drug use in adolescents with personality risk factors for substance misuse. DESIGN: Randomized controlled trial. SETTING: Secondary schools in London, United Kingdom. PARTICIPANTS: A total of 5302 students were screened to identify 2028 students aged 13 to 16 years with elevated scores on self-report measures of hopelessness, anxiety sensitivity, impulsivity, and sensation seeking. Seven hundred thirty-two students provided parental consent to participate in this trial. INTERVENTION: Participants were randomly assigned to a control no-intervention condition or a 2-session group coping skills intervention targeting 1 of 4 personality profiles. MAIN OUTCOME MEASURES: The trial was designed and powered to primarily evaluate the effect of the intervention on the onset, prevalence, and frequency of illicit drug use over a 2-year period. RESULTS: Intent-to-treat repeated-measures analyses on continuous measures of drug use revealed time x intervention effects on the number of drugs used (P < .01) and drug use frequency (P < .05), whereby the control group showed significant growth in the number of drugs used as well as more frequent drug use over the 2-year period relative to the intervention group. Survival analysis using logistic regression revealed that the intervention was associated with reduced odds of taking up the use of marijuana (beta = -0.3; robust SE = 0.2; P = .09; odds ratio = 0.7; 95% confidence interval, 0.5-1.0), cocaine (beta = -1.4; robust SE = 0.4; P < .001; odds ratio = 0.2; 95% confidence interval, 0.1-0.5), and other drugs (beta = -0.7; robust SE = 0.3; P = .03; odds ratio = 0.5; 95% confidence interval, 0.3-0.9) over the 24-month period. CONCLUSION: This study extends the evidence that brief, personality-targeted interventions can prevent the onset and escalation of substance misuse in high-risk adolescents. TRIAL REGISTRATION: clinicaltrials.gov Identifier: NCT00344474.},
affiliation = {Addictions Department, Institute of Psychiatry, King's College London and South London and Maudsley NHS Foundation Trust, 4 Windsor Walk, Denmark Hill, London SE5 8AF, United Kingdom. patricia.conrod@kcl.ac.uk},
number = {1},
pages = {85--93},
volume = {67},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Personality, Psychotherapy: Group, Follow-Up Studies, Substance-Related Disorders, Cognitive Therapy, Adaptation: Psychological, Focus Groups, Humans, Questionnaires, Male, Substance Abuse Detection, Female, London, Personality Inventory, Longitudinal Studies, Street Drugs, Prevalence, Survival Analysis, Risk Factors, Adolescent},
date-added = {2010-05-23 17:20:39 +0200},
date-modified = {2010-05-23 17:20:39 +0200},
doi = {10.1001/archgenpsychiatry.2009.173},
pii = {67/1/85},
pmid = {20048226},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11980},
rating = {0}
}
@article{Heer:2007p12783,
author = {J Heer and G G Robertson},
title = {Animated Transitions in Statistical Data Graphics},
abstract = {In this paper we investigate the effectiveness of animated transitions between common statistical data graphics such as bar charts, pie charts, and scatter plots. We extend theoretical models of data graphics to include such transitions, introducing a taxonomy of transition types. We then propose design principles for creating effective transitions and illustrate the application of these principles in DynaVis, a visualization system featuring animated data graphics. Two controlled experiments were conducted to assess the efficacy of various transition types, finding that animated transitions can significantly improve graphical perception.},
year = {2007},
date-added = {2010-06-18 20:46:59 +0200},
date-modified = {2010-06-18 20:47:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heer-2007-_Animated%20Transitions.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12783},
rating = {0}
}
@article{Bonica:2010p10911,
author = {A Bonica},
title = {Estimating Ideological Positions of Candidates and Contributors from Campaign Finance Records},
abstract = {Many applications in political science require reliable ideological measures of individuals and groups. Methods designed to recover ideological estimates from roll call votes have been highly successful in providing precise estimates of ideologi- cal positions but can only recover estimates for legislators with voting records. In contrast, methods for scaling political texts show great promise in extending estima- tion outside the confines of legislative bodies but are not yet able to locate individu- als with much precision. This paper presents an item response model to recover ideological estimates from campaign finance records. Scaling campaign finance data offers an attractive middle ground between the aforementioned scaling methods. The method recovers ideological positions for incumbents that strongly correlate with NOMINATE scores, while simultaneously recovering reliable positions for thousands of individuals and groups outside of Congress, including political action committees (PACs) and unsuccessful challengers and open-seat candidates for whom we never observe a voting record. I illustrate the method by assessing com- peting hypotheses about which motivations best explain the contribution behavior of PACs. I find that ideology features prominently in the contribution behavior of PACs, but its influence varies considerably across categories of PACs in a predicta- ble manner.},
date-added = {2010-04-11 21:36:52 +0200},
date-modified = {2010-04-11 21:37:20 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bonica--_Estimating%20Ideologic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10911},
rating = {0}
}
@article{Williams:2010p11619,
author = {L J Williams and Herv{\'e} Abdi and R French and J B Orange},
title = {A tutorial on Multi-Block Discriminant Correspondence Analysis (MUDICA): A new method for analyzing discourse data from clinical populations},
abstract = {Purpose. In communication disorders research, we frequently describe clinical groups based on patterns of performance, but we often study only few participants described by many quan- titative and qualitative variables. These data are difficult to handle by standard inferential tools (e.g., ANOVA or factor analysis) whose assumptions are unfit for these data. This paper presents Multi-block Discriminant Correspondence Analysis (MUDICA) which is a recent method that can handle datasets not suited for standard inferential techniques.
Method. M U D I C A is illustrated with clinical data examining conversational trouble-source repair and topic maintenance in dementia of the Alzheimers type (DAT). Seventeen DAT parti- cipant/spouse dyads (6 control, 5 early DAT, 6 moderate DAT) produced spontaneous conversa- tions analyzed for co-occurrence of trouble-source repair and topic maintenance variables.
Results. MUDICA found that trouble-source repair sequences and topic transitions are associ- ated and that patterns of performance in the DAT groups differed significantly from the CTRL group.
Conclusions. MUDICA is ideally suited to analyze language and discourse data in communi- cation disorders because it (1) can identify and predict clinical group membership based on patterns of performance, (2) can accommodate few participants and many variables, (3) can be used with categorical data, and (4) adds the rigor of inferential statistics.},
year = {2010},
date-added = {2010-05-11 22:10:28 +0200},
date-modified = {2010-07-29 20:14:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-2010-_A%20tutorial%20on%20Multi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11619},
rating = {0}
}
@article{Deborde:2004p14055,
author = {A-S Deborde and S Berthoz and F Perdereau and N Godart and M Corcos and P Jeammet},
journal = {Encephale},
title = {[Validity of the BVAQ: a study in eating disorder patients and controls]},
abstract = {Alexithymia core features are the difficulties in identifying and describing feelings; the difficulties in distinguishing feelings from the bodily sensations of emotional arousal; an impaired symbolization, as evidenced by a paucity of fantasies and other imaginative activity; and a tendency to focus on external events rather than inner experience. Several measures of alexithymia have been developed, including interviewer-rated questionnaires and self-report questionnaires. Among the self-report questionnaires, the 20-item Toronto Alexithymia scale (TAS-20) is the most commonly used, but it fails to measure all the core features of alexithymia. A recently developed instrument, the Bermond-Vorst Alexithymia Questionnaire (BVAQ), allows the measurement of the alexithymia core features, as well as an additional one. It appeared to present good psychometric properties, notably the abbreviated BVAQ-form B. The results of recent studies comparing the psychometric properties of the TAS-20 and the BVAQ have recommended the BVAQ over the TAS-20. However, this questionnaire needed further validation. OBJECTIVES: Thus, the aim of the present study was to determine the convergent, discriminant and concurrent validity of the Bermond-Vorst Alexithymia Questionnaire -- form B (BVAQ-B) in a clinical sample of 59 eating disorder patients, as well as in 191 controls. The TAS-20 constituted the gold standard for the assessment of the BVAQ-B' convergent validity. To compare the concurrent validity of the BVAQ-B and the TAS-20, participants also completed several self-reports investigating different dimensions of emotion regulation capacities: the 13-item Beck Depression Inventory (BDI), the Spielberger State and Trait Anxiety Inventory (STAI-form Y), as well as the Chapman and Chapman Physical and Social Anhedonia Scales (PAS and SAS). One way analyses of variance were used for mean scores comparisons. Convergent validity was determined using Pearson coefficients of correlation. RESULTS: Results of the analyses suggested the BVAQ-B has a satisfying convergent and discriminant validity. This was observed in both the clinical and control samples. Moreover, the comparison of the convergent validity of the BVAQ-B and the TAS-20 revealed several differences between these two alexithymia self-report questionnaires. The BVAQ-B appeared less sensitive to the subjective emotional state of the participants than the TAS-20. Whereas it was argued the TAS-20 overlaps with other emotional state scores, the BVAQ-B would allow to measure alexithymia more specifically. In addition, the present results allowed to further determine the relations between alexithymia and other dimensions of emotion regulation capacities. The analyses confirmed that alexithymia is linked to other emotion regulation dimensions such as depression and anxiety. Moreover, alexithymia was associated with physical and social anhedonia, two dimensions that received less interest in the alexithymia literature to date. This study also showed that control and clinical sample have different emotion regulation capacities. Eating disorder patients were not only more alexithymic and more depressed, but also more anxious and more anhedonic than the controls. Finally, this study revealed that alexithymia differs whether the alexithymic individuals are patients or controls. Healthy alexithymic individuals (ie, individuals categorized as alexithymic in the control group) seemed characterised by a selective deficit of emotional cognition, with sparing of emotional experience (Bermond's type II alexithymia). Alexithymics individuals of the eating -disorder group seemed particularly unabled to experience affect. This pattern could correspond to Bermond's type I alexithymia, which is characterised by the absence of emotional experience and, consequently, by the absence of the cognition accompanying the emotion. In summary, results of the present study add to the literature debating on whether alexithymia is similar in different types of population.},
affiliation = {Service de Psychiatrie, Institut Mutualiste Montsouris, 42, boulevard Jourdan, 75014 Paris, France.},
number = {5},
pages = {464--73},
volume = {30},
year = {2004},
month = {Jan},
language = {fre},
keywords = {Female, Eating Disorders, Self Assessment (Psychology), Predictive Value of Tests, Affective Symptoms, Adult, Severity of Illness Index, Reproducibility of Results, Questionnaires, Humans, Adolescent},
date-added = {2010-08-18 10:03:09 +0200},
date-modified = {2010-08-18 10:03:09 +0200},
pii = {MDOI-ENC-10-2004-30-5-0013-7006-101019-ART6},
pmid = {15627051},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14055},
rating = {0}
}
@article{Noterdaeme:2009p5134,
author = {Michele Noterdaeme and Elke Wriedt and Christian H{\"o}hne},
journal = {Eur Child Adolesc Psychiatry},
title = {Asperger's syndrome and high-functioning autism: language, motor and cognitive profiles},
abstract = {The objective of this study is to compare the cognitive profile, the motor and language functioning and the psychosocial adaptation of children with Asperger syndrome (AS) and with high-functioning autism (HFA). Subjects were recruited through the department Autism and Developmental Disorders of the Heckscher-Klinikum. To be included in the study, the full-scale-IQ had to be at least 80. Subjects with AS had to have a normal early language development and subjects with HFA a clear delay in language development, as reported by their parents. The sample consisted of 57 children with Asperger syndrome and 55 children with high-functioning autism. The mean age of the children was 10 years. All subjects were examined with a standardised test battery. Children with AS had a higher full-scale-IQ than children with HFA. This was due to a higher verbal-IQ. There were no significant differences in the performance-IQ. At a mean age of 10 years, subjects with AS had better language skills than subjects with HFA, but at least 30% showed clear receptive language problems. Motor problems were present in about 50% of the children with AS and HFA. The level of psychosocial adaptation was clearly reduced, but was comparable for the two groups. The differences in verbal-IQ and language skills between the two groups could be explained through the definition of the syndromes. The presence of language problems in the subjects with AS at age 10, the comparable degree of motor impairment and level of psychosocial adaptation question the validity of the distinction between AS and HFA within the category of pervasive developmental disorders.},
affiliation = {Klinik f{\"u}r Kinder- und Jugendpsychiatrie und Psychotherapie, Kapellenstrasse 30, 86154, Augsburg, Germany, noterdaeme.michele@josefinum.de.},
pages = {},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-07-29 19:26:12 +0200},
doi = {10.1007/s00787-009-0057-0},
pmid = {19813070},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5134},
rating = {0}
}
@article{Shen:2010p10037,
author = {Li Shen and Sungeun Kim and Shannon L Risacher and Kwangsik Nho and Shanker Swaminathan and John D West and Tatiana Foroud and Nathan Pankratz and Jason H Moore and Chantel D Sloan and Matthew J Huentelman and David W Craig and Bryan M Dechairo and Steven G Potkin and Clifford R Jack and Michael W Weiner and Andrew J Saykin and the Alzheimer's Disease Neuroimaging Initiative},
journal = {Neuroimage},
title = {Whole genome association study of brain-wide imaging phenotypes for identifying quantitative trait loci in MCI and AD: A study of the ADNI cohort},
abstract = {A genome-wide, whole brain approach to investigate genetic effects on neuroimaging phenotypes for identifying quantitative trait loci is described. The Alzheimer's Disease Neuroimaging Initiative 1.5 T MRI and genetic dataset was investigated using voxel-based morphometry (VBM) and FreeSurfer parcellation followed by genome-wide association studies (GWAS). One hundred forty-two measures of grey matter (GM) density, volume, and cortical thickness were extracted from baseline scans. GWAS, using PLINK, were performed on each phenotype using quality-controlled genotype and scan data including 530,992 of 620,903 single nucleotide polymorphisms (SNPs) and 733 of 818 participants (175 AD, 354 amnestic mild cognitive impairment, MCI, and 204 healthy controls, HC). Hierarchical clustering and heat maps were used to analyze the GWAS results and associations are reported at two significance thresholds (p<10(-7) and p<10(-6)). As expected, SNPs in the APOE and TOMM40 genes were confirmed as markers strongly associated with multiple brain regions. Other top SNPs were proximal to the EPHA4, TP63 and NXPH1 genes. Detailed image analyses of rs6463843 (flanking NXPH1) revealed reduced global and regional GM density across diagnostic groups in TT relative to GG homozygotes. Interaction analysis indicated that AD patients homozygous for the T allele showed differential vulnerability to right hippocampal GM density loss. NXPH1 codes for a protein implicated in promotion of adhesion between dendrites and axons, a key factor in synaptic integrity, the loss of which is a hallmark of AD. A genome-wide, whole brain search strategy has the potential to reveal novel candidate genes and loci warranting further investigation and replication.},
affiliation = {Center for Neuroimaging, Department of Radiology and Imaging Sciences, Indiana University School of Medicine, 950 West Walnut Street R2 E124, Indianapolis, IN 46202, USA; Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, 410 West 10th Street, Suite 5000, Indianapolis, IN 46202, USA.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-03-31 20:06:55 +0200},
date-modified = {2010-03-31 20:06:56 +0200},
doi = {10.1016/j.neuroimage.2010.01.042},
pii = {S1053-8119(10)00064-9},
pmid = {20100581},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shen-2010-Neuroimage_Whole%20genome%20associa-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10037},
read = {Yes},
rating = {0}
}
@article{Pemstein:2010p4101,
author = {D Pemstein and K M Quinn and A D Martin},
journal = {Journal of Statistical Software},
title = {The Scythe Statistical Library: An Open Source C++ Library for Statistical Computation},
abstract = {The Scythe Statistical Library (Pemstein, Quinn, and Martin 2007) is an open source C++ library for statistical computation. It includes a suite of matrix manipulation func- tions, a suite of pseudo-random number generators, and a suite of numerical optimization routines. Programs written using Scythe are generally much faster than those written in commonly used interpreted languages, such as R and MATLAB; and can be compiled on any system with the GNU GCC compiler (and perhaps with other C++ compilers). One of the primary design goals of the Scythe developers has been ease of use for non-expert C++ programmers. Ease of use is provided through three primary mechanisms: (1) oper- ator and function over-loading, (2) numerous pre-fabricated utility functions, and (3) clear documentation and example programs. Additionally, Scythe is quite flexible and entirely extensible because the source code is available to all users under the GNU General Public License.},
date-added = {2010-01-19 23:34:53 +0100},
date-modified = {2010-01-19 23:36:23 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pemstein--Journal%20of%20Statistical%20Software_The%20Scythe%20Statistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4101},
rating = {0}
}
@techreport{Antonietti:2003a,
author = {J-P Antonietti},
journal = {Techreport},
title = {Comment mesurer la similarit{\'e} entre deux stuctures factorielles latentes},
affiliation = {Institut de Math{\'e}matiques Appliqu{\'e}es},
year = {2003},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 20:42:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Antonietti-2003-Techreport_Comment%20mesurer%20la%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2036},
rating = {0}
}
@article{Noortgate:2005p4122,
author = {W Van den Noortgate and Paul De Boeck},
journal = {Journal of Educational and Behavioral Statistics},
title = {Assessing and Explaining Differential Item Functioning Using Logistic Mixed Models},
abstract = {Although differential item functioning (DIF) theory traditionally focuses on the behavior of individual items in two (or a few) specific groups, in educational measurement contexts, it is often plausible to regard the set of items as a random sample from a broader category. This article presents logistic mixed models that can be used to model uniform DIF, treating the item effects and their interaction with groups (DIF) as random. In a similar way, the group effects can be modeled as random instead of fixed, if the groups can be considered a random sample from a population of groups. The models can, furthermore, be adapted easily for model- ing DIF over individual persons rather than over groups, or for modeling the dif- ferential functioning of groups of items instead of individual items. It is shown that the logistic mixed model approach is not only a comprehensive and economical way to detect these different kinds of DIF, it also encourages us to explore possible explanations of DIF by including group or item covariates in the model.},
affiliation = {K. U. Leuven, Leuven, Belgium},
number = {4},
pages = {443--464},
volume = {30},
year = {2005},
date-added = {2010-01-20 00:09:03 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Noortgate-2005-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Assessing%20and%20Explai.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4122},
rating = {0}
}
@article{Kuo:2010p3958,
author = {Po-Hsiu Kuo and Michael C Neale and Dermot Walsh and Diana G Patterson and Brien Riley and Carol A Prescott and Kenneth S Kendler},
journal = {J Psychiatr Res},
title = {Genome-wide linkage scans for major depression in individuals with alcohol dependence},
abstract = {Major depression is more prevalent among individuals with alcoholism than in the general population. Twin studies have found a moderate degree of genetic correlation for alcohol dependence (AD) and major depression (MD), suggesting the existence of loci that confer susceptibility to both disorders. The aim of the present study was to conduct genome-wide linkage analyses to identify loci and to replicate prior evidence for linkage to MD, and to search for linkage regions that may confer risk to the co-occurrence of depression and alcoholism in a sample of sib-pairs affected with AD. A set of 1020 microsatellite markers (average marker spacing of 4cM) were genotyped in 1289 subjects, which consisted of 473 informative families for analysis of depressive traits and 626 sibling pairs for analysis of symptoms of MD and AD. For univariate linkage results for depression, there were six regions (1q, 2p, 4q, 12q, 13q, and 22q) with multipoint LOD scores in excess of 1.00; the highest peak was on chromosome 4q32.3 near marker D4S2952 (LOD=2.17, p=0.0008) for symptoms of MD. Bivariate linkage analysis of symptoms of MD and AD identified only one region at 22q11.21 with LOD>1, which overlapped with the region for symptoms of MD. Several of these regions replicate previously reported linkage results for major depression and emotion-related traits and events, such as neuroticism and suicide attempts. These identified genomic locations, together with results from prior studies, indicate potential regions of interests that may contain susceptibility loci to the risk of depression among individuals with alcohol dependence.},
affiliation = {Department of Public Health and Institute of Epidemiology, College of Public Health, National Taiwan University, Taiwan; Virginia Institute for Psychiatric and Behavioral Genetics, Department of Psychiatry, Virginia Commonwealth University, Richmond, VA, USA Tel.: +886 2 3366 8015; fax: +886 2 2351 1955.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-17 11:59:10 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2009.12.005},
pii = {S0022-3956(09)00280-5},
pmid = {20074746},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kuo-2010-J%20Psychiatr%20Res_Genome-wide%20linkage.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3958},
read = {Yes},
rating = {0}
}
@article{Sinharay:2003p4256,
author = {S Sinharay},
title = {Assessing convergence of the Markov Chain Monte Carlo algorithms: A review},
year = {2003},
date-added = {2010-01-23 21:04:04 +0100},
date-modified = {2010-01-23 21:04:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sinharay-2003-_Assessing%20convergenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4256},
rating = {0}
}
@article{RabeHesketh:2008p6608,
author = {Sophia Rabe-Hesketh and Anders Skrondal},
journal = {Stat Methods Med Res},
title = {Classical latent variable models for medical research},
abstract = {Latent variable models are commonly used in medical statistics, although often not referred to under this name. In this paper we describe classical latent variable models such as factor analysis, item response theory, latent class models and structural equation models. Their usefulness in medical research is demonstrated using real data. Examples include measurement of forced expiratory flow, measurement of physical disability, diagnosis of myocardial infarction and modelling the determinants of clients' satisfaction with counsellors' interviews.},
affiliation = {Graduate School of Education and Graduate Group in Biostatistics, University of California, Berkeley, CA 94720-1670, USA. sophiarh@berkeley.edu},
number = {1},
pages = {5--32},
volume = {17},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Biomedical Research, Factor Analysis: Statistical, Meta-Analysis as Topic, Biometry, Longitudinal Studies, Patient Dropouts, Models: Statistical, Survival Analysis, Humans, Quality of Life},
date-added = {2010-03-03 20:22:01 +0100},
date-modified = {2010-03-03 20:22:01 +0100},
doi = {10.1177/0962280207081236},
pii = {0962280207081236},
pmid = {17855748},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2008-Stat%20Methods%20Med%20Res_Classical%20latent%20var.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6608},
rating = {0}
}
@article{Glickman:2009p12795,
author = {M E Glickman and P Seal and S V Eisen},
journal = {Health Serv Outcomes Res Method},
title = {A non-parametric Bayesian diagnostic for detecting differential item functioning in IRT models},
abstract = {Differential item functioning (DIF) in tests and multi-item surveys occurs when a lack of conditional independence exists between the response to one or more items and membership to a particular group, given equal levels of proficiency. We develop an approach to detecting DIF in the context of item response theory (IRT) models based on computing a diagnostic which is the posterior mean of a p-value. IRT models are fit in a Bayesian framework, and simulated proficiency parameters from the posterior distribution are retained. Monte Carlo estimates of the p-value diagnostic are then computed by comparing the fit of nonparametric regressions of item responses on simulated proficiency parameters and group membership. Some properties of our approach are examined through a simulation experiment. We apply our method to the analysis of responses from two separate studies to the BASIS-24, a widely used self-report mental health assessment instrument, to examine DIF between the English and Spanish-translated version of the survey.},
year = {2009},
date-added = {2010-06-18 21:17:03 +0200},
date-modified = {2010-06-18 21:18:02 +0200},
doi = {10.1007/s10742-009-0052-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glickman-2009-Health%20Serv%20Outcomes%20Res%20Method_A%20non-parametric%20Bay.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12795},
rating = {4}
}
@article{Pollard:2005p3464,
author = {K S Pollard and M J van der Laan},
journal = {U.C. Berkeley Division of Biostatistics Working Paper Series},
title = {Cluster Analysis of Genomic Data with Applications in R},
abstract = {In this paper, we provide an overview of existing partitioning and hierarchical clustering algorithms in R. We discuss statistical issues and methods in choos- ing the number of clusters, the choice of clustering algorithm, and the choice of dissimilarity matrix. In particular, we illustrate how the bootstrap can be em- ployed as a statistical method in cluster analysis to establish the reproducibility of the clusters and the overall variability of the followed procedure. We also show how to visualize a clustering result by plotting ordered dissimilarity matrices in R. We present a new R package, hopach, which implements the hybrid clustering method, Hierarchical Ordered Partitioning And Collapsing Hybrid (HOPACH). The methodology combines the strengths of both partitioning and agglomerative hierarchical clustering methods. At each node, a cluster is split into two or more smaller clusters with an enforced ordering of the clusters. Collapsing steps unit- ing the two closest clusters into one cluster are used to correct for errors made in the partitioning steps. The hopach function uses the median split silhouette (MSS) criterion to automatically choose (i) the number of children at each node, (ii) which clusters to collapse, and (iii) the main clusters (pruning the tree to pro- duce a partition of homogeneous clusters). The methodology is illustrated with gene expression data.},
number = {167},
year = {2005},
date-added = {2010-01-15 15:20:37 +0100},
date-modified = {2010-07-29 19:55:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pollard-2005-U.C.%20Berkeley%20Division%20of%20Biostatistics%20Working%20Paper%20Series_Cluster%20Analysis%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3464},
rating = {0}
}
@article{Hannelius:2008p1723,
author = {Ulf Hannelius and Elina Salmela and Tuuli Lappalainen and Gilles Guillot and Cecilia M Lindgren and Ulrika von D{\"o}beln and P{\"a}ivi Lahermo and Juha Kere},
journal = {BMC Genet},
title = {Population substructure in Finland and Sweden revealed by the use of spatial coordinates and a small number of unlinked autosomal SNPs},
abstract = {BACKGROUND: Despite several thousands of years of close contacts, there are genetic differences between the neighbouring countries of Finland and Sweden. Within Finland, signs of an east-west duality have been observed, whereas the population structure within Sweden has been suggested to be more subtle. With a fine-scale substructure like this, inferring the cluster membership of individuals requires a large number of markers. However, some studies have suggested that this number could be reduced if the individual spatial coordinates are taken into account in the analysis. RESULTS: We genotyped 34 unlinked autosomal single nucleotide polymorphisms (SNPs), originally designed for zygosity testing, from 2044 samples from Sweden and 657 samples from Finland, and 30 short tandem repeats (STRs) from 465 Finnish samples. We saw significant population structure within Finland but not between the countries or within Sweden, and isolation by distance within Finland and between the countries. In Sweden, we found a deficit of heterozygotes that we could explain by simulation studies to be due to both a small non-random genotyping error and hidden substructure caused by immigration. Geneland, a model-based Bayesian clustering algorithm, clustered the individuals into groups that corresponded to Sweden and Eastern and Western Finland when spatial coordinates were used, whereas in the absence of spatial information, only one cluster was inferred. CONCLUSION: We show that the power to cluster individuals based on their genetic similarity is increased when including information about the spatial coordinates. We also demonstrate the importance of estimating the size and effect of genotyping error in population genetics in order to strengthen the validity of the results.},
affiliation = {Department of Biosciences and Nutrition, Karolinska Institutet, 14157 Huddinge, Sweden. ulf.hannelius@ki.se},
pages = {54},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genetic Variation, Analysis of Variance, Finland, Middle Aged, Founder Effect, Linkage (Genetics), Genotype, Cluster Analysis, Principal Component Analysis, Genetic Markers, Sweden, Adult, Homozygote, Male, Polymorphism: Single Nucleotide, Humans, Models: Genetic, Genetics: Population},
date-added = {2010-01-09 20:31:22 +0100},
date-modified = {2010-01-09 20:31:23 +0100},
doi = {10.1186/1471-2156-9-54},
pii = {1471-2156-9-54},
pmid = {18713460},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hannelius-2008-BMC%20Genet_Population%20substruct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1723},
rating = {0}
}
@article{Parienti:2006p6453,
author = {Jean-Jacques Parienti and Renaud Verdon and V{\'e}ronique Massari},
journal = {BMC Med Res Methodol},
title = {Methodological standards in non-inferiority AIDS trials: moving from adherence to compliance},
abstract = {BACKGROUND: The interpretation of the results of active-control trials regarding the efficacy and safety of a new drug is important for drug registration and following clinical use. It has been suggested that non-inferiority and equivalence studies are not reported with the same quantitative rigor as superiority studies. METHODS: Standard methodological criteria for non-inferiority and equivalence trials including design, analysis and interpretation issues were applied to 18 recently conducted large non-inferiority (15) and equivalence (3) randomized trials in the field of AIDS antiretroviral therapy. We used the continuity-corrected non-inferiority chi-square to test 95% confidence interval treatment difference against the predefined non-inferiority margin. RESULTS: The pre-specified non-inferiority margin ranged from 10% to 15%. Only 4 studies provided justification for their choice. 39% of the studies (7/18) reported only intent-to-treat (ITT) analysis for the primary endpoint. When on-treatment (OT) and ITT statistical analyses were provided, ITT was favoured over OT for results interpretation for all but one study, inappropriately in this statistical context. All but two of the studies concluded there was "similar" efficacy of the experimental group. However, 9/18 had inconclusive results for non-inferiority. CONCLUSION: Conclusions about non-inferiority should be drawn on the basis of the confidence interval analysis of an appropriate primary endpoint, using the predefined criteria for non-inferiority, in both OT and ITT, in compliance with the non-inferiority and equivalence CONSORT statement. We suggest that the use of the non-inferiority chi-square test may provide additional useful information.},
affiliation = {Inserm UMR-S 707, Paris, F-75012, Universit{\'e} Pierre et Marie Curie-Paris6, UMR-S 707, Paris, F-75012, France. parienti-jj@chu-caen.fr},
pages = {46},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Treatment Outcome, Chi-Square Distribution, Statistics: Nonparametric, Humans, Confidence Intervals, Research Design, Therapeutic Equivalency, Acquired Immunodeficiency Syndrome, Endpoint Determination, Randomized Controlled Trials as Topic, Peer Review: Research, Drug Evaluation, Anti-Retroviral Agents, Guideline Adherence},
date-added = {2010-02-23 08:29:43 +0100},
date-modified = {2010-02-23 08:29:43 +0100},
doi = {10.1186/1471-2288-6-46},
pii = {1471-2288-6-46},
pmid = {16987409},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parienti-2006-BMC%20Med%20Res%20Methodol_Methodological%20stand.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6453},
read = {Yes},
rating = {0}
}
@article{Yuan:2004p12311,
author = {M Yuan and Y Lin},
title = {Model Selection and Estimation in Regression with Grouped Variables},
abstract = {We consider the problem of selecting grouped variables (factors) for accurate predic- tion in regression. Such a problem arises naturally in many practical situations with the multi-factor ANOVA problem as the most important and well known example. Instead of selecting factors by stepwise backward elimination, we focus on estimation accuracy and consider extensions of the LASSO, the LARS, and the nonnegative garrote for factor selection. The LASSO, the LARS, and the nonnegative garrote are recently proposed regression methods that can be used to select individual variables. We study and propose efficient algorithms for the extensions of these methods for factor selection, and show that these extensions give superior performance to the traditional stepwise backward elimination method in factor selection problems. We study the similarities and the differences among these methods. Simulations and real examples are used to illustrate the methods.},
year = {2004},
date-added = {2010-06-12 09:28:34 +0200},
date-modified = {2010-06-12 09:29:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yuan-2004-_Model%20Selection%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12311},
rating = {0}
}
@article{Godambe:1970p6321,
author = {V P Godambe},
journal = {The American Statistician},
title = {Foundations of Survey-Sampling},
number = {1},
pages = {33--38},
volume = {24},
year = {1970},
date-added = {2010-02-20 21:16:03 +0100},
date-modified = {2010-07-29 19:51:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Godambe-1970-The%20American%20Statistician_Foundations%20of%20Surve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6321},
rating = {0}
}
@article{Berry:2007p4094,
author = {W D Berry and J Esarey and J H Rubin},
title = {Testing for Interaction in Binary Logit and Probit Models: Is a Product Term Essential?},
abstract = {Political scientists presenting binary dependent variable (BDV) models often offer hypotheses
that independent variables interact in their influence on the probability that an event Y occurs, Pr(Y). A consensus appears to have evolved on how to test such hypotheses: (i) estimate a logit or probit model including product terms to specify the interaction, (ii) test the hypothesis by determining whether the coefficients for these terms are statistically significant, and (iii) if they are, describe the nature of the interaction by estimating how the marginal effect of one independent variable on Pr(Y) varies with the value of the other independent variables. We contend that in the BDV context, statistically significant product term coefficients are neither necessary nor sufficient for concluding that there is substantively meaningful interaction among variables in their influence on Pr(Y). Even when no product terms are included in a logit or probit model, if the marginal effect of one variable on Pr(Y) is related to another independent variable then substantively meaningful interaction is present, and describing such interaction is essential to an accurate portrayal of the data generating process at work. We propose a strategy for studying interaction in the BDV context that is consistent with the recent emphasis in the discipline on casting hypotheses in terms of effects on the probability of an event's occurrence and reporting estimated marginal effects on this probability.},
year = {2007},
date-added = {2010-01-19 23:26:01 +0100},
date-modified = {2010-01-19 23:26:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Berry-2007-_Testing%20for%20Interact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4094},
rating = {0}
}
@article{Gillespie:2003p11412,
author = {NA Gillespie and C R Cloninger and A C Heath and N G Martin},
journal = {Personality and Individual Differences},
title = {The genetic and environmental relationship between Cloninger's dimensions of temperament and character},
abstract = {The purpose of this study was to determine whether Cloninger's revised 7-factor model of personality showed incremental validity over his four dimensions of temperament. A sample of 2517 Australian twins aged over 50 between 1993 and 1995 returned completed self-reported measures of Self-directedness, Cooperativeness, and Self-transcendence from Cloninger's Temperament and Character Inventory. Many of these twins had participated in a 1988 study containing Cloninger's temperament measures of Harm Avoidance, Novelty Seeking, Reward Dependence and Persistence. Contrary to theoretical expectations, univariate analyses revealed that familial aggregation for the character dimensions could be entirely explained by additive gene action alone. Although temperament explained 26, 37 and 10% of additive genetic variance in Self-directedness, Cooperativeness and Self-transcendence, respectively, seven genetic factors were required to explain the genetic variance among the TPQ dimensions, and almost all of the non-shared environmental variance was unique to each dimension of character. Our results indicate that the inclusion of all seven dimensions in a taxonomy of personality is warranted.},
pages = {1931--1946},
volume = {35},
year = {2003},
date-added = {2010-05-01 16:35:46 +0200},
date-modified = {2010-05-01 16:37:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gillespie-2003-Personality%20and%20Individual%20Differences_The%20genetic%20and%20envi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11412},
rating = {0}
}
@article{Chen:2007p2506,
author = {J Chen and A S Sidhu},
title = {Biological Database Modeling},
year = {2007},
date-added = {2010-01-12 13:44:28 +0100},
date-modified = {2010-01-12 13:46:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2007-_Biological%20Database.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2506},
rating = {0}
}
@article{Omenn:2009p3711,
author = {Gilbert S Omenn},
journal = {Annual review of public health},
title = {Overview of the Symposium on Public Health Significance of Genomics and Eco-Genetics},
abstract = {Genomic and genetic information is rapidly becoming a major element in public health research and emerging public health practice. This symposium reviews the methods, findings, and significance of genomewide association studies from epidemiological and statistical points of view. We examine infectious and inflammatory components of geneenvironment interaction in the respiratory system. We note the need for nutrient and dietary data and many other kinds of environmental exposure data in population-based genomic studies. Then we explore the sufficiency of a well-informed family history for public health and family counseling purposes. Finally, in an era of direct-to-consumer genomic test promotion, we review the evidence on the critical question, will genetic risk profiles motivate individuals and families to choose more healthful behaviors? This symposium builds on the foundation of the symposium on Public Health Genetics in Volume 21 (2000) of the Annual Review of Public Health. Expected final online publication date for the Annual Review of Public Health Volume 31 is March 17, 2010. Please see http://www.annualreviews.org/catalog/pubdates.aspx for revised estimates.},
affiliation = {Center for Computational Medicine and Bioinformatics, Departments of Internal Medicine and Human Genetics, and School of Public Health, University of Michigan, Ann Arbor, Michigan 48109-2218; email: gomenn@umich.edu.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-16 20:56:50 +0100},
date-modified = {2010-01-16 20:56:50 +0100},
doi = {10.1146/annurev.publhealth.012809.103639},
pmid = {20001819},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3711},
rating = {0}
}
@article{Cherny:1992p10339,
author = {S S Cherny and J C DeFries and D W Fulker},
journal = {Behav Genet},
title = {Multiple regression analysis of twin data: a model-fitting approach},
abstract = {The multiple regression methodology proposed by DeFries and Fulker (DF; 1985, 1988) for the analysis of twin data is compared with maximum-likelihood estimation of genetic and environmental parameters from covariance structure. Expectations for the regression coefficients from submodels omitting the h2 and c2 terms are derived. Model comparisons similar to those conducted using maximum-likelihood estimation procedures are illustrated using multiple regression. Submodels of the augmented DF model are shown to yield parameter estimates highly similar to those obtained from the traditional latent variable model. While maximum-likelihood estimation of covariance structure may be the optimal statistical method of estimating genetic and environmental parameters, the model-fitting approach we propose is a useful extension to the highly flexible and conceptually simple DF methodology.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder 80309-0447.},
number = {4},
pages = {489--97},
volume = {22},
year = {1992},
month = {Jul},
language = {eng},
keywords = {Models: Genetic, Reading, Twins: Monozygotic, Regression Analysis, Social Environment, Intelligence, Humans, Twins: Dizygotic, Aptitude, Likelihood Functions, Child},
date-added = {2010-04-02 18:17:44 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {1503550},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cherny-1992-Behav%20Genet_Multiple%20regression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10339},
rating = {0}
}
@article{Ferreira:2009p376,
author = {Manuel A R Ferreira and Shaun M Purcell},
journal = {Bioinformatics},
title = {A multivariate test of association},
abstract = {Although genetic association studies often test multiple, related phenotypes, few formal multivariate tests of association are available. We describe a test of association that can be efficiently applied to large population-based designs. AVAILABILITY: A C++ implementation can be obtained from the authors.},
affiliation = {Department of Psychiatry, Massachusetts General Hospital, Boston, USA. manuel.ferreira@qimr.edu.au},
number = {1},
pages = {132--3},
volume = {25},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Multivariate Analysis, Humans, Genetic Predisposition to Disease},
date-added = {2010-01-03 11:48:42 +0100},
date-modified = {2010-01-03 11:48:42 +0100},
doi = {10.1093/bioinformatics/btn563},
pii = {btn563},
pmid = {19019849},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ferreira-2009-Bioinformatics_A%20multivariate%20test.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p376},
rating = {0}
}
@article{Johnson:1999p11756,
author = {D H Johnson},
journal = {Journal of Wildlife Management},
title = {The Insignificance of Statistical Significance Testing},
number = {3},
pages = {763--772},
volume = {63},
year = {1999},
date-added = {2010-05-23 09:56:11 +0200},
date-modified = {2010-05-23 09:57:00 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnson-1999-Journal%20of%20Wildlife%20Management_The%20Insignificance%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11756},
rating = {0}
}
@article{Regier:1984,
author = {DA Regier and JK Myers and M Kramer and LN Robins and DG Blazer and RL Hough and WW Eaton and BZ Locke},
journal = {Arch Gen Psychiatry},
title = {The NIMH Epidemiologic Catchment Area program. Historical context, major objectives, and study population characteristics},
abstract = {The National Institute of Mental Health multisite Epidemiologic Catchment Area (ECA) program is described in the context of four previous psychiatric epidemiologic surveys that included a combined total of 4,000 subjects from Stirling County, the Baltimore Morbidity Study, Midtown Manhattan, and the New Haven third-wave survey. The ECA program is distinguished by its sample size of at least 3,500 subjects per site (about 20,000 total); the focus on Diagnostic Interview Schedule--defined DSM-III mental disorders; the one-year reinterview-based longitudinal design to obtain incidence and service use data; the linkage of epidemiologic and health service use data; and the replication of design and method in multiple sites. Demographic characteristics of community and sample populations are provided for New Haven, Conn, Baltimore, and St Louis.},
number = {10},
pages = {934--941},
volume = {41},
year = {1984},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1053},
rating = {0}
}
@article{Carey:2003p3652,
author = {V J Carey},
journal = {Proceedings of the 3rd International Workshop on Distributed Statistical Computing (DSC 2003)},
title = {Practical uses of external references},
year = {2003},
date-added = {2010-01-16 20:03:46 +0100},
date-modified = {2010-01-16 20:04:09 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carey-2003-Proceedings%20of%20the%203rd%20International%20Workshop%20on%20Distributed%20Statistical%20Computing%20(DSC%202003)_Practical%20uses%20of%20ex.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3652},
rating = {0}
}
@article{Kraemer:2006p6897,
author = {Helena Chmura Kraemer},
journal = {Stat Methods Med Res},
title = {Correlation coefficients in medical research: from product moment correlation to the odds ratio},
abstract = {OBJECTIVE: Presentation of effect sizes that can be interpreted in terms of clinical or practical significance is currently urged whenever statistical significance (a 'p-value') is reported in research journals. However, which effect size and how to interpret it are not yet clearly delineated. The present focus is on effect sizes indicating strength of correlation, that is, effect sizes that describe the strength of monotonic association between two random variables X and Y in a population. METHODS: A logical structure of measures of association is traced, showing the interrelationships among the many measures of association. Advantages and disadvantages of each are discussed. CONCLUSIONS: Suggestions are made for the future use of measures of association in research to facilitate considerations of clinical significance, emphasizing distribution-free effect sizes such as the Spearman correlation coefficient and Kendall's coefficient of concordance for ordinal versus ordinal associations, weighted and intraclass kappa for binary versus binary associations and risk difference (RD) for binary versus ordinal association.},
affiliation = {Department of Psychiatry and Behavioral Sciences, Stanford University, 401 Quarry Road, MC5717 Stanford, CA 94305, USA. hck@stanford.edu},
number = {6},
pages = {525--45},
volume = {15},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Risk Assessment, Multivariate Analysis, Biomedical Research, Data Interpretation: Statistical, Humans, Sample Size, Odds Ratio, Chi-Square Distribution, Research Design},
date-added = {2010-03-06 11:12:17 +0100},
date-modified = {2010-03-06 11:12:21 +0100},
pmid = {17260922},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kraemer-2006-Stat%20Methods%20Med%20Res_Correlation%20coeffici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6897},
rating = {3}
}
@article{Schmitt:1993p2693,
author = {N Schmitt and J M Cortina and D J Whitney},
journal = {Applied Psychological Measurement},
title = {Appropriateness Fit and Criterion-Related Validity},
number = {2},
pages = {143--150},
volume = {17},
year = {1993},
date-added = {2010-01-13 10:13:17 +0100},
date-modified = {2010-07-29 19:16:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmitt-1993-Applied%20Psychological%20Measurement_Appropriateness%20Fit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2693},
rating = {0}
}
@article{Stengel:2008p11565,
author = {Dirk Stengel and Georgio M Calori and Peter V Giannoudis},
journal = {Injury},
title = {Graphical data presentation},
abstract = {Figures and charts are the most influential vehicles for distributing scientific information, for affecting decisions as to the acceptance or rejection of a manuscript, and for attracting the attention of the scientific community to study results. Graphical excellence is mainly defined, first, by the highest possible data density (that is, the amount of information provided per graph area); second, by a low ink-to-data ratio (the avoidance of unnecessary shading, three-dimensionality, gridlines and what is often called 'chartjunk'); and third, by clear and unequivocal labelling of axes. The researcher's essential graphical toolbox should contain histograms, bar charts (always with measures of error), box-and-whiskers plots, scatter plots and forest plots.},
affiliation = {Centre for Clinical Research, Department of Orthopaedic and Trauma Surgery, Unfallkrankenhaus Berlin, Warener Str. 7, 12683 Berlin, Germany. dirk.stengel@ukb.de},
number = {6},
pages = {659--65},
volume = {39},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Statistics as Topic, Periodicals as Topic, Data Interpretation: Statistical, Medical Illustration, Humans},
date-added = {2010-05-01 17:36:50 +0200},
date-modified = {2010-05-01 17:36:51 +0200},
doi = {10.1016/j.injury.2008.01.050},
pii = {S0020-1383(08)00109-5},
pmid = {18502424},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stengel-2008-Injury_Graphical%20data%20prese.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11565},
rating = {0}
}
@article{Miller:2003p4276,
author = {T Miller},
title = {Essay Assessment with Latent Semantic Analysis},
abstract = {Latent semantic analysis (LSA) is an automated, statistical technique for comparing the semantic similarity of words or documents. In this paper, I examine the application of LSA to automated essay scoring. I compare LSA methods to earlier statistical methods for assessing essay quality, and critically review contemporary essay-scoring systems built on LSA, including the Intelligent Essay
Assessor, Summary Street, State the Essence, Apex, and Select-a-Kibitzer.
Finally, I discuss current avenues of research, including LSA's application to computer-measured readability assessment and to automatic summarization of student essays.},
year = {2003},
date-added = {2010-01-23 22:05:14 +0100},
date-modified = {2010-01-23 22:05:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miller-2003-_Essay%20Assessment%20wit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4276},
rating = {0}
}
@article{Hardigan:2008p5885,
author = {Patrick C Hardigan and Manuel J Carvajal},
journal = {J Am Pharm Assoc (2003)},
title = {Application of Rasch rating scale model to analysis of job satisfaction among practicing pharmacists},
abstract = {OBJECTIVE: To demonstrate the application of Rasch analysis in the study of job satisfaction among practicing pharmacists. DESIGN: Cross-sectional survey study. SETTING: Community independent, community chain, hospital, and other pharmacies in the United States in fall 2005. PARTICIPANTS: 790 practicing pharmacists. INTERVENTION: Mailed survey based on past studies of job satisfaction. MAIN OUTCOME MEASURE: Job satisfaction as measured using the Rasch rating scale model (which considers responses on Likert scales as categorical data) and traditional estimation techniques (which assume a continuum among responses on these scales by analyzing data as interval). RESULTS: A gain in precision for the Rasch technique was observed for the constructs distributive justice, job autonomy, job ambiguity, role conflict, positive affectivity, job resources, and supervisory support. No gain in precision was found for the constructs negative affectivity and work involvement. Traditional estimates offered more precision for the constructs job repetition, promotional opportunity, and workload. CONCLUSION: Compared with traditional estimates, Rasch estimates provided more precise scores of job satisfaction on certain subscales, especially those whose mean scores were large or responses more diverse.},
affiliation = {Statistical Consulting Center, Nova Southeastern University, Fort Lauderdale, Fla 33328, USA. patrick@nova.edu},
number = {4},
pages = {522--9},
volume = {48},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Female, Research, Data Interpretation: Statistical, Pharmacists, Humans, United States, Models: Statistical, Research Design, Questionnaires, Cross-Sectional Studies, Male, Job Satisfaction, Psychometrics},
date-added = {2010-02-17 15:16:30 +0100},
date-modified = {2010-02-17 15:16:30 +0100},
doi = {10.1331/JAPhA.2008.07042},
pii = {D674W81G517R8311},
pmid = {18653430},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5885},
rating = {0}
}
@article{Ashton:2004p13851,
author = {Michael C Ashton and Kibeom Lee and Lewis R Goldberg},
journal = {J Pers Soc Psychol},
title = {A hierarchical analysis of 1,710 English personality-descriptive adjectives},
abstract = {The structure of the English personality lexicon was investigated using self-ratings (N = 310) on a set of 1,710 personality-trait adjectives. The 5-factor solution resembled the Big Five structure, but included rotational variants of Agreeableness and Emotional Stability similar to those of other languages. In the 6-factor solution an additional factor, defined by terms such as unpretentious versus sly, resembled an Honesty-Humility factor observed in other languages. The 6-factor solution also produced an especially clear 5th factor, defined by Intellect, Imagination, and Unconventionality content. The hierarchical emergence of factors from 1 to 7 was explored, and the 7-factor solution yielded a Religiosity factor, adding to the diverse array of 7th factors observed in other languages.},
affiliation = {Department of Psychology, Brock University, St. Catharines, ON, Canada. mashton@brocku.ca},
number = {5},
pages = {707--21},
volume = {87},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Terminology as Topic, Humans, Male, Students, Personality Inventory, Personality, Factor Analysis: Statistical, Female, Self Disclosure, Adult},
date-added = {2010-07-29 17:42:45 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
doi = {10.1037/0022-3514.87.5.707},
pii = {2004-20124-011},
pmid = {15535781},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ashton-2004-J%20Pers%20Soc%20Psychol_A%20hierarchical%20analy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13851},
rating = {0}
}
@article{Abeel:2010p5061,
author = {Thomas Abeel and Thibault Helleputte and Yves Van de Peer and Pierre Dupont and Yvan Saeys},
journal = {Bioinformatics},
title = {Robust biomarker identification for cancer diagnosis with ensemble feature selection methods},
abstract = {MOTIVATION: Biomarker discovery is an important topic in biomedical applications of computational biology, including applications such as gene and SNP selection from high-dimensional data. Surprisingly, the stability with respect to sampling variation or robustness of such selection processes has received attention only recently. However, robustness of biomarkers is an important issue, as it may greatly influence subsequent biological validations. In addition, a more robust set of markers may strengthen the confidence of an expert in the results of a selection method. RESULTS: Our first contribution is a general framework for the analysis of the robustness of a biomarker selection algorithm. Secondly, we conducted a large-scale analysis of the recently introduced concept of ensemble feature selection, where multiple feature selections are combined in order to increase the robustness of the final set of selected features. We focus on selection methods that are embedded in the estimation of support vector machines (SVMs). SVMs are powerful classification models that have shown state-of-the-art performance on several diagnosis and prognosis tasks on biological data. Their feature selection extensions also offered good results for gene selection tasks. We show that the robustness of SVMs for biomarker discovery can be substantially increased by using ensemble feature selection techniques, while at the same time improving upon classification performances. The proposed methodology is evaluated on four microarray datasets showing increases of up to almost 30% in robustness of the selected biomarkers, along with an improvement of approximately 15% in classification performance. The stability improvement with ensemble methods is particularly noticeable for small signature sizes (a few tens of genes), which is most relevant for the design of a diagnosis or prognosis model from a gene signature. CONTACT: yvan.saeys@psb.ugent.be SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.},
affiliation = {Department of Plant Systems Biology, VIB, Technologiepark 927, 9052 Gent, Department of Molecular Genetics, Ghent University, Gent, Department of Computing Science and Engineering INGI and Machine Learning Group, Universit{\'e} catholique de Louvain, Louvain, Belgium.},
number = {3},
pages = {392--8},
volume = {26},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-05 20:05:44 +0100},
date-modified = {2010-02-05 20:05:44 +0100},
doi = {10.1093/bioinformatics/btp630},
pii = {btp630},
pmid = {19942583},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abeel-2010-Bioinformatics_Robust%20biomarker%20ide.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5061},
rating = {0}
}
@article{McArdle:2005p4940,
author = {John J McArdle and Carol A Prescott},
journal = {Behav Genet},
title = {Mixed-effects variance components models for biometric family analyses},
abstract = {Recent substantive research on biometric analyses of twin and family data has used both a biometric path analysis model (PAM) and a biometric variance components model (VCM). Methodological research on these same topics have suggested benefits of using linear structural equation model algorithms (SEMA) as well as mixed effect multilevel algorithms (MEMA). To better understand the potential similarities and differences among these approaches we first highlight the algebraic equivalence between the standard biometric PAM and the corresponding biometric VCM models for family data. Second, we demonstrate how several SEMA programs based on either the PAM or VCM approach produce equivalent estimates for all phenotypic and biometric parameters. Third, we show how the biometric VCM approach (but not the PAM approach) can be easily programmed using current MEMA programs (e.g., SAS PROC MIXED). We then expand the scope of these different approaches to include measured covariates, observed variable interactions and multiple relatives within each family. MEMA software is compared to SEMA software for programming complex models, including the flexibility of data input, treatment of missing data, inclusion of covariates, and ease of accommodating varying numbers of observations (per family or individual).},
affiliation = {Department of Psychology, University of Southern California, Los Angeles, CA 90089, USA.},
number = {5},
pages = {631--52},
volume = {35},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Humans, Pedigree, Multivariate Analysis, Biometry, Algorithms, Linear Models, Twins, Family Health, Models: Genetic, Software, Models: Statistical, Twin Studies as Topic, Genetic Variation},
date-added = {2010-02-03 20:58:47 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-005-2868-1},
pmid = {16184490},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4940},
rating = {0}
}
@article{Norquist:2003,
author = {Josephine M Norquist and Ray Fitzpatrick and Crispin Jenkinson},
journal = {Journal of Applied Measurement},
title = {Rasch measurement in the assessment of amytrophic lateral sclerosis patients},
number = {3},
pages = {249--257},
volume = {4},
year = {2003},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Norquist-2003-Journal%20of%20Applied%20Measurement_Rasch%20measurement%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1959},
rating = {0}
}
@article{Browne:2010p6658,
author = {John Patrick Browne and Jan H van der Meulen and James D Lewsey and Donna L Lamping and Nick Black},
journal = {Journal of Clinical Epidemiology},
title = {Mathematical coupling may account for the association between baseline severity and minimally important difference values},
abstract = {OBJECTIVE: To generate anchor-based values for the "minimally important difference" (MID) for a number of commonly used patient-reported outcome (PRO) measures and to examine whether these values could be applied across the continuum of preoperative patient severity. STUDY DESIGN AND SETTING: Six prospective cohort studies of patients undergoing elective surgery at hospitals in England and Wales. Patients completed questionnaires about their health and health-related quality of life before and after surgery. MID values were calculated using the mean change score for a reference group of patients who reported they were "a little better" after surgery minus the mean change score for those who said they were "about the same." Pearson's correlation was used to examine the association between baseline severity and change scores in the reference group. Baseline severity was expressed in two ways: first in terms of preoperative scores and second in terms of the average of pre- and postoperative scores (Oldham's method). RESULTS: Of the 10 PRO measures examined, eight demonstrated a moderate or high positive association between preoperative scores and MID values. Only two measures demonstrated such an association when Oldham's measure of baseline severity was used. CONCLUSION: In general, there is little association between baseline severity and MID values. However, a moderate association persists for some measures, and it is recommended that researchers continue to test for this relationship when generating anchor-based MID values from change scores.},
affiliation = {Health Services Research Unit, Department of Public Health and Policy, London School of Hygiene and Tropical Medicine, London, UK.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-03 20:40:56 +0100},
date-modified = {2010-03-03 20:40:56 +0100},
doi = {10.1016/j.jclinepi.2009.10.004},
pii = {S0895-4356(09)00349-7},
pmid = {20172689},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Browne-2010-Journal%20of%20Clinical%20Epidemiology_Mathematical%20couplin-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6658},
rating = {0}
}
@article{Dominicus:2003p5215,
author = {A Dominicus},
title = {Latent variable models for longitudinal
twin data with dropout and death},
year = {2003},
date-added = {2010-02-08 19:27:08 +0100},
date-modified = {2010-02-08 19:27:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dominicus-2003-_Latent%20variable%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5215},
rating = {0}
}
@article{ALMarshadi:2010p14042,
author = {A H AL-Marshadi},
journal = {Journal of Applied Sciences Research},
title = {Comprison of Model Selection Critaria for Multivariate Regression Model with Mixed Model},
abstract = {This article considers the analysis of multivariate regression experiment that is used frequently in variety of applications research. We used simulation study to compare five model selection criteria in terms of their ability to identify the right multivariate regression model that has the right covariance structure and in the same time the right multivariate model structure. The comparison of the five model selection criteria was in terms of their percentage of number of times that they identify the right model. The simulation results indicate that overall, the percentages of identifying the right multivariate regression model from both standard and non-standard multivariate model structures were low except for specific models that involve the indicator variable. In the same time the five criterions showed similar performance where CAIC and BIC have the best performance in the case of succeed in selecting the right multivariate regression model that has the right covariance structure and in the same time the right multivariate model structure.},
number = {2},
pages = {107--120},
volume = {6},
year = {2010},
date-added = {2010-08-10 12:38:14 +0200},
date-modified = {2010-08-10 12:39:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/AL-Marshadi-2010-Journal%20of%20Applied%20Sciences%20Research_Comprison%20of%20Model%20S.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14042},
rating = {0}
}
@article{Fenner:2008p422,
author = {Lukas Fenner and Matthias Egger},
journal = {Int J Epidemiol},
title = {Preventing HIV in resource-limited settings: evidence for action, from cross-sectional surveys},
number = {6},
pages = {1201--3},
volume = {37},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Male, World Health, Humans, Educational Status, Cross-Sectional Studies, Socioeconomic Factors, Female, HIV-1, Young Adult, Adult, Risk Factors, HIV Infections},
date-added = {2010-01-03 12:19:43 +0100},
date-modified = {2010-01-03 12:19:43 +0100},
doi = {10.1093/ije/dyn264},
pii = {dyn264},
pmid = {19047079},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fenner-2008-Int%20J%20Epidemiol_Preventing%20HIV%20in%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p422},
rating = {0}
}
@article{Goldbeck:2006p8461,
author = {Lutz Goldbeck},
journal = {Qual Life Res},
title = {The impact of newly diagnosed chronic paediatric conditions on parental quality of life},
abstract = {OBJECTIVE: Parental functioning and well-being are important aspects of a family's adaptation to chronic paediatric conditions. This study investigates the effects of diagnosis (cancer vs. diabetes/epilepsy) and time since diagnosis on parental quality of life (PQL). METHODS: 122 parents (66 mothers, 56 fathers), whose children were diagnosed and treated for one chronic disease, filled in the Ulm Quality of Life Inventory for Parents twice within the first three months after the initial diagnosis. The effects of diagnosis and time (1-2 weeks and 2-3 months after diagnosis) on PQL were analysed separately for mothers and fathers. RESULTS: Parents of a child with cancer consistently reported lower PQL compared with parents of a child with diabetes/epilepsy. Only the fathers' well-being increased significantly within the first three months after the child was diagnosed for a chronic disease. However, in most of the PQL domains there was a persistent impairment within the time-frame of this study. Parents of children with a chronic disease were more satisfied with their family situation than healthy controls. Age of the child was positively correlated with PQL. CONCLUSIONS: A diagnosis of cancer, especially in young children, has a strong negative effect on PQL. Measuring PQL in a preventive approach would help to identify vulnerable parents and to provide psychosocial support in time.},
affiliation = {Department for Child and Adolescent Psychiatry/Psychotherapy, University Clinic Ulm, Steinhoevelstr. 5, D-89075 Ulm, Germany. lutz.goldbeck@uniklinik-ulm.de},
number = {7},
pages = {1121--31},
volume = {15},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Neoplasms, Parents, Quality of Life, Adaptation: Psychological, Female, Child: Preschool, Germany, Male, Pediatrics, Child, Child Welfare, Questionnaires, Humans},
date-added = {2010-03-21 17:59:35 +0100},
date-modified = {2010-07-29 19:48:31 +0200},
doi = {10.1007/s11136-006-0068-y},
pmid = {16972156},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8461},
rating = {0}
}
@article{AndriesvanderArk:2007p1556,
author = {L Andries van der Ark and M A Croon and K Sijstma},
journal = {Psychometrika},
title = {Mokken scale analysis for dichotomous items using marginal models},
abstract = {Scalability coefficients play an important role in Mokken scale analysis. For a set of items, scalability coefficients have been defined for each pair of items, for each individual item, and for the entire scale. Hypothesis testing with respect to these scalability coefficients has not been fully developed. This study introduces marginal modelling as a framework to derive the standard errors for the scaling coefficients and test hypotheses about these coefficients. Several examples demonstrate the possibilities of marginal modelling in Mokken scale analysis. These possibilities include testing whether Mokken's criteria for a scale are satisfied, testing whether scalability coefficients of different items are equal, and testing whether scalability coefficients are equal across different groups.},
year = {2007},
keywords = {test construction, Mokken scale analysis, marginal models, scalability coefficients},
date-added = {2010-01-07 16:41:29 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
doi = {10.1007/S11336-007-9034-Z},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andries%20van%20der%20Ark-2007-Psychometrika_Mokken%20scale%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1556},
rating = {4}
}
@article{Tusher:2001p3539,
author = {V G Tusher and R Tibshirani and G Chu},
journal = {Proc Natl Acad Sci USA},
title = {Significance analysis of microarrays applied to the ionizing radiation response},
abstract = {Microarrays can measure the expression of thousands of genes to identify changes in expression between different biological states. Methods are needed to determine the significance of these changes while accounting for the enormous number of genes. We describe a method, Significance Analysis of Microarrays (SAM), that assigns a score to each gene on the basis of change in gene expression relative to the standard deviation of repeated measurements. For genes with scores greater than an adjustable threshold, SAM uses permutations of the repeated measurements to estimate the percentage of genes identified by chance, the false discovery rate (FDR). When the transcriptional response of human cells to ionizing radiation was measured by microarrays, SAM identified 34 genes that changed at least 1.5-fold with an estimated FDR of 12%, compared with FDRs of 60 and 84% by using conventional methods of analysis. Of the 34 genes, 19 were involved in cell cycle regulation and 3 in apoptosis. Surprisingly, four nucleotide excision repair genes were induced, suggesting that this repair pathway for UV-damaged DNA might play a previously unrecognized role in repairing DNA damaged by ionizing radiation.},
affiliation = {Departments of Medicine and Biochemistry, Stanford University, 269 Campus Drive, Center for Clinical Sciences Research 1115, Stanford, CA 94305-5151, USA.},
number = {9},
pages = {5116--21},
volume = {98},
year = {2001},
month = {Apr},
language = {eng},
keywords = {Cell Cycle, DNA Repair, Gene Expression Regulation, Apoptosis, Statistics as Topic, RNA: Messenger, Reproducibility of Results, Down-Regulation, Up-Regulation, Radiation: Ionizing, Humans, Tumor Cells: Cultured, Oligonucleotide Array Sequence Analysis, DNA Damage, Gene Expression Profiling},
date-added = {2010-01-15 20:54:34 +0100},
date-modified = {2010-01-15 20:54:34 +0100},
doi = {10.1073/pnas.091062498},
pii = {091062498},
pmid = {11309499},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tusher-2001-Proc%20Natl%20Acad%20Sci%20USA_Significance%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3539},
rating = {0}
}
@article{Zhao:2006p3187,
author = {Jing Hua Zhao and Qihua Tan},
journal = {Hum Genomics},
title = {Integrated analysis of genetic data with R},
abstract = {Genetic data are now widely available. There is, however, an apparent lack of concerted effort to produce software systems for statistical analysis of genetic data compared with other fields of statistics. It is often a tremendous task for end-users to tailor them for particular data, especially when genetic data are analysed in conjunction with a large number of covariates. Here, R (http://www.r-project.org), a free, flexible and platform-independent environment for statistical modelling and graphics is explored as an integrated system for genetic data analysis. An overview of some packages currently available for analysis of genetic data is given. This is followed by examples of package development and practical applications. With clear advantages in data management, graphics, statistical analysis, programming, internet capability and use of available codes, it is a feasible, although challenging, task to develop it into an integrated platform for genetic analysis; this will require the joint efforts of many researchers.},
affiliation = {Strangeways Research Laboratory, Wort's Causeway, Cambridge, CB1 8RN, UK. jhz22@medschl.cam.ac.uk},
number = {4},
pages = {258--65},
volume = {2},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Humans, Genetic Techniques, Software, Algorithms, Genetics: Medical},
date-added = {2010-01-14 20:46:44 +0100},
date-modified = {2010-01-14 20:46:44 +0100},
pmid = {16460651},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3187},
rating = {0}
}
@article{Valet:2008p7505,
author = {Fabien Valet and Christiane Guinot and Khaled Ezzedine and Jean-Yves Mary},
journal = {Journal of Clinical Epidemiology},
title = {Quality assessment of ordinal scale reproducibility: log-linear models provided useful information on scale structure},
abstract = {OBJECTIVE: In health research, ordinal scales are extensively used. Reproducibility of ratings using these scales is important to assess their quality. This study aimed to compare two methods analyzing reproducibility: weighted Kappa statistic and log-linear models. STUDY DESIGN AND SETTING: Contributions of each method to the reproducibility assessment of ratings using ordinal scales were compared using intra- and interobserver data chosen in three different fields: Crow's feet scale in dermatology, dysplasia scale in oncology, updated Sydney scale in gastroenterology. RESULTS: Both methods provided an agreement level. In addition, log-linear models allowed evaluation of the structure of agreement. For the Crow's feet scale, both methods gave equivalent high agreement levels. For the dysplasia scale, log-linear models highlighted scale defects and Kappa statistic showed a moderate agreement. For the updated Sydney scale, log-linear models underlined a null distinguishability between two adjacent categories, whereas Kappa statistic gave a high global agreement level. CONCLUSION: Methods that can investigate level and structure of agreement between ordinal ratings are valuable tools, since they may highlight heterogeneities within the scales structure and suggest modifications to improve their reproducibility.},
affiliation = {Inserm U717, D{\'e}partement de Biostatistique et Informatique M{\'e}dicale, Saint-Louis Hospital, 1 Avenue Claude Vellefaux, F-75010 Paris, University Paris 7, France. fabien.valet@paris7.jussieu.fr},
number = {10},
pages = {983--90},
volume = {61},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Adenoma, Linear Models, Helicobacter Infections, Reproducibility of Results, Female, Observer Variation, Humans, Data Interpretation: Statistical, Biopsy, Skin Aging, Colorectal Neoplasms, Helicobacter pylori},
date-added = {2010-03-10 20:47:25 +0100},
date-modified = {2010-03-10 20:47:25 +0100},
doi = {10.1016/j.jclinepi.2007.11.004},
pii = {S0895-4356(07)00420-9},
pmid = {18502608},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Valet-2008-Journal%20of%20Clinical%20Epidemiology_Quality%20assessment%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7505},
rating = {3}
}
@article{Voelkle:2007,
author = {M C Voelkle and P L Ackerman and W W Wittmann},
journal = {Methodology},
title = {Effect sizes and F ratios < 1.0},
abstract = {Standard statistics texts indicate that the expected value of the F ratio is 1.0 (more precisely: N/(N-2)) in a completely balanced fixed-effects ANOVA, when the null hypothesis is true. Even though some authors suggest that the null hypothesis is rarely true in practice (e.g., Meehl, 1990), F ratios < 1.0 are reported quite frequently in the literature. However, standard effect size statistics (e.g., Cohen's f) often yield positive values when F < 1.0, which appears to create confusion about the meaningfulness of effect size statistics when the null hypothesis may be true. Given the repeated emphasis on reporting effect sizes, it is shown that in the face of F < 1.0 it is misleading to only report sample effect size estimates as often recommended. Causes of F ratios < 1.0 are reviewed, illustrated by a short simulation study. The calculation and interpretation of corrected and uncorrected effect size statistics under these conditions are discussed. Computing adjusted measures of association strength and incorporating effect size confidence intervals are helpful in an effort to reduce confusion surrounding results when sample sizes are small. Detailed recommendations are directed to authors, journal editors, and reviewers.},
pages = {35--46},
volume = {3},
year = {2007},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2207},
rating = {0}
}
@article{Vivilaki:2009p7857,
author = {Victoria G Vivilaki and Vassilis Dafermos and Manolis Kogevinas and Panos Bitsios and Christos Lionis},
journal = {BMC Public Health},
title = {The Edinburgh Postnatal Depression Scale: translation and validation for a Greek sample},
abstract = {BACKGROUND: Edinburgh Postnatal Depression Scale (EPDS) is an important screening instrument that is used routinely with mothers during the postpartum period for early identification of postnatal depression. The purpose of this study was to validate the Greek version of EPDS along with sensitivity, specificity and predictive values. METHODS: 120 mothers within 12 weeks postpartum were recruited from the perinatal care registers of the Maternity Departments of 4 Hospitals of Heraklion municipality, Greece. EPDS and Beck Depression Inventory-II (BDI-II) surveys were administered in random order to the mothers. Each mother was diagnosed with depression according to the validated Greek version of BDI-II. The psychometric measurements that were performed included: two independent samples t-tests, One-way analysis of variance (ANOVA), reliability coefficients, Explanatory factor analysis using a Varimax rotation and Principal Components Method. Confirmatory analysis -known as structural equation modelling- of principal components was conducted by LISREL (Linear Structural Relations). A receiver operating characteristic (ROC) analysis was carried out to evaluate the global functioning of the scale. RESULTS: 8 (6.7%) of the mothers were diagnosed with major postnatal depression, 14 (11.7%) with moderate and 38 (31.7%) with mild depression on the basis of BDI-II scores. The internal consistency of the EPDS Greek version -using Chronbach's alpha coefficient- was found 0.804 and that of Guttman split-half coefficient 0.742. Our findings confirm the multidimensionality of EPDS, demonstrating a two-factor structure which contained subscales reflecting depressive symptoms and anxiety. The Confirmatory Factor analysis demonstrated that the two factor model offered a very good fit to our data. The area under ROC curve AUC was found 0.7470 and the logistic estimate for the threshold score of 8/9 fitted the model sensitivity at 76.7% and model specificity at 68.3%. CONCLUSION: Our data confirm the validity of the Greek version of the EPDS in identifying postnatal depression. The Greek EPDS scale could be used as a useful instrument in both clinical practice and research.},
affiliation = {Department of Social Medicine, Faculty of Medicine, University of Crete, Heraklion, Greece. v_vivilaki@yahoo.co.uk},
pages = {329},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Pilot Projects, Sensitivity and Specificity, Psychometrics, Analysis of Variance, Greece, Depression: Postpartum, Female},
date-added = {2010-03-18 21:07:23 +0100},
date-modified = {2010-03-18 21:07:23 +0100},
doi = {10.1186/1471-2458-9-329},
pii = {1471-2458-9-329},
pmid = {19740443},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vivilaki-2009-BMC%20Public%20Health_The%20Edinburgh%20Postna.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7857},
rating = {0}
}
@article{Arnau:2001p14000,
author = {R C Arnau and M W Meagher and M P Norris and R Bramson},
journal = {Health Psychol},
title = {Psychometric evaluation of the Beck Depression Inventory-II with primary care medical patients},
abstract = {This study evaluated the psychometric characteristics of the Beck Depression Inventory-II (BDI-II; A. T. Beck, R. A. Steer, {\&} G. K. Brown, 1996) in a primary care medical setting. A principal-components analysis with Promax rotation indicated the presence of 2 correlated factors, Somatic-Affective and Cognitive, which explained 53.5% of the variance. A hierarchical, second-order analysis indicated that all items tap into a second-order construct of depression. Evidence for convergent validity was provided by predicted relationships with subscales from the Short-Form General Health Survey (SF-20; A. L. Stewart, R. D. Hayes, {\&} J. E. Ware, 1988). A receiver operating characteristic analysis demonstrated criterion-related validity: BDI-II scores predicted a diagnosis of major depressive disorder (MDD), as determined by the Primary Care Evaluation of Mental Disorders (PRIME-MD) Patient Health Questionnaire (PHQ). This study demonstrated that the BDI-II yields reliable, internally consistent, and valid scores in a primary care medical setting, suggesting that use of the BDI-II in this setting may improve detection and treatment of depression in these medical patients.},
affiliation = {Department of Psychology, Texas A{\&}M University, College Station 77843-4235, USA.},
number = {2},
pages = {112--9},
volume = {20},
year = {2001},
month = {Mar},
language = {eng},
keywords = {Psychiatric Status Rating Scales, Adolescent, Humans, Female, Sensitivity and Specificity, Middle Aged, Psychometrics, Adult, Depressive Disorder, Mass Screening, Male, Primary Health Care},
date-added = {2010-08-04 09:27:40 +0200},
date-modified = {2010-08-04 09:27:40 +0200},
pmid = {11315728},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arnau-2001-Health%20Psychol_Psychometric%20evaluat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14000},
rating = {0}
}
@article{Chiang:2009p8927,
author = {Ming-Chang Chiang and Marina Barysheva and David W Shattuck and Agatha D Lee and Sarah K Madsen and Christina Avedissian and Andrea D Klunder and Arthur W Toga and Katie L McMahon and Greig I de Zubicaray and Margaret J Wright and Anuj Srivastava and Nikolay Balov and Paul M Thompson},
journal = {J Neurosci},
title = {Genetics of brain fiber architecture and intellectual performance},
abstract = {The study is the first to analyze genetic and environmental factors that affect brain fiber architecture and its genetic linkage with cognitive function. We assessed white matter integrity voxelwise using diffusion tensor imaging at high magnetic field (4 Tesla), in 92 identical and fraternal twins. White matter integrity, quantified using fractional anisotropy (FA), was used to fit structural equation models (SEM) at each point in the brain, generating three-dimensional maps of heritability. We visualized the anatomical profile of correlations between white matter integrity and full-scale, verbal, and performance intelligence quotients (FIQ, VIQ, and PIQ). White matter integrity (FA) was under strong genetic control and was highly heritable in bilateral frontal (a(2)=0.55, p=0.04, left; a(2)=0.74, p=0.006, right), bilateral parietal (a(2)=0.85, p<0.001, left; a(2)=0.84, p<0.001, right), and left occipital (a(2)=0.76, p=0.003) lobes, and was correlated with FIQ and PIQ in the cingulum, optic radiations, superior fronto-occipital fasciculus, internal capsule, callosal isthmus, and the corona radiata (p=0.04 for FIQ and p=0.01 for PIQ, corrected for multiple comparisons). In a cross-trait mapping approach, common genetic factors mediated the correlation between IQ and white matter integrity, suggesting a common physiological mechanism for both, and common genetic determination. These genetic brain maps reveal heritable aspects of white matter integrity and should expedite the discovery of single-nucleotide polymorphisms affecting fiber connectivity and cognition.},
affiliation = {Laboratory of Neuro Imaging, Department of Neurology, University of California, Los Angeles, School of Medicine, Los Angeles, California 90095-7334, USA.},
number = {7},
pages = {2212--24},
volume = {29},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Intelligence, Inheritance Patterns, Nerve Fibers: Myelinated, Diffusion Magnetic Resonance Imaging, Young Adult, Adult, Neural Pathways, Quantitative Trait: Heritable, Male, Phenotype, Nerve Net, Cognition, Female, Brain, Intelligence Tests, Brain Mapping, Gene Expression Regulation: Developmental, Humans, Environment},
date-added = {2010-03-22 13:03:38 +0100},
date-modified = {2010-07-29 19:52:28 +0200},
doi = {10.1523/JNEUROSCI.4184-08.2009},
pii = {29/7/2212},
pmid = {19228974},
url = {http://www.jneurosci.org/cgi/content/full/29/7/2212},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chiang-2009-J%20Neurosci_Genetics%20of%20brain%20fi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8927},
rating = {0}
}
@misc{Bates:1998,
author = {Douglas M Bates and Jos{\'e} C Pinheiro},
journal = {Miscellaneous},
title = {Computational methods for multilevel modelling},
year = {1998},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:40:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bates-1998-Miscellaneous_Computational%20method.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1111},
rating = {0}
}
@article{Brun:2009p9824,
author = {Caroline C Brun and Natasha Lepor{\'e} and Xavier Pennec and Agatha D Lee and Marina Barysheva and Sarah K Madsen and Christina Avedissian and Yi-Yu Chou and Greig I de Zubicaray and Katie L McMahon and Margaret J Wright and Arthur W Toga and Paul M Thompson},
journal = {Neuroimage},
title = {Mapping the regional influence of genetics on brain structure variability--a tensor-based morphometry study},
abstract = {Genetic and environmental factors influence brain structure and function profoundly. The search for heritable anatomical features and their influencing genes would be accelerated with detailed 3D maps showing the degree to which brain morphometry is genetically determined. As part of an MRI study that will scan 1150 twins, we applied Tensor-Based Morphometry to compute morphometric differences in 23 pairs of identical twins and 23 pairs of same-sex fraternal twins (mean age: 23.8+/-1.8 SD years). All 92 twins' 3D brain MRI scans were nonlinearly registered to a common space using a Riemannian fluid-based warping approach to compute volumetric differences across subjects. A multi-template method was used to improve volume quantification. Vector fields driving each subject's anatomy onto the common template were analyzed to create maps of local volumetric excesses and deficits relative to the standard template. Using a new structural equation modeling method, we computed the voxelwise proportion of variance in volumes attributable to additive (A) or dominant (D) genetic factors versus shared environmental (C) or unique environmental factors (E). The method was also applied to various anatomical regions of interest (ROIs). As hypothesized, the overall volumes of the brain, basal ganglia, thalamus, and each lobe were under strong genetic control; local white matter volumes were mostly controlled by common environment. After adjusting for individual differences in overall brain scale, genetic influences were still relatively high in the corpus callosum and in early-maturing brain regions such as the occipital lobes, while environmental influences were greater in frontal brain regions that have a more protracted maturational time-course.},
affiliation = {Laboratory of Neuro Imaging, Department of Neurology, UCLA School of Medicine, 635 Charles Young Drive South Suite 225, Los Angeles, CA 90095-7334, USA.},
number = {1},
pages = {37--49},
volume = {48},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Sequence Analysis: DNA, Brain, Twins: Monozygotic, Female, Twins: Dizygotic, Phenotype, Humans, Male, Environment, Models: Neurological, Young Adult, Magnetic Resonance Imaging, Adult, Image Processing: Computer-Assisted, Organ Size},
date-added = {2010-03-26 19:22:47 +0100},
date-modified = {2010-03-26 19:22:47 +0100},
doi = {10.1016/j.neuroimage.2009.05.022},
pii = {S1053-8119(09)00494-7},
pmid = {19446645},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9824},
rating = {0}
}
@misc{Rudner:2001,
author = {Lawrence M Rudner},
journal = {Miscellaneous},
title = {Measurement Decision Theory},
year = {2001},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rudner-2001-Miscellaneous_Measurement%20Decision.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2128},
rating = {0}
}
@article{Vinkhuyzen:2009p7217,
author = {Anna A E Vinkhuyzen and Sophie van der Sluis and Danielle Posthuma and Dorret I Boomsma},
journal = {Behav Genet},
title = {The heritability of aptitude and exceptional talent across different domains in adolescents and young adults},
abstract = {The origin of individual differences in aptitude, defined as a domain-specific skill within the normal ability range, and talent, defined as a domain specific skill of exceptional quality, is under debate. The nature of the variation in aptitudes and exceptional talents across different domains was investigated in a population based twin sample. Self-report data from 1,685 twin pairs (12-24 years) were analyzed for Music, Arts, Writing, Language, Chess, Mathematics, Sports, Memory, and Knowledge. The influence of shared environment was small for both aptitude and talent. Additive and non-additive genetic effects explained the major part of the substantial familial clustering in the aptitude measures with heritability estimates ranging between .32 and .71. Heritability estimates for talents were higher and ranged between .50 and .92. In general, the genetic architecture for aptitude and talent was similar in men and women. Genetic factors contribute to a large extent to variation in aptitude and talent across different domains of intellectual, creative, and sports abilities.},
affiliation = {Department of Biological Psychology, VU University Amsterdam, Amsterdam, The Netherlands. aae.vinkhuyzen@psy.vu.nl},
number = {4},
pages = {380--92},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Male, Humans, Twins: Monozygotic, Adolescent, Epistasis: Genetic, Young Adult, Twins: Dizygotic, Cluster Analysis, Female, Child, Child: Gifted, Aptitude, Social Environment},
date-added = {2010-03-08 19:25:54 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9260-5},
pmid = {19288254},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vinkhuyzen-2009-Behav%20Genet_The%20heritability%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7217},
rating = {0}
}
@article{deKieviet:2009p8592,
author = {Jorrit F de Kieviet and Jan P Piek and Cornelieke S Aarnoudse-Moens and Jaap Oosterlaan},
journal = {JAMA},
title = {Motor development in very preterm and very low-birth-weight children from birth to adolescence: a meta-analysis},
abstract = {CONTEXT: Infants who are very preterm (born < or = 32 weeks of gestation) and very low birth weight (VLBW) (weighing < or = 1500 g) are at risk for poor developmental outcomes. There is increasing evidence that very preterm birth and VLBW have a considerable effect on motor development, although findings are inconsistent. OBJECTIVE: To investigate the relationship between very preterm birth and VLBW and motor development. DATA SOURCES: The computerized databases EMBASE, PubMed, and Web of Knowledge were used to search for English-language peer-reviewed articles published between January 1992 and August 2009. STUDY SELECTION: Studies were included if they reported motor scores of very preterm and VLBW children without congenital anomalies using 1 of 3 established and widely used motor tests: the Bayley Scales of Infant Development II (BSID-II), the Movement Assessment Battery for Children (MABC), and the Bruininks-Oseretsky Test of Motor Proficiency (BOTMP). Forty-one articles were identified, encompassing 9653 children. RESULTS: In comparison with term-born peers, very preterm and VLBW children obtained significantly lower scores on all 3 motor tests: BSID-II: d = -0.88 (95% confidence interval [CI], -0.96 to -0.80; P < .001), MABC: d = -0.65 (95% CI, -0.70 to -0.60; P < .001), and BOTMP: d = -0.57 (95% CI, -0.68 to -0.46; P < .001). Whereas motor outcomes on the BSID-II show a catch-up effect in the first years of development (r = 0.50, P = .01), the results on the MABC demonstrate a nonsignificantly greater deficit with increasing age during elementary school and early adolescence (r = -0.59, P = .07). CONCLUSION: Being born preterm or VLBW is associated with significant motor impairment persisting throughout childhood.},
affiliation = {Department of Clinical Neuropsychology, VU University Amsterdam, van der Boechorststraat 1, 1081 BT Amsterdam, the Netherlands. jf.de.kieviet@psy.vu.nl},
number = {20},
pages = {2235--42},
volume = {302},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Child, Infant: Premature, Male, Child Development, Confidence Intervals, Female, Adolescent, Gestational Age, Child: Preschool, Motor Skills, Infant, Birth Weight, Humans, Infant: Newborn, Infant: Very Low Birth Weight},
date-added = {2010-03-22 00:13:05 +0100},
date-modified = {2010-03-22 00:13:05 +0100},
doi = {10.1001/jama.2009.1708},
pii = {302/20/2235},
pmid = {19934425},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8592},
rating = {0}
}
@misc{Papadimitriou:1997,
author = {Christos H Papadimitriou and Prabhakar Raghavan and Hisao Tamaki},
journal = {Miscellaneous},
title = {Latent semantic indexing: A probabilistic analysis},
year = {1997},
month = {Nov},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Papadimitriou-1997-Miscellaneous_Latent%20semantic%20inde.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1996},
rating = {0}
}
@inbook{Grice:1975,
author = {HP Grice},
journal = {Book},
title = {Synatx and semantics: Vol. 3. Speech acts},
chapter = {Logic and conversation},
year = {1975},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p945},
rating = {0}
}
@article{Thompson:2001p9807,
author = {P M Thompson and T D Cannon and K L Narr and T van Erp and V P Poutanen and M Huttunen and J L{\"o}nnqvist and C G Standertskj{\"o}ld-Nordenstam and J Kaprio and M Khaledy and R Dail and C I Zoumalan and A W Toga},
journal = {Nat Neurosci},
title = {Genetic influences on brain structure},
abstract = {Here we report on detailed three-dimensional maps revealing how brain structure is influenced by individual genetic differences. A genetic continuum was detected in which brain structure was increasingly similar in subjects with increasing genetic affinity. Genetic factors significantly influenced cortical structure in Broca's and Wernicke's language areas, as well as frontal brain regions (r2(MZ) > 0.8, p < 0.05). Preliminary correlations were performed suggesting that frontal gray matter differences may be linked to Spearman's g, which measures successful test performance across multiple cognitive domains (p < 0.05). These genetic brain maps reveal how genes determine individual differences, and may shed light on the heritability of cognitive and linguistic skills, as well as genetic liability for diseases that affect the human cortex.},
affiliation = {Laboratory of Neuro Imaging and Brain Mapping Division, Department of Neurology, UCLA School of Medicine, 710 Westwood Plaza, Los Angeles, California 90095-1769, USA. thompson@loni.ucla.edu},
number = {12},
pages = {1253--8},
volume = {4},
year = {2001},
month = {Dec},
language = {eng},
keywords = {Verbal Behavior, Middle Aged, Magnetic Resonance Imaging, Twins: Monozygotic, Twin Studies as Topic, Cognition, Functional Laterality, Humans, Adult, Body Patterning, Female, Twins: Dizygotic, Brain Mapping, Image Processing: Computer-Assisted, Intelligence, Cerebral Cortex, Language, Male, Twins, Energy Metabolism, Gene Expression Regulation: Developmental},
date-added = {2010-03-26 19:21:08 +0100},
date-modified = {2010-07-29 19:40:51 +0200},
doi = {10.1038/nn758},
pii = {nn758},
pmid = {11694885},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thompson-2001-Nat%20Neurosci_Genetic%20influences%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9807},
rating = {0}
}
@article{Saucier:2002p13849,
author = {G Saucier and L R Goldberg},
title = {Assessing the Big Five: Applications of 10 psychometric criteria to the development of marker scales},
year = {2002},
date-added = {2010-07-29 17:40:28 +0200},
date-modified = {2010-07-29 17:41:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saucier-2002-_Assessing%20the%20Big%20Fi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13849},
rating = {0}
}
@article{Baron:1986p1663,
author = {R M Baron and D A Kenny},
journal = {J Pers Soc Psychol},
title = {The moderator-mediator variable distinction in social psychological research: conceptual, strategic, and statistical considerations},
abstract = {In this article, we attempt to distinguish between the properties of moderator and mediator variables at a number of levels. First, we seek to make theorists and researchers aware of the importance of not using the terms moderator and mediator interchangeably by carefully elaborating, both conceptually and strategically, the many ways in which moderators and mediators differ. We then go beyond this largely pedagogical function and delineate the conceptual and strategic implications of making use of such distinctions with regard to a wide range of phenomena, including control and stress, attitudes, and personality traits. We also provide a specific compendium of analytic procedures appropriate for making the most effective use of the moderator and mediator distinction, both separately and in terms of a broader causal system that includes both moderators and mediators.},
number = {6},
pages = {1173--82},
volume = {51},
year = {1986},
month = {Dec},
language = {eng},
keywords = {Research, Psychology: Social, Models: Psychological, Personality, Statistics as Topic, Humans, Attitude, Behavior},
date-added = {2010-01-08 21:58:30 +0100},
date-modified = {2010-01-08 21:58:30 +0100},
pmid = {3806354},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baron-1986-J%20Pers%20Soc%20Psychol_The%20moderator-mediat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1663},
rating = {0}
}
@article{Begg:1996,
author = {C Begg and M Cho and S et al Eastwood},
journal = {JAMA},
title = {Improving the quality of reporting of randomized controlled trials: the CONSORT statement},
pages = {637--639},
volume = {276},
year = {1996},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:00:58 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1079},
rating = {0}
}
@article{Li:2009p7763,
author = {X Li and Z Meng and Z Huang},
title = {Intervals for heritability in nested designs},
abstract = {In animal breeding, a more efficient design is the nested design. The purpose of the paper is to consider interval estimation for heritability in nested designs. We propose a novel approach for the interval estimation using the concepts of fiducial inference. A simulation study is conducted to investigate the coverage probabilities of the resulted intervals to the Modified Large Sample (MLS) intervals by Burdick and Graybill. Relative to the MLS approach, the fiducial approach is closer to the nominal coverage for a two-sided interval. The fact shows that the fiducial approach is a suitable candidate for making inference on heritability.},
year = {2009},
date-added = {2010-03-17 20:57:45 +0100},
date-modified = {2010-03-17 20:58:30 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2009-_Intervals%20for%20herita.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7763},
rating = {0}
}
@article{Kooperberg:2005p481,
author = {Charles Kooperberg and Ingo Ruczinski},
journal = {Genet Epidemiol},
title = {Identifying interacting SNPs using Monte Carlo logic regression},
abstract = {Interactions are frequently at the center of interest in single-nucleotide polymorphism (SNP) association studies. When interacting SNPs are in the same gene or in genes that are close in sequence, such interactions may suggest which haplotypes are associated with a disease. Interactions between unrelated SNPs may suggest genetic pathways. Unfortunately, data sets are often still too small to definitively determine whether interactions between SNPs occur. Also, competing sets of interactions could often be of equal interest. Here we propose Monte Carlo logic regression, an exploratory tool that combines Markov chain Monte Carlo and logic regression, an adaptive regression methodology that attempts to construct predictors as Boolean combinations of binary covariates such as SNPs. The goal of Monte Carlo logic regression is to generate a collection of (interactions of) SNPs that may be associated with a disease outcome, and that warrant further investigation. As such, the models that are fitted in the Markov chain are not combined into a single model, as is often done in Bayesian model averaging procedures. Instead, the most frequently occurring patterns in these models are tabulated. The method is applied to a study of heart disease with 779 participants and 89 SNPs. A simulation study is carried out to investigate the performance of the Monte Carlo logic regression approach.},
affiliation = {Division of Public Health Services, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109-1024, USA. clk@fhcrc.org},
number = {2},
pages = {157--70},
volume = {28},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Humans, Monte Carlo Method, Haplotypes, Models: Genetic, Heart Diseases, Logistic Models, Polymorphism: Single Nucleotide},
date-added = {2010-01-03 12:31:23 +0100},
date-modified = {2010-01-03 12:31:23 +0100},
doi = {10.1002/gepi.20042},
pmid = {15532037},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p481},
rating = {0}
}
@misc{Wermuth:2000,
author = {N Wermuth},
journal = {Miscellaneous},
title = {Analysing social science data with graphical Markov models},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wermuth-2000-Miscellaneous_Analysing%20social%20sci.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2119},
rating = {0}
}
@article{Kopp:2009p5114,
author = {Svenny Kopp and Eva Beckung and Christopher Gillberg},
journal = {Res Dev Disabil},
title = {Developmental coordination disorder and other motor control problems in girls with autism spectrum disorder and/or attention-deficit/hyperactivity disorder},
abstract = {Examine the rate, predictors, and effect on daily life skills of developmental coordination disorder (DCD) and other motor control difficulties in school age girls with autism spectrum disorder (ASD) and/or attention-deficit/hyperactivity disorder (ADHD), in preschool age girls with ASD referred to a neuropsychiatric clinic, and in a community sample of school age girls. The girls (131 in total) were examined with standardised test of motor function and parent interviews and questionnaires. The school girls were compared with 57 age-and IQ-matched girls from the community. DCD was diagnosed in 25% of clinic school girls with ASD, in 32% of those with ADHD, and in 80% of the clinic preschool girls with ASD. Parents reported more motor problems in the school age clinic group. Agreement between a brief motor screening test and a full comprehensive motor examination was moderate to good in the clinic group. Young age, autistic symptomatology, and low performance IQ predicted more motor coordination problems. Motor coordination problems were related to lower ability in daily life skills even when the effect of PIQ was controlled for. A large minority of school girls with ASD and/or ADHD, and a majority of preschool girls with ASD meet full diagnostic criteria for DCD. Their motor problems contribute to reduced activity in daily life even when the effects of IQ have been partialled out.},
affiliation = {G{\"o}teborg University, Institute of Neuroscience and Physiology, Sweden.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-02-05 20:17:33 +0100},
date-modified = {2010-02-05 20:17:33 +0100},
doi = {10.1016/j.ridd.2009.09.017},
pii = {S0891-4222(09)00161-9},
pmid = {19910158},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5114},
rating = {0}
}
@article{Cumming:2005p7075,
author = {Geoff Cumming},
journal = {Psychol Sci},
title = {Understanding the average probability of replication: comment on Killeen (2005)},
affiliation = {La Trobe University, Melbourne, Australia. g.cumming@latrobe.edu.au},
number = {12},
pages = {1002--4},
volume = {16},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Humans, Cognition, Child, Probability, Verbal Learning, Verbal Behavior},
date-added = {2010-03-06 20:28:49 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2005.01650.x},
pii = {PSCI1650},
pmid = {16313666},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cumming-2005-Psychol%20Sci_Understanding%20the%20av.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7075},
rating = {0}
}
@article{Lee:2005p1721,
author = {S H Lee and R Terry},
journal = {SUGI 30 Proceedings},
title = {IRT-FIT: SAS{\textregistered} Macros for Fitting Item Response Theory (IRT) Models},
abstract = {Psychometrics has recently seen the development of complex measurement models to better represent test and item data. Item Response Theory (IRT), in particular, comprises a set of non-linear latent variable models that appear to have several conceptual and empirical properties that make them more valuable in practice than classical test theory methods. However, IRT-based models typically require the availability of costly and computationally- intensive software for estimating parameters and assessing model fit. In this paper, we present a set of SAS Macros called IRT-FIT, which use SAS /IML{\textregistered} and SAS/GRAPH{\textregistered} to estimate, fit, and graph two- and three-parameter IRT models to binary test data. The macros currently developed use Bock and Aitkin's (1981) Marginal Maximum Likelihood (MML) estimation algorithm for fitting models and estimating parameters as the basis for the computations. Additionally, we have extended the MML routines by implementing Bayesian Estimation concepts as suggested in Mislevy (1986). All computational routines are written in SAS/IML, and output data sets are produced containing the parameter estimates along with their associated standard errors and overall model fit statistics. Optionally, SAS/GRAPH plots are available of the estimated Item Characteristic Curves (ICC's), the item and test information curves, as well as the standard error curve for estimated latent trait scores. Finally, if the test data come from a rating experiment and a cut-point along the latent variable can be determined, ROC curves using IRT-based estimates of Signal-Detection-Theory concepts are plotted to visually represent rater performance.},
pages = {204--30},
year = {2005},
date-added = {2010-01-09 20:29:55 +0100},
date-modified = {2010-01-09 20:30:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2005-SUGI%2030%20Proceedings_IRT-FIT%20SAS%C2%AE%20Macros.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1721},
rating = {0}
}
@article{Yang:2009p10894,
author = {Frances M Yang and Doug Tommet and Richard N Jones},
journal = {J Psychiatr Res},
title = {Disparities in self-reported geriatric depressive symptoms due to sociodemographic differences: an extension of the bi-factor item response theory model for use in differential item functioning},
abstract = {This study evaluates the measurement noninvariance, or differential item functioning (DIF), in the Center for Epidemiological Studies-Depression (CES-D) items attributable to age, sex, and race/ethnicity among community-dwelling older adults. Participants (N=2773) were from the New Haven site of the Established Populations for Epidemiologic Studies in the Elderly. Statistical analyses included exploratory factor analysis, bi-factor confirmatory factor analysis, and a bi-factor multiple indicator and multiple causes (MIMIC) model to address measurement noninvariance. Blacks, compared with whites, were more likely to endorse items loading on the interpersonal factor, which include "people dislike me" and "people are unfriendly." Women were less likely to endorse the interpersonal items and the "I felt like a failure" item (odds ratio [OR]=0.63, 95% confidence interval [CI]: 0.42, 0.94) than men. But women had a higher proportional odds than men for endorsing the "crying" item (OR=1.86, 95% CI: 1.17, 2.96). Those 75 years and older (relative to those aged 65-74) were less likely to endorse the "I felt like a failure" item (OR=0.65, 95% CI: 0.43, 0.97). However, measurement noninvariance found in both the "crying" and "failure" items were attributable to women and to those aged 75 and older were trivial after controlling for the underlying level of depressive symptomatology. Therefore, the interpersonal items showed measurement noninvariance attributable to sex and race. The bi-factor MIMIC model is useful for examining measurement noninvariance due to sociodemographics in a multidimensional depression instrument.},
affiliation = {Harvard Medical School, Brigham and Women's Hospital, Department of Psychiatry, Institute for Aging Research, Hebrew SeniorLife, 1200 Centre St., Boston, MA 02131, United States. francesyang@hrca.harvard.edu},
number = {12},
pages = {1025--35},
volume = {43},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Age Factors, Healthcare Disparities, Outcome Assessment (Health Care), Female, Demography, Self Concept, Geriatric Assessment, Humans, Aged: 80 and over, Psychiatric Status Rating Scales, Aged, Depression, Male, Ethnic Groups, Models: Statistical},
date-added = {2010-04-10 03:36:19 +0200},
date-modified = {2010-04-10 03:36:28 +0200},
doi = {10.1016/j.jpsychires.2008.12.007},
pii = {S0022-3956(08)00272-0},
pmid = {19211113},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yang-2009-J%20Psychiatr%20Res_Disparities%20in%20self.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10894},
rating = {4}
}
@article{Acton:2002p11665,
author = {G Scott Acton and William Revelle},
journal = {J Pers Assess},
title = {Interpersonal personality measures show circumplex structure based on new psychometric criteria},
abstract = {The importance of the interpersonal circle in organizing the interpersonal domain is complemented by its empirical relations with broader personality taxonomies and with more specific personality variables. Yet circumplex structure in interpersonal measures has often been investigated using the "eyeball test" rather than using circumplex criteria of known effectiveness. Simulations (Acton, 1999) showed the effectiveness of 5 exploratory criteria (3 entirely new) that assess the properties of equal spacing, constant radius, and no preferred rotation. Along with Browne's (1992) criterion, these were applied to the Interpersonal Checklist (ICL; LaForge {\&} Suczek, 1955; N = 763), Interpersonal Adjective Scales (IAS; Wiggins, 1979; Ns = 716 and 187), Revised IAS (IAS-R; Wiggins, Trapnell, {\&} Phillips, 1988; N = 474), Inventory of Interpersonal Problems Circumplex Scales (IIP-C; Alden, Wiggins, {\&} Pincus, 1990; Ns = 616 and 1,381), and Inventory of Interpersonal Goals (IIG; Horowitz, Dryer, {\&} Krasnoperova, 1997; N = 318). In corroboration of interpersonal theory, all showed circumplex structure.},
affiliation = {Langley Porter Psychiatric Institute, University of California, San Francisco 94143-0984, USA. acton@itsa.ucsf.edu},
number = {3},
pages = {446--71},
volume = {79},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Psychometrics, Adult, Factor Analysis: Statistical, Female, Personality Tests, Likelihood Functions, Male, Interpersonal Relations, Humans, United States, Models: Psychological},
date-added = {2010-05-14 20:52:53 +0200},
date-modified = {2010-05-14 20:52:53 +0200},
pmid = {12511015},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Acton-2002-Journal%20of%20Personality%20Assessment_Interpersonal%20person.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11665},
rating = {0}
}
@article{Alfons:2009p14045,
author = {A Alfons and M Templ and P Filzmoser},
title = {simFrame: An object-oriented framework for statistical simulation},
abstract = {Simulation studies are widely used by statisticians to gain insight into the quality of developed methods. Usually some guidelines regarding, e.g., simulation designs, contami- nation, missing data models or evaluation criteria are necessary in order to draw meaning- ful conclusions. The R package simFrame is an object-oriented framework for statistical simulation, which allows researchers to make use of a wide range of simulation designs with a minimal effort of programming. Its object-oriented implementation provides clear interfaces for extensions by the user. Since statistical simulation is an embarrassingly parallel process, simFrame supports parallel computing to increase computational perfor- mance. Furthermore, an appropriate plot method is selected automatically depending on the structure of the simulation results.},
year = {2009},
date-added = {2010-08-10 12:42:33 +0200},
date-modified = {2010-08-10 12:43:23 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Alfons-2009-_simFrame%20An%20object.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14045},
rating = {0}
}
@article{Hsieh:2010p12916,
author = {F Hsieh and E Ferrer and S-C Chen},
journal = {Psychometrika},
title = {Exploring the dynamics of dyadic interactions via hierarchical segmentation},
abstract = {In this article we present an exploratory tool for extracting systematic patterns from multivariate data. The technique, hierarchical segmentation (HS), can be used to group multivariate time series into segments with similar discrete-state recurrence patterns and it is not restricted by the stationarity assump- tion. We use a simulation study to describe the steps and properties of HS. We then use empirical data on daily affect from one couple to illustrate the use of HS for describing the affective dynamics of the dyad. First, we partition the data into three periods that represent different affective states and show different dynamics between both individuals' affect. We then examine the synchrony between both individuals' affective states and identify different patterns of coherence across the periods. Finally, we discuss the pos- sibilities of using results from HS to construct confirmatory dynamic models with multiple change points or regime-specific dynamics.},
number = {2},
pages = {351--372},
volume = {75},
year = {2010},
date-added = {2010-06-24 17:53:12 +0200},
date-modified = {2010-06-24 17:54:20 +0200},
doi = {10.1007/S11336-009-9146-8},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hsieh-2010-Psychometrika_Exploring%20the%20dynami.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12916},
rating = {4}
}
@article{Bolshakova:2006p3590,
author = {N Bolshakova and F Azuaje and P Cunningham},
title = {Incorporating biological domain knowledge into cluster validity assessment},
abstract = {Thispaperpresentsanapproachforassessingclustervalidity based on similarity knowledge extracted from the Gene Ontology (GO) and databases annotated to the GO. A knowledge-driven cluster valid- ity assessment system for microarray data was implemented. Different methods were applied to measure similarity between yeast genes prod- ucts based on the GO. This research proposes two methods for calculat- ing cluster validity indices using GO-driven similarity. The first approach processes overall similarity values, which are calculated by taking into account the combined annotations originating from the three GO hierar- chies. The second approach is based on the calculation of GO hierarchy- independent similarity values, which originate from each of these hierar- chies. A traditional node-counting method and an information content technique have been implemented to measure knowledge-based similar- ity between genes products (biological distances). The results contribute to the evaluation of clustering outcomes and the identification of opti- mal cluster partitions, which may represent an effective tool to support biomedical knowledge discovery in gene expression data analysis.},
year = {2006},
date-added = {2010-01-15 21:16:53 +0100},
date-modified = {2010-01-15 21:17:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bolshakova-2006-_Incorporating%20biolog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3590},
rating = {0}
}
@article{Wright:1988,
author = {B D Wright},
journal = {Applied Psychological Measurement},
title = {The Efficacy of Unconditional Maximum Likelihood Bias Correction},
number = {3},
pages = {315--318},
volume = {12},
year = {1988},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2216},
rating = {0}
}
@article{Baayen:2008p519,
author = {R H Baayen and DJ Davidson and DM Bates},
journal = {Journal of Memory and Language},
title = {Mixed-effects modeling with crossed random effects for subjects and items},
abstract = {This paper provides an introduction to mixed-effects models for the analysis of repeated mea- surement data with subjects and items as crossed random effects. A worked-out example of how to use recent software for mixed-effects modeling is provided. Simulation studies illustrate the advantages offered by mixed-effects analyses compared to traditional analyses based on quasi-F tests, by-subjects analyses, combined by-subjects and by-items analyses, and random regression. Applications and possibilities across a range of domains of inquiry are discussed.},
affiliation = {University of Alberta, Edmonton, Department of Linguistics, T6G 2E5, Canada},
number = {4},
pages = {390--412},
volume = {59},
year = {2008},
keywords = {Random effect, Cognition, Statistical method, Human, Models, Repeated measurement, Statistical model},
date-added = {2010-01-03 13:19:57 +0100},
date-modified = {2010-01-03 13:24:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baayen-2008-Journal%20of%20Memory%20and%20Language_Mixed-effects%20modeli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p519},
rating = {0}
}
@article{Patel:2009p2379,
author = {Vimla L Patel and Nicole A Yoskowitz and Jose F Arocha and Edward H Shortliffe},
journal = {J Biomed Inform},
title = {Cognitive and learning sciences in biomedical and health instructional design: A review with lessons for biomedical informatics education},
abstract = {Theoretical and methodological advances in the cognitive and learning sciences can greatly inform curriculum and instruction in biomedicine and also educational programs in biomedical informatics. It does so by addressing issues such as the processes related to comprehension of medical information, clinical problem-solving and decision-making, and the role of technology. This paper reviews these theories and methods from the cognitive and learning sciences and their role in addressing current and future needs in designing curricula, largely using illustrative examples drawn from medical education. The lessons of this past work are also applicable, however, to biomedical and health professional curricula in general, and to biomedical informatics training, in particular. We summarize empirical studies conducted over two decades on the role of memory, knowledge organization and reasoning as well as studies of problem-solving and decision-making in medical areas that inform curricular design. The results of this research contribute to the design of more informed curricula based on empirical findings about how people learn and think, and more specifically, how expertise is developed. Similarly, the study of practice can also help to shape theories of human performance, technology-based learning, and scientific and professional collaboration that extend beyond the domain of medicine. Just as biomedical science has revolutionized health care practice, research in the cognitive and learning sciences provides a scientific foundation for education in biomedicine, the health professions, and biomedical informatics.},
affiliation = {Department of Basic Medical Sciences, The University of Arizona College of Medicine-Phoenix in Partnership with Arizona State University, 425 N Fifth Street, ABC1, Phoenix, AZ 85004-2157, USA. vimla@asu.edu},
number = {1},
pages = {176--97},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Medical Informatics, Models: Educational, Computational Biology, Curriculum, Cognitive Science, Education: Professional, Teaching, Cognition, Clinical Competence, Learning, Problem-Based Learning, Education: Medical, Humans, Data Collection},
date-added = {2010-01-10 19:31:19 +0100},
date-modified = {2010-01-10 19:31:19 +0100},
doi = {10.1016/j.jbi.2008.12.002},
pii = {S1532-0464(08)00150-0},
pmid = {19135173},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patel-2009-J%20Biomed%20Inform_Cognitive%20and%20learni.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2379},
rating = {0}
}
@article{Strobl:2007p12873,
author = {Carolin Strobl and Anne-Laure Boulesteix and Achim Zeileis and Torsten Hothorn},
journal = {BMC Bioinformatics},
title = {Bias in random forest variable importance measures: illustrations, sources and a solution},
abstract = {BACKGROUND: Variable importance measures for random forests have been receiving increased attention as a means of variable selection in many classification tasks in bioinformatics and related scientific fields, for instance to select a subset of genetic markers relevant for the prediction of a certain disease. We show that random forest variable importance measures are a sensible means for variable selection in many applications, but are not reliable in situations where potential predictor variables vary in their scale of measurement or their number of categories. This is particularly important in genomics and computational biology, where predictors often include variables of different types, for example when predictors include both sequence data and continuous variables such as folding energy, or when amino acid sequence data show different numbers of categories. RESULTS: Simulation studies are presented illustrating that, when random forest variable importance measures are used with data of varying types, the results are misleading because suboptimal predictor variables may be artificially preferred in variable selection. The two mechanisms underlying this deficiency are biased variable selection in the individual classification trees used to build the random forest on one hand, and effects induced by bootstrap sampling with replacement on the other hand. CONCLUSION: We propose to employ an alternative implementation of random forests, that provides unbiased variable selection in the individual classification trees. When this method is applied using subsampling without replacement, the resulting variable importance measures can be used reliably for variable selection even in situations where the potential predictor variables vary in their scale of measurement or their number of categories. The usage of both random forest algorithms and their variable importance measures in the R system for statistical computing is illustrated and documented thoroughly in an application re-analyzing data from a study on RNA editing. Therefore the suggested method can be applied straightforwardly by scientists in bioinformatics research.},
affiliation = {Institut f{\"u}r Statistik, Ludwig-Maximilians-Universit{\"a}t M{\"u}nchen, Ludwigstr, 33, 80539 M{\"u}nchen, Germany. carolin.strobl@stat.uni-muenchen.de},
pages = {25},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Genomics, Algorithms, Bias (Epidemiology), Computer Simulation, Computational Biology, Models: Statistical, Data Interpretation: Statistical, Population Dynamics, Models: Biological},
date-added = {2010-06-24 12:56:51 +0200},
date-modified = {2010-06-24 12:57:07 +0200},
doi = {10.1186/1471-2105-8-25},
pii = {1471-2105-8-25},
pmid = {17254353},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Strobl-2007-BMC%20Bioinformatics_Bias%20in%20random%20fores.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12873},
rating = {4}
}
@article{Young:2006p9514,
author = {Susan E Young and Soo Hyun Rhee and Michael C Stallings and Robin P Corley and John K Hewitt},
journal = {Behav Genet},
title = {Genetic and environmental vulnerabilities underlying adolescent substance use and problem use: general or specific?},
abstract = {Are genetic and environmental risks for adolescent substance use specific to individual substances or general across substance classes? We examined this question in 645 monozygotic twin pairs, 702 dizygotic twin pairs, 429 biological sibling pairs, and 96 adoptive (biologically unrelated) sibling pairs ascertained from community-based samples, and ranging in age from 12 to 18 years. Substance use patterns and symptoms were assessed using structured psychiatric interviews. Biometrical model fitting was carried out using age- and sex-specific thresholds for (a) repeated use and (b) problem use, defined as one or more DSM-IV symptoms of abuse or dependence. We hypothesized that problem use would be more heritable than use in adolescence, and that both genetic and environmental risks underlying tobacco, alcohol, and marijuana use and problem use would be significantly correlated. Results of univariate analyses suggested significant heritable factors for use and problem use for all substances with the exception of alcohol use. Shared environmental factors were important in all cases and special twin environmental factors were significant for tobacco use, tobacco problem use, and alcohol use. Multivariate analyses yielded significant genetic correlations between each of the substances (for both levels studied), and significant shared environmental correlations among use variables only. Our results suggest that tobacco, alcohol, and marijuana problem use are mediated by common genetic influences, but shared environmental influences may be more substance-specific for problem use.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, 447 UCB, Boulder, CO 80303, USA. Susan.Young@Colorado.edu},
number = {4},
pages = {603--15},
volume = {36},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Substance-Related Disorders, Comorbidity, Antisocial Personality Disorder, Humans, Social Problems, Colorado, Models: Psychological, Environment, Prevalence, Siblings, Adolescent, Adolescent Behavior},
date-added = {2010-03-23 19:43:46 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9066-7},
pmid = {16619135},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Young-2006-Behav%20Genet_Genetic%20and%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9514},
rating = {0}
}
@article{vanLaerhoven:2004p14215,
author = {H van Laerhoven and H J van der Zaag-Loonen and B H F Derkx},
journal = {Acta Paediatr},
title = {A comparison of Likert scale and visual analogue scales as response options in children's questionnaires},
abstract = {AIM: To examine which response options children prefer and which they find easiest to use, and to study the relative reliability of the different response options. METHODS: A consecutive group of unselected children (n = 120) filled out three questionnaires in a paediatric outpatient clinic. Each questionnaire included seven similar questions, but had different response options: the Likert scale, the Visual Analogue Scale (VAS) and the numeric VAS. In general, the questions were not related to the children's particular diseases, but dealt with the frequency of simple activities, their feelings and opinions. The pages with the three different response options were offered in random order. Afterwards, the children rated their preference and ease of use of the different response options on a scale from one to 10. RESULTS: Children preferred the Likert scale (median mark 9.0) over the numeric VAS (median mark 8.0) and the simple VAS (median 6.0). They considered the Likert scale easiest to fill out (median mark 10 vs 9 and 7.5 for the numeric and simple VAS, respectively). Results of the different response options correlated strongly with each other (rho = 0.67-0.90, p < 0.05). CONCLUSION: Children prefer the Likert scale over the numeric and simple VAS and find it easiest to complete. The Likert scale, the simple VAS and the numeric VAS are of comparable reliability. The Likert scale is recommended for use in questionnaires for children, although research into larger and more diverse samples is needed.},
affiliation = {Emma Children's Hospital, Academic Medical Centre, University of Amsterdam, Amsterdam, The Netherlands.},
number = {6},
pages = {830--5},
volume = {93},
year = {2004},
month = {Jun},
language = {eng},
keywords = {Adolescent, Female, Questionnaires, Humans, Child, Pain Measurement, Psychometrics, Male},
date-added = {2010-08-22 20:36:04 +0200},
date-modified = {2010-08-22 20:36:08 +0200},
pmid = {15244235},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Laerhoven-2004-Acta%20Paediatr_A%20comparison%20of%20Like.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14215},
rating = {3}
}
@article{Zijlstra:2006p1565,
author = {W P Zijlstra and L Andries van der Ark and K Sijtsma},
title = {Outlier detection in test and questionnaire data},
abstract = {Classical methods for detecting outliers deal with continuous variables. These methods are not readily applicable to categorical data, such as incorrect/correct scores (0/1) and ordered rating scale scores (e.g., 0, . . . , 4) typical of multi-item tests and questionnaires. This study proposes two definitions of outlier scores suited for categorical data. One definition combines information on outliers from scores on all the items in the test, and the other definition combines information from all pairs of item scores. For a particular item-score vector, an outlier score expresses the degree in which the item-score vector is unusual. For ten real-data sets, the distribution of each of the two outlier scores is inspected by means of Tukey's fences and the extreme studentized deviate procedure. It is investigated whether the outliers that are identified are influential with respect to the statistical analysis performed on these data. Recommendations are given for outlier identification and accommodation in test and questionnaire data.},
year = {2006},
date-added = {2010-01-07 16:51:34 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zijlstra-2006-_Outlier%20detection%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1565},
rating = {4}
}
@article{Zhou:2009p13855,
author = {Xinyue Zhou and Gerard Saucier and Dingguo Gao and Jing Liu},
journal = {J Pers},
title = {The factor structure of Chinese personality terms},
abstract = {From the Contemporary Chinese Dictionary, 3,159 personality descriptors were selected and then ranked by the frequency of use. Among those, the top 413 terms with the highest frequency were administered to two independent large samples in China for self-ratings and peer ratings to explore the emic Chinese personality structure as well as to test the universality of other models. One- and two-factor structures found in previous studies of other languages were well replicated. Previous structures with more than two factors were not well replicated, but six- and seven-factor models were at least as well supported as the Big Five. Emic analysis indicated that a seven-factor structure was the most informative structure relatively salient across subsamples of self-ratings and peer ratings, across original and ipsatized data, and across differences in variable selections. These factors can be called Extraversion, Conscientiousness/Diligence, Unselfishness, Negative Valence, Emotional Volatility, Intellect/Positive Valence, and Dependency/Fragility.},
affiliation = {Department of Psychology, Sun Yat-Sen University, Guangzhou 510275, China. zhouxyue@mail.sysu.edu.cn},
number = {2},
pages = {363--400},
volume = {77},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Psychometrics, Self Concept, Psychological Theory, Social Perception, Vocabulary, Data Collection, Terminology as Topic, China, Personality, Self Assessment (Psychology), Personality Inventory, Humans},
date-added = {2010-07-29 17:43:56 +0200},
date-modified = {2010-07-29 17:43:56 +0200},
doi = {10.1111/j.1467-6494.2008.00551.x},
pii = {JOPY551},
pmid = {19192076},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13855},
rating = {0}
}
@article{ArenasGarcia:2010p3324,
author = {J Arenas-Garcia and K B Petersen and L K Hansen},
title = {Sparse Kernel Orthonormalized PLS for feature extraction in large data sets},
abstract = {In this paper we are presenting a novel multivariate analysis method. Our scheme is based on a novel kernel orthonormalized partial least squares (PLS) variant for feature extraction, imposing sparsity constrains in the solution to improve scalabil- ity. The algorithm is tested on a benchmark of UCI data sets, and on the analysis of integrated short-time music features for genre prediction. The upshot is that the method has strong expressive power even with rather few features, is clearly outperforming the ordinary kernel PLS, and therefore is an appealing method for feature extraction of labelled data.},
date-added = {2010-01-15 12:12:47 +0100},
date-modified = {2010-01-15 12:13:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Arenas-Garcia--_Sparse%20Kernel%20Orthon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3324},
rating = {0}
}
@article{Lee:2007p1444,
author = {Seungmook Lee and Mina Jhun and Eun-Kyung Lee and Taesung Park},
journal = {BMC Proc},
title = {Application of structural equation models to construct genetic networks using differentially expressed genes and single-nucleotide polymorphisms},
abstract = {Understanding the genetic basis of human variation is an important goal of biomedical research. In this study, we used structural equation models (SEMs) to construct genetic networks to model how specific single-nucleotide polymorphisms (SNPs) from two genes known to cause acute myeloid leukemia (AML) by somatic mutation, runt-related transcription factor 1 (RUNX1) and ets variant gene 6 (ETV6), affect expression levels of other genes and how RUNX1 and ETV6 are related to each other. The SEM approach allows us to compare several candidate models from which an explanatory genetic network can be constructed.},
affiliation = {Department of Statistics, Seoul National University, San 56-1, Sillim-dong, Gwanak-gu, Seoul 151-742, Korea. smlee@bibs.snu.ac.kr},
pages = {S76},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-01-07 12:20:13 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {18466578},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2007-BMC%20Proc_Application%20of%20struc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1444},
rating = {4}
}
@article{Faunce:2003p6591,
author = {Thomas A Faunce and Nicholas A Buckley},
journal = {J Toxicol Clin Toxicol},
title = {Of consents and CONSORTs: reporting ethics, law, and human rights in RCTs involving monitored overdose of healthy volunteers pre and post the "CONSORT" guidelines},
abstract = {Randomized controlled trials (RCTs) of therapeutic interventions in acute drug overdose present a significant challenge for ethical, legal, and human rights protections of research subjects, particularly when healthy volunteers are involved. The CONSORT statement on the uniform reporting of clinical trials was published in 1996 with the overall aim of improving the reporting of RCTs, both individually and to facilitate their inclusion into systematic reviews. In CONSORT, reporting of ethical, legal, and human rights protections, including prior evaluation of the study by an ethics committee and provision of informed consent, was largely an implicit requirement. Those drafting CONSORT may have assumed such protections and the rights of study subjects were secured by existing doctor-patient relationships. Alternatively, CONSORT may have been viewed as likely to indirectly enhance such protections, as a flow-on effect of improved RCT design and reporting. We wished to examine whether such assumptions were justified by examining the reporting of RCTs of simulated overdose in healthy volunteers. We reviewed all reported RCTs involving activated charcoal in healthy human volunteersfor three years before the CONSORT statement (1989, 1990, and 1991) and three years afterwards (1999, 2000, 2001). Presence of documentation of inclusion and exclusion criteria, stopping rules, protocol deviations, information sheets, consent documentation, ethical approvals, conflicts of interest, understanding, refusal, inducements and coercion were recorded. We found a very poor level of reporting of some key ethical, legal, and human rights protections for healthy volunteers in toxicological RCTs. Reporting did not improve with the publication of CONSORT even in relation to requirements specifically included in the guidelines.},
affiliation = {Faculty of Medicine, Australian National University, Canberra, Australia. thomas.faunce@anu.edu.au},
number = {2},
pages = {93--9},
volume = {41},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Randomized Controlled Trials as Topic, Humans, Guidelines as Topic, Charcoal, MEDLINE, Antidotes, Human Rights, Overdose, Helsinki Declaration},
date-added = {2010-02-24 20:38:34 +0100},
date-modified = {2010-02-24 20:38:34 +0100},
pmid = {12733843},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Faunce-2003-J%20Toxicol%20Clin%20Toxicol_Of%20consents%20and%20CONS.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6591},
rating = {0}
}
@article{Rivals:1999p14289,
author = {I Rivals and L Personnaz},
journal = {Neural Comput},
title = {On cross validation for model selection},
abstract = {In response to Zhu and Rower (1996), a recent communication (Goutte, 1997) established that leave-one-out cross validation is not subject to the "no-free-lunch" criticism. Despite this optimistic conclusion, we show here that cross validation has very poor performances for the selection of linear models as compared to classic statistical tests. We conclude that the statistical tests are preferable to cross validation for linear as well as for nonlinear model selection.},
affiliation = {Laboratoire d'Electronique, Ecole Superieure de Physique et de Chimie Industrielles (ESPCI), 10 rue Vauquelin, 75231, Paris, France. Isabelle.Rivals@espci.fr},
number = {4},
pages = {863--70},
volume = {11},
year = {1999},
month = {May},
language = {eng},
keywords = {Probability, Models: Statistical, Linear Models, Nonlinear Dynamics, Reproducibility of Results},
date-added = {2010-08-22 21:15:28 +0200},
date-modified = {2010-08-22 21:15:33 +0200},
pmid = {10226186},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rivals-1999-Neural%20Comput_On%20cross%20validation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14289},
rating = {3}
}
@article{Tourangeau:1988,
author = {R Tourangeau and K Rasinski},
journal = {Psychological Bulletin},
title = {Cognitive processes underlying context effects in attitude measurement},
abstract = {We begin this article with the assumption that attitudes are best understood as structures in long-term memory, and we look at the implications of this view for the response process in attitude surveys. More specifically, we assert that an answer to an attitude question is the product of a four-stage process. Respondents first interpret the attitude question, determining what attitude the question is about. They then retrieve relevant beliefs and feelings. Next, they apply these beliefs and feelings in rendering the appropriate judgment. Finally, they use this judgment to select a response. All four of the component processes can be affected by prior items. The prior items can provide a framework for interpreting later questions and can also make some responses appear to be redundant with earlier answers. The prior items can prime some beliefs, making them more accessible to the retrieval process. The prior items can suggest a norm or standard of comparison for making the judgment. Finally, the prior items can create consistency pressures or pressures to appear moderate.},
pages = {299--314},
volume = {103},
year = {1988},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p939},
rating = {0}
}
@article{Luss:2008p861,
author = {Ronny Luss and A d'Aspremont},
journal = {Optimization and Engineering},
title = {Clustering and feature selection using sparse principal component analysis},
abstract = {In this paper, we study the application of sparse principal component analysis (PCA) to clustering and feature selection problems. Sparse PCA seeks sparse factors, or linear combinations of the data variables, explaining a maximum amount of variance in the data while having only a limited number of nonzero coefficients. PCA is often used as a simple clustering technique and sparse factors allow us here to interpret the clusters in terms of a reduced set of variables. We begin with a brief introduction and motivation on sparse PCA and detail our implementation of the algorithm in d'Aspremont et al. (SIAM Rev. 49(3):434--448, 2007). We then apply these results to some classic clustering and feature selection problems arising in biology.},
affiliation = {ORFE Department, Princeton University, Princeton, NJ 08544, USA},
year = {2008},
keywords = {Semidefinite programming, Feature selection, Clustering, Sparse principal component analysis},
date-added = {2010-01-03 17:56:02 +0100},
date-modified = {2010-01-03 17:58:53 +0100},
doi = {10.1007/s11081-008-9057-z},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p861},
rating = {0}
}
@article{Sun:2005p3943,
author = {Lei Sun and Shelley B Bull},
journal = {Genet Epidemiol},
title = {Reduction of selection bias in genomewide studies by resampling},
abstract = {The accuracy of gene localization, the reliability of locus-specific effect estimates, and the ability to replicate initial claims of linkage and/or association have emerged as major methodological concerns in genomewide studies of complex diseases and quantitative traits. To address the issue of multiple comparisons inherent in genomewide studies, the use of stringent criteria for assessing statistical significance has been generally acknowledged as a strategy to control type I error. However, the application of genomewide significance criteria does not take account of the selection bias introduced into parameter estimates, e.g., estimates of locus-specific effect size of disease/trait loci. Some have argued that reliable locus-specific parameter estimates can only be obtained in an independent sample. In this report, we examine statistical resampling techniques, including cross-validation and the bootstrap, applied to the initial sample to improve the estimation of locus-specific effects. We compare them with the naive method in which all data are used for both hypothesis testing and parameter estimation, as well as with the split-sample approach in which part of the data are reserved for estimation. Upward bias of the naive estimator and inadequacy of the split-sample approach are derived analytically under a simple quantitative trait model. Simulation studies of the resampling methods are performed for both the simple model and a more realistic genomewide linkage analysis. Our results suggest that cross-validation and bootstrap methods can substantially reduce the estimation bias, especially when the effect size is small or there is no genetic effect.},
affiliation = {Department of Public Health Sciences, University of Toronto, Toronto, Canada. lei.sun@utoronto.ca},
number = {4},
pages = {352--67},
volume = {28},
year = {2005},
month = {May},
language = {eng},
keywords = {Selection Bias, Linkage (Genetics), Genetic Markers, Sample Size, Algorithms, Genome: Human, Computer Simulation, Chromosome Mapping, Humans, Models: Genetic, Siblings},
date-added = {2010-01-16 21:06:28 +0100},
date-modified = {2010-01-16 21:06:28 +0100},
doi = {10.1002/gepi.20068},
pmid = {15761913},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3943},
rating = {3}
}
@article{Irwin:2010p11003,
author = {Debra E Irwin and Brian D Stucky and David Thissen and Esi Morgan DeWitt and Jin Shei Lai and Karin Yeatts and James W Varni and Darren A DeWalt},
journal = {Qual Life Res},
title = {Sampling plan and patient characteristics of the PROMIS pediatrics large-scale survey},
abstract = {PURPOSE: This paper describes a large-scale administration of the Patient-Reported Outcomes Measurement Information System (PROMIS) pediatric items to evaluate measurement characteristics. METHODS: Each child completed one of seven test forms containing items from a pool of 293 PROMIS items and four legacy scales. PROMIS items covered six domains (physical function, emotional distress, social role relationship, fatigue, pain, and asthma). RESULTS: From January 2007 to May 2008, 4,129 children aged 8-17 were enrolled. The sample was 51% female, 55% aged 8-12, 42% minority race and 17% were Hispanic ethnicity. Approximately, 35% of the children participating in the survey consulted a clinician for a chronic illness diagnosis or treatment within 6 months prior to study enrollment. CONCLUSIONS: The final PROMIS pediatric item banks include physical function (n = 52 items), emotional distress (n = 35 items), social role relationships (n = 15 items), fatigue (n = 34 items), pain (n = 13 items), and asthma (n = 17 items). The initial calibration data were provided by a diverse set of children with varying health states (e.g., children with a variety of common chronic illnesses) and racial/ethnic backgrounds.},
affiliation = {Department of Epidemiology, University of North Carolina at Chapel Hill, CB {\#}7294, Chapel Hill, NC 27599, USA. dirwin@email.unc.edu},
number = {4},
pages = {585--94},
volume = {19},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-04-14 06:39:30 +0200},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-010-9618-4},
pmid = {20204706},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Irwin-2010-Qual%20Life%20Res_Sampling%20plan%20and%20pa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11003},
rating = {0}
}
@article{Vinod:1976p1518,
author = {H D Vinod},
journal = {Journal of Econometrics },
title = {Canonical ridge and econometrics of joint production},
abstract = {This paper is a continuation of the author's earlier work (1969) in which canonical correlation analysis was used to directly estimate a joint production function as an implicit function of all outputs and inputs. A major difficulty with canonical correlation analysis in this context is its numerical instability when the underlying (economic) data are nearly collinear. This can be partly overcome by considering an adaptation of ridge regression concepts to canonical correlations. The hybrid may be named a `canonical ridge' model. For illustration we discuss a trans-log joint production function based on U.S. (1945-1969) private domestic economy first studied by Christensen, Jorgenson and Lau (1973).},
affiliation = {Bell Telephone Laboratories, Holmdel, N.J. 07733, U.S.A.},
pages = {147--166},
volume = {4},
year = {1976},
date-added = {2010-01-07 15:43:58 +0100},
date-modified = {2010-01-07 15:45:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vinod-1976-Journal%20of%20Econometrics%20_Canonical%20ridge%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1518},
rating = {0}
}
@article{Jacobs:2002p11409,
author = {N Jacobs and F Rijsdijk and C Derom and M Danckaerts and E Thiery and R Derom and R Vlietinck and J van Os},
journal = {Mol Psychiatry},
title = {Child psychopathology and lower cognitive ability: a general population twin study of the causes of association},
abstract = {Previous work has demonstrated associations between lower cognitive ability and childhood and adult non-psychotic psychopathology. As both cognitive ability (CA) and child psychopathology (CP) are influenced by genetic factors, one explanation for the association is that they are the pleiotropic manifestations of the same underlying genetic factors. The present paper examines three possible causes of the association: additive genetic factors, common environmental factors and individual-specific environmental factors. Three hundred and seventy-six twin pairs from the East Flanders Prospective Twin Survey were examined with the Child Behaviour Checklist and the Wechsler Intelligence Scale for Children-Revised. The cross-twin within-variable, within-twin cross-variable and cross-twin cross-variable correlations were calculated. Using structural equation modelling, bivariate models were fitted. The best fitting model was chosen, based on likelihood and parsimony. The observed phenotypic correlation between CP and CA was -0.19 (95% CI: -0.09, -0.27), with genetic factors accounting for about 84% of the observed correlation. Bivariate model fitting quantified the genetic correlation between CP and CA at -0.27 (95% CI: -0.12, -0.42) and the individual-specific environmental correlation at -0.17 (95% CI: -0.03, -0.31). In children, three different genetic factors may exist: one that solely affects the liability to CP, one that has only an effect on CA and one that influences both CP and CA. While individual-specific environmental factors can influence the liability to both traits, our results suggest that most of the environmental factors that increase the risk of CP do not influence CA and vice versa.},
affiliation = {Department of Psychiatry and Neuropsychology, Maastricht University, European Graduate School of Neuroscience, PO Box 616, 6200 MD Maastricht, The Netherlands.},
number = {4},
pages = {368--74},
volume = {7},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Male, Intelligence Tests, Mental Retardation, Phenotype, Belgium, Adolescent, Cognition Disorders, Female, Child, Genetic Predisposition to Disease, Humans},
date-added = {2010-05-01 16:34:15 +0200},
date-modified = {2010-05-01 16:34:15 +0200},
doi = {10.1038/sj.mp.4000971},
pmid = {11986980},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacobs-2002-Mol%20Psychiatry_Child%20psychopatholog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11409},
rating = {0}
}
@article{Anonymous:2010p4901,
journal = {Nat Genet},
title = {Conclusion by exclusion},
number = {2},
pages = {95},
volume = {42},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-02 11:26:28 +0100},
date-modified = {2010-02-02 11:26:28 +0100},
doi = {10.1038/ng0210-95},
pii = {ng0210-95},
pmid = {20104245},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2010-Nat%20Genet_Conclusion%20by%20exclus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4901},
rating = {0}
}
@article{Schlarmann:2008p7979,
author = {J{\"o}rg Grosse Schlarmann and Sabine Metzing-Blau and Wilfried Schnepp},
journal = {BMC Public Health},
title = {The use of health-related quality of life (HRQOL) in children and adolescents as an outcome criterion to evaluate family oriented support for young carers in Germany: an integrative review of the literature},
abstract = {BACKGROUND: Young people below the age of 18, whose lives are affected by looking after a relative with a disability or long-term illness, are called young carers. Evidence based family oriented support for young carers and their families in Germany is currently being developed. To allow for scientific evaluation, an outcome criterion needs to be chosen. Until today, there are no assessment instruments available, which focus on young carer's specific demands and needs. As HRQOL seems to be an adequate alternative outcome criterion, an integrative review of the literature was carried out to verify this assumption. METHODS: The aim of the integrative review was to get information about a) the concept and the common definition of HRQOL in children, b) preferable HRQOL assessment techniques in children, and c) the relevance of HRQOL measures for the population of young carers. An additional aim of the review was to give advice on which instrument fits best to assess young carer's HRQOL in Germany. Searches were conducted in PubMed in order to obtain papers reporting about a) the development or psychometric assessment of instruments measuring HRQOL in children and adolescents up to the age of 18, and b) on the conceptual framework of HRQOL in children. RESULTS: HRQOL is a multidimensional construct covering physical, emotional, mental, social, and behavioural components of well-being and functioning as subjective perceived by a person depending on the cultural context and value system one is living in. Young carer's problems and needs are well covered by these common domains of HRQOL. Since no specific HRQOL-measures are available to address young carers, a generic one has to be chosen which a) has been created for use in children, b) allows self- and proxy-report, and c) has good psychometric testing results. Comparing four generic measures with currently best published psychometric testing results, items of the KIDSCREEN cover young carer's specific problems most accurate. CONCLUSION: The KIDSCREEN questionnaires seems adequate to evaluate the intervention as their items cover young carer's needs and problems most accurate.},
affiliation = {Institute of Nursing Science, Witten/Herdecke University, Stockumer StraSSe 12, 58453 Witten, Germany. schlarmann@uni-wh.de},
pages = {414},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Child of Impaired Parents, Outcome Assessment (Health Care), Quality of Life, Psychometrics, Social Support, Family, Adolescent Psychology, Questionnaires, Caregivers, Humans, Loneliness, Adolescent, Child Psychology, Child, Germany, Social Isolation},
date-added = {2010-03-20 19:32:39 +0100},
date-modified = {2010-03-20 19:32:39 +0100},
doi = {10.1186/1471-2458-8-414},
pii = {1471-2458-8-414},
pmid = {19091099},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schlarmann-2008-BMC%20Public%20Health_The%20use%20of%20health-re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7979},
rating = {0}
}
@article{Posthuma:2000p12680,
author = {D Posthuma and E J de Geus and M C Neale and H E Hulshoff Pol and Baar{\'e} WEC and R S Kahn and D Boomsma},
journal = {Behav Genet},
title = {Multivariate genetic analysis of brain structure in an extended twin design},
abstract = {The hunt for genes influencing behavior may be aided by the study of intermediate phenotypes for several reasons. First, intermediate phenotypes may be influenced by only a few genes, which facilitates their detection. Second, many intermediate phenotypes can be measured on a continuous quantitative scale and thus can be assessed in affected and unaffected individuals. Continuous measures increase the statistical power to detect genetic effects (Neale et al., 1994), and allow studies to be designed to collect data from informative subjects such as extreme concordant or discordant pairs. Intermediate phenotypes for discrete traits, such as psychiatric disorders, can be neurotransmitter levels, brain function, or structure. In this paper we conduct a multivariate analysis of data from 111 twin pairs and 34 additional siblings on cerebellar volume, intracranial space, and body height. The analysis is carried out on the raw data and specifies a model for the mean and the covariance structure. Results suggest that cerebellar volume and intracranial space vary with age and sex. Brain volumes tend to decrease slightly with age, and males generally have a larger brain volume than females. The remaining phenotypic variance of cerebellar volume is largely genetic (88%). These genetic factors partly overlap with the genetic factors that explain variance in intracranial space and body height. The applied method is presented as a general approach for the analysis of intermediate phenotypes in which the effects of correlated variables on the observed scores are modeled through multivariate analysis.},
affiliation = {Department of Biological Psychology, Vrije Universiteit Amsterdam, The Netherlands. danielle@psy.vu.nl},
number = {4},
pages = {311--9},
volume = {30},
year = {2000},
month = {Jul},
language = {eng},
keywords = {Female, Body Height, Brain, Phenotype, Adult, Genetic Variation, Male, Twins: Dizygotic, Humans, Cerebellum, Multivariate Analysis, Twins: Monozygotic, Cephalometry, Models: Statistical},
date-added = {2010-06-15 22:44:03 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {11206086},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Posthuma-2000-Behav%20Genet_Multivariate%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12680},
rating = {4}
}
@article{Gelman:2008p4106,
author = {A Gelman and A Jakulin and M G Pittau and Y S Su},
title = {A default prior distribution for logistic and other regression models},
abstract = {We propose a new prior distribution for classical (non-hierarchical) logistic regres- sion models, constructed by first scaling all nonbinary variables to have mean 0 and standard deviation 0.5, and then placing independent Student-t prior distributions on the coefficients. As a default choice, we recommend the Cauchy distribution with center 0 and scale 2.5, which in the simplest setting is a longer-tailed version of the distribu- tion attained by assuming one-half additional success and one-half additional failure in a logistic regression. Cross-validation on a corpus of datasets shows the Cauchy class of prior distributions to outperform existing implementations of Gaussian and Laplace priors.
We recommend this prior distribution as a default choice for routine applied use. It has the advantage of always giving answers, even when there is complete separation in logistic regression (a common problem, even when the sample size is large and the number of predictors is small) and also automatically applying more shrinkage to higher- order interactions. This can be useful in routine data analysis as well as in automated procedures such as chained equations for missing-data imputation.
We implement a procedure to fit generalized linear models in R with the Student-t prior distribution by incorporating an approximate EM algorithm into the usual itera- tively weighted least squares. We illustrate with several examples, including a series of logistic regressions predicting voting preferences, a small bioassay experiment, and an imputation model for a public health data set.},
year = {2008},
date-added = {2010-01-19 23:45:30 +0100},
date-modified = {2010-01-19 23:46:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gelman-2008-_A%20default%20prior%20dist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4106},
rating = {0}
}
@article{Wiberg:2004p4005,
author = {M Wiberg},
title = {CLASSICAL TEST THEORY vs. ITEM RESPONSE THEORY. An evaluation of the theory test in the Swedish driving-license test},
abstract = {The Swedish driving-license test consists of a theory test and a practical road test. The aim of this paper is to evaluate which Item Response The- ory (IRT) model among the one (1PL), two (2PL) and three (3PL) pa- rameter logistic IRT models that is the most suitable to use when evalu- ating the theory test in the Swedish driving-license test. Further, to com- pare the chosen IRT model with the indices in Classical Test Theory (CTT). The theory test has 65 multiple-choice items and is criterion- referenced. The evaluation of the models were made by verifying the assumptions that IRT models rely on, examining the expected model features and evaluating how well the models predict actual test results. The overall conclusion from this evaluation is that 3PL model is prefer- able to use when evaluating the theory test. By comparing the indices from CTT and IRT it was concluded that both give valuable informa- tion and should be included in an analysis of the theory test in the Swed- ish driving-license test.},
year = {2004},
date-added = {2010-01-17 23:30:24 +0100},
date-modified = {2010-01-17 23:30:56 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wiberg-2004-_CLASSICAL%20TEST%20THEOR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4005},
rating = {0}
}
@article{Balsa:2005p7289,
author = {Ana I Balsa and Thomas G McGuire and Lisa S Meredith},
journal = {Health Serv Res},
title = {Testing for statistical discrimination in health care},
abstract = {OBJECTIVE: To examine the extent to which doctors' rational reactions to clinical uncertainty ("statistical discrimination") can explain racial differences in the diagnosis of depression, hypertension, and diabetes. DATA SOURCES: Main data are from the Medical Outcomes Study (MOS), a 1986 study conducted by RAND Corporation in three U.S. cities. The study compares the processes and outcomes of care for patients in different health care systems. Complementary data from National Health And Examination Survey III (NHANES III) and National Comorbidity Survey (NCS) are also used. STUDY DESIGN: Across three systems of care (staff health maintenance organizations, multispecialty groups, and solo practices), the MOS selected 523 health care clinicians. A representative cross-section (21,480) of patients was then chosen from a pool of adults who visited any of these providers during a 9-day period. DATA COLLECTION: We analyzed a subsample of the MOS data consisting of patients of white family physicians or internists (11,664 patients). We obtain variables reflecting patients' health conditions and severity, demographics, socioeconomic status, and insurance from the patients' screener interview (administered by MOS staff prior to the patient's encounter with the clinician). We used the reports made by the clinician after the visit to construct indicators of doctors' diagnoses. We obtained prevalence rates from NHANES III and NCS. FINDINGS: We find evidence consistent with statistical discrimination for diagnoses of hypertension, diabetes, and depression. In particular, we find that if clinicians act like Bayesians, plausible priors held by the physician about the prevalence of the disease across racial groups could account for racial differences in the diagnosis of hypertension and diabetes. In the case of depression, we find evidence that race affects decisions through differences in communication patterns between doctors and white and minority patients. CONCLUSIONS: To contend effectively with inequities in health care, it is necessary to understand the mechanisms behind the problem. Discrimination stemming from prejudice is of a very different character than discrimination stemming from the application of rules of conditional probability as a response to clinical uncertainty. While in the former case, doctors are not acting in the best interests of their patients, in the latter, they are doing the best they can, given the information available. If miscommunication is the culprit, then efforts should be aimed at reducing disparities in the ways in which doctors communicate with patients.},
affiliation = {Department of Health Care Policy, Harvard Medical School, Boston, MA 02115, USA.},
number = {1},
pages = {227--52},
volume = {40},
year = {2005},
month = {Feb},
language = {eng},
keywords = {Outcome and Process Assessment (Health Care), Hypertension, Bayes Theorem, Adult, Diabetes Mellitus, African Americans, Male, United States, Decision Making, Regression Analysis, Prevalence, Physician's Practice Patterns, Health Care Surveys, Medical History Taking, Socioeconomic Factors, Cross-Sectional Studies, Communication, Female, Depressive Disorder, Race Relations, Uncertainty, Humans, Middle Aged, European Continental Ancestry Group, Aged},
date-added = {2010-03-10 20:18:49 +0100},
date-modified = {2010-03-10 20:18:50 +0100},
doi = {10.1111/j.1475-6773.2005.00351.x},
pii = {HESR351},
pmid = {15663711},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7289},
rating = {0}
}
@article{Dunn:1999p6716,
author = {G Dunn and C Roberts},
journal = {Stat Methods Med Res},
title = {Modelling method comparison data},
abstract = {We explore a range of linear regression models that might be useful for either: (a) the relative calibration of two or more methods or (b) to evaluate their precisions relative to each other. Ideally, one should be able to use a single data set to carry out the jobs (a) and (b) together. Throughout this review we consider the constraints (assumptions) needed to attain identifiability of the models and the possible pitfalls to the unwary in having to introduce them. We also pay particular attention to the possible problems arising from the presence of random matrix effects (reproducible random measurement 'errors' that are characteristic of a given method when being used on a given specimen or sample, i.e. specimen specific biases or subject by method interactions). Finally, we stress the importance of a fully-informative design (using replicate measurements on each subject using at least three independent methods) and large sample sizes.},
affiliation = {Biostatistics Group, The Medical School, University of Manchester, UK. g.dunn@man.ac.uk},
number = {2},
pages = {161--79},
volume = {8},
year = {1999},
month = {Jun},
language = {eng},
keywords = {Technology: Medical, Linear Models, Factor Analysis: Statistical, Humans, Reproducibility of Results, Laboratory Techniques and Procedures},
date-added = {2010-03-05 22:09:44 +0100},
date-modified = {2010-03-05 22:09:47 +0100},
pmid = {10501651},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dunn-1999-Stat%20Methods%20Med%20Res_Modelling%20method%20com.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6716},
rating = {3}
}
@article{Diday:2000p2326,
author = {E Diday},
title = {Knowledge discovery from symbolic data and the SODAS software},
abstract = {The data descriptions of the units are called ``symbolic'' when they are more complex than the standard ones due to the fact that they contain internal variation and are structured. Symbolic data happen from many sources, for instance in order to summarise huge Rela- tional Data Bases by their underlying concepts. ``Extracting knowledge'' means getting explanatory results, that why, ``symbolic objects'' are in- troduced and studied in this paper. They model concepts and constitute an explanatory output for data analysis. Moreover they can be used in order to define queries of a Relational Data Base and propagate con- cepts between Data Bases. We define ``Symbolic Data Analysis'' (SDA) as the extension of standard Data Analysis to symbolic data tables as input in order to find symbolic objects as output. In this paper we give an overview on recent development on SDA. We present some tools and methods of SDA and introduce the SODAS software prototype (issued from the work of 17 teams of nine countries involved in an European project of EUROSTAT).},
year = {2000},
date-added = {2010-01-10 12:52:06 +0100},
date-modified = {2010-01-10 12:53:00 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diday-2000-_Knowledge%20discovery.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2326},
rating = {0}
}
@article{Skrondal:2003,
author = {Anders Skrondal and Sophia Rabe-Hesketh},
journal = {Norsk Epidemiologi},
title = {Some applications of generalized linear latent and mixed models in epidemiology: Repeated measures, measurement error and multilevel modeling},
number = {2},
pages = {265--278},
volume = {13},
year = {2003},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Skrondal-2003-Norsk%20Epidemiologi_Some%20applications%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1117},
rating = {0}
}
@article{Fraley:2010p1686,
author = {C Fraley and A E Raftery},
title = {How Many Clusters? Which Clustering Method? Answers Via Model-Based Cluster Analysis},
abstract = {We consider the problem of determining the structure of clustered data, without prior knowledge of the number of clusters or any other information about their composition. Data are represented by a mixture model in which each component corresponds to a different cluster. Models with varying geometric properties are obtained through Gaussian compo- nents with different parameterizations and cross-cluster constraints. Noise and outliers can be modeled by adding a Poisson process component. Partitions are determined by the EM (expectation-maximization) algorithm for maximum likelihood, with initial values from ag- glomerative hierarchical clustering.
Models are compared using an approximation to the Bayes factor based on the Bayesian Information Criterion (BIC); unlike significance tests, this allows comparison of more than two models at the same time, and removes the restriction that the models compared be nested. The problems of determining the number of clusters and the clustering method are solved simultaneously by choosing the best model. Moreover, the EM result provides a measure of uncertainty about the associated classification of each data point.
Examples are given, showing that this approach can give performance that is much better than standard procedures, which often fail to identify groups that are either overlapping or of varying sizes and shapes.},
date-added = {2010-01-09 18:31:02 +0100},
date-modified = {2010-01-09 18:31:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fraley--_How%20Many%20Clusters?%20W.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1686},
rating = {0}
}
@article{Agresti:2001,
author = {Alan Agresti and I Liu},
journal = {Sociological Methods {\&} Research},
title = {Strategies for modelling a categorical variable allowing multiple category choices},
abstract = {This article discusses strategies for modeling a categorical variable when subjects can select any subset of the categories. With c outcome categories, the models relate to a c-dimensional binary response, with each component indicating whether a particular category is chosen. The strategies are the following: (1) Using logit models directly for the marginal distribution of each component; this accounts for dependence among the component responses but does not treat the dependence as an integral part of the model. (2) Using logit models containing subject random effects to generate the dependence among the components; this approach is limited by implying nonnegative associations having a certain exchangeability. (3) Using loglinear modeling; quasi-symmetric ones are useful but are limited to estimation of within-subject effects. Marginal logit models less fully describe the dependence patterns for the data but require fewer assumptions and focus more directly on the effects of greatest substantive interest.},
pages = {403--434},
volume = {29},
year = {2001},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:17:57 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1886},
rating = {0}
}
@article{Susser:1996,
author = {E Susser and R Neugebauer and HW et al Hoek},
journal = {Arch Gen Psychiatry},
title = {Schizophrenia after prenatal famine. Further evidence},
abstract = {BACKGROUND: Suggestive findings of an earlier study that prenatal nutritional deficiency was a determinant of schizophrenia prompted us to undertake a second test of the hypothesis using more precise data on both exposure and outcome. METHODS: Among persons born in the cities of western Netherlands during 1944 through 1946, we compared the risk for schizophrenia in those exposed and unexposed during early gestation to the Dutch Hunger Winter of 1944/1945. The frequency of hospitalized patients with schizophrenia at age 24 to 48 years in the exposed and unexposed birth cohorts was ascertained from a national psychiatric registry. RESULTS: The most exposed birth cohort, conceived at the height of the famine, showed a twofold and statistically significant increase in the risk for schizophrenia (relative risk [RR] = 2.0; 95% confidence interval [CI] = 1.2 to 3.4; P < .01) in both men (RR = 1.9; 95% CI = 1.0 to 3.7; P = .05) and women (RR = 2.2; 95% CI = 1.0 to 4.7; P = .04). Among all birth cohorts of 1944 through 1946, the risk for schizophrenia clearly peaked in this exposed cohort. CONCLUSION: Prenatal nutritional deficiency may play a role in the origin of some cases of schizophrenia.},
pages = {25--31},
volume = {53},
year = {1996},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1027},
rating = {0}
}
@article{Dyer:2010p4932,
author = {Matthew Td Dyer and Kimberley A Goldsmith and Linda S Sharples and Martin J Buxton},
journal = {Health Qual Life Outcomes},
title = {A review of health utilities using the EQ-5D in studies of cardiovascular disease},
abstract = {ABSTRACT: BACKGROUND: The EQ-5D has been extensively used to assess patient utility in trials of new treatments within the cardiovascular field. The aims of this study were to summarise EQ-5D results in the cardiovascular area, review evidence of the validity and reliability of the EQ-5D, and attempt to stratify mean EQ-5D utility scores across different levels of severity of cardiovascular disease. METHODS: A structured literature search was conducted using keywords related to cardiovascular disease and EQ-5D. Original research studies of patients with cardiovascular disease that reported EQ-5D results and its measurement properties were included. RESULTS: Of 147 identified papers, 66 met the selection criteria, with 10 studies reporting evidence on validity or reliability and 60 reporting EQ-5D responses (VAS or self-classification). Mean EQ-5D index-based scores ranged from 0.24 (SD 0.39) to 0.90 (SD 0.16), while VAS scores ranged from 37 (SD 21) to 89 (no SD reported). Stratification of EQ-5D index scores by disease severity revealed that scores decreased from a mean of 0.78 (SD 0.18) to 0.51 (SD 0.21) for mild to severe disease in heart failure patients and from 0.80 (SD 0.05) to 0.45 (SD 0.22) for mild to severe disease in angina patients. CONCLUSIONS: The published evidence generally supports the validity and reliability of the EQ-5D as an outcome measure within the cardiovascular area. This review provides utility estimates across a range of cardiovascular subgroups and treatments that may be useful for future modelling of utilities and QALYs in economic evaluations within the cardiovascular area.},
number = {1},
pages = {13},
volume = {8},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-02 12:14:03 +0100},
date-modified = {2010-02-02 12:14:03 +0100},
doi = {10.1186/1477-7525-8-13},
pii = {1477-7525-8-13},
pmid = {20109189},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dyer-2010-Health%20and%20Quality%20of%20Life%20Outcomes_A%20review%20of%20health%20u-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4932},
rating = {0}
}
@article{Pettit:2009p11988,
author = {Jeremy W Pettit and Monica J Garza and Kelly E Grover and Dawnelle J Schatte and Sharon T Morgan and Andrew Harper and Ann E Saunders},
journal = {Depress Anxiety},
title = {Factor structure and psychometric properties of the Modified Scale for Suicidal Ideation among suicidal youth},
abstract = {BACKGROUND: Although suicidal behaviors occur at a high rate in adolescence, relatively few interview-based measures are available to assess suicidal ideation among youth. Existing interview measures are limited by a paucity of empirical study, a failure to conform to standard suicide nomenclature, or a lengthy administration time. This study presents data on the psychometric properties and factor structure of the brief, layperson-administered Modified Scale for Suicidal Ideation (MSSI) among suicidal youth. METHODS: The MSSI was administered to an inpatient sample of 102 suicidal youth aged 13-17 years. Additional interview and self-report measures were administered to examine the convergent validity of the MSSI. RESULTS: Consistent with previous findings among suicidal adults, the MSSI displayed good internal consistency and expected patterns of convergent validity. Principal component analysis revealed a bidimensional structure, with factors corresponding to (1) Desire and Ideation and (2) Plans and Preparations. Each factor displayed acceptable internal consistency and expected patterns of convergent validity via associations with hopelessness, depressive symptoms, impulsivity, and a self-report measure of suicidal behaviors. The Plans and Preparations factor significantly associated with the presence of a current suicide attempt and with greater suicide intent among attempters, whereas the Desire and Ideation factor did not. CONCLUSIONS: The MSSI appears to be a reliable and valid instrument to assess suicidal ideation among distressed youth. Clinicians are encouraged to pay particular attention to responses on the Plans and Preparations factor given its stronger association with suicide attempt and more serious suicide intent.},
affiliation = {Department of Psychology, University of Houston, Houston, Texas 77204-5022, USA. jpettit@uh.edu},
number = {8},
pages = {769--74},
volume = {26},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Bipolar Disorder, Mass Screening, Substance-Related Disorders, Reproducibility of Results, Humans, Intention, Stress Disorders: Post-Traumatic, Male, Personality Assessment, Attention Deficit and Disruptive Behavior Disorders, Comorbidity, Suicide: Attempted, Hospitalization, Risk Assessment, Female, Psychometrics, Suicide, Interview: Psychological, Depressive Disorder: Major, Depressive Disorder, Adolescent},
date-added = {2010-05-23 17:26:02 +0200},
date-modified = {2010-05-23 17:26:02 +0200},
doi = {10.1002/da.20575},
pmid = {19434622},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11988},
rating = {0}
}
@article{Juang:2010p11513,
author = {Jyh-Ming Jimmy Juang and Lisa de Las Fuentes and Alan D Waggoner and C Charles Gu and Victor G Davila-Roman},
journal = {BMC Med Genet},
title = {Association and interaction of PPAR-complex gene variants with latent traits of left ventricular diastolic function},
abstract = {ABSTRACT: BACKGROUND: Abnormalities in myocardial metabolism and/or regulatory genes have been implicated in left ventricular systolic dysfunction. However, the extent to which these modulate left ventricular diastolic function (LVDF) is uncertain. METHODS: Independent component analysis was applied to extract latent LVDF traits from 14 measured echocardiography-derived endophenotypes of LVDF in 403 Caucasians. Genetic association was assessed between measured and latent LVDF traits and 64 single nucleotide polymorphisms (SNPs) in three peroxisome proliferator-activated receptor (PPAR)-complex genes involved in the transcriptional regulation of fatty acid metabolism. RESULTS: By linear regression analysis, 7 SNPs (4 in PPARA, 2 in PPARGC1A, 1 in PPARG) were significantly associated with the latent LVDF trait, whereas a range of 0-4 SNPs were associated with each of the 14 measured echocardiography-derived endophenotypes. Frequency distribution of P values showed a greater proportion of significant associations with the latent LVDF trait than for the measured endophenotypes, suggesting that analyses of the latent trait improved detection of the genetic underpinnings of LVDF. Ridge regression was applied to investigate within-gene and gene-gene interactions. In the within-gene analysis, there were five significant pair-wise interactions in PPARGC1A and none in PPARA or PPARG. In the gene-gene analysis, significant interactions were found between rs4253655 in PPARA and rs1873532 (p=0.02) and rs7672915 (p=0.02), both in PPARGC1A, and between rs1151996 in PPARG and rs4697046 in PPARGC1A (p=0.01). CONCLUSIONS: Myocardial metabolism PPAR-complex genes, including within and between genes interactions, may play an important role modulating left ventricular diastolic function.},
number = {1},
pages = {65},
volume = {11},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:34:39 +0200},
date-modified = {2010-05-01 17:34:39 +0200},
doi = {10.1186/1471-2350-11-65},
pii = {1471-2350-11-65},
pmid = {20426853},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Juang-2010-BMC%20Med%20Genet_Association%20and%20inte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11513},
rating = {0}
}
@article{Bollen:2002,
author = {K A Bollen},
journal = {Annual Review of Psychology},
title = {Latent variables in psychology and the social sciences},
abstract = {The paper discusses the use of latent variables in psychology and social science research. Local independence, expected value true scores, and nondeterministic functions of observed variables are three types of definitions for latent variables. These definitions are reviewed and an alternative ``sample realizations'' definition is presented. Another section briefly describes identification, latent variable indeterminancy, and other properties common to models with latent variables. The paper then reviews the role of latent variables in multiple regression, probit and logistic regression, factor analysis, latent curve models, item response theory, latent class analysis, and structural equation models. Though these application areas are diverse, the paper highlights the similarities as well as the differences in the manner in which the latent variables are defined and used. It concludes with an evaluation of the different definitions of latent variables and their properties.},
pages = {605--634},
volume = {53},
year = {2002},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1166},
read = {Yes},
rating = {0}
}
@article{Fraley:2002p1687,
author = {C Fraley and A E Raftery},
journal = {JAMA},
title = {Model-based clustering, discriminant analysis, and density estimation},
number = {458},
pages = {611--630},
volume = {97},
year = {2002},
date-added = {2010-01-09 18:32:05 +0100},
date-modified = {2010-07-29 20:01:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fraley-2002-JAMA_Model-based%20clusteri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1687},
rating = {0}
}
@article{Boulesteix:2007p2582,
author = {Anne-Laure Boulesteix and Carolin Strobl and Stefan Weidinger and H-Erich Wichmann and Stefan Wagenpfeil},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Multiple testing for SNP-SNP interactions},
abstract = {Most genetic diseases are complex, i.e. associated to combinations of SNPs rather than individual SNPs. In the last few years, this topic has often been addressed in terms of SNP-SNP interaction patterns given as expressions linked by logical operators. Methods for multiple testing in high-dimensional settings can be applied when many SNPs are considered simultaneously. However, another less well-known multiple testing problem arises within a fixed subset of SNPs when the logic expression is chosen optimally. In this article, we propose a general asymptotic approach for deriving the distribution of the maximally selected chi-square statistic in various situations. We show how this result can be used for testing logic expressions - in particular SNP-SNP interaction patterns - while controlling for multiple comparisons. Simulations show that our method provides multiple testing adjustments when the logic expression is chosen such as to maximize the statistic. Its benefit is demonstrated through an application to a real dataset from a large population-based study considering allergy and asthma in KORA. An implementation of our method is available from the Comprehensive R Archive Network (CRAN) as R package 'SNPmaxsel'.},
affiliation = {Sylvia Lawry Centre and Institute for Medical Statistics and Epidemiology, Technical University of Munich. boulesteix@slcmsr.org},
pages = {Article37},
volume = {6},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Linkage Disequilibrium, Humans, Chi-Square Distribution, Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Computer Simulation},
date-added = {2010-01-12 22:28:23 +0100},
date-modified = {2010-07-29 19:50:47 +0200},
doi = {10.2202/1544-6115.1315},
pmid = {18171321},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2007-Statistical%20Applications%20in%20Genetics%20and%20Molecular%20Biology_Multiple%20testing%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2582},
read = {Yes},
rating = {0}
}
@article{Wilke:2010p11133,
author = {Caitlyn T Wilke and A Simon Pickard and Surrey M Walton and Joern Moock and Thomas Kohlmann and Todd A Lee},
journal = {Health Econ},
title = {Statistical implications of utility weighted and equally weighted HRQL measures: an empirical study},
abstract = {The utility-based approach to health measurement, exemplified by EQ-5D and Health Utilities Index (HUI), has been challenged on a theoretical basis, but the statistical implications of such an approach have received little attention. To empirically investigate this issue, psychometric properties and statistical efficiency of the EQ-5D and HUI Mark 3 (HUI3) classifiers were compared when scored using preference weighted (WPS) and equally weighted summary scores using two longitudinal datasets (n(stroke)=124; n(rehabilitation)=264). Test-retest reliability, construct validity, responsiveness, and relative efficiency (RE) ratios (with bootstrapped 95% confidence intervals) were examined. WPS had slightly lower test-retest reliability, particularly for EQ-5D (intraclass correlation coefficient=0.61 vs 0.72). For known-groups comparisons, WPS had greater inferential power for both EQ-5D and HUI3 (RE>1). No significant differences in sensitivity to change were observed for EQ-5D [0.71 (95% CI: 0.29,1.33) < or = RE < or = 0.96(95% CI: 0.69,1.32)] or HUI3 [0.97 (95% CI: 0.89,1.03) < or = RE < or = 1.23 (95% CI: 0.98,1.72)]. Implications of weighted scoring will depend on whether the weights are greater or less than equal weights where patients fall along the health state classifier continuum. Because utility weights can affect the statistical properties and significance of results, the summary score selected should be appropriate to the purpose of the study and population of interest.},
affiliation = {Center for Pharmacoeconomic Research and Departments of Pharmacy Practice and Pharmacy Administration, College of Pharmacy, University of Illinois at Chicago, Chicago, IL 60612, USA.},
number = {1},
pages = {101--10},
volume = {19},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Empirical Research, Humans, Psychometrics, Statistics: Nonparametric, Quality of Life, Delivery of Health Care, Reproducibility of Results, Health Status},
date-added = {2010-04-14 13:56:42 +0200},
date-modified = {2010-04-14 13:56:42 +0200},
doi = {10.1002/hec.1467},
pmid = {19248149},
url = {http://www3.interscience.wiley.com/journal/122220714/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wilke-2010-Health%20Econ_Statistical%20implicat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11133},
rating = {0}
}
@article{Bond:2003a,
author = {T G Bond and J A King},
journal = {Journal of Applied Measurement},
title = {Measuring Client Satisfaction with Public Education II: Comparing Schools with State Benchmarks},
number = {3},
pages = {258--268},
volume = {4},
year = {2003},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bond-2003-Journal%20of%20Applied%20Measurement_Measuring%20Client%20Sat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2184},
rating = {0}
}
@article{Wu:2010p10664,
author = {Li-Tzy Wu and Jeng-Jong Pan and Dan G Blazer and Betty Tai and Maxine L Stitzer and George E Woody},
journal = {J Subst Abuse Treat},
title = {Using a latent variable approach to inform gender and racial/ethnic differences in cocaine dependence: a National Drug Abuse Treatment Clinical Trials Network study},
abstract = {This study applies a latent variable approach to examine gender and racial/ethnic differences in cocaine dependence, to determine the presence of differential item functioning (DIF) or item-response bias to diagnostic questions of cocaine dependence, and to explore the effects of DIF on the predictor analysis of cocaine dependence. The analysis sample included 682 cocaine users enrolled in two national multisite studies of the National Drug Abuse Treatment Clinical Trials Network (CTN). Participants were recruited from 14 community-based substance abuse treatment programs associated with the CTN, including 6 methadone and 8 outpatient nonmethadone programs. Factor and multiple indicators-multiple causes (MIMIC) procedures evaluated the latent continuum of cocaine dependence and its correlates. MIMIC analysis showed that men exhibited lower odds of cocaine dependence than women (regression coefficient, beta = -0.34), controlling for the effects of DIF, years of cocaine use, addiction treatment history, comorbid drug dependence diagnoses, and treatment setting. There were no racial/ethnic differences in cocaine dependence; however, DIF by race/ethnicity was noted. Within the context of multiple community-based addiction treatment settings, women were more likely than men to exhibit cocaine dependence. Addiction treatment research needs to further evaluate gender-related differences in drug dependence in treatment entry and to investigate how these differences may affect study participation, retention, and treatment response to better serve this population.},
affiliation = {Department of Psychiatry and Behavioral Sciences, School of Medicine, Duke University Medical Center, Duke Clinical Research Institute, Durham, NC 27710, USA. litzy.wu@duke.edu},
pages = {S70--9},
volume = {38 Suppl 1},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-04-07 11:47:40 +0200},
date-modified = {2010-04-07 11:47:48 +0200},
doi = {10.1016/j.jsat.2009.12.011},
pii = {S0740-5472(10)00023-1},
pmid = {20307798},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0740-5472(10)00023-1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2010-J%20Subst%20Abuse%20Treat_Using%20a%20latent%20varia.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10664},
rating = {4}
}
@article{Ford:1986p11659,
author = {J K Ford and R C MacCallum and M Tait},
journal = {Personnel Psychology},
title = {The application of exploratory factor analysis in applied psychology: A critical review and analysis},
pages = {291--314},
volume = {39},
year = {1986},
date-added = {2010-05-13 21:23:27 +0200},
date-modified = {2010-05-13 21:25:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ford-1986-Personnel%20Psychology_The%20application%20of%20e.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11659},
rating = {0}
}
@article{Mortensen:1999p10139,
author = {P B Mortensen and C B Pedersen and T Westergaard and J Wohlfahrt and E Ewald and O Mors and P K Andersen and M Melbye},
journal = {N Engl J Med},
title = {EFFECTS OF FAMILY HISTORY AND PLACE AND SEASON OF BIRTH ON THE RISK OF SCHIZOPHRENIA},
abstract = {Background Although a family history of schizo- phrenia is the best-established risk factor for schizo- phrenia, environmental factors such as the place and season of birth may also be important.
Methods Using data from the Civil Registration System in Denmark, we established a population- based cohort of 1.75 million persons whose mothers were Danish women born between 1935 and 1978. We linked this cohort to the Danish Psychiatric Cen- tral Register and identified 2669 cases of schizophre- nia among cohort members and additional cases among their parents.
Results The respective relative risks of schizo- phrenia for persons with a mother, father, or sibling who had schizophrenia were 9.31 (95 percent confi- dence interval, 7.24 to 11.96), 7.20 (95 percent confi- dence interval, 5.10 to 10.16), and 6.99 (95 percent confidence interval, 5.38 to 9.09), as compared with persons with no affected parents or siblings. The risk of schizophrenia was associated with the degree of urbanization of the place of birth (relative risk for the capital vs. rural areas, 2.40; 95 percent confidence in- terval, 2.13 to 2.70). The risk was also significantly associated with the season of birth; it was highest for births in February and March and lowest for births in August and September. The population at- tributable risk was 5.5 percent for a history of schizo- phrenia in a parent or sibling, 34.6 percent for urban place of birth, and 10.5 percent for the season of birth.
Conclusions Although a history of schizophrenia in a parent or sibling is associated with the highest relative risk of having the disease, the place and sea- son of birth account for many more cases on a pop- ulation basis.},
pages = {603--608},
volume = {340},
year = {1999},
date-added = {2010-03-31 20:42:06 +0200},
date-modified = {2010-07-29 19:53:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mortensen-1999-N%20Engl%20J%20Med_EFFECTS%20OF%20FAMILY%20HI.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10139},
rating = {0}
}
@article{Fischer:2004p11166,
author = {R Fischer},
journal = {Journal of Cross-Cultural Psychology},
title = {STANDARDIZATION TO ACCOUNT FOR CROSS-CULTURAL RESPONSE BIAS A Classification of Score Adjustment Procedures and Review of Research in JCCP},
abstract = {The article reviews standardization methods commonly employed to adjust for response bias in cross-cul- tural research. First, different standardization procedures are reviewed and a classification scheme is pro- vided. Standardization procedures are classified according to the statistical information used (means, stan- dard deviation) and the source of this information (individual, group, or culture). Second, empirical research in JCCP between 1970 and 2002 is reviewed. Standardization has become more common in the 1990s, and there is a trend to rely more on standardized data. Most studies used standardization prior to analysis of vari- ance and factor analytical techniques. However, an analysis of statistical properties of standardized mea- sures indicates that results based on standardization are ambiguous. The use of statistical techniques and the interpretation of results based on standardized data are discussed.},
number = {3},
pages = {263--282},
volume = {35},
year = {2004},
date-added = {2010-04-25 21:10:42 +0200},
date-modified = {2010-04-25 21:11:55 +0200},
doi = {10.1177/0022022104264122},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fischer-2004-Journal%20of%20Cross-Cultural%20Psychology_STANDARDIZATION%20TO%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11166},
rating = {0}
}
@article{Ronkainen:2003p12126,
author = {T Ronkainen and H Oja and P Orponen},
journal = {Developments in Robust Statistics: Proceedings of the International Conference on Robust Statistics (ICORS'01)},
title = {Computation of the multivariate Oja median},
abstract = {The multivariate Oja (1983) median is an affine equivariant multivariate location estimate with high efficiency. This estimate has a bounded influence function but zero breakdown. The computation of the estimate appears to be highly intensive. We consider different, exact and stochastic, algorithms for the calculation of the value of the estimate. In the stochastic algorithms, the gradient of the objective function, the rank function, is estimated by sampling observation hyperplanes. The estimated rank function with its estimated accuracy then yields a confidence region for the true Oja sample median, and the confidence region shrinks to the sample median with the increasing number of the sampled hyperplanes. Regular grids and and the grid given by the data points are used in the construction. Computation times of different algorithms are discussed and compared. For a -variate data set with observations our exact and stochastic algorithm have rough complexity estimates of and , respectively, where is the radius of confidence -ball.},
pages = {344--359},
year = {2003},
date-added = {2010-05-30 10:10:08 +0200},
date-modified = {2010-05-30 10:11:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ronkainen-2003-Developments%20in%20Robust%20Statistics%20Proceedings%20of%20the%20International%20Conference%20on%20Robust%20Statistics%20(ICORS'01)_Computation%20of%20the%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12126},
rating = {0}
}
@article{Cals:2009p11580,
author = {Jochen W L Cals and Christopher C Butler and Rogier M Hopstaken and Kerenza Hood and Geert-Jan Dinant},
journal = {BMJ},
title = {Effect of point of care testing for C reactive protein and training in communication skills on antibiotic use in lower respiratory tract infections: cluster randomised trial},
abstract = {OBJECTIVE: To assess the effect of general practitioner testing for C reactive protein (disease approach) and receiving training in enhanced communication skills (illness approach) on antibiotic prescribing for lower respiratory tract infection. DESIGN: Pragmatic, 2x2 factorial, cluster randomised controlled trial. SETTING: 20 general practices in the Netherlands. PARTICIPANTS: 40 general practitioners from 20 practices recruited 431 patients with lower respiratory tract infection. MAIN OUTCOME MEASURES: The primary outcome was antibiotic prescribing at the index consultation. Secondary outcomes were antibiotic prescribing during 28 days' follow-up, reconsultation, clinical recovery, and patients' satisfaction and enablement. INTERVENTIONS: General practitioners' use of C reactive protein point of care testing and training in enhanced communication skills separately and combined, and usual care. RESULTS: General practitioners in the C reactive protein test group prescribed antibiotics to 31% of patients compared with 53% in the no test group (P=0.02). General practitioners trained in enhanced communication skills prescribed antibiotics to 27% of patients compared with 54% in the no training group (P<0.01). Both interventions showed a statistically significant effect on antibiotic prescribing at any point during the 28 days' follow-up. Clinicians in the combined intervention group prescribed antibiotics to 23% of patients (interaction term was non-significant). Patients' recovery and satisfaction were similar in all study groups. CONCLUSION: Both general practitioners' use of point of care testing for C reactive protein and training in enhanced communication skills significantly reduced antibiotic prescribing for lower respiratory tract infection without compromising patients' recovery and satisfaction with care. A combination of the illness and disease focused approaches may be necessary to achieve the greatest reduction in antibiotic prescribing for this common condition in primary care. TRIAL REGISTRATION: Current Controlled Trials ISRCTN85154857.},
affiliation = {Department of General Practice, CAPHRI School for Public Health and Primary Care, Maastricht University Medical Centre, PO Box 616, 6200 MD Maastricht, Netherlands. j.cals@hag.unimaas.nl},
pages = {b1374},
volume = {338},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Female, Point-of-Care Systems, Cluster Analysis, Biological Markers, Adult, Physician's Practice Patterns, Respiratory Tract Infections, Patient Satisfaction, Family Practice, Male, Humans, Communication, C-Reactive Protein, Professional Competence, Anti-Bacterial Agents},
date-added = {2010-05-09 18:25:14 +0200},
date-modified = {2010-05-09 18:25:15 +0200},
pmid = {19416992},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cals-2009-BMJ_Effect%20of%20point%20of%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11580},
rating = {0}
}
@article{Frydenberg:1989p6271,
author = {M Frydenberg and S L Lauritzen},
journal = {Biometrika},
title = {Decomposition of Maximum Likelihood in Mixed Graphical Interaction Models},
number = {3},
pages = {539--555},
volume = {76},
year = {1989},
date-added = {2010-02-19 22:13:04 +0100},
date-modified = {2010-02-19 22:13:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Frydenberg-1989-Biometrika_Decomposition%20of%20Max.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6271},
rating = {0}
}
@article{Ge:2009p1495,
author = {Yongchao Ge and Stuart C Sealfon and Terence P Speed},
journal = {Stat Methods Med Res},
title = {Multiple testing and its applications to microarrays},
abstract = {The large-scale multiple testing problems resulting from the measurement of thousands of genes in microarray experiments have received increasing interest during the past several years. This article describes some commonly used criteria for controlling false positive errors, including familywise error rates, false discovery rates and false discovery proportion rates. Various statistical methods controlling these error rates are described. The advantages and disadvantages of these methods are discussed. These methods are applied to gene expression data from two microarray studies and the properties of these multiple testing procedures are compared.},
affiliation = {Department of Neurology and Center for Translational Systems Biology, Mount Sinai School of Medicine, New York, NY 10029, USA. yongchao.ge@mssm.edu},
number = {6},
pages = {543--63},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:26:05 +0100},
date-modified = {2010-01-07 12:26:05 +0100},
doi = {10.1177/0962280209351899},
pii = {18/6/543},
pmid = {20048384},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ge-2009-Stat%20Methods%20Med%20Res_Multiple%20testing%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1495},
rating = {0}
}
@techreport{Rupp:2007,
author = {A A Rupp and M Vock and C Harsch},
journal = {Techreport},
title = {The development, calibration, and inferential validation of standards-based assessments for english as a first foreign language at the IQB},
affiliation = {Institut zur Qualit{\"a}tsentwicklung im Bildungswesen},
year = {2007},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rupp-2007-Techreport_The%20development%20cal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2039},
rating = {0}
}
@article{Gelhorn:2006p9526,
author = {Heather Gelhorn and Michael Stallings and Susan Young and Robin Corley and Soo Hyun Rhee and Hopfer Christian and John Hewitt},
journal = {J Am Acad Child Adolesc Psychiatry},
title = {Common and specific genetic influences on aggressive and nonaggressive conduct disorder domains},
abstract = {OBJECTIVE: To explore the genetic and environmental influences on DSM-IV conduct disorder (CD) aggressive and nonaggressive subscales, taking into account age and sex differences. METHOD: A community sample of 1,100 twin pairs (ages 11-18) was interviewed using the Diagnostic Interview Schedule for Children. Bivariate analyses, using variable threshold models accounting for age and sex differences, were used to determine the extent to which the genetic and environmental influences on aggressive and nonaggressive CD domains are shared or unique. RESULTS: The phenotypic correlation between aggressive and nonaggressive CD domains was 0.32. The most parsimonious bivariate model included additive genetic effects and nonshared environmental effects only (AE model). CONCLUSIONS: The results of behavior genetic model fitting suggest that the DSM-IV CD domains are influenced by unique genetic and environmental factors, but also share some common genetic and environmental influences. A large percentage of the covariation (61%) is caused by genetic factors. These results are consistent with a previous report on the bivariate heritability of aggressive and nonaggressive antisocial behavior, but extend the findings to DSM-IV domains.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, 80309, USA. gelhorn@colorado.edu},
number = {5},
pages = {570--7},
volume = {45},
year = {2006},
month = {May},
language = {eng},
keywords = {Statistics as Topic, Personality Assessment, Female, Twins: Monozygotic, Phenotype, Genetic Predisposition to Disease, Child, Humans, Psychometrics, Male, Twins: Dizygotic, Genotype, Diseases in Twins, Adolescent, Social Environment, Child Behavior Disorders, Aggression},
date-added = {2010-03-23 19:42:26 +0100},
date-modified = {2010-03-23 19:42:26 +0100},
doi = {10.1097/01.chi.0000198596.76443.b0},
pii = {00004583-200605000-00008},
pmid = {16670651},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9526},
rating = {0}
}
@article{Egan:2000p11679,
author = {V Egan and I Deary and E Austin},
journal = {Personality and Individual Differences},
title = {The NEO-FFI: emerging British norms and an item-level analysis suggest N, A and C are more reliable than O and E},
abstract = {The NEO Five Factor Inventory (NEO-FFI) was given to 1025 British subjects as part of three independent research studies. Data from these studies were pooled and subjected to item-level analyses. Using standard scoring criteria from the measure provisional British norms were produced which were broadly equivalent to those obtained in the USA. The individual subscales showed good internal consistency. However, the item-level principal components analysis using varimax and oblique rotation and con{\textregistered}rmatory factor analysis revealed that only the Neuroticism, Agreeableness and Conscientiousness traits were coherently represented in the main factors derived by the analysis. Openness and Extraversion factors did not show such stability or consistency. It is argued that as a result of these diculties, thoughtlessly embracing the NEO-FFI as a quick and ecient instrument for measuring the `Big Five' personality traits is perhaps premature, as the instrument requires modi{\textregistered}cation and improvement before it can truly be regarded as measuring {\textregistered}ve independent personality traits.},
pages = {907--920},
volume = {29},
year = {2000},
date-added = {2010-05-14 21:28:35 +0200},
date-modified = {2010-05-24 09:39:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Egan-2000-Personality%20and%20Individual%20Differences_The%20NEO-FFI%20emergin-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11679},
rating = {0}
}
@article{Schmidt:2009p9093,
author = {Louis A Schmidt and Nathan A Fox and Koraly Perez-Edgar and Dean H Hamer},
journal = {Psychol Sci},
title = {Linking gene, brain, and behavior: DRD4, frontal asymmetry, and temperament},
abstract = {Gene-environment interactions involving exogenous environmental factors are known to shape behavior and personality development. Although gene-environment interactions involving endogenous environmental factors are hypothesized to play an equally important role, this conceptual approach has not been empirically applied in the study of early-developing temperament in humans. Here we report evidence for a gene-endoenvironment (i.e., resting frontal brain electroencephalogram, EEG, asymmetry) interaction in predicting child temperament. The dopamine D4 receptor (DRD4) gene (long allele vs. short allele) moderated the relation between resting frontal EEG asymmetry (left vs. right) at 9 months and temperament at 48 months. Children who exhibited left frontal EEG asymmetry at 9 months and who possessed the DRD4 long allele were significantly more soothable at 48 months than other children. Among children with right frontal EEG asymmetry at 9 months, those with the DRD4 long allele had significantly more difficulties focusing and sustaining attention at 48 months than those with the DRD4 short allele. Resting frontal EEG asymmetry did not influence temperament in the absence of the DRD4 long allele. We discuss how the interaction of genetic and endoenvironmental factors may confer risk and protection for different behavioral styles in children.},
affiliation = {Department of Psychology, Neuroscience {\&} Behaviour, McMaster University, Hamilton, Ontario L8S 4K1, Canada. schmidtl@mcmaster.ca},
number = {7},
pages = {831--7},
volume = {20},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Longitudinal Studies, Brain, Temperament, Alleles, Behavior, Infant Behavior, Frontal Lobe, Electroencephalography, Child: Preschool, Functional Laterality, Infant, Receptors: Dopamine D4, Humans},
date-added = {2010-03-22 13:23:57 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2009.02374.x},
pii = {PSCI2374},
pmid = {19493320},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmidt-2009-Psychol%20Sci_Linking%20gene%20brain.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9093},
rating = {0}
}
@article{Dahl:2009p927,
author = {Tobias Dahl and T Naes},
journal = {Food Qualify and Prefrence},
title = {Identifying outlying assessors in sensory profiling using fuzzy clustering and multi-block methodology},
abstract = {In this paper we discuss methods for detecting outlying assessors in descriptive sensory analysis. A new method is proposed which is based on fuzzy clustering with the use of the noise cluster method. The technique ends up with a plot which can be used to provide information about which assessors that are different from the rest and also to suggest reasons why the assessors are different. The method is based on data compression by the use of either Tucker-1 or Tucker-2 for multi-block data. The technique is used on a dataset based on an oxidation experiment of cheese. There are 9 trained and 3 untrained assessors in the panel.},
affiliation = {epartment of Informatics, University of Oslo, PB-1060 Blindern, N-0316 Oslo, Norway},
pages = {287--294},
volume = {20},
year = {2009},
keywords = {Multi-block methods, Principal components, Outliers, Fuzzy clustering, Noise cluster},
date-added = {2010-01-03 19:25:13 +0100},
date-modified = {2010-07-29 19:26:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dahl-2009-Food%20Qualify%20and%20Prefrence_Identifying%20outlying.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p927},
rating = {0}
}
@article{Robbins:2008p1449,
author = {T W Robbins and B J Everitt and D J Nutt},
journal = {Philos Trans R Soc Lond, B, Biol Sci},
title = {Introduction. The neurobiology of drug addiction: new vistas},
affiliation = {Experimental Psychology and Behavioural and Clinical Neuroscience Institute, University of Cambridge, Cambridge, UK. twr2@cam.ac.uk},
number = {1507},
pages = {3109--11},
volume = {363},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Dopamine, Models: Biological, Humans, Substance-Related Disorders, Neurobiology, Association Learning, Nucleus Accumbens},
date-added = {2010-01-07 12:22:38 +0100},
date-modified = {2010-01-07 12:22:38 +0100},
doi = {10.1098/rstb.2008.0108},
pii = {5361474767210852},
pmid = {18640913},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robbins-2008-Philos%20Trans%20R%20Soc%20Lond%20B%20Biol%20Sci_Introduction.%20The%20ne.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1449},
rating = {0}
}
@article{OrlandoEdelen:2006p7865,
author = {Maria Orlando Orlando Edelen and David Thissen and Jeanne A Teresi and Marjorie Kleinman and Katja Ocepek-Welikson},
journal = {Med Care},
title = {Identification of differential item functioning using item response theory and the likelihood-based model comparison approach. Application to the Mini-Mental State Examination},
abstract = {BACKGROUND: An important part of examining the adequacy of measures for use in ethnically diverse populations is the evaluation of differential item functioning (DIF) among subpopulations such as those administered the measure in different languages. A number of methods exist for this purpose. OBJECTIVE: The objective of this study was to introduce and demonstrate the identification of DIF using item response theory (IRT) and the likelihood-based model comparison approach. METHODS: Data come from a sample of community-residing elderly who were part of a dementia case registry. A total of 1578 participants were administered either an English (n = 913) or Spanish (n = 665) version of the 21-item Mini-Mental State Examination. IRT was used to identify language DIF in these items with the likelihood-based model comparison approach. RESULTS:: Fourteen of the 21 items exhibited significant DIF according to language of administration. However, because the direction of the identified DIF was not consistent for one language version over the other, the impact at the scale level was negligible. CONCLUSIONS: IRT and the likelihood-based model comparison approach comprise a powerful tool for DIF detection that can aid in the development, refinement, and evaluation of measures for use in ethnically diverse populations.},
affiliation = {RAND Corporation, Santa Monica, California 90407, USA. maria_orlando@rand.org},
number = {11 Suppl 3},
pages = {S134--42},
volume = {44},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Hispanic Americans, Aged, Data Interpretation: Statistical, Ethnic Groups, New York City, Female, Bias (Epidemiology), Neuropsychological Tests, Reference Standards, Dementia, Translating, Male, Humans, Psychometrics, Cross-Cultural Comparison},
date-added = {2010-03-20 19:02:20 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000245251.83359.8c},
pii = {00005650-200611001-00019},
pmid = {17060820},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orlando%20Edelen-2006-Med%20Care_Identification%20of%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7865},
rating = {0}
}
@article{Yang:2007p10080,
author = {Jian Yang and Jun Zhu and Robert W Williams},
journal = {Bioinformatics},
title = {Mapping the genetic architecture of complex traits in experimental populations},
abstract = {SUMMARY: Understanding how interactions among set of genes affect diverse phenotypes is having a greater impact on biomedical research, agriculture and evolutionary biology. Mapping and characterizing the isolated effects of single quantitative trait locus (QTL) is a first step, but we also need to assemble networks of QTLs and define non-additive interactions (epistasis) together with a host of potential environmental modulators. In this article, we present a full-QTL model with which to explore the genetic architecture of complex trait in multiple environments. Our model includes the effects of multiple QTLs, epistasis, QTL-by-environment interactions and epistasis-by-environment interactions. A new mapping strategy, including marker interval selection, detection of marker interval interactions and genome scans, is used to evaluate putative locations of multiple QTLs and their interactions. All the mapping procedures are performed in the framework of mixed linear model that are flexible to model environmental factors regardless of fix or random effects being assumed. An F-statistic based on Henderson method III is used for hypothesis tests. This method is less computationally greedy than corresponding likelihood ratio test. In each of the mapping procedures, permutation testing is exploited to control for genome-wide false positive rate, and model selection is used to reduce ghost peaks in F-statistic profile. Parameters of the full-QTL model are estimated using a Bayesian method via Gibbs sampling. Monte Carlo simulations help define the reliability and efficiency of the method. Two real-world phenotypes (BXD mouse olfactory bulb weight data and rice yield data) are used as exemplars to demonstrate our methods. AVAILABILITY: A software package is freely available at http://ibi.zju.edu.cn/software/qtlnetwork},
affiliation = {Institute of Bioinformatics, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, PR China.},
number = {12},
pages = {1527--36},
volume = {23},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Oryza sativa, Chromosomes: Mammalian, Phenotype, Genotype, Genome, Animals, Stochastic Processes, Crosses: Genetic, Computational Biology, Markov Chains, Monte Carlo Method, Chromosome Mapping, Epistasis: Genetic, Haplotypes, Mice, Mice: Inbred C57BL, Quantitative Trait: Heritable, Chromosomes: Plant, Genetic Markers, Algorithms, Genetic Variation, Likelihood Functions, Mice: Inbred DBA, Genome: Plant, Regression Analysis, Models: Genetic, Computer Simulation},
date-added = {2010-03-31 20:19:40 +0200},
date-modified = {2010-03-31 20:19:40 +0200},
doi = {10.1093/bioinformatics/btm143},
pii = {btm143},
pmid = {17459962},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10080},
rating = {0}
}
@article{Mislevy:2006p4258,
author = {R J Mislevy},
title = {Issues of Structure and Issues of Scale in Assessment From a Situative/Sociocultural Perspective},
abstract = {A situated/sociocultural (SC) view of assessment ``emphasizes questions about the quality of students' participation in activities of inquiry and sense-making, and considers assessment practices as integral components of the general systems of activity in which they occur'' (Greeno, Collins, {\&} Resnick, 1997, p. 36). This presentation addresses two issues. The first is understanding the SC view of assessment through the lens of an ``evidence centered'' design framework that has proven useful for assessment cast in trait, behavioral, and information-processing perspectives. The second is addressing issues that arise when one attempts to design assessments that are at once compatible with SC principles and suitable for large-scale use. Illustrations are drawn from the Advanced Placement Studio Art portfolio art assessment and the HYDRIVE intelligent tutoring system.},
year = {2006},
date-added = {2010-01-23 21:06:16 +0100},
date-modified = {2010-01-23 21:06:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-2006-_Issues%20of%20Structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4258},
rating = {0}
}
@article{Straus:2004p8308,
author = {Murray A Straus and Emily M Douglas},
journal = {Violence Vict},
title = {A short form of the Revised Conflict Tactics Scales, and typologies for severity and mutuality},
abstract = {The revised Conflict Tactics Scales (CTS2) is the most widely used instrument for measuring intimate partner violence. This article presents a short form to enable the CTS2 to be used when testing time is very limited. It also presents procedures that can be used with either the full test or the short form to classify individuals on the basis of severity of behavior toward a partner or by a partner, and to classify couples on the basis of mutuality or symmetry in the behaviors measured by the CTS2. The results indicate that the short form is comparable in validity to the full CTS2. Although the short form does not identify as many cases of partner violence as the full scale, it does identify a large number of cases and if there is insufficient time for the full scale, can be a useful screening instrument.},
affiliation = {Family Research Laboratory, University of New Hampshire Durham, NH 03824, USA. Murray.Straus@unh.edu},
number = {5},
pages = {507--20},
volume = {19},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Spouse Abuse, Adult, United States, Interpersonal Relations, Humans, Reproducibility of Results, Severity of Illness Index, Mass Screening, Sensitivity and Specificity, Questionnaires},
date-added = {2010-03-20 20:05:47 +0100},
date-modified = {2010-03-20 20:05:47 +0100},
pmid = {15844722},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8308},
rating = {0}
}
@article{McPhail:2010p13752,
author = {Steven McPhail and Terry Haines},
journal = {Health Qual Life Outcomes},
title = {Response shift, recall bias and their effect on measuring change in health-related quality of life amongst older hospital patients},
abstract = {ABSTRACT: BACKGROUND: Assessments of change in subjective patient reported outcomes such as health-related quality of life (HRQoL) are a key component of many clinical and research evaluations. However, conventional longitudinal evaluation of change may not agree with patient perceived change if patients' understanding of the subjective construct under evaluation changes over time (response shift) or if patients' have inaccurate recollection (recall bias). This study examined whether older adults' perception of change is in agreement with conventional longitudinal evaluation of change in their HRQoL over the duration of their hospital stay. It also investigated this level of agreement after adjusting patient perceived change for recall bias that patients may have experienced. METHODS: A prospective longitudinal cohort design nested within a larger randomised controlled trial was implemented. 103 hospitalised older adults participated in this investigation at a tertiary hospital facility. The EQ-5D utility and Visual Analogue Scale(VAS) scores were used to evaluate HRQoL. Participants completed EQ-5D reports as soon as they were medically stable (within three days of admission) then again immediately prior to discharge. Three methods of change score calculation were used (conventional change, patient perceived change and patient perceived change adjusted for recall bias). Agreement was primarily investigated using intraclass correlation coefficients(ICC) and limits of agreement. RESULTS: Overall 101(98%) participants completed both admission and discharge assessments. The mean(SD) age was 73.3(11.2). The median(IQR) length of stay was 38(20-60) days. For agreement between conventional longitudinal change and patient perceived change: ICCs were 0.34 and 0.40 for EQ-5D utility and VAS respectively. For agreement between conventional longitudinal change and patient perceived change adjusted for recall bias: ICCs were 0.98 and 0.90 respectively. Discrepancy between conventional longitudinal change and patient perceived change was considered clinically meaningful for 84(83.2%) of participants, after adjusting for recall bias this reduced to 8(7.9%). CONCLUSIONS: Agreement between conventional change and patient perceived change was not strong. A large proportion of this disagreement could be attributed to recall bias. To overcome the invalidating effect of response shift (on conventional change) and recall bias (on patient perceived change) a method of adjusting patient perceived change for recall bias has been described.},
number = {1},
pages = {65},
volume = {8},
year = {2010},
month = {Jul},
language = {ENG},
date-added = {2010-07-24 12:43:41 +0200},
date-modified = {2010-07-24 12:43:41 +0200},
doi = {10.1186/1477-7525-8-65},
pii = {1477-7525-8-65},
pmid = {20618978},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McPhail-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Response%20shift%20reca-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13752},
rating = {0}
}
@article{Wolpert:1992p2804,
author = {D H Wolpert},
journal = {Neural Netw},
title = {Stacked generalization},
pages = {241--259},
volume = {5},
year = {1992},
date-added = {2010-01-13 14:48:34 +0100},
date-modified = {2010-07-29 19:41:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wolpert-1992-Neural%20Netw_Stacked%20generalizati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2804},
rating = {0}
}
@article{Lecoutre:1999p11764,
author = {B Lecoutre},
journal = {International Statistical Institute},
title = {Beyond the significance test controversy: Prime time for Bayes?},
year = {1999},
date-added = {2010-05-23 10:12:02 +0200},
date-modified = {2010-05-23 10:12:28 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lecoutre-1999-International%20Statistical%20Institute_Beyond%20the%20significa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11764},
rating = {0}
}
@article{Barnes:2002,
author = {L L B Barnes and D Harp and W S Jung},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization of scores on the Speilberger State-trait Anxiety Inventory},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1899},
rating = {0}
}
@article{Liu:2007p2906,
author = {Hongjie Liu and Shuli Yu and Lesley Cottrell and Sonja Lunn and Lynette Deveaux and Nanika V Brathwaite and Sharon Marshall and Xiaoming Li and Bonita Stanton},
journal = {BMC Public Health},
title = {Personal values and involvement in problem behaviors among Bahamian early adolescents: a cross-sectional study},
abstract = {BACKGROUND: Few studies, particularly in developing countries, have explored the relationship between adolescents and parental values with adolescent problem behaviors. The objectives of the study are to (1) describe adolescents' personal values, their problem behaviors, and the relationships thereof according to gender and (2) examine the relationship between parental values, adolescent values, and adolescents' problem behaviors among sixth-grade students and one of their parents. METHODS: The data used in these analyses were from the baseline assessment of a school-based HIV risk reduction intervention being conducted and evaluated among sixth grade students and one of their parents across 9 elementary schools in The Bahamas. Personal values were measured by the Portrait Values Questionnaire (PVQ). Seven reported problem behaviors were queried from the students, which included physical fight with a friend, drank alcohol, beer, or wine, smoked a cigarette, pushed or carried any drugs, carried a gun, knife, screwdriver or cutlass to use as a weapon, had sex and used marijuana or other illicit drugs over the past 6 months. Multilevel modeling for binary data was performed to estimate the associations between adolescent and parental values and adolescent problem behaviors. RESULTS: Among 785 students, 47% of the students reported at least one problem behavior. More boys (54%) reported having one or more problem behaviors than girls (41%, p < 0.01). Boys compared to girls expressed a higher level of self-enhancement (means score: 36.5 vs. 35.1; p = 0.03), while girls expressed a higher level of self-transcendence (42.3 vs. 40.7; p = 0.03). The results of multilevel modeling indicates that boys with a higher level of self-enhancement and girls with a higher level of openness to change and a lower level of conservation were more likely to report engagement in problem behaviors. Only two parental values (self-transcendence and conservation) were low or modestly correlated with youth' values (openness to change and self-enhancement). Parental-reported values documented limited association on adolescents' reported values and behaviors. CONCLUSION: In designing interventions for reducing adolescents' problem behaviors, it may be important to understand the values associated with specific problem behaviors. Further exploration regarding lack of association between adolescent and parental values and problem behaviors is needed.},
affiliation = {The Carman and Ann Adams Department of Pediatrics, Wayne State University School of Medicine, Detroit, Michigan 48201, USA. hongjie@med.wayne.edu},
pages = {135},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Students, Interviews as Topic, Adolescent Behavior, Sexual Behavior, Adolescent, Female, Risk-Taking, Social Values, Parent-Child Relations, Parents, Cross-Sectional Studies, Child, Psychometrics, Health Knowledge: Attitudes: Practice, Sex Factors, Male, Humans, Social Behavior Disorders, Bahamas},
date-added = {2010-01-13 15:01:48 +0100},
date-modified = {2010-01-13 15:01:48 +0100},
doi = {10.1186/1471-2458-7-135},
pii = {1471-2458-7-135},
pmid = {17605792},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2007-BMC%20Public%20Health_Personal%20values%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2906},
rating = {0}
}
@article{Reeve:2007p2441,
author = {Bryce B Reeve and Ron D Hays and Jakob B Bjorner and Karon F Cook and Paul K Crane and Jeanne A Teresi and David Thissen and Dennis A Revicki and David J Weiss and Ronald K Hambleton and Honghu Liu and Richard Gershon and Steven P Reise and Jin-Shei Lai and David Cella and PROMIS Cooperative Group},
journal = {Med Care},
title = {Psychometric evaluation and calibration of health-related quality of life item banks: plans for the Patient-Reported Outcomes Measurement Information System (PROMIS)},
abstract = {BACKGROUND: The construction and evaluation of item banks to measure unidimensional constructs of health-related quality of life (HRQOL) is a fundamental objective of the Patient-Reported Outcomes Measurement Information System (PROMIS) project. OBJECTIVES: Item banks will be used as the foundation for developing short-form instruments and enabling computerized adaptive testing. The PROMIS Steering Committee selected 5 HRQOL domains for initial focus: physical functioning, fatigue, pain, emotional distress, and social role participation. This report provides an overview of the methods used in the PROMIS item analyses and proposed calibration of item banks. ANALYSES: Analyses include evaluation of data quality (eg, logic and range checking, spread of response distribution within an item), descriptive statistics (eg, frequencies, means), item response theory model assumptions (unidimensionality, local independence, monotonicity), model fit, differential item functioning, and item calibration for banking. RECOMMENDATIONS: Summarized are key analytic issues; recommendations are provided for future evaluations of item banks in HRQOL assessment.},
affiliation = {National Cancer Institute, NIH, Bethesda, Maryland 20892, USA. reeveb@mail.nih.gov},
number = {5 Suppl 1},
pages = {S22--31},
volume = {45},
year = {2007},
month = {May},
language = {eng},
keywords = {Outcome Assessment (Health Care), Female, Psychometrics, Health Status, Adult, United States, Questionnaires, Self Disclosure, Databases as Topic, Adolescent, Aged, Middle Aged, Calibration, Humans, Quality of Life, Male, Information Systems, Evaluation Studies as Topic},
date-added = {2010-01-11 23:51:14 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000250483.85507.04},
pii = {00005650-200705001-00004},
pmid = {17443115},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reeve-2007-Med%20Care_Psychometric%20evaluat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2441},
rating = {0}
}
@article{Wilson:1995p268,
author = {I B Wilson and P D Cleary},
journal = {JAMA},
title = {Linking clinical variables with health-related quality of life. A conceptual model of patient outcomes},
abstract = {Our model proposes a taxonomy or classification scheme for different measures of health outcome. We divide these outcomes into five levels: biological and physiological factors, symptoms, functioning, general health perceptions, and overall quality of life. In addition to classifying these outcome measures, we propose specific causal relationships between them that link traditional clinical variables to measures of HRQL. As one moves from left to right in the model, one moves outward from the cell to the individual to the interaction of the individual as a member of society. The concepts at each level are increasingly integrated and increasingly difficult to define and measure. AT each level, there are an increasing number of inputs that cannot be controlled by clinicians or the health care system as it is traditionally defined.},
affiliation = {Primary Care Outcomes Research Institute, New England Medical Center, Boston, MA.},
number = {1},
pages = {59--65},
volume = {273},
year = {1995},
month = {Jan},
language = {eng},
keywords = {Health Services Research, Health Status Indicators, Outcome Assessment (Health Care), Models: Theoretical, Patient Satisfaction, Quality of Life, Humans, Activities of Daily Living, Decision Support Techniques},
date-added = {2010-01-03 11:27:04 +0100},
date-modified = {2010-01-03 11:27:04 +0100},
pmid = {7996652},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p268},
rating = {0}
}
@article{Pages:2001p4077,
author = {J Pag{\`e}s and M Tenenhaus},
journal = {Chemometrics and Intelligent Laboratory Systems},
title = {Multiple factor analysis combined with PLS path modelling. Application to the analysis of relationships between physicochemical variables, sensory profiles and hedonic judgements},
abstract = {Multiple Factor Analysis {\v Z}MFA. highlights the structures common to a set of J groups {\v Z}or blocks. of variables observed for the same individuals. PLS path modelling allows a search for latent variables, summarising as far as possible one-dimen- sional blocks of manifest variables while taking account of causal links between the blocks. These two methods can be com- bined: MFA, as an exploratory analysis, helps to define blocks, being both one-dimensional and as well-correlated as possi- ble, on which PLS path modelling is performed.
In this paper, we present MFA in detail and PLS path modelling more briefly. We also mention some links between MFA, PLS path modelling and PLS regression. A detailed presentation of a sensory analysis example will illustrate the proposed methodology. },
affiliation = {ENSA--INSFA, Rennes, France},
pages = {261--273},
volume = {58},
year = {2001},
date-added = {2010-01-19 15:54:32 +0100},
date-modified = {2010-01-19 15:55:57 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pag%C3%A8s-2001-Chemometrics%20and%20Intelligent%20Laboratory%20Systems_Multiple%20factor%20anal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4077},
rating = {0}
}
@article{Ferrando:1999p5902,
author = {P J Ferrando},
journal = {Applied Psychological Measurement},
title = {Likert Scaling Using Continuous, Censored, and Graded Response Models: Effects on Criterion-Related Validity},
abstract = {This study examined how three item response models performed when they were applied to data col- lected from a conventionally developed Likert-type personality scale. Each model examined is based on a different response assumption: the multiple linear factor analysis model (continuous responses), the TOBIT factor analysis model (censored responses), and the multidimensional graded response model. The item and examinee parameters of the models were estimated using different discrepancy functions and current software implementations. Comparisons
were made in terms of the goodness-of-fit of the model, parameter estimates, and criterion-related validity. Results showed that the models' response assumptions were reasonably tenable and that the solutions obtained in all cases were similar. More complex models did not lead to substantial improve- ment in predictive validity.},
number = {2},
pages = {161--175},
volume = {23},
year = {1999},
date-added = {2010-02-18 23:01:34 +0100},
date-modified = {2010-02-18 23:02:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ferrando-1999-Applied%20Psychological%20Measurement_Likert%20Scaling%20Using.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5902},
rating = {0}
}
@article{Kolenikov:2010p2925,
author = {S Kolenikov},
journal = {The Stata Joumal},
title = {Confirmatory factor analysis using cfa},
date-added = {2010-01-13 22:11:56 +0100},
date-modified = {2010-07-29 19:53:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kolenikov--The%20Stata%20Joumal_Confirmatory%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2925},
rating = {0}
}
@inbook{Schaeffer:2004,
author = {NC Schaeffer and JL Dykema},
journal = {Book},
title = {Methods for testing and evaluating survey questionnaires},
chapter = {Improving the clarity of closely related concepts},
year = {2004},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p935},
rating = {0}
}
@article{Hatemi:2007p2237,
author = {Peter K Hatemi and Sarah E Medland and Katherine I Morley and Andrew C Heath and Nicholas G Martin},
journal = {Behav Genet},
title = {The genetics of voting: an Australian twin study},
abstract = {Previously we and others have shown evidence for genetic influences on political attitudes and sociodemographic indicators (Martin 1987; Posner et al. 1996; Truett et al. 1992; Eaves et al. 1999). However, the nature of the relationship between political attitudes, social indictors and voting behavior has not been investigated. While heritability estimates for social and political attitudes have been reported in previous research, the heritability for vote choice has not. Furthermore, if vote choice is heritable, it is unclear whether the heritable component can be accounted for through the genetic influence on related social and political traits, or if there exists a unique genetic component specific to voting behavior. In mailed surveys of adult Australian twins, we asked respondents to indicate their usual voting preference as well as attitudes on contemporary individual political items. When vote choice was dichotomized as Labor versus Conservative, twin correlations were r (mz) = 0.81 (1,661 pairs), and r (dz) = 0.69 (1,727 pairs) consistent with modest genetic influence (a (2) = 0.24). However, multivariate genetic analysis showed no unique genetic contribution to voting preference; rather, the genetic influence in vote choice could be explained by shared genetic influences in perceived social class, church attendance and certain key political attitude items.},
affiliation = {Genetic Epidemiology Unit, Queensland Institute of Medical Research, Brisbane, QLD, Australia. Peter.Hatemi@qimr.edu.au},
number = {3},
pages = {435--48},
volume = {37},
year = {2007},
month = {May},
language = {eng},
keywords = {Socioeconomic Factors, Cohort Studies, Registries, Adult, Attitude, Humans, Health Status, Life Style, Data Collection, Social Class, Politics, Australia, Questionnaires, Social Behavior},
date-added = {2010-01-10 11:57:38 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9138-8},
pmid = {17221311},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hatemi-2007-Behav%20Genet_The%20genetics%20of%20voti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2237},
rating = {0}
}
@article{Bland:1997p899,
author = {JM Bland and Douglas G Altman},
journal = {British Medical Journal},
title = {Cronbach's Alpha},
pages = {572},
volume = {314},
year = {1997},
date-added = {2010-01-03 18:26:16 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bland-1997-British%20Medical%20Journal_Cronbach's%20Alpha.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p899},
rating = {0}
}
@article{Lee:2006p1720,
author = {S H Lee and R Terry},
journal = {SUGI 31 Proceedings},
title = {MDIRT-FIT: SAS{\textregistered} Macros for Fitting Multidimensional Item Response},
abstract = {Even though unidimensional item response theory (IRT) provides a better framework for practical test settings than classical test theory (CTT), theoretical and empirical evidence shows that most response data violate the assumption of unidimensionality. There are several computer programs dedicated to estimating parameters based on the multidimensional perspective (MIRT). However, their accessibility is still costly, and they are not easy to use. In this paper, we present a SAS macro called MDIRT-FIT, to increase accessibility to the benefits obtained from this recent measurement theory development. The program is developed to estimate parameters based on a compensatory multidimensional item response theory (MIRT) model for dichotomous data. The full information item factor analysis model with an EM algorithm suggested in Bock {\&} Aitken (1988) is implemented in the SAS programs. The estimation program written in SAS/IML{\textregistered} provides both parameters of MIRT and parameters of the factor analysis model with their associated standard errors and overall model fit statistics. The maximum number of latent traits that can be estimated with this program is limited to five latent dimensions because of both computational burden and practical sufficiency. The accuracy and stability of the SAS macro is examined by utilizing simulated data of examinees' responses.},
pages = {199--31},
year = {2006},
date-added = {2010-01-09 20:27:29 +0100},
date-modified = {2010-01-09 20:29:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2006-SUGI%2031%20Proceedings_MDIRT-FIT%20SAS%C2%AE%20Macr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1720},
rating = {0}
}
@article{Halpern:2009p6389,
author = {Vera Halpern and Orikomaba Obunge and Folasade Ogunsola and Sakiru Otusanya and John Umo-Otong and Chin-Hua Wang and Neha Mehta},
journal = {BMC Med Res Methodol},
title = {Interim data monitoring to enroll higher-risk participants in HIV prevention trials},
abstract = {BACKGROUND: Lower-than-expected incidence of HIV undermines sample size calculations and compromises the power of a HIV prevention trial. We evaluated the effectiveness of interim monitoring of HIV infection rates and on-going modification of recruitment strategies to enroll women at higher risk of HIV in the Cellulose Sulfate Phase III study in Nigeria. METHODS: We analyzed prevalence and incidence of HIV and other sexually transmitted infections, demographic and sexual behavior characteristics aggregated over the treatment groups on a quarterly basis. The site investigators were advised on their recruitment strategies based on the findings of the interim analyses. RESULTS: A total of 3619 women were screened and 1644 enrolled at the Ikeja and Apapa clinics in Lagos, and at the Central and Peripheral clinics in Port Harcourt. Twelve months after study initiation, the overall incidence of HIV was less than one-third of the pre-study assumption, with rates of HIV that varied substantially between clinics. Due to the low prevalence and incidence rates of HIV, it was decided to close the Ikeja clinic in Lagos and to find new catchment areas in Port Harcourt. This strategy was associated with an almost two-fold increase in observed HIV incidence during the second year of the study. CONCLUSION: Given the difficulties in estimating HIV incidence, a close monitoring of HIV prevalence and incidence rates during a trial is warranted. The on-going modification of recruitment strategies based on the regular analysis of HIV rates appeared to be an efficient method for targeting populations at greatest risk of HIV infection and increasing study power in the Nigeria trial. TRIAL REGISTRATION: The trial was registered with the ClinicalTrials.gov registry under {\#}NCT00120770 http://clinicaltrials.gov/ct2/show/NCT00120770.},
affiliation = {Family Health International, Research Triangle Park, NC, USA. vhalpern@fhi.org},
pages = {44},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Nigeria, Sexually Transmitted Diseases, Adult, Female, Incidence, Sample Size, Young Adult, Prevalence, Data Collection, HIV Infections, Humans},
date-added = {2010-02-23 08:26:08 +0100},
date-modified = {2010-02-23 08:26:08 +0100},
doi = {10.1186/1471-2288-9-44},
pii = {1471-2288-9-44},
pmid = {19549331},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6389},
rating = {0}
}
@article{Javaras:2007p2335,
author = {K N Javaras and B D Ripley},
journal = {JAMA},
title = {An ``Unfolding'' Latent Variable Model for Likert Attitude Data: Drawing Inferences Adjusted for Response Style},
abstract = {Likert attitude data consist of responses to favorable and unfavorable statements about an entity, where responses fall into ordered categories ranging from disagreement to agreement. Social science and marketing researchers frequently use data of this type to measure attitudes toward an entity such as a policy or product. We focus on data on American and British attitudes toward their respective nations (``national pride''). We introduce a multidimensional unfolding model (MUM) to describe the relationship between the data and the attitudes underlying them. Unlike most existing models, the MUM allows the data to reflect not just attitudes, but also response style, which is defined as a consistent and content-independent pattern of response category selection such as a tendency to agree with all statements. The MUM can be used to model multiple attitudes, which allows researchers to expand their analysis of the data of interest to include all available Likert data so as to increase information on response style. For example, we include additional data on immigration attitudes to help distinguish the effects of response style and national pride on our data. The MUM can be used to fit linear models for the effects of background variables on attitudes. Resulting inferences about attitudes are adjusted for response style and should be less biased. Simulation results strongly suggest that, unlike Likert's popular scoring model, the MUM yields unbiased inferences even when there are unequal proportions of favorable and unfavorable statements.},
number = {478},
pages = {454--463},
volume = {102},
year = {2007},
date-added = {2010-01-10 13:18:58 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
doi = {10.1198/016214506000000960},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Javaras-2007-JAMA_An%20%E2%80%9CUnfolding%E2%80%9D%20Laten.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2335},
rating = {0}
}
@article{Barrada:2009p534,
author = {Juan Ramon Barrada and Julio Olea and Vicente Ponsoda and Francisco Jose Abad},
journal = {Methodology},
title = {Item Selection Rules in Computerized Adaptive Testing. Accuracy and Security},
abstract = {The item selection rule (ISR) most commonly used in computerized adaptive testing (CAT) is to select the item with maximum Fisher information for the current trait estimation (PFI). Several alternative ISRs have been proposed. Among them, Fisher information considered in an interval (FI*I), Fisher information weighted with the likelihood function (FI*L), Kullback-Leibler information considered in an interval (KL*I) and Kullback-Leibler weighted with the likelihood function (KL*L) have shown a greater precision of trait estimation at the early stages of CAT. A new ISR is proposed, Fisher information by interval with geometric mean (FI*IG), which tries to rectify some detected problems in FI*I. We evaluate accuracy and item bank security for these six ISRs. FI*IG is the only ISR which simultaneously outperforms PFI in both variables. For the other ISRs, there seems to be a trade-off between accuracy and security, PFI being the one with worse accuracy and greater security, and the ISRs using the likelihood function the reverse.},
affiliation = {Universidad Aut{\'o}noma de Barcelona, Spain},
number = {1},
pages = {7--17},
volume = {5},
year = {2009},
keywords = {item selection, computerized adaptive testing, test security, item exposure control},
date-added = {2010-01-03 13:49:23 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
doi = {10.1027/1614-2241.5.1.7},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barrada-2009-Methodology_Item%20Selection%20Rules.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p534},
rating = {0}
}
@article{John:1999p1370,
author = {O P John and S Srivastava},
title = {The Big-Five Trait Taxonomy: History, Measurement, and Theoretical Perspectives},
year = {1999},
date-added = {2010-01-07 12:14:31 +0100},
date-modified = {2010-01-07 12:15:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/John-1999-_The%20Big-Five%20Trait%20T.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1370},
rating = {0}
}
@article{Gandek:1998p5873,
author = {B Gandek and J E Ware and Neil K Aaronson and Jordi Alonso and G Apolone and J Bjorner and J Brazier and M Bullinger and S Fukuhara and S Kaasa and A Lepl{\`e}ge and M Sullivan},
journal = {Journal of Clinical Epidemiology},
title = {Tests of data quality, scaling assumptions, and reliability of the SF-36 in eleven countries: results from the IQOLA Project. International Quality of Life Assessment},
abstract = {Data from general population samples in 11 countries (n = 1483 to 9151) were used to assess data quality and test the assumptions underlying the construction and scoring of multi-item scales from the SF-36 Health Survey. Across all countries, the rate of item-level missing data generally was low, although slightly higher for items printed in the grid format. In each country, item means generally were clustered as hypothesized within scales. Correlations between items and hypothesized scales were greater than 0.40 with one exception, supporting item internal consistency. Items generally correlated significantly higher with their own scale than with competing scales, supporting item discriminant validity. Scales could be constructed for 93-100% of respondents. Internal consistency reliability of the eight SF-36 scales was above 0.70 for all scales, with two exceptions. Floor effects were low for all except the two role functioning scales; ceiling effects were high for both role functioning scales and also were noteworthy for the Physical Functioning, Bodily Pain, and Social Functioning scales in some countries. These results support the construction and scoring of the SF-36 translations in these 11 countries using the method of summated ratings.},
affiliation = {Health Assessment Lab at the Health Institute, New England Medical Center, Boston, Massachusetts 02111, USA.},
number = {11},
pages = {1149--58},
volume = {51},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Questionnaires, Developed Countries, Health Status Indicators, Cross-Cultural Comparison, Quality of Life, Psychometrics, Humans, Discriminant Analysis},
date-added = {2010-02-17 15:01:49 +0100},
date-modified = {2010-07-29 20:19:11 +0200},
pii = {S0895435698001061},
pmid = {9817132},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gandek-1998-Journal%20of%20Clinical%20Epidemiology_Tests%20of%20data%20qualit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5873},
rating = {0}
}
@article{Dai:2006p4648,
author = {James Y Dai and Ingo Ruczinski and Michael LeBlanc and Charles Kooperberg},
journal = {Genet Epidemiol},
title = {Imputation methods to improve inference in SNP association studies},
abstract = {Missing single nucleotide polymorphisms (SNPs) are quite common in genetic association studies. Subjects with missing SNPs are often discarded in analyses, which may seriously undermine the inference of SNP-disease association. In this article, we develop two haplotype-based imputation approaches and one tree-based imputation approach for association studies. The emphasis is to evaluate the impact of imputation on parameter estimation, compared to the standard practice of ignoring missing data. Haplotype-based approaches build on haplotype reconstruction by the expectation-maximization (EM) algorithm or a weighted EM (WEM) algorithm, depending on whether case-control status is taken into account. The tree-based approach uses a Gibbs sampler to iteratively sample from a full conditional distribution, which is obtained from the classification and regression tree (CART) algorithm. We employ a standard multiple imputation procedure to account for the uncertainty of imputation. We apply the methods to simulated data as well as a case-control study on developmental dyslexia. Our results suggest that imputation generally improves efficiency over the standard practice of ignoring missing data. The tree-based approach performs comparably well as haplotype-based approaches, but the former has a computational advantage. The WEM approach yields the smallest bias at a price of increased variance.},
affiliation = {Department of Biostatistics, University of Washington, Seattle, Washington, USA. yud@u.washington.edu},
number = {8},
pages = {690--702},
volume = {30},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Probability, Case-Control Studies, Algorithms, Likelihood Functions, Research Design, Reproducibility of Results, Polymorphism: Single Nucleotide, Chromosome Mapping, Models: Statistical, Dyslexia, Models: Genetic, Haplotypes, Computer Simulation, Humans},
date-added = {2010-01-30 16:05:53 +0100},
date-modified = {2010-01-30 16:05:53 +0100},
doi = {10.1002/gepi.20180},
pmid = {16986162},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dai-2006-Genet%20Epidemiol_Imputation%20methods%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4648},
rating = {0}
}
@book{Guyon2006,
author = {I Guyon and S Gunn and M Nikravesh and L A Zadeh},
journal = {Book},
title = {Feature Extraction: Foundations And Applications},
year = {2006},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2535},
rating = {0}
}
@article{Shen:2009p2373,
author = {Qi Shen and Wei-min Shi and Wei Kong},
journal = {J Biomed Inform},
title = {New gene selection method for multiclass tumor classification by class centroid},
abstract = {In the analysis of gene expression profiles, the selection of genetic markers and precise diagnosis of cancer type are crucial for successful treatment. The selection of discriminatory genes is critical to improve the accuracy and decrease computational complexity and cost in microarray analysis. In this paper, we developed a new statistical parameter, the suitability score to filter genes which only utilize sample distances from the class centroid. The filtered genes are employed in the nearest centroid classification to classify cancer. To evaluate the performance of the new statistical parameter, the proposed approach is applied to three publicly available microarray datasets. In this paper we demonstrate that the proposed gene selection method is steady in handling classification tasks and is a useful tool for gene selection and mining high dimension data.},
affiliation = {Chemistry Department, Zhengzhou University, Zhengzhou 450052, China.},
number = {1},
pages = {59--65},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Genetic Markers, Genes, Databases: Genetic, Neoplasms, Algorithms, Genes: Neoplasm, Gene Expression Profiling, Data Interpretation: Statistical, Oligonucleotide Array Sequence Analysis, Reproducibility of Results, Humans, Sensitivity and Specificity},
date-added = {2010-01-10 19:28:10 +0100},
date-modified = {2010-01-10 19:28:10 +0100},
doi = {10.1016/j.jbi.2008.05.011},
pii = {S1532-0464(08)00082-8},
pmid = {18835752},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shen-2009-J%20Biomed%20Inform_New%20gene%20selection%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2373},
rating = {0}
}
@article{Ormel:1997p13122,
author = {J Ormel and S Lindenberg and N Steverink and M Vonkorff},
journal = {Soc Sci Med},
title = {Quality of life and social production functions: a framework for understanding health effects},
abstract = {Quality of life (QofL) has emerged as a new outcome paradigm. It is now the endpoint in various taxonomies of patient outcomes, in which relationships are modeled amongst biological abnormalities, symptom status, functional status, disability, health perceptions and quality of life. Although current models and taxonomies point at important determinants of QofL, they do not provide a heuristic that guides the conceptualization of QofL and the systematic development of an explanatory theory of how ill health affects QofL. General mechanisms linking ill health, behavior, and QofL are lacking. In this paper we propose social production function (SPF) theory as providing such a heuristic, relating the effects of ill health, the activities that patients engage in to maintain QofL, and QofL itself. This theory basically asserts that people produce their own well-being by trying to optimize achievement of universal human goals via six instrumental goals within the environmental and functional limitations they are facing. Three important notions of SPF theory are: (1) the linkages between goals, needs, and well-being; (2) the distinction between universal needs and instrumental goals; and (3) substitution among instrumental goals, activities and endowments according to cost-benefit considerations, whereby costs refer to scarce resources such as functional capacity, time, effort and money. We will argue that SPF theory meaningfully relates the "biomedical model"-with its focus on pathological processes and biological, physiological and clinical outcomes-to the "quality of life" model, with its focus on functioning and well-being. We describe SPF theory and how SPF theory can be used to: (1) operationally define and measure QofL; (2) clarify persistent measurement problems; and (3) develop an explanatory framework of the effects of disease on QofL. In the discussion section, we address the limitations of the SPF approach of QofL and its relationship with personality.},
affiliation = {Department of Health Sciences, University of Groningen, The Netherlands.},
number = {7},
pages = {1051--63},
volume = {45},
year = {1997},
month = {Oct},
language = {eng},
keywords = {Health Status Indicators, Activities of Daily Living, Health Services Research, Humans, Quality-Adjusted Life Years, Outcome Assessment (Health Care), Models: Theoretical},
date-added = {2010-06-26 10:48:24 +0200},
date-modified = {2010-06-26 10:48:24 +0200},
pii = {S0277953697000324},
pmid = {9257397},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ormel-1997-Soc%20Sci%20Med_Quality%20of%20life%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13122},
rating = {0}
}
@article{Kahler:2009p12167,
author = {Christopher W Kahler and Nichea S Spillane and Jane Metrik and Adam M Leventhal and Peter M Monti},
journal = {Pharmacol Biochem Behav},
title = {Sensation seeking as a predictor of treatment compliance and smoking cessation treatment outcomes in heavy social drinkers},
abstract = {The personality trait of sensation seeking has been positively associated with risk of smoking initiation and level of tobacco use. However, its role in smoking cessation is much less established. This study examined the association between sensation seeking and smoking cessation among 236 heavy social drinkers participating in a clinical trial testing the efficacy of incorporating brief alcohol intervention into smoking cessation treatment. As hypothesized, higher sensation seeking predicted reduced odds of abstinence from smoking as well as greater alcohol use over 26 weeks of follow-up. Sensation seeking also significantly interacted with age, having a protective influence on smoking outcomes among the youngest participants and an increasingly negative effect on smoking outcomes with greater age. Compliance with nicotine replacement therapy and use of smoking cessation strategies (e.g., planning for high risk situations, thinking about the benefits of quitting, avoiding smoking situations) were negatively associated with sensation seeking and accounted for most of the main effect of sensation seeking on smoking outcomes. Findings suggest (a) that smokers high in sensation seeking may require a specific emphasis on treatment compliance and behavioral rehearsal of cessation strategies, and (b) that the significance of sensation seeking for smoking cessation may change with increasing age.},
affiliation = {Center for Alcohol and Addiction Studies, Brown University, Box G-S121-5, Providence, RI 02912, USA. Christopher_Kahler@brown.edu},
number = {3},
pages = {285--90},
volume = {93},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Nicotinic Agonists, Nicotine, Humans, Substance Withdrawal Syndrome, Psychiatric Status Rating Scales, Administration: Cutaneous, Male, Counseling, Exploratory Behavior, Alcohol Drinking, Adult, Treatment Outcome, Middle Aged, Patient Compliance, Smoking Cessation, Data Interpretation: Statistical, Female},
date-added = {2010-05-30 10:44:33 +0200},
date-modified = {2010-07-29 19:43:17 +0200},
pmid = {19593843},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12167},
rating = {0}
}
@article{Matthews:1990,
author = {JNS Matthews and Douglas G Altman and MJ Campbell and P Royston},
journal = {British Medical Journal},
title = {Analysis of serial measures in medical research},
abstract = {In medical research data are often collected serially on subjects. The statistical analysis of such data is often inadequate in two ways: it may fail to settle clinically relevant questions and it may be statistically invalid. A commonly used method which compares groups at a series of time points, possibly with t tests, is flawed on both counts. There may, however, be a remedy, which takes the form of a two stage method that uses summary measures. In the first stage a suitable summary of the response in an individual, such as a rate of change or an area under a curve, is identified and calculated for each subject. In the second stage these summary measures are analysed by simple statistical techniques as though they were raw data. The method is statistically valid and likely to be more relevant to the study questions. If this method is borne in mind when the experiment is being planned it should promote studies with enough subjects and sufficient observations at critical times to enable useful conclusions to be drawn. Use of summary measures to analyse serial measurements, though not new, is potentially a useful and simple tool in medical research.},
pages = {230--235},
volume = {300},
year = {1990},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1074},
rating = {0}
}
@article{Calhoun:2009p4708,
author = {Vince D Calhoun and T{\"u}lay Adali},
journal = {IEEE Trans Inf Technol Biomed},
title = {Feature-based fusion of medical imaging data},
abstract = {The acquisition of multiple brain imaging types for a given study is a very common practice. There have been a number of approaches proposed for combining or fusing multitask or multimodal information. These can be roughly divided into those that attempt to study convergence of multimodal imaging, for example, how function and structure are related in the same region of the brain, and those that attempt to study the complementary nature of modalities, for example, utilizing temporal EEG information and spatial functional magnetic resonance imaging information. Within each of these categories, one can attempt data integration (the use of one imaging modality to improve the results of another) or true data fusion (in which multiple modalities are utilized to inform one another). We review both approaches and present a recent computational approach that first preprocesses the data to compute features of interest. The features are then analyzed in a multivariate manner using independent component analysis. We describe the approach in detail and provide examples of how it has been used for different fusion tasks. We also propose a method for selecting which combination of modalities provides the greatest value in discriminating groups. Finally, we summarize and describe future research topics.},
affiliation = {Mind Research Network and Department of Electrical and Computer Engineering, University of New Mexico, Albuquerque, NM 87131, USA. vcalhoun@unm.edu},
number = {5},
pages = {711--20},
volume = {13},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Humans, Models: Biological, Algorithms, Brain, Brain Mapping, Electroencephalography, Models: Statistical, Magnetic Resonance Imaging, Data Interpretation: Statistical, Signal Processing: Computer-Assisted},
date-added = {2010-01-30 16:19:57 +0100},
date-modified = {2010-01-30 16:19:57 +0100},
doi = {10.1109/TITB.2008.923773},
pmid = {19273016},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4708},
rating = {0}
}
@article{Bastien:2008p1522,
author = {P Bastien},
title = {Pr{\'e}gression PLS et donn{\'e}es censur{\'e}es},
year = {2008},
date-added = {2010-01-07 15:54:19 +0100},
date-modified = {2010-01-07 15:55:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bastien-2008-_Pr%C3%A9gression%20PLS%20et%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1522},
rating = {0}
}
@article{Jacobusse:2006,
author = {G Jacobusse and S van Buuren and P H Verberk},
journal = {Stat Med},
title = {An interval scale for development of children aged 0 --2 years},
pages = {2272--2283},
volume = {25},
year = {2006},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jacobusse-2006-Stat%20Med_An%20interval%20scale%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2166},
rating = {0}
}
@article{Kirby:2009p9623,
author = {Kris N Kirby},
journal = {Psychon Bull Rev},
title = {One-year temporal stability of delay-discount rates},
abstract = {The temporal stability of delay-discount rates for monetary rewards was assessed using a monetary choice questionnaire (Kirby {\&} Marakovic, 1996). Of 100 undergraduate participants who completed the questionnaire at the initial session, 81 returned 5 weeks later and 46 returned 57 weeks later for subsequent sessions. The 5-week test-retest stability of discount rates was .77 (95% confidence interval = .67-.85), the 1-year stability was .71 (.50-.84), and the 57-week stability was .63 (.41-.77). Thus, at least when similar testing situations are reinstated, discount rates as individual differences have 1-year stabilities in the range that is typically obtained for personality traits. Discount rates index an attribute of the person that is relatively stable over time but that is moderated by aspects of the situation, such as reward type and deprivational state.},
affiliation = {Williams College, Williamstown, Massachusetts, USA. kkirby@williams.edu},
number = {3},
pages = {457--62},
volume = {16},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Questionnaires, Reproducibility of Results, Male, Adolescent, Psychometrics, Character, Female, Individuality, Follow-Up Studies, Reward, Humans, Impulsive Behavior, Choice Behavior, Young Adult, Motivation, Time Factors},
date-added = {2010-03-25 14:43:43 +0100},
date-modified = {2010-03-25 14:43:43 +0100},
doi = {10.3758/PBR.16.3.457},
pii = {16/3/457},
pmid = {19451368},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9623},
rating = {0}
}
@article{Voon:2010p12353,
author = {Valerie Voon and Brady Reynolds and Christina Brezing and Cecile Gallea and Meliha Skaljic and Vindhya Ekanayake and Hubert Fernandez and Marc N Potenza and Raymond J Dolan and Mark Hallett},
journal = {Psychopharmacology (Berl)},
title = {Impulsive choice and response in dopamine agonist-related impulse control behaviors},
abstract = {RATIONALE: Dopaminergic medication-related impulse control disorders (ICDs) such as pathological gambling and compulsive shopping have been reported in Parkinson's disease (PD). HYPOTHESIS: We hypothesized that dopamine agonists (DAs) would be associated with greater impulsive choice or greater discounting of delayed rewards in PD patients with ICDs (PDI). METHODS: Fourteen PDI patients, 14 PD controls without ICDs, and 16 medication-free matched normal controls were tested on the Experiential Discounting Task (EDT), a feedback-based intertemporal choice task, spatial working memory, and attentional set shifting. The EDT was used to assess choice impulsivity (hyperbolic K value), reaction time (RT), and decision conflict RT (the RT difference between high conflict and low conflict choices). PDI patients and PD controls were tested on and off DA. RESULTS: On the EDT, there was a group by medication interaction effect [F(1,26) = 5.62; p = 0.03] with pairwise analyses demonstrating that DA status was associated with increased impulsive choice in PDI patients (p = 0.02) but not in PD controls (p = 0.37). PDI patients also had faster RT compared to PD controls [F(1,26) = 7.51, p = 0.01]. DA status was associated with shorter RT [F(3,24) = 8.39, p = 0.001] and decision conflict RT [F(1,26) = 6.16, p = 0.02] in PDI patients but not in PD controls. There were no correlations between different measures of impulsivity. PDI patients on DA had greater spatial working memory impairments compared to PD controls on DA (t = 2.13, df = 26, p = 0.04). CONCLUSION: Greater impulsive choice, faster RT, faster decision conflict RT, and executive dysfunction may contribute to ICDs in PD.},
affiliation = {National Institutes of Health, 10 Center Drive, Bldg 10/Rm 7D37, Bethesda, MD 20892-1428, USA. voonv@ninds.nih.gov},
number = {4},
pages = {645--59},
volume = {207},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Female, Adult, Memory Disorders, Male, Attention, Middle Aged, Impulse Control Disorders, Gambling, Reaction Time, Aged, Dopamine Agonists, Compulsive Behavior, Task Performance and Analysis, Humans, Parkinson Disease, Set (Psychology), Case-Control Studies},
date-added = {2010-06-15 17:27:34 +0200},
date-modified = {2010-06-15 17:27:34 +0200},
doi = {10.1007/s00213-009-1697-y},
pmid = {19838863},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Voon-2010-Psychopharmacology%20(Berl)_Impulsive%20choice%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12353},
rating = {0}
}
@article{Crane:2004p7342,
author = {Paul K Crane and Gerald van Belle and Eric B Larson},
journal = {Stat Med},
title = {Test bias in a cognitive test: differential item functioning in the CASI},
abstract = {Assessment of test bias is important to establish the construct validity of tests. Assessment of differential item functioning (DIF) is an important first step in this process. DIF is present when examinees from different groups have differing probabilities of success on an item, after controlling for overall ability level. Here, we present analysis of DIF in the Cognitive Assessment Screening Instrument (CASI) using data from a large cohort study of elderly adults. We developed an ordinal logistic regression modelling technique to assess test items for DIF. Estimates of cognitive ability were obtained in two ways based on responses to CASI items: using traditional CASI scoring according to the original test instructions as well as using item response theory (IRT) scoring. Several demographic characteristics were examined for potential DIF, including ethnicity and gender (entered into the model as dichotomous variables), and years of education and age (entered as continuous variables). We found that a disappointingly large number of items had DIF with respect to at least one of these demographic variables. More items were found to have DIF with traditional CASI scoring than with IRT scoring. This study demonstrates a powerful technique for the evaluation of DIF in psychometric tests. The finding that so many CASI items had DIF suggests that previous findings of differences between groups in cognitive functioning as measured by the CASI may be due to biased test items rather than true differences between groups. The finding that IRT scoring diminished the impact of DIF is discussed. Some preliminary suggestions for how to deal with items found to have DIF in cognitive tests are made. The advantages of the DIF detection techniques we developed are discussed in relation to other techniques for the evaluation of DIF.},
affiliation = {Medicine and Public Health and Community Medicine, University of Washington, Seattle 98104, USA. pcrane@u.washington.edu},
number = {2},
pages = {241--56},
volume = {23},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Cohort Studies, Demography, Humans, United States, Cognition Disorders, Female, Bias (Epidemiology), Diagnosis: Differential, Male},
date-added = {2010-03-10 20:23:32 +0100},
date-modified = {2010-04-25 21:26:12 +0200},
doi = {10.1002/sim.1713},
pmid = {14716726},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Crane-2004-Stat%20Med_Test%20bias%20in%20a%20cogni.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7342},
rating = {4}
}
@article{Huang:2006p3050,
author = {Frederick Y Huang and Henry Chung and Kurt Kroenke and Kevin L Delucchi and Robert L Spitzer},
journal = {J Gen Intern Med},
title = {Using the Patient Health Questionnaire-9 to measure depression among racially and ethnically diverse primary care patients},
abstract = {OBJECTIVE: The Patient Health Questionnaire depression scale (PHQ-9) is a well-validated, Diagnostic and Statistical Manual of Mental Disorders- Fourth Edition (DSM-IV) criterion-based measure for diagnosing depression, assessing severity and monitoring treatment response. The performance of most depression scales including the PHQ-9, however, has not been rigorously evaluated in different racial/ethnic populations. Therefore, we compared the factor structure of the PHQ-9 between different racial/ethnic groups as well as the rates of endorsement and differential item functioning (DIF) of the 9 items of the PHQ-9. The presence of DIF would indicate that responses to an individual item differ significantly between groups, controlling for the level of depression. MEASUREMENTS: A combined dataset from 2 separate studies of 5,053 primary care patients including non-Hispanic white (n=2,520), African American (n=598), Chinese American (n=941), and Latino (n=974) patients was used for our analysis. Exploratory principal components factor analysis was used to derive the factor structure of the PHQ-9 in each of the 4 racial/ethnic groups. A generalized Mantel-Haenszel statistic was used to test for DIF. RESULTS: One main factor that included all PHQ-9 items was found in each racial/ethnic group with alpha coefficients ranging from 0.79 to 0.89. Although endorsement rates of individual items were generally similar among the 4 groups, evidence of DIF was found for some items. CONCLUSIONS: Our analyses indicate that in African American, Chinese American, Latino, and non-Hispanic white patient groups the PHQ-9 measures a common concept of depression and can be effective for the detection and monitoring of depression in these diverse populations.},
affiliation = {Department of Psychiatry, University of California, San Francisco, CA, USA. freddy@post.harvard.edu},
number = {6},
pages = {547--52},
volume = {21},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Depressive Disorder, Middle Aged, Continental Population Groups, Questionnaires, Mental Health, Adult, Male, Ethnic Groups, Female, Humans, Depression},
date-added = {2010-01-14 11:25:33 +0100},
date-modified = {2010-01-14 11:25:33 +0100},
doi = {10.1111/j.1525-1497.2006.00409.x},
pii = {JGI409},
pmid = {16808734},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huang-2006-J%20Gen%20Intern%20Med_Using%20the%20Patient%20He.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3050},
rating = {0}
}
@article{Beauchaine:2009p9083,
author = {Theodore P Beauchaine and Daniel N Klein and Sheila E Crowell and Christina Derbidge and Lisa Gatzke-Kopp},
journal = {Dev Psychopathol},
title = {Multifinality in the development of personality disorders: a Biology x Sex x Environment interaction model of antisocial and borderline traits},
abstract = {Although antisocial personality disorder (ASPD) is more common among males and borderline PD (BPD) is more common among females, some authors have suggested that the two disorders reflect multifinal outcomes of a single etiology. This assertion is based on several overlapping symptoms and features, including trait impulsivity, emotional lability, high rates of depression and suicide, and a high likelihood of childhood abuse and/or neglect. Furthermore, rates of ASPD are elevated in the first degree relatives of those with BPD, and concurrent comorbidity rates for the two disorders are high. In this article, we present a common model of antisocial and borderline personality development. We begin by reviewing issues and problems with diagnosing and studying PDs in children and adolescents. Next, we discuss dopaminergic and serotonergic mechanisms of trait impulsivity as predisposing vulnerabilities to ASPD and BPD. Finally, we extend shared risk models for ASPD and BPD by specifying genetic loci that may confer differential vulnerability to impulsive aggression and mood dysregulation among males and impulsive self-injury and mood dysregulation among females. Although the precise mechanisms of these sex-moderated genetic vulnerabilities remain poorly understood, they appear to interact with environmental risk factors including adverse rearing environments to potentiate the development of ASPD and BPD.},
affiliation = {Department of Psychology, University of Washington, Seattle, WA 98195-1525, USA. tbeaucha@u.washington.edu},
number = {3},
pages = {735--70},
volume = {21},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Affect, Antisocial Personality Disorder, Incidence, Female, Self-Injurious Behavior, Emotions, Sex Characteristics, Humans, Borderline Personality Disorder, Behavior, Male, Impulse Control Disorders, Risk Factors, Models: Psychological, Stereotyped Behavior, Prisons, Environment},
date-added = {2010-03-22 13:21:48 +0100},
date-modified = {2010-03-22 13:21:49 +0100},
doi = {10.1017/S0954579409000418},
pii = {S0954579409000418},
pmid = {19583882},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Beauchaine-2009-Dev%20Psychopathol_Multifinality%20in%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9083},
rating = {0}
}
@article{Atkinson:2006p11233,
author = {Mark J Atkinson and Jan Lohs and Ilka Kuhagen and Julie Kaufman and Shamsu Bhaidani},
journal = {Health Qual Life Outcomes},
title = {A promising method for identifying cross-cultural differences in patient perspective: the use of Internet-based focus groups for content validation of new patient reported outcome assessments},
abstract = {OBJECTIVES: This proof of concept (POC) study was designed to evaluate the use of an Internet-based bulletin board technology to aid parallel cross-cultural development of thematic content for a new set of patient-reported outcome measures (PROs). METHODS: The POC study, conducted in Germany and the United States, utilized Internet Focus Groups (IFGs) to assure the validity of new PRO items across the two cultures--all items were designed to assess the impact of excess facial oil on individuals' lives. The on-line IFG activities were modeled after traditional face-to-face focus groups and organized by a common 'Topic' Guide designed with input from thought leaders in dermatology and health outcomes research. The two sets of IFGs were professionally moderated in the native language of each country. IFG moderators coded the thematic content of transcripts, and a frequency analysis of code endorsement was used to identify areas of content similarity and difference between the two countries. Based on this information, draft PRO items were designed and a majority (80%) of the original participants returned to rate the relative importance of the newly designed questions. FINDINGS: The use of parallel cross-cultural content analysis of IFG transcripts permitted identification of the major content themes in each country as well as exploration of the possible reasons for any observed differences between the countries. Results from coded frequency counts and transcript reviews informed the design and wording of the test questions for the future PRO instrument(s). Subsequent ratings of item importance also deepened our understanding of potential areas of cross-cultural difference, differences that would be explored over the course of future validation studies involving these PROs. CONCLUSION: The use of IFGs for cross-cultural content development received positive reviews from participants and was found to be both cost and time effective. The novel thematic coding methodology provided an empirical platform on which to develop culturally sensitive questionnaire content using the natural language of participants. Overall, the IFG responses and thematic analyses provided a thorough evaluation of similarities and differences in cross-cultural themes, which in turn acted as a sound base for the development of new PRO questionnaires.},
affiliation = {Worldwide Health Outcomes Research, La Jolla Laboratories, Pfizer Inc,, San Diego, CA 92121, USA. mjatkinson@ucsd.edu},
pages = {64},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Dermatology, Humans, Scalp, Face, Cross-Cultural Comparison, Skin Diseases, Focus Groups, Germany, Internet, Attitude to Health, Psychometrics, Sebum, Outcome Assessment (Health Care), United States},
date-added = {2010-04-25 21:31:40 +0200},
date-modified = {2010-04-25 21:31:45 +0200},
doi = {10.1186/1477-7525-4-64},
pii = {1477-7525-4-64},
pmid = {16995935},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Atkinson-2006-Health%20and%20Quality%20of%20Life%20Outcomes_A%20promising%20method%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11233},
rating = {4}
}
@article{Piek:2004p12970,
author = {Jan P Piek and Murray J Dyck and Ally Nieman and Mike Anderson and David Hay and Leigh M Smith and Mairead McCoy and Joachim Hallmayer},
journal = {Arch Clin Neuropsychol},
title = {The relationship between motor coordination, executive functioning and attention in school aged children},
abstract = {Given the high level of comorbidity of attention deficit hyperactivity disorder (ADHD) and developmental coordination disorder (DCD), deficits in executive function (EF), shown to be present in children with ADHD, may also be implicated in the motor coordination deficits of children with DCD. The aim of this study was to explore the relationship between EF and motor ability. A sample of 238 children, 121 girls and 117 boys, aged between 6 and 15 years was recruited for this project. Motor ability was assessed using the McCarron Assessment of Neuromuscular Development (MAND), level of inattention using the Child Behavior Checklist (CBCL), and Verbal IQ (VIQ) was estimated using subtests of the WISC-III. A reaction time task and three EF tasks measuring response inhibition, working memory and the ability to plan and respond to goal-directed tasks were administered. It was found that motor ability significantly accounted for variance in tasks measuring speed of performance, whereas inattention appeared to influence performance variability. Despite past evidence linking poor motor ability with inattention, there was little overlap in the processes that are affected in children with motor coordination or attention problems.},
affiliation = {School of Psychology, Curtin University of Technology, GPO Box U1987, Perth 6845, Australia. j.piek@curtin.edu.au},
number = {8},
pages = {1063--76},
volume = {19},
year = {2004},
month = {Dec},
language = {eng},
keywords = {Reaction Time, Male, Attention Deficit Disorder with Hyperactivity, Motor Skills Disorders, Severity of Illness Index, Students, Neuropsychological Tests, Female, Child, Humans, Choice Behavior, Prevalence, Schools, Adolescent},
date-added = {2010-06-25 22:27:20 +0200},
date-modified = {2010-06-25 22:27:21 +0200},
doi = {10.1016/j.acn.2003.12.007},
pii = {S0887617704000083},
pmid = {15533697},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Piek-2004-Arch%20Clin%20Neuropsychol_The%20relationship%20bet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12970},
rating = {0}
}
@article{Nichols:2002p14037,
author = {Thomas E Nichols and Andrew P Holmes},
journal = {Hum Brain Mapp},
title = {Nonparametric permutation tests for functional neuroimaging: a primer with examples},
abstract = {Requiring only minimal assumptions for validity, nonparametric permutation testing provides a flexible and intuitive methodology for the statistical analysis of data from functional neuroimaging experiments, at some computational expense. Introduced into the functional neuroimaging literature by Holmes et al. ([1996]: J Cereb Blood Flow Metab 16:7-22), the permutation approach readily accounts for the multiple comparisons problem implicit in the standard voxel-by-voxel hypothesis testing framework. When the appropriate assumptions hold, the nonparametric permutation approach gives results similar to those obtained from a comparable Statistical Parametric Mapping approach using a general linear model with multiple comparisons corrections derived from random field theory. For analyses with low degrees of freedom, such as single subject PET/SPECT experiments or multi-subject PET/SPECT or fMRI designs assessed for population effects, the nonparametric approach employing a locally pooled (smoothed) variance estimate can outperform the comparable Statistical Parametric Mapping approach. Thus, these nonparametric techniques can be used to verify the validity of less computationally expensive parametric approaches. Although the theory and relative advantages of permutation approaches have been discussed by various authors, there has been no accessible explication of the method, and no freely distributed software implementing it. Consequently, there have been few practical applications of the technique. This article, and the accompanying MATLAB software, attempts to address these issues. The standard nonparametric randomization and permutation testing ideas are developed at an accessible level, using practical examples from functional neuroimaging, and the extensions for multiple comparisons described. Three worked examples from PET and fMRI are presented, with discussion, and comparisons with standard parametric approaches made where appropriate. Practical considerations are given throughout, and relevant statistical concepts are expounded in appendices.},
affiliation = {Department of Biostatistics, University of Michigan, Ann Arbor, Michigan, USA.},
number = {1},
pages = {1--25},
volume = {15},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Data Interpretation: Statistical, Image Processing: Computer-Assisted, Brain, Tomography: Emission-Computed, Humans, Statistical Distributions, Magnetic Resonance Imaging, Brain Mapping, Signal Processing: Computer-Assisted},
date-added = {2010-08-09 10:08:39 +0200},
date-modified = {2010-08-09 10:08:39 +0200},
pii = {10.1002/hbm.1058},
pmid = {11747097},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nichols-2002-Hum%20Brain%20Mapp_Nonparametric%20permut.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14037},
rating = {0}
}
@article{Douglas:2001p2688,
author = {J Douglas and A Cohen},
journal = {Applied Psychological Measurement},
title = {Nonparametric Item Response Function Estimation for Assessing Parametric Model Fit},
abstract = {Methods are developed that investigate the fit of parametric item response models by comparing them to models fitted under nonparametric assumptions. The approach is primarily graphical, but is made inferential through resampling from an estimated parametric model. The identifiability and estimation consistency of item response theory models are discussed and shown to be vital to the interpretation of differences between two fitted item response theory models. Simulation studies and real-data examples illustrate these techniques.},
number = {3},
pages = {234--243},
volume = {25},
year = {2001},
date-added = {2010-01-13 10:08:34 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Douglas-2001-Applied%20Psychological%20Measurement_Nonparametric%20Item%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2688},
rating = {0}
}
@article{Fan:2008p2327,
author = {Y Fan and D S Leslie and M P Wand},
journal = {Electronic Journal of Statistics},
title = {Generalised linear mixed model analysis via sequential Monte Carlo sampling},
abstract = {We present a sequential Monte Carlo sampler algorithm for the Bayesian analysis of generalised linear mixed models (GLMMs). These models support a variety of interesting regression-type analyses, but per- forming inference is often extremely difficult, even when using the Bayesian approach combined with Markov chain Monte Carlo (MCMC). The Sequen- tial Monte Carlo sampler (SMC) is a new and general method for producing samples from posterior distributions. In this article we demonstrate use of the SMC method for performing inference for GLMMs. We demonstrate the effectiveness of the method on both simulated and real data, and find that sequential Monte Carlo is a competitive alternative to the available MCMC techniques.},
pages = {916--938},
volume = {2},
year = {2008},
date-added = {2010-01-10 12:54:04 +0100},
date-modified = {2010-01-10 12:55:47 +0100},
doi = {10.1214/07-EJS158},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fan-2008-Electronic%20Journal%20of%20Statistics_Generalised%20linear%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2327},
rating = {0}
}
@article{Pals:2009p6408,
author = {Sherri L Pals and Brenda L Beaty and Samuel F Posner and Sheana S Bull},
journal = {Health Educ Behav},
title = {Estimates of intraclass correlation for variables related to behavioral HIV/STD prevention in a predominantly African American and Hispanic sample of young women},
abstract = {Studies designed to evaluate HIV and STD prevention interventions often involve random assignment of groups such as neighborhoods or communities to study conditions (e.g., to intervention or control). Investigators who design group-randomized trials (GRTs) must take the expected intraclass correlation coefficient (ICC) into account in sample size estimation to have adequate power; however, few published ICC estimates exist for outcome variables related to HIV and STD prevention. The Prevention Options for Women Equal Rights (POWER) study was a GRT designed to evaluate a campaign to increase awareness and use of condoms among young African American and Hispanic women. The authors used precampaign and postcampaign data from the POWER study to estimate ICCs (unadjusted and adjusted for covariates) for a variety of sexual behavior and other variables. To illustrate the impact of ICCs on power, the authors present sample-size calculations and demonstrate how ICCs of differing magnitude will affect estimates of required sample size.},
affiliation = {Division of HIV/AIDS Prevention, National Center for HIV, Viral Hepatitis, STD, and TB Prevention, Centers for Disease Control and Prevention, Atlanta, Georgia 30333, USA. sfv3@cdc.gov},
number = {1},
pages = {182--94},
volume = {36},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Adolescent, Condoms, Adult, Risk-Taking, Humans, Young Adult, African Americans, Risk Reduction Behavior, Educational Status, Sexually Transmitted Diseases, Social Class, Hispanic Americans, HIV Infections, Female, Health Knowledge: Attitudes: Practice, Cross-Sectional Studies, Regression Analysis, Sexual Behavior},
date-added = {2010-02-23 08:25:38 +0100},
date-modified = {2010-02-23 08:25:38 +0100},
doi = {10.1177/1090198108327731},
pii = {36/1/182},
pmid = {19188372},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6408},
rating = {0}
}
@article{Vanderweele:2010p3066,
author = {T J Vanderweele},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Epistatic Interactions},
abstract = {The term ``epistasis'' is sometimes used to describe some form of statistical interaction be- tween genetic factors and is alternatively sometimes used to describe instances in which the effect of a particular genetic variant is masked by a variant at another locus. In general statistical tests for interaction are of limited use in detecting ''epistasis'' in the sense of masking. It is, however, shown that there are relations between empirical data patterns and epistasis that have not been previously noted. These relations can sometimes be exploited to empirically test for ''epistatic interactions'' in the sense of the masking of the effect of a particular genetic variant by a variant at another locus.},
number = {1},
volume = {9},
year = {2010},
date-added = {2010-01-14 11:31:53 +0100},
date-modified = {2010-01-14 11:32:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vanderweele-2010-Statistical%20Applications%20in%20Genetics%20and%20Molecular%20Biology_Epistatic%20Interactio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3066},
rating = {0}
}
@article{Sun:2009p1512,
author = {Ning Sun and Hongyu Zhao},
journal = {Stat Methods Med Res},
title = {Reconstructing transcriptional regulatory networks through genomics data},
abstract = {One central problem in biology is to understand how gene expression is regulated under different conditions. Microarray gene expression data and other high throughput data have made it possible to dissect transcriptional regulatory networks at the genomics level. Owing to the very large number of genes that need to be studied, the relatively small number of data sets available, the noise in the data and the different natures of the distinct data types, network inference presents great challenges. In this article, we review statistical and computational methods that have been developed in the last decade in response to genomics data for inferring transcriptional regulatory networks.},
affiliation = {Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT 06520, USA. ning.sun@yale.edu},
number = {6},
pages = {595--617},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:27:07 +0100},
date-modified = {2010-01-07 12:27:07 +0100},
doi = {10.1177/0962280209351890},
pii = {18/6/595},
pmid = {20048387},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sun-2009-Stat%20Methods%20Med%20Res_Reconstructing%20trans.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1512},
rating = {0}
}
@article{vandenOord:2008p3801,
author = {Edwin J C G van den Oord and Po-Hsiu Kuo and Annette M Hartmann and B Todd Webb and Hans-J{\"u}rgen M{\"o}ller and John M Hettema and Ina Giegling and J{\'o}zsef Buksz{\'a}r and Dan Rujescu},
journal = {Arch Gen Psychiatry},
title = {Genomewide association analysis followed by a replication study implicates a novel candidate gene for neuroticism},
abstract = {CONTEXT: Neuroticism is a trait that reflects a tendency toward negative mood states. It has long been linked to internalizing psychiatric conditions, such as anxiety and depression, and it accounts for much of the substantial comorbidity seen between these disorders. OBJECTIVE: To identify common genetic variants that affect neuroticism to better understand (the comorbidity between) a broad range of psychiatric disorders and to develop effective treatments. DESIGN, SETTING, AND PARTICIPANTS: More than 420,000 genetic markers were tested for their association with neuroticism in a genomewide association study (GWAS). The GWAS sample consisted of 1227 healthy individuals ascertained from a US national sampling frame and available from the National Institute of Mental Health genetics repository. The most promising markers were subsequently tested in a German replication sample comprising 1880 healthy individuals. MAIN OUTCOME MEASURES: A strict definition of replication (same marker, same direction of effects, and same measure) combined with a threshold we proposed previously for declaring significance in genetic studies that ensures a mean probability of producing false-positive findings of less than 10%. RESULTS: The most promising results in the GWAS and replication samples were single-nucleotide polymorphisms (SNPs) in the gene MAMDC1. These SNPs all tagged the same 2 haplotypes and had P values of 10(-5) to 10(-6) in the GWAS sample and of .006 to .02 in the replication sample. Furthermore, the replication involved the same SNPs and the same direction of effects. In a combined analysis of all data, several SNPs were significant according to the threshold that allows for 10% false-positive findings. CONCLUSIONS: The small effect sizes may limit the prognostic, diagnostic, and therapeutic use of SNP markers such as those in MAMDC1. However, the present study demonstrates the potential of a GWAS to discover potentially important pathogenic pathways for which clinically more powerful (bio)markers may eventually be developed.},
affiliation = {Center for Biomarker Research and Personalized Medicine, Medical College of Virginia, Virginia Commonwealth University, PO Box 980533, Richmond, VA 23298-0533, USA. ejvandenoord@vcu.edu},
number = {9},
pages = {1062--71},
volume = {65},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Gene Expression, Aged, Adult, Glycosylphosphatidylinositols, Adolescent, Middle Aged, Humans, Genetic Markers, DNA Replication, Neurotic Disorders, Male, Genotype, Genome, Female, Polymorphism: Single Nucleotide},
date-added = {2010-01-16 21:00:53 +0100},
date-modified = {2010-01-16 21:00:55 +0100},
doi = {10.1001/archpsyc.65.9.1062},
pii = {65/9/1062},
pmid = {18762592},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3801},
rating = {3}
}
@article{Cook:2009p7291,
author = {Benjamin L{\^e} Cook and Willard G Manning},
journal = {Health Serv Res},
title = {Measuring racial/ethnic disparities across the distribution of health care expenditures},
abstract = {OBJECTIVE: To assess whether black-white and Hispanic-white disparities increase or abate in the upper quantiles of total health care expenditure, conditional on covariates. DATA SOURCE: Nationally representative adult population of non-Hispanic whites, African Americans, and Hispanics from the 2001-2005 Medical Expenditure Panel Surveys. STUDY DESIGN: We examine unadjusted racial/ethnic differences across the distribution of expenditures. We apply quantile regression to measure disparities at the median, 75th, 90th, and 95th quantiles, testing for differences over the distribution of health care expenditures and across income and education categories. We test the sensitivity of the results to comparisons based only on health status and estimate a two-part model to ensure that results are not driven by an extremely skewed distribution of expenditures with a large zero mass. PRINCIPAL FINDINGS: Black-white and Hispanic-white disparities diminish in the upper quantiles of expenditure, but expenditures for blacks and Hispanics remain significantly lower than for whites throughout the distribution. For most education and income categories, disparities exist at the median and decline, but remain significant even with increased education and income. CONCLUSIONS: Blacks and Hispanics receive significantly disparate care at high expenditure levels, suggesting prioritization of improved access to quality care among minorities with critical health issues.},
affiliation = {Cambridge Health Alliance/Harvard Medical School, Center for Multicultural Mental Health Research, Somerville, MA 02143, USA. bcook@charesearch.org},
number = {5 Pt 1},
pages = {1603--21},
volume = {44},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Health Expenditures, Healthcare Disparities, Humans, Health Services Research, Ethnic Groups, United States, Health Status, Socioeconomic Factors, Continental Population Groups},
date-added = {2010-03-10 20:18:46 +0100},
date-modified = {2010-03-10 20:18:46 +0100},
doi = {10.1111/j.1475-6773.2009.01004.x},
pii = {HESR1004},
pmid = {19656228},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7291},
rating = {0}
}
@article{Diaz:2005p3624,
author = {M M Diaz and V G Ones},
journal = {Revista Colombiana de Estad ́ıstica},
title = {Estimating multilevel models for categorical data via generalized least squares},
abstract = {Montero et al. (2002) proposed a strategy to formulate multilevel models related to a contingency table sample. This methodology is based on the application of the general linear model to hierarchical categorical data. In this paper we applied the method to a multilevel logistic regression model using simulated data. We find that the estimates of the random parameters are inadmissible in some circumstances; large bias and negative estimates of the variance are expected for unbalanced data sets. In order to correct the estimates we propose to use a numerical technique based on the Trun- cated Singular Value Decomposition (TSVD) in the solution of the problem of generalized least squares associated to the estimation of the random pa- rameters. Finally a simulation study is presented to shows the effectiveness of this technique for reducing the bias of the estimates.},
number = {1},
pages = {63--76},
volume = {28},
year = {2005},
date-added = {2010-01-16 18:43:38 +0100},
date-modified = {2010-07-29 19:49:11 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Diaz-2005-Revista%20Colombiana%20de%20Estad%20%CC%81%C4%B1stica_Estimating%20multileve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3624},
rating = {0}
}
@article{Anonymous:2005p3283,
journal = {The Economist},
title = {The Economist Intelligence Unit's quality-of-life index},
year = {2005},
date-added = {2010-01-14 21:15:07 +0100},
date-modified = {2010-01-14 21:15:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2005-The%20Economist_The%20Economist%20Intell.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3283},
read = {Yes},
rating = {0}
}
@article{Yu:2007,
author = {C H Yu and S O Popp and S DiGangi and A Jannasch-Pennell},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Assessing unidimensionality: A comparison of Rasch modeling, Parallel analysis, and TETRAD},
abstract = {The evaluation of assessment dimensionality is a necessary stage in the gathering of evidence to support the validity of interpretations based on a total score, particularly when assessment development and analysis are conducted within an item response theory (IRT) framework. In this study, we employ polytomous item responses to compare two methods that have received increased attention in recent years (Rasch model and Parallel analysis) with a method for evaluating assessment structure that is less well-known in the educational measurement community (TETRAD). The three methods were all found to be reasonably effective. Parallel Analysis successfully identified the correct number of factors and while the Rasch approach did not show the item misfit that would indicate deviation from clear unidimensionality, the pattern of residuals did seem to indicate the presence of correlated, yet distinct, factors. TETRAD successfully confirmed one dimension in the single-construct data set and was able to confirm two dimensions in the combined data set, yet excluded one item from each cluster, for no obvious reasons. The outcomes of all three approaches substantiate the conviction that the assessment of dimensionality requires a good deal of judgment.},
number = {14},
volume = {12},
year = {2007},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1156},
read = {Yes},
rating = {0}
}
@article{Osborn:2010p13383,
author = {Chandra Y Osborn and Terry C Davis and Stacy Cooper Bailey and Michael S Wolf},
journal = {AIDS Behav},
title = {Health literacy in the context of HIV treatment: introducing the Brief Estimate of Health Knowledge and Action (BEHKA)-HIV version},
abstract = {A brief, 8-item assessment of HIV treatment knowledge and action was developed and evaluated. Patients with HIV were interviewed in 2001 at infectious disease clinics in Shreveport, LA and Chicago, IL. Analyses on demographics, self-reported medication adherence, and responses to the Rapid Estimate of Adult Literacy in Medicine (REALM) and new, Brief Estimate of Health Knowledge and Action-HIV version (BEHKA-HIV) were performed in 2007. The BEHKA-HIV demonstrated high internal consistency, and construct validity. Lower scores on the BEHKA-HIV were independently associated with poorer rates of HIV medication adherence, scores 4-5 out of 8, AOR 2.6 (95% CI 1.9-3.6), and scores 0-3, AOR 11.4 (95% CI 8.2-15.9), as were the lowest scores on the REALM, AOR 3.3 (95% CI 1.3-8.7). The BEHKA-HIV is a psychometrically sound tool for assessing health knowledge and action regarding HIV treatment, and predicting non-adherence to HIV medications.},
affiliation = {Division of General Internal Medicine and Public Health, Center for Health Services Research, Vanderbilt University School of Medicine, Nashville, TN 37232-8300, USA. chandra.osborn@vanderbilt.edu},
number = {1},
pages = {181--8},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Adult, Humans, Awareness, Health Behavior, Prevalence, Patient Compliance, Antiviral Agents, Male, CD4 Lymphocyte Count, HIV Infections, Questionnaires, Attitude to Health, Health Literacy, Female},
date-added = {2010-07-01 19:24:03 +0200},
date-modified = {2010-07-01 19:24:03 +0200},
doi = {10.1007/s10461-008-9484-z},
pmid = {19023653},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Osborn-2010-AIDS%20Behav_Health%20literacy%20in%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13383},
rating = {0}
}
@article{Hays:1992p9017,
author = {R D Hays and D Hadorn},
journal = {Qual Life Res},
title = {Responsiveness to change: an aspect of validity, not a separate dimension},
abstract = {Assessment of health-related quality of life is accelerating in naturalistic observational studies, clinical trials, and clinical practice. Some researchers have argued that the ability of a quality of life instrument to detect clinically important changes over time, "responsiveness," is a distinct psychometric property from the measure's reliability and validity. We discuss the important implications of this argument and counter that responsiveness is actually one indication of a measure's validity.},
affiliation = {RAND, Social Policy Department, Santa Monica, CA 90407-2138.},
number = {1},
pages = {73--5},
volume = {1},
year = {1992},
month = {Feb},
language = {eng},
keywords = {Questionnaires, Time Factors, Research Design, Psychometrics, Neoplasms, Quality of Life, Reproducibility of Results, Homeless Persons, Life Change Events, Humans},
date-added = {2010-03-22 13:13:48 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
pmid = {1301117},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hays-1992-Qual%20Life%20Res_Responsiveness%20to%20ch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9017},
rating = {0}
}
@article{Tay:2009p13442,
author = {L Tay and E Diener and F Drasgow and J K Vermunt},
title = {Multilevel mixed-measurement IRT analysis: An explication and application to self-reported emotions around the world},
abstract = {Dimensional approaches assume that all individuals within hierarchical units (e.g., organizations, or countries) share the same measurement model. However, such models are less applicable when researchers are interested in obtaining classes of individuals who share the same measurement model across hierarchical units and to obtain hierarchical latent classes. We present the multilevel mixed-measurement item response theory (MMM-IRT) model as an alternative. This model yields classes of individuals with a common measurement model that span across hierarchical units. Also, hierarchical units are classified together to the extent that they share similar proportions of individual-level classes. We illustrate the MMM-IRT model with data on self-reported emotions from 121,740 individuals across 116 countries where four individual-classes and five country-classes were found. Theoretical and methodological implications concerning cross-cultural, multilevel and measurement equivalence research are discussed.},
year = {2009},
date-added = {2010-07-01 20:06:20 +0200},
date-modified = {2010-07-01 20:07:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tay-2009-_Multilevel%20mixed-mea.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13442},
rating = {0}
}
@article{Hwang:2010p2722,
author = {H Hwang and W R Dillon and Y Takane},
title = {An Extension of Multiple Correspondence Analysis for Identifying Heterogeneous Subgroups of Respondents},
abstract = {An extension of multiple correspondence analysis is proposed that takes into account cluster-level heterogeneity in respondents' preferences/choices. The method involves combining multiple correspondence analysis and k-means in a unified framework. The former is used for uncovering a low-dimensional space of multivariate categorical variables while the latter is used for identifying relatively homogeneous clusters of respondents. The proposed method offers an integrated graphical display that provides information on cluster-based structures inherent in multivariate categorical data as well as the interdependencies among the data. An empirical application is presented which demonstrate the usefulness of the proposed method and how it compares to several extant approaches.},
date-added = {2010-01-13 14:11:54 +0100},
date-modified = {2010-01-13 14:12:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hwang--_An%20Extension%20of%20Mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2722},
rating = {0}
}
@article{Wayne:2010p8505,
author = {Peter M Wayne and Julie E Buring and Roger B Davis and Ellen M Connors and Paolo Bonato and Benjamin Patritti and Mary Fischer and Gloria Y Yeh and Calvin J Cohen and Danette Carroll and Douglas P Kiel},
journal = {BMC musculoskeletal disorders},
title = {Tai Chi for osteopenic women: design and rationale of a pragmatic randomized controlled trial},
abstract = {ABSTRACT: BACKGROUND: Post-menopausal osteopenic women are at increased risk for skeletal fractures. Current osteopenia treatment guidelines include exercise, however, optimal exercise regimens for attenuating bone mineral density (BMD) loss, or for addressing other fracture-related risk factors (e.g. poor balance, decreased muscle strength) are not well-defined. Tai Chi is an increasingly popular weight bearing mind-body exercise that has been reported to positively impact BMD dynamics and improve postural control, however, current evidence is inconclusive. This study will determine the effectiveness of Tai Chi in reducing rates of bone turnover in post-menopausal osteopenic women, compared with standard care, and will preliminarily explore biomechanical processes that might inform how Tai Chi impacts BMD and associated fracture risks. METHODS: A total of 86 post-menopausal women, aged 45-70y, T-score of the hip and/or spine -1.0 and -2.5, have been recruited from primary care clinics of a large healthcare system based in Boston. They have been randomized to a group-based 9-month Tai Chi program plus standard care or to standard care only. A unique aspect of this trial is its pragmatic design, which allows participants randomized to Tai Chi to choose from a pre-screened list of community-based Tai Chi programs. Interviewers masked to participants' treatment group assess outcomes at baseline and 3 and 9 months after randomization. Primary outcomes are serum markers of bone resorption (C-terminal cross linking telopeptide of type I collagen, bone formation (osteocalcin), and BMD of the lumbar spine and proximal femur (dual-energy X-ray absorptiometry). Secondary outcomes include health-related quality-of-life, exercise behavior, and psychological well-being. In addition, kinetic and kinematic characterization of gait, standing, and rising from a chair are assessed in subset of participants (n=16) to explore the feasibility of modeling skeletal mechanical loads and postural control as mediators of fracture risk. CONCLUSION: Results of this study will provide preliminary evidence regarding the value of Tai Chi as an intervention for decreasing fracture risk in osteopenic women. They will also inform the feasibility, value and potential limitations related to the use of pragmatic designs for the study of Tai Chi and related mind-body exercise. If the results are positive, this will help focus future, more in-depth, research on the most promising potential mechanisms of action identified by this study. Trial registration: This trial is registered in Clinical Trials.gov, with the ID number of NCT01039012.},
number = {1},
pages = {40},
volume = {11},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-21 18:07:56 +0100},
date-modified = {2010-03-21 18:07:56 +0100},
doi = {10.1186/1471-2474-11-40},
pii = {1471-2474-11-40},
pmid = {20193083},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wayne-2010-BMC%20musculoskeletal%20disorders_Tai%20Chi%20for%20osteopen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8505},
rating = {0}
}
@article{Zumbo:2007,
author = {Bruno D Zumbo},
journal = {Language Assessment Quarterly},
title = {Three Generations of DIF Analyses: Considering Where It Has Been, Where It Is Now, and Where It Is Going},
abstract = {The purpose of this article is to reflect on the state of the theorizing and praxis of DIF in general: where it has been; where it is now; and where I think it is, and should, be going. Along the way the major trends in the differential item functioning (DIF) literature are summarized and integrated providing some organizing principles that allow one to catalog and then contrast the various DIF detection methods and to shine a light on the future of DIF analyses. The three generations of DIF are introduced and described with an eye toward issues on the horizon for DIF.},
number = {2},
pages = {223--233},
volume = {4},
year = {2007},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1144},
read = {Yes},
rating = {0}
}
@article{Zorn:2005p2329,
author = {C Zorn},
journal = {Political Analysis},
title = {A Solution to Separation in Binary Response Models},
abstract = {A common problem in models for dichotomous dependent variables is ``separation,'' which occurs when one or more of a model's covariates perfectly predict some binary outcome. Separation raises a particularly difficult set of issues, often forcing researchers to choose between omitting clearly important covariates and undertaking post--hoc data or estimation corrections. In this article I present a method for solving the separation problem, based on a penalized likelihood correction to the standard binomial GLM score function. I then apply this method to data from an important study on the postwar fate of leaders.},
affiliation = {Law and Social Science Program, National Science Foundation, 4201 Wilson Boulevard, Suite 995, Arlington, VA 22230},
pages = {157--170},
volume = {13},
year = {2005},
date-added = {2010-01-10 13:12:04 +0100},
date-modified = {2010-01-10 13:12:57 +0100},
doi = {10.1093/pan/mpi009},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zorn-2005-Political%20Analysis_A%20Solution%20to%20Separa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2329},
rating = {0}
}
@article{Sainfort:1996p5588,
author = {F Sainfort and M Becker and R Diamond},
journal = {Am J Psychiatry},
title = {Judgments of quality of life of individuals with severe mental disorders: Patient self-report versus provider perspectives},
abstract = {OBJECTIVE: This study was an investigation of judgments regarding quality of life of individuals with severe mental disorders from two different perspectives: patient self-report versus provider. METHOD: Judgments on several dimensions of quality of life were collected from a convenience sample of 37 schizophrenic patients and their primary clinicians by using the well-known Quality of Life Index of Spitzer et al. and the more recently developed Quality of Life Index-Mental Health. Both indexes capture judgments on a number of dimensions. Patterns of concordance for the patient-provider pairs were tested by using Cohen's kappa and Pearson correlation coefficients. RESULTS: The results suggest that patients' and providers' judgments are more likely to coincide on clinical aspects, such as symptoms and function, than on social aspects. Specifically, there was moderate agreement on symptoms and function, less agreement on physical health, and little to no agreement on social relations and occupational aspects of quality of life. CONCLUSIONS: Such differences support the notion that treatment strategies and mental health services should address a wide range of needs reflecting different aspects of quality of life perceived as important by different patients.},
affiliation = {Center for Health Systems Research and Analysis, School of Medicine, University of Wisconsin, Madison, USA.},
number = {4},
pages = {497--502},
volume = {153},
year = {1996},
month = {Apr},
language = {eng},
keywords = {Personality Inventory, Chronic Disease, Female, Middle Aged, Psychiatric Status Rating Scales, Psychometrics, Reproducibility of Results, Schizophrenic Psychology, Social Support, Aged, Adult, Activities of Daily Living, Schizophrenia, Quality of Life, Mental Disorders, Multivariate Analysis, Severity of Illness Index, Social Adjustment, Humans, Male, Health Status},
date-added = {2010-02-12 15:38:59 +0100},
date-modified = {2010-07-29 19:51:28 +0200},
pmid = {8599397},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5588},
rating = {0}
}
@book{Durkheim:1951,
author = {E Durkheim},
journal = {Book},
title = {Suicide; A Study in Sociology},
year = {1951},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1054},
rating = {0}
}
@article{Grimm:2009p492,
author = {Kevin J Grimm and Robert C Pianta and Timothy Konold},
journal = {Multivariate Behavioral Research},
title = {Longitudinal Multitrait-Multimethod Models for Developmental Research},
abstract = {Multitrait-multimethod (MTMM) confirmatory factor models were combined with longitudinal structural equation models to examine trait and method stability over time. A longitudinal correlated-trait correlated-method (CT-CM) model allowed for the study of trait and method variance in observed scores over time. Longitudinal measurement invariance was examined in the longitudinal CT-CM model to deter- mine the invariance of the trait and method factors. The longitudinal MTMM model was then combined with second-order latent curve models to evaluate within-person change and between-person differences change in the trait factors while accounting for method-related variance. These models were developed and applied to longitudinal behavior-rating data from the National Institute of Child Health and Human Development (NICHD) Study of Early Child Care and Youth Development with externalizing, internalizing, and social skills serving as the traits and mother, father, and teacher serving as methods or informants. Methodological extensions of longitudinal MTMM models and benefits of an MTMM approach to developmental research are discussed.},
pages = {233--258},
volume = {44},
year = {2009},
date-added = {2010-01-03 12:56:01 +0100},
date-modified = {2010-01-03 12:57:52 +0100},
doi = {10.1080/00273170902794230},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grimm-2009-Multivariate%20Behavioral%20Research_Longitudinal%20Multitr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p492},
rating = {0}
}
@article{Bearden:2009p5939,
author = {Carrie E Bearden and Anna J Jasinska and Nelson B Freimer},
journal = {Annual review of clinical psychology},
title = {Methodological issues in molecular genetic studies of mental disorders},
abstract = {The development of methodologies for assaying genetic variation at high resolution throughout the genome has revolutionized the search for susceptibility genes for common diseases. This search, however, has been less successful in psychiatry than in other areas of medicine. It is hypothesized that the imprecision and uncertain validity of psychiatric diagnoses are major factors in this disappointing progress. Here we discuss the methodologies employed for genetic investigation of mental disorders, including phenotyping strategies, approaches to genetic mapping, and use of animal models of psychopathology.},
affiliation = {Department of Psychiatry {\&} Biobehavioral Sciences, University of California-Los Angeles, CA 90095, USA. cbearden@mednet.ucla.edu},
pages = {49--69},
volume = {5},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Psychiatry, Linkage (Genetics), Humans, Chromosome Mapping, Phenotype, Mental Disorders, Genetic Variation, Molecular Biology},
date-added = {2010-02-18 23:16:26 +0100},
date-modified = {2010-02-18 23:16:26 +0100},
doi = {10.1146/annurev.clinpsy.032408.153545},
pmid = {19327025},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bearden-2009-Annual%20review%20of%20clinical%20psychology_Methodological%20issue.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5939},
rating = {0}
}
@article{VanGestel:2003p3019,
author = {S Van Gestel and C Van Broeckhoven},
journal = {Mol Psychiatry},
title = {Genetics of personality: are we making progress?},
abstract = {For centuries, scientists are intrigued by the differences in personality between individuals. As early as in the ancient Greek civilization, people tried to formulate theories to systematize this diversity. With the increased interest in behavior genetics, personality was also considered a challenging phenotype. From the early start, studies suggested a heritable component in personality. After the successes of molecular genetic studies in unraveling the genetic basis of (mostly) monogenic diseases, the focus shifted towards complex traits, including psychiatric disorders. It was observed in several studies that personality measures differed between patients with psychiatric disorders and healthy controls. Therefore, normal personality was considered a viable endophenotype in the search for genes involved in psychiatric disorders such as affective disorders, ADHD and substance dependence. Genes that were to be found in studies on personality could be candidate genes for particular psychiatric disorders. In the course of time, however the study of genes for personality turned out to be at least as hard as the search for genes involved in other complex disorders. In this review, past studies, present problems and future directions concerning the study of personality genetics are discussed.},
affiliation = {Department of Molecular Genetics, Flanders Interuniversity Institute for Biotechnology (VIB8), University of Antwerp (UIA), Antwerpen, Belgium.},
number = {10},
pages = {840--52},
volume = {8},
year = {2003},
month = {Oct},
language = {eng},
keywords = {Humans, Biological Psychiatry, Molecular Biology, Personality},
date-added = {2010-01-14 11:23:49 +0100},
date-modified = {2010-01-14 11:23:49 +0100},
doi = {10.1038/sj.mp.4001367},
pii = {4001367},
pmid = {14515135},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Van%20Gestel-2003-Mol%20Psychiatry_Genetics%20of%20personal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3019},
rating = {0}
}
@article{Congdon:2001p6013,
author = {P Congdon},
journal = {Health Place},
title = {Health status and healthy life measures for population health need assessment: modelling variability and uncertainty},
abstract = {It is increasingly recognised that population health need assessments based on the comparison of clinical or demographic end points (e.g. area mortality rates) neglect population variation in broader aspects of health status and health-related quality of life. Similarly, outcome measures which neglect impacts on health-related quality of life may be an inadequate basis for assessing the effectiveness of health interventions. This paper reviews issues in assessing needs and outcomes at population level based on health status valuations. It considers especially the modelling of sources of uncertainty in measures of health status by using Bayesian sampling estimation methods which produce a distribution of summary outcome measures. The modelling issues are illustrated in models for individual level health status from survey responses and their incorporation in area life tables to derive total and healthy life expectancies. In particular, a health status index derived from Short Form 36 profile responses in a health and lifestyle survey in a London health authority provides a case study of community health needs assessment.},
affiliation = {Department of Geography, Queen Mary and Westfield College, Mile End Road, E1 4NS, London, UK.},
number = {1},
pages = {13--25},
volume = {7},
year = {2001},
month = {Mar},
language = {eng},
keywords = {Aged, Needs Assessment, Adolescent, Small-Area Analysis, Quality-Adjusted Life Years, Models: Statistical, Aged: 80 and over, Middle Aged, Bayes Theorem, Health Status, London, Adult, Age Distribution, Community Health Planning, Humans, Organizational Case Studies},
date-added = {2010-02-18 23:36:09 +0100},
date-modified = {2010-02-18 23:36:09 +0100},
pii = {S1353-8292(00)00034-4},
pmid = {11165152},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6013},
rating = {0}
}
@article{Fienberg:1996p6311,
author = {S E Fienberg and J M Tanur},
journal = {International Statistical Review},
title = {Reconsidering the Fundamental Contributions of Fisher and Neyman on Experimentation and Sampling},
abstract = {R.A. Fisher and Jerzy Neyman are commonly acknowledged as the statisticians who provided the
basic ideas that underpin the design of experiments and the design of sample surveys, respectively. In this paper, we reconsider the key contributions of these great men to the two areas of research. We also
explain how the controversy surrounding Neyman's 1935 paper on agricultural experimentation in effect led to a split in research on experiments and on sample surveys.},
number = {3},
pages = {237--253},
volume = {64},
year = {1996},
date-added = {2010-02-20 21:05:46 +0100},
date-modified = {2010-02-20 21:06:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fienberg-1996-International%20Statistical%20Review_Reconsidering%20the%20Fu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6311},
rating = {0}
}
@article{Kirisci:2006p264,
author = {Levent Kirisci and Ralph E Tarter and Michael Vanyukov and Chris Martin and Ada Mezzich and Stacy Brown},
journal = {Addict Behav},
title = {Application of item response theory to quantify substance use disorder severity},
abstract = {Objective: The present investigation had two main goals: (1) Determine whether binary substance use disorder (SUD) diagnoses are indicators of a unidimensional trait indexing severity of disorder; and, (2) demonstrate the predictive, concurrent and construct validity of the SUD severity scale. Methods: Boys and their biological parents were administered structured diagnostic interviews to diagnose SUD. Item response theory (IRT) was applied to determine whether the diagnoses are indicators of a unidimensional trait. The score on this scale was correlated with substance use behavior, violence, treatment history, risky sex, and social adjustment.
Results: SUD diagnoses are indicators of a unidimensional latent trait. Maternal and paternal SUD severity predicted son's SUD severity at age 19. The score on the SUD severity scale correlated with drug use frequency, number of different drugs used in lifetime, treatment seeking, illegal behavior, social maladjustment, and risky sex.
Conclusion: SUD can be quantified on an interval scale indexing severity of disorder. The advantages of measuring SUD severity as a continuous trait are discussed.},
affiliation = {Center for Education and Drug Abuse Research, Department of Pharmaceutical Sciences, School of Pharmacy, University of Pittsburgh, 711 Salk Hall, Pittsburgh, PA 15261, USA},
pages = {1035--1049},
volume = {31},
year = {2006},
month = {May},
date-added = {2010-01-03 10:59:00 +0100},
date-modified = {2010-01-03 11:01:36 +0100},
doi = {10.1016/j.addbeh.2006.03.033},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kirisci-2006-Addictive%20Behaviors_Application%20of%20item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p264},
rating = {0}
}
@article{Dick:2007p10475,
author = {Danielle M Dick and Fazil Aliev and John Kramer and Jen C Wang and Anthony Hinrichs and Sarah Bertelsen and Sam Kuperman and Marc Schuckit and John Nurnberger and Howard J Edenberg and Bernice Porjesz and Henri Begleiter and Victor Hesselbrock and Alison Goate and Laura Bierut},
journal = {Behav Genet},
title = {Association of CHRM2 with IQ: converging evidence for a gene influencing intelligence},
abstract = {The cholinergic neurotransmitter system is thought to be involved in many aspects of memory, attention, and higher cognition. In the Collaborative Study on the Genetics of Alcoholism (COGA) sample, we have previously reported linkage and association to the cholinergic muscarinic 2 receptor gene (CHRM2) on chromosome 7 with evoked EEG oscillations (Jones et al. 2004), providing evidence that this gene may be involved in human brain dynamics and cognition. In addition, a small number of genetic markers were genotyped in CHRM2 in the Minnesota Twin and Family Study (Comings et al. 2003) and a Dutch family study (Gosso et al. 2006, in press) and both research groups found evidence that this gene may be involved in intelligence. In the COGA sample, we have extensively genotyped SNPs within and flanking the CHRM2 gene. We find evidence of association with multiple SNPs across CHRM2 and Performance IQ, as measured by the Wechsler Adult Intelligence Scale-Revised (WAIS-R). These results remain significant after taking into account alcohol dependence and depression diagnoses in the sample.},
affiliation = {Department of Psychiatry, Washington University in St. Louis, 660 South Euclid Ave., Box 8134, St. Louis, MO 63130, USA. dickd@psychiatry.wustl.edu},
number = {2},
pages = {265--72},
volume = {37},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Genotype, Family, Chromosome Mapping, Humans, Receptor: Muscarinic M2, Male, Chromosomes: Human: Pair 7, Intelligence, Twin Studies as Topic, Alcoholism, United States, Wechsler Scales, Female, Polymorphism: Single Nucleotide},
date-added = {2010-04-07 11:08:08 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9131-2},
pmid = {17160701},
url = {http://www.springerlink.com/content/h4v46j012v011315/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dick-2007-Behav%20Genet_Association%20of%20CHRM2.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10475},
rating = {0}
}
@article{Wu:2006p2770,
author = {M Wu and R J Adams},
journal = {Mathematics Education Research Journal},
title = {Modelling Mathematics Problem Solving Item Responses Using a Multidimensional IRT Model},
abstract = {This research examined students' responses to mathematics problem-solving tasks and applied a general multidimensional IRT model at the response category level. In doing so, cognitive processes were identified and modelled through item response modelling to extract more information than would be provided using conventional practices in scoring items. More specifically, the study consisted of two parts. The first part involved the development of a mathematics problem-solving framework that was theoretically grounded, drawing upon research in mathematics education and cognitive psychology. The framework was then used as the basis for item development. The second part of the research involved the analysis of the item response data. It was demonstrated that multidimensional IRT models were powerful tools for extracting information from a limited number of item responses. A problem-solving profile for each student could be constructed from the results of IRT scaling.},
number = {2},
pages = {93--113},
volume = {18},
year = {2006},
date-added = {2010-01-13 14:26:48 +0100},
date-modified = {2010-07-29 20:16:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2006-Mathematics%20Education%20Research%20Journal_Modelling%20Mathematic-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2770},
rating = {0}
}
@article{KraljNovak:2009p2382,
author = {Petra Kralj Novak and Nada Lavrac and Dragan Gamberger and Antonija Krstaci{\'c}},
journal = {J Biomed Inform},
title = {CSM-SD: methodology for contrast set mining through subgroup discovery},
abstract = {This paper addresses a data analysis task, known as contrast set mining, whose goal is to find differences between contrasting groups. As a methodological novelty, it is shown that this task can be effectively solved by transforming it to a more common and well-understood subgroup discovery task. The transformation is studied in two learning settings, a one-versus-all and a pairwise contrast set mining setting, uncovering the conditions for each of the two choices. Moreover, the paper shows that the explanatory potential of discovered contrast sets can be improved by offering additional contrast set descriptors, called the supporting factors. The proposed methodology has been applied to uncover distinguishing characteristics of two groups of brain stroke patients, both with rapidly developing loss of brain function due to ischemia:those with ischemia caused by thrombosis and by embolism, respectively.},
affiliation = {Department of Knowledge Technologies, Jozef Stefan Institute, Jamova 39, 1000 Ljubljana, Slovenia. Petra.Kralj@ijs.si},
number = {1},
pages = {113--22},
volume = {42},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Artificial Intelligence, Decision Trees, Medical Records Systems: Computerized, Statistics: Nonparametric, Intracranial Thrombosis, Brain Ischemia, Risk Factors, Algorithms, Prognosis, Chi-Square Distribution, Information Storage and Retrieval, Intracranial Embolism, Pattern Recognition: Automated, Humans},
date-added = {2010-01-10 19:32:06 +0100},
date-modified = {2010-01-10 19:32:06 +0100},
doi = {10.1016/j.jbi.2008.08.007},
pii = {S1532-0464(08)00103-2},
pmid = {18782633},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kralj%20Novak-2009-J%20Biomed%20Inform_CSM-SD%20methodology.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2382},
rating = {0}
}
@article{Vittinghoff:2009p6908,
author = {E Vittinghoff and S Sen and C E McCulloch},
journal = {Stat Med},
title = {Sample size calculations for evaluating mediation},
abstract = {This paper presents sample size calculations for testing the mediation of the effect of a primary predictor by an intermediate variable. This problem is related to validating surrogate markers and to testing the effect of a primary predictor in the presence of confounders. For those problems, proposals for sample size calculation exist in the literature and can be adapted to the problem of mediation. Methods based on the variance inflation factor in linear regression provide exact sample size calculations for the linear model and approximations for the logistic, Poisson, and Cox models. We propose another procedure based on simulation of the underlying data structure, with applications to the logistic and Cox models. For the Poisson model, a new analytic method is also proposed. The behavior of the different proposals is investigated by means of simulation studies.},
affiliation = {Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, CA, USA. eric@biostat.ucsf.edu},
number = {4},
pages = {541--57},
volume = {28},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Logistic Models, Confounding Factors (Epidemiology), Computer Simulation, Linear Models, Proportional Hazards Models, Sample Size, Poisson Distribution},
date-added = {2010-03-06 12:22:46 +0100},
date-modified = {2010-03-06 12:22:46 +0100},
doi = {10.1002/sim.3491},
pmid = {19065627},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vittinghoff-2009-Stat%20Med_Sample%20size%20calculat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6908},
rating = {0}
}
@article{Hageman:1999,
author = {WJ Hageman and Arrindell WA},
journal = {Behavior Research and Therapy},
title = {Establishing clinically significant change: increment of precision and the distinction between individual and group level of analysis.},
abstract = {Some essential adaptations to the method for determining clinically significant change originally introduced by Jacobson, Follette and Revenstorf [Jacobson, N. S., Follette, W. C. {\&} Revenstorf, D. (1984a). Psychotherapy outcome research: methods for reporting variability and evaluating clinical significance. Behavior Therapy, 15, 336-352.] are presented. One adaptation deals with the failure in the original method to distinguish between analysis at the individual versus analysis at the group level. A second adaptation entails the provision of a closer approximation of the underlying true scores. This refinement represents an enhancement in precision. Specific aspects of this refinement may be understood in terms of a correction for error-based regression to the mean. Taking into account these adaptations, new procedures are described for determining (clinically significant) change. Some guidelines for the publication of outcome findings are also presented.},
number = {12},
pages = {1169--1193},
volume = {37},
year = {1999},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-01-03 19:35:29 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1022},
rating = {0}
}
@article{Buja:2004p2717,
author = {A Buja and D F Swayne and M L Littman and N Dean},
title = {Interactive Data Visualization with Multidimensional Scaling},
abstract = {We discuss interactive techniques for multidimensional scaling (MDS) and a two sys- tems, named ``GGvis'' and ``XGvis'', that implement these techniques.
MDS is a method for visualizing proximity data, that is, data where objects are char- acterized by dissimilarity values for all pairs of objects. MDS constructs maps (called ``configurations'') of these objects in IRk by interpreting the dissimilarities as distances.
As a data-mapping technique, MDS is fundamentally a visualization method. It is hence plausible that MDS gains in power if it is embedded in a data visualization environment. Consequently, the MDS systems presented here are conceived as exten- sions of multivariate data visualization systems (``GGvis'' and ``X/GGobi'' in this case). The visual analysis of MDS output profits from dynamic projection tools for viewing high-dimensional configurations, from brushing multiple linked views, from plot en- hancements such as labels, glyphs, colors, lines, and from selective removal of groups of objects. Powerful is also the ability to move points and groups of points interactively and thereby create new starting configurations for MDS optimization.
In addition to the benefits of a data visualization environment, we enhance MDS by providing interactive control over numerous options and parameters, a few of them novel. They include choices of 1) metric versus nonmetric MDS, 2) classical versus dis- tance MDS, 3) the configuration dimension, 4) power transformations for metric MDS, 5) distance transformations and 6) Minkowski metrics for distance MDS, 7) weights in the form of powers of dissimilarities and 8) as a function of group memberships, 9) var- ious types of group-dependent MDS such as multidimensional unfolding and external unfolding, 10) random subselection of dissimilarities, 11) perturbation of configura- tions, and 12) a separate window for diagnostics, including the Shepard plot.
MDS was originally developed for the social sciences, but it is now also used for laying out graphs. Graph layout is usually done in 2-D, but we allow layouts in arbitrary dimensions. We show applications to the mapping of computer usage data, to the dimension reduction of marketing segmentation data, to the layout of mathematical graphs and social networks, and finally to the spatial reconstruction of molecules.},
year = {2004},
date-added = {2010-01-13 14:03:53 +0100},
date-modified = {2010-01-13 14:04:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buja-2004-_Interactive%20Data%20Vis-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2717},
rating = {0}
}
@article{Stryker:2006,
author = {JE Stryker and RJ Wray and KM Emmons and E Winer and G Demetri},
journal = {Patient Education and Counseling},
title = {Understanding the decisions of cancer clinical trial participants to enter research studies: Factors associated with informed consent, patient satisfaction, and decisional regret},
abstract = {Objective To understand the psychosocial outcomes related to decision-making processes of individuals eligible for participation in clinical trials. Methods Individuals eligible to participate in selected clinical trials were contacted to complete two surveys; one shortly after participants were identified, and the second 6 weeks after the first survey was completed (N = 50). Measures included subjective informed consent; satisfaction with decision-making; decisional regret; and timing of consent (early versus late signers). ANOVA and correlation coefficients were used to test the relationships between variables. Results Early signers reported themselves to be less informed about the details of their particular clinical trials than later signers (M = 81.9 versus 91.2; F = 5.5; p = .02). There was a non-significant trend for early signers to be less satisfied with their decisions than late signers. Satisfaction with decision-making and subjective informed consent were both strongly associated with later decisional regret (r = -.32 and -.30, respectively). However, there was no relationship between timing of consent and decisional regret. Conclusion Participants who enroll in clinical trials quickly may not believe they fully understand the implications of trial participation. In general, participants who do not believe they fully understand the implications of trial participation, or who are less satisfied with their decision to enroll in the trial may ultimately feel regret about their decision to participate. Practice implications More effort is needed to ensure that clinical trial participants fully understand the risks and benefits of participation and are satisfied with their decision to enroll in a trial prior to signing consent forms.},
number = {1-2},
pages = {104--109},
volume = {63},
year = {2006},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p956},
rating = {0}
}
@article{Carvalho:2010p6618,
author = {C Carvalho and J Chang and J Lucas and J R Nevins and Q Wang and M West},
title = {High-Dimensional Sparse Factor Modelling: Applications in Gene Expression Genomics},
abstract = {In studies of molecular profiling and biological pathway analysis using DNA microarray gene expression data we are utilising a broad class of sparse latent factor and regression models for large-scale multivariate analysis and regression prediction. We present examples of these applica- tions with discussion of key aspects of the modelling and computational methodology. Our case studies are drawn from breast cancer genomics, where we are concerned with the investigation and characterisation of heterogeneity of structure related to specific oncogenic pathways, as well as predictive/prognostic uses of aggregate patterns in gene expression profiles in clinical contexts. Based on the metaphor of statistically derived ``factors'' as representing biological ``subpathway'' structure, we explore the decomposition of fitted sparse factor models into pathway subcompo- nents, and how these components overlay multiple aspects of known biological structure in this network. We discuss the discovery and predictive uses of this approach, and the ability to use such models to generate enrichment of existing biological descriptions through identification of interactions between factors and subsequent experimental validation. We further illustrate the cou- pled use of predictive factor regression models with the high-dimensional sparse factor analysis of expression profiles.
Our methodology is based on sparsity modelling of multivariate regression, anova and latent factor models, and a general class of models that combines all components. Novel and effec- tive sparsity priors address the inherent questions of dimension reduction and multiple compar- isons, as well as scalability of the methodology. The models include practically relevant non- Gaussian/non-parametric components for modelling latent structure underlying often quite com- plex non-Gaussianity in multivariate expression patterns related to underlying biology. Model search and fitting are addressed through stochastic simulation and evolutionary stochastic search methods that are exemplified in oncogenic pathway studies. Supplementary supporting material provides more details of the applications as well as examples of the use of freely available soft- ware tools implementing the methodology.},
date-added = {2010-03-03 20:28:23 +0100},
date-modified = {2010-03-03 20:29:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carvalho--_High-Dimensional%20Spa-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6618},
rating = {0}
}
@article{Tashakkori:1989p5519,
author = {A Tashakkori and J Barefoot and A H Mehryar},
journal = {J Clin Psychol},
title = {What does the Beck Depression Inventory measure in college students? Evidence from a non-western culture},
abstract = {This investigation of the factor structure of the Beck Depression Inventory (BDI) was designed to assess Gotlib's (1984) claim that the BDI is more a measure of general psychopathology than a specific measure of depression when administered to student samples. The data were collected from Iranian students and provide further information about the performance of the BDI in a non-Western culture. Principal components analysis of the responses to items 1-20 of the BDI (N = 405) revealed five factors with different degrees of similarity to findings of Hill, Kemp-Wheeler, and Jones (1986). Within subsamples, the factor scores were predicted in multiple regression analysis from Eysenck Personality Inventory subscales (N, P, E, L), James' I-E scale, and two measures of self-esteem. Results indicated that the five factors had distinctly different relationships to the other personality scales. The most general factor seemed to be a measure of helplessness and self-devaluation. These results confirm the usefulness of the BDI as a measure of depression in college student populations, even in non-Western cultures.},
affiliation = {Department of Psychology, Stetson University, DeLand, FL 32720.},
number = {4},
pages = {595--602},
volume = {45},
year = {1989},
month = {Jul},
language = {eng},
keywords = {Iran, Female, Cross-Cultural Comparison, Adult, Depression, Psychological Tests, Humans, Self Concept, Personality Inventory, Internal-External Control, Male, Students, Psychometrics},
date-added = {2010-02-12 14:59:32 +0100},
date-modified = {2010-02-12 14:59:32 +0100},
pmid = {2768499},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5519},
rating = {0}
}
@article{Burns:2009p2321,
author = {P Burns},
title = {The R Inferno},
year = {2009},
date-added = {2010-01-10 12:44:22 +0100},
date-modified = {2010-01-10 12:44:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burns-2009-_The%20R%20Inferno.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2321},
rating = {0}
}
@article{Iacono:2003p9097,
author = {William G Iacono and Stephen M Malone and Matt McGue},
journal = {Int J Psychophysiol},
title = {Substance use disorders, externalizing psychopathology, and P300 event-related potential amplitude},
abstract = {We hypothesize the existence of an inherited predisposition for a spectrum of behaviors and traits characterized by behavioral disinhibition. This externalizing spectrum includes childhood disruptive disorders, antisocial behavior, substance use disorders, personality traits related to behavioral undercontrol, and the precocious expression of problem behavior. We further hypothesize that a genetically influenced central nervous system diathesis underlies this spectrum and is reflected in reduced P300 amplitude in a visual oddball event-related potential task. A review of evidence bearing on the model is derived from findings from the Minnesota Twin Family Study, a population-based, longitudinal investigation of twin youth. These findings indicate that the collection of attributes related to behavioral disinhibition is familial, heritable, and interrelated. Evidence supporting P3 amplitude reduction (P3-AR) as an index of genetic vulnerability for this externalizing spectrum includes its association with (a) familial risk for substance use and antisocial personality disorders, (b) diagnoses of childhood disruptive disorders and substance use disorders, (c) early onset of undersocialized behavior, and (d) quantitative phenotypes related to externalizing problems. In addition, the development of substance use disorders over a 3-year period is associated with P3-AR measured prior to their expression. These findings suggest that P3-AR indexes one aspect of the genetic diathesis for a spectrum of externalizing problem behavior.},
affiliation = {Department of Psychology, University of Minnesota, Minneapolis, MN 55455, USA. wiacono@tfs.psych.umn.edu},
number = {2},
pages = {147--78},
volume = {48},
year = {2003},
month = {May},
language = {eng},
keywords = {Phenotype, Reaction Time, Psychopathology, Child Behavior Disorders, Substance-Related Disorders, Environment, Family Health, Antisocial Personality Disorder, Male, Female, Causality, Adolescent, Sex Factors, Psychiatric Status Rating Scales, Personality Assessment, Humans, Event-Related Potentials: P300, Twin Studies as Topic, Diagnosis: Dual (Psychiatry), Child},
date-added = {2010-03-22 13:24:45 +0100},
date-modified = {2010-03-22 13:24:45 +0100},
pii = {S0167876003000527},
pmid = {12763572},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Iacono-2003-Int%20J%20Psychophysiol_Substance%20use%20disord.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9097},
rating = {0}
}
@article{Barth:2010p9818,
author = {Andreas S Barth and Ami Kumordzie and Carlo Colantuoni and Kenneth B Margulies and Thomas P Cappola and Gordon F Tomaselli},
journal = {BMC Genomics},
title = {Reciprocal regulation of metabolic and signaling pathways},
abstract = {ABSTRACT: BACKGROUND: By studying genome-wide expression patterns in healthy and diseased tissues across a wide range of pathophysiological conditions, DNA microarrays have revealed unique insights into complex diseases. However, the high-dimensionality of microarray data makes interpretation of heterogeneous gene expression studies inherently difficult. RESULTS: Using a large-scale analysis of more than 40 microarray studies encompassing ~2400 mammalian tissue samples, we identified a common theme across heterogeneous microarray studies evident by a robust genome-wide inverse regulation of metabolic and cell signaling pathways: We found that upregulation of cell signaling pathways was invariably accompanied by downregulation of cell metabolic transcriptional activity (and vice versa). Several findings suggest that this characteristic gene expression pattern represents a new principle of mammalian transcriptional regulation. First, this coordinated transcriptional pattern occurred in a wide variety of physiological and pathophysiological conditions and was identified across all 20 human and animal tissue types examined. Second, the differences in metabolic gene expression predicted the magnitude of differences for signaling and all other pathways, i.e. tissue samples with similar expression levels of metabolic transcripts did not show any differences in gene expression for all other pathways. Third, this transcriptional pattern predicted a profound effect on the proteome, evident by differences in structure, stability and post-translational modifications of proteins belonging to signaling and metabolic pathways, respectively. CONCLUSIONS: Our data suggest that in a wide range of physiological and pathophysiological conditions, gene expression changes exhibit a recurring pattern along a transcriptional axis, characterized by an inverse regulation of major metabolic and cell signaling pathways. Given its widespread occurrence and its predicted effects on protein structure, protein stability and post-translational modifications, we propose a new principle for transcriptional regulation in mammalian biology.},
number = {1},
pages = {197},
volume = {11},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-26 19:22:03 +0100},
date-modified = {2010-03-26 19:22:04 +0100},
doi = {10.1186/1471-2164-11-197},
pii = {1471-2164-11-197},
pmid = {20334672},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Barth-2010-BMC%20Genomics_Reciprocal%20regulatio-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9818},
rating = {0}
}
@article{Kieseppa:2004p7519,
author = {Tuula Kiesepp{\"a} and Timo Partonen and Jari Haukka and Jaakko Kaprio and Jouko L{\"o}nnqvist},
journal = {Am J Psychiatry},
title = {High concordance of bipolar I disorder in a nationwide sample of twins},
abstract = {OBJECTIVE: The few studies of bipolar I disorder in twins have consistently emphasized the genetic contribution to disease liability. The authors report what appears to be the first twin study of bipolar I disorder involving a population-based twin sample, in which the diagnoses were made by using structured, personal interviews. METHOD: All Finnish same-sex twins (N=19,124) born from 1940 to 1957 were screened for a diagnosis of bipolar I disorder as recorded in the National Hospital Discharge Register between 1969 and 1991 or self-reported in surveys of the Finnish Twin Cohort in 1975, 1981, and 1990. Thirty-eight pairs were thereby identified and invited to participate in the study; the participation rate was 68%. Lifetime diagnoses were made by using the Structured Clinical Interview for DSM-IV. The authors calculated probandwise and pairwise concordances and correlations in liability and applied biometrical model fitting. RESULTS: The probandwise concordance rates were 0.43 (95% CI=0.10 to 0.82) for monozygotic twins and 0.06 (95% CI=0.00 to 0.27) for dizygotic twins. The correlations in liability were 0.85 and 0.41, respectively. The model with no familial transmission was rejected. The best-fitting model was the one in which genetic and specific environmental factors explained the variance in liability, with a heritability estimate of 0.93 (95% CI=0.69 to 1.00). CONCLUSIONS: The high heritability of bipolar disorder was demonstrated in a nationwide population-based twin sample assessed with structured personal interviews.},
affiliation = {Department of Mental Health and Alcohol Research, National Public Health Institute, 00300 Helsinki 30, Finland. tuula.kieseppa@ktl.fi.},
number = {10},
pages = {1814--21},
volume = {161},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Genetic Testing, Twins: Monozygotic, Adult, Male, Cohort Studies, Social Environment, Prevalence, Risk Factors, Genetic Predisposition to Disease, Female, Registries, Humans, Sex Factors, Models: Genetic, Diseases in Twins, Twins: Dizygotic, Psychiatric Status Rating Scales, Middle Aged, Finland, Psychometrics, Bipolar Disorder},
date-added = {2010-03-14 10:51:25 +0100},
date-modified = {2010-03-14 10:51:25 +0100},
doi = {10.1176/appi.ajp.161.10.1814},
pii = {161/10/1814},
pmid = {15465978},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kiesepp%C3%A4-2004-Am%20J%20Psychiatry_High%20concordance%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7519},
rating = {0}
}
@article{Chatelin:2002p4088,
author = {Y M Chatelin and V Esposito Vinzi and M Tenenhaus},
title = {State-of-art on PLS Path Modeling through the available software},
year = {2002},
date-added = {2010-01-19 20:02:13 +0100},
date-modified = {2010-01-19 20:03:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chatelin-2002-_State-of-art%20on%20PLS.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4088},
rating = {0}
}
@article{Javaras:2009p4944,
author = {K N Javaras and J I Hudson and N M Laird},
journal = {Genet Epidemiol},
title = {Fitting ACE structural equation models to case-control family data},
abstract = {Investigators interested in whether a disease aggregates in families often collect case-control family data, which consist of disease status and covariate information for members of families selected via case or control probands. Here, we focus on the use of case-control family data to investigate the relative contributions to the disease of additive genetic effects (A), shared family environment (C), and unique environment (E). We describe an ACE model for binary family data; this structural equation model, which has been described previously, combines a general-family extension of the classic ACE twin model with a (possibly covariate-specific) liability-threshold model for binary outcomes. We then introduce our contribution, a likelihood-based approach to fitting the model to singly ascertained case-control family data. The approach, which involves conditioning on the proband's disease status and also setting prevalence equal to a prespecified value that can be estimated from the data, makes it possible to obtain valid estimates of the A, C, and E variance components from case-control (rather than only from population-based) family data. In fact, simulation experiments suggest that our approach to fitting yields approximately unbiased estimates of the A, C, and E variance components, provided that certain commonly made assumptions hold. Further, when our approach is used to fit the ACE model to Austrian case-control family data on depression, the resulting estimate of heritability is very similar to those from previous analyses of twin data. Genet. Epidemiol. 2009. (c) 2009 Wiley-Liss, Inc.},
affiliation = {Waisman Laboratory for Brain Imaging {\&} Behavior, University of Wisconsin-Madison, Madison, Wisconsin.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-02-03 20:59:18 +0100},
date-modified = {2010-02-03 20:59:18 +0100},
doi = {10.1002/gepi.20454},
pmid = {19918760},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Javaras-2009-Genet%20Epidemiol_Fitting%20ACE%20structur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4944},
rating = {0}
}
@article{Gooding:2010p14052,
author = {Diane Carol Gooding and Madeline Johnson and Joel Stephen Peterman},
journal = {Psychiatry Res},
title = {Schizotypy and altered digit ratios: a second look},
abstract = {Alterations in the ratio between the 2nd and 4th finger digits have been posited as a potential indicator of increased liability for neurodevelopmental disorders such as autism and schizophrenia. We compared digit ratios in two groups of psychometrically-identified schizotypes, namely, those characterized by positive schizotypy (perceptual aberrations and magical ideation; n=76) and those characterized by negative schizotypy (social anhedonia; n=64), to a control group (n=110). The groups were also compared in terms of their performance on a measure of Theory of Mind, namely, the Reading the Mind in the Eyes Test (RMET) and trait affect, as measured by the PANAS. Our results indicate that neither negative schizotypy nor positive schizotypy is associated with altered digit ratios. Similarly, the groups showed no significant differences on the RMET. However, we observed a small but significant inverse association between Theory of Mind performance and negative affect. The findings are considered in light of the extant literature. These results call into question the viability of altered digit ratios to serve as an indicator of increased risk for schizophrenia-spectrum disorders.},
affiliation = {University of Wisconsin-Madison, Department of Psychology, Madison, WI 53706, USA. dgooding@wisc.edu},
number = {1},
pages = {73--8},
volume = {178},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-08-18 10:00:09 +0200},
date-modified = {2010-08-18 10:00:09 +0200},
doi = {10.1016/j.psychres.2010.04.023},
pii = {S0165-1781(10)00182-4},
pmid = {20471104},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gooding-2010-Psychiatry%20Res_Schizotypy%20and%20alter.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14052},
rating = {0}
}
@article{Panksepp:2006p3053,
author = {Jaak Panksepp},
journal = {Prog Neuropsychopharmacol Biol Psychiatry},
title = {Emotional endophenotypes in evolutionary psychiatry},
abstract = {Evolutionary psychiatry emerged from the conceptual successes of sociobiology and evolutionary psychology. It will need to avoid the many mistakes that biology-free Evolutionary Psychology has been prey to. It should not ignore the wealth of information that exists between the phenotypic expression of symptoms and the genotypic sources of core brain/mind processes that are disrupted in psychiatric disorders. Syndromal-conceptual thinking has become a barrier to illuminating the biological sources of psychiatric disorders. Endophenoytpic-biomarker approaches now offer robust alternatives for generating linkages between psychiatrically relevant psychological changes and the neurobiological infrastructure of disordered mentation. Here I summarize recent advances in endophenotypic thinking in biological psychiatry, and suggest that various core emotional-affective processes may be among the most important endophenotypes that need to be clarified at both neurobiological and genetic levels of analysis. To this end, I discuss strategies to link basic emotional processes that are commonly imbalanced in psychiatric disorders to neuroanatomical, neurochemical, neurophysiology, and molecular genetic levels of analysis. Conjoint animal behavioral-genetic and gene expression, microarray analyses can clarify a variety of key emotional endophenotypes and thereby provide a coherent infrastructure for psychiatric systematics. To further clarify the neurobiological dimensions of psychiatric disorders, we must also focus on psychosocial and environmental stress vectors that converge to create imbalanced emotional and motivational brain activities of psychiatric significance.},
affiliation = {Center for the Study of Animal Well-Being, College of Veterinary Medicine (VCAPP), Washington State University, Pullman, Washington, USA.},
number = {5},
pages = {774--84},
volume = {30},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Brain Chemistry, Psychiatry, Emotions, Humans, Neurosciences, Animals, Mental Disorders, Evolution, Phenotype},
date-added = {2010-01-14 11:26:08 +0100},
date-modified = {2010-01-14 11:26:08 +0100},
doi = {10.1016/j.pnpbp.2006.01.004},
pii = {S0278-5846(06)00005-4},
pmid = {16554114},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Panksepp-2006-Prog%20Neuropsychopharmacol%20Biol%20Psychiatry_Emotional%20endophenot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3053},
rating = {3}
}
@article{Rosenberg:2005p6506,
author = {Noah A Rosenberg and Saurabh Mahajan and Sohini Ramachandran and Chengfeng Zhao and Jonathan K Pritchard and Marcus W Feldman},
journal = {PLoS Genet},
title = {Clines, clusters, and the effect of study design on the inference of human population structure},
abstract = {Previously, we observed that without using prior information about individual sampling locations, a clustering algorithm applied to multilocus genotypes from worldwide human populations produced genetic clusters largely coincident with major geographic regions. It has been argued, however, that the degree of clustering is diminished by use of samples with greater uniformity in geographic distribution, and that the clusters we identified were a consequence of uneven sampling along genetic clines. Expanding our earlier dataset from 377 to 993 markers, we systematically examine the influence of several study design variables--sample size, number of loci, number of clusters, assumptions about correlations in allele frequencies across populations, and the geographic dispersion of the sample--on the "clusteredness" of individuals. With all other variables held constant, geographic dispersion is seen to have comparatively little effect on the degree of clustering. Examination of the relationship between genetic and geographic distance supports a view in which the clusters arise not as an artifact of the sampling scheme, but from small discontinuous jumps in genetic distance for most population pairs on opposite sides of geographic barriers, in comparison with genetic distance for pairs on the same side. Thus, analysis of the 993-locus dataset corroborates our earlier results: if enough markers are used with a sufficiently large worldwide sample, individuals can be partitioned into genetic clusters that match major geographic subdivisions of the globe, with some individuals from intermediate geographic locations having mixed membership in the clusters that correspond to neighboring regions.},
affiliation = {Department of Human Genetics, Bioinformatics Program, and the Life Sciences Institute, University of Michigan, Ann Arbor, Michigan, USA. rnoah@umich.edu},
number = {6},
pages = {e70},
volume = {1},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Genetics: Population, Cluster Analysis, Humans, Models: Genetic, Genotype, Genome: Human, Models: Statistical, Multigene Family, Gene Frequency, Population Groups, Alleles, Geography},
date-added = {2010-02-23 08:37:28 +0100},
date-modified = {2010-02-23 08:37:28 +0100},
doi = {10.1371/journal.pgen.0010070},
pmid = {16355252},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6506},
rating = {0}
}
@article{Cook:2008p415,
author = {RD Cook and L Forzani},
journal = {Biometrika},
title = {Covariance reducing models: An alternative to spectral modelling of covariance matrices},
abstract = {We introduce covariance reducing models for studying the sample covariance matrices of a random vector observed in different populations. The models are based on reducing the sample covariance matrices to an informational core that is sufficient to characterize the variance hetero- geneity among the populations. They possess useful equivariance properties and provide a clear alternative to spectral models for covariance matrices.},
affiliation = {School of Statistics, University of Minnesota, Minneapolis, Minnesota 55455, U.S.A.},
number = {4},
pages = {799--812},
volume = {95},
year = {2008},
keywords = {Grassmann manifolds, Envelopes, Central subspace, Dimension reduction, Reducing subspaces},
date-added = {2010-01-03 11:59:14 +0100},
date-modified = {2010-01-03 12:01:36 +0100},
doi = {10.1093/biomet/asn052},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cook-2008-Biometrika_Covariance%20reducing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p415},
rating = {0}
}
@article{Mortaud:2010p7656,
author = {Stephane Mortaud and Laurent Nicolas and Walter Pinoteau and Sylvie Tordjman and Mich{\`e}le Carlier and Pierre L Roubertoux},
journal = {Behav Genet},
title = {Brain pathways mediating the pro-aggressive effect of the steroid sulfatase (Sts) gene},
abstract = {STS is the single enzyme that converts all steroid sulfates into their free steroid forms. Initiation of attack behavior against conspecific male mice appeared to be linked to Sts. Here we have confirmed the role of Sts through an association study with attack behavior. Previous studies indicated a positive correlation between the initiation of attack behavior and liver STS concentration levels in male mice, but this finding was not compatible with established knowledge of STS mechanisms. High STS concentrations induce low concentrations of sulfated steroids. Sulfated and un-sulfated steroids are GABA(A) receptor agonists and NMDA receptor positive allosteric modulators. This synaptic pattern of functioning can generate attack behavior and we have confirmed here that an injection of the sulfated steroid dehydroepiandrosterone sulfate (DHEA-S) increases attack behavior. To solve the paradox, we measured the transcription activity of the genes underlying the pathways involved in the hydrolysis of sulfated steroids and leading to the formation of un-conjugated steroids in the mouse brain. We observed that the genes monitoring the steroid biosynthesis pathways exhibited a transcription pattern resulting in an increased sulfotransferase activity in the attacking males that could counterbalance the de-sulfating activity of Sts in the attacking mice.},
affiliation = {Universit{\'e} d'Orl{\'e}ans, Orl{\'e}ans, France.},
number = {2},
pages = {211--9},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:25:01 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9340-6},
pmid = {20155394},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mortaud-2010-Behav%20Genet_Brain%20pathways%20media.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7656},
rating = {0}
}
@article{Caprara:2009p7646,
author = {Gian Vittorio Caprara and Corrado Fagnani and Guido Alessandri and Patrizia Steca and Antonella Gigantesco and Luigi Luca Cavalli Sforza and Luigi Luca Cavalli Sforza and Maria Antonietta Stazi},
journal = {Behav Genet},
title = {Human optimal functioning: the genetics of positive orientation towards self, life, and the future},
abstract = {Certain personality characteristics such as self-esteem, life satisfaction, and optimism are fundamental components of positive mental health status and well-being. There is consistent evidence that these traits tend to be substantially correlated in individuals. However, no previous studies have investigated the origin of such correlation. This research used the twin method to unravel the genetic and environmental architecture of self-esteem, life satisfaction, and optimism, along with their mutual interplay. The sample was derived from the population-based Italian Twin Register, and included 428 twin pairs, aged 23-24 years. Multivariate genetic modeling showed that genes influencing self-esteem, life satisfaction, and optimism are largely overlapping. Furthermore, results indicated that the environmental components of the traits may overlap only modestly, and suggested that a sizeable amount of variance in the traits may be explained by environmental effects specific to each of them.},
affiliation = {Psychology Department, Sapienza University of Rome, Via dei Marsi 78, 00185 Rome, Italy. gianvittorio.caprara@uniroma1.it},
number = {3},
pages = {277--84},
volume = {39},
year = {2009},
month = {May},
language = {eng},
keywords = {Culture, Social Perception, Personality, Adaptation: Psychological, Models: Genetic, Male, Epistasis: Genetic, Registries, Risk Factors, Depressive Disorder, Diseases in Twins, Female, Young Adult, Italy, Motivation, Social Environment, Self Concept, Quality of Life, Temperament, Humans},
date-added = {2010-03-15 23:16:41 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9267-y},
pmid = {19360463},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Caprara-2009-Behav%20Genet_Human%20optimal%20functi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7646},
rating = {0}
}
@article{Frisher:2007p7571,
author = {Martin Frisher and Heath Heatlie and Matthew Hickman},
journal = {BMC Public Health},
title = {Validating estimates of problematic drug use in England},
abstract = {BACKGROUND: UK Government expenditure on combatting drug abuse is based on estimates of illicit drug users, yet the validity of these estimates is unknown. This study aims to assess the face validity of problematic drug use (PDU) and injecting drug use (IDU) estimates for all English Drug Action Teams (DATs) in 2001. The estimates were derived from a statistical model using the Multiple Indicator Method (MIM). METHODS: Questionnaire study, in which the 149 English Drug Action Teams were asked to evaluate the MIM estimates for their DAT. RESULTS: The response rate was 60% and there were no indications of selection bias. Of responding DATs, 64% thought the PDU estimates were about right or did not dispute them, while 27% had estimates that were too low and 9% were too high. The figures for the IDU estimates were 52% (about right), 44% (too low) and 3% (too high). CONCLUSION: This is the first UK study to determine the validity estimates of problematic and injecting drug misuse. The results of this paper highlight the need to consider criterion and face validity when evaluating estimates of the number of drug users.},
affiliation = {Department of Medicines Management, School of Pharmacy, Keele University, ST5 5BG, UK. m.frisher@keele.ac.uk},
pages = {286},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Substance Abuse: Intravenous, Middle Aged, Probability, England, Male, Factor Analysis: Statistical, Prevalence, Vulnerable Populations, Female, Substance-Related Disorders, Adolescent, Adult, Regression Analysis, Confidence Intervals, Humans, Population Surveillance, Questionnaires},
date-added = {2010-03-14 10:59:59 +0100},
date-modified = {2010-03-14 11:00:03 +0100},
doi = {10.1186/1471-2458-7-286},
pii = {1471-2458-7-286},
pmid = {17927809},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Frisher-2007-BMC%20Public%20Health_Validating%20estimates.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7571},
rating = {2}
}
@techreport{Davidson:2006,
author = {R Davidson and J MacKinnon},
journal = {Techreport},
title = {Bootstrap Inference in a Linear Equation Estimated by Instrumental Variables},
affiliation = {Queen's Economics Department},
year = {2006},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Davidson-2006-Techreport_Bootstrap%20Inference.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1987},
rating = {0}
}
@article{Berk:2010p4269,
author = {R A Berk and Jan de Leeuw},
title = {Multilevel statistical models and ecological scaling},
date-added = {2010-01-23 21:36:03 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Berk--_Multilevel%20statistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4269},
rating = {0}
}
@article{Fan:2005p10472,
author = {Jin Fan and Bruce D McCandliss and John Fossella and Jonathan I Flombaum and Michael I Posner},
journal = {Neuroimage},
title = {The activation of attentional networks},
abstract = {Alerting, orienting, and executive control are widely thought to be relatively independent aspects of attention that are linked to separable brain regions. However, neuroimaging studies have yet to examine evidence for the anatomical separability of these three aspects of attention in the same subjects performing the same task. The attention network test (ANT) examines the effects of cues and targets within a single reaction time task to provide a means of exploring the efficiency of the alerting, orienting, and executive control networks involved in attention. It also provides an opportunity to examine the brain activity of these three networks as they operate in a single integrated task. We used event-related functional magnetic resonance imaging (fMRI) to explore the brain areas involved in the three attention systems targeted by the ANT. The alerting contrast showed strong thalamic involvement and activation of anterior and posterior cortical sites. As expected, the orienting contrast activated parietal sites and frontal eye fields. The executive control network contrast showed activation of the anterior cingulate along with several other brain areas. With some exceptions, activation patterns of these three networks within this single task are consistent with previous fMRI studies that have been studied in separate tasks. Overall, the fMRI results suggest that the functional contrasts within this single task differentially activate three separable anatomical networks related to the components of attention.},
affiliation = {Laboratory of Neuroimaging, Department of Psychiatry, Mount Sinai School of Medicine, New York, NY 10029, USA. Jin.Fan@mssm.edu},
number = {2},
pages = {471--9},
volume = {26},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Orientation, Cues, Cerebral Cortex, Male, Neuropsychological Tests, Psychomotor Performance, Adolescent, Functional Laterality, Nerve Net, Temporal Lobe, Attention, Thalamus, Humans, Algorithms, Female, Magnetic Resonance Imaging, Parietal Lobe, Adult, Reaction Time},
date-added = {2010-04-07 11:06:20 +0200},
date-modified = {2010-04-07 11:06:20 +0200},
doi = {10.1016/j.neuroimage.2005.02.004},
pii = {S1053-8119(05)00098-4},
pmid = {15907304},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4FRKVJ2-4&_user=2432700&_coverDate=06%252F30%252F2005&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=728fde9364808588f77d1a3031eb7c84},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fan-2005-Neuroimage_The%20activation%20of%20at.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10472},
rating = {0}
}
@article{Kusumi:2005p11594,
author = {Ichiro Kusumi and Takuya Masui and Chihiro Kakiuchi and Katsuji Suzuki and Tatsuyuki Akimoto and Ryota Hashimoto and Hiroshi Kunugi and Tadafumi Kato and Tsukasa Koyama},
journal = {Neurosci Lett},
title = {Relationship between XBP1 genotype and personality traits assessed by TCI and NEO-FFI},
abstract = {There have been several researches on the role of personality in the pathophysiology of bipolar disorder. Recently, a polymorphism of XBP1, a pivotal gene in the endoplasmic reticulum (ER) stress response, was shown to contribute to the genetic risk factor for bipolar disorder. Therefore, in this study, we examined the relationship between the XBP1 gene polymorphism and the personality traits assessed by two self-rating scales, a shortened version of Temperament and Character Inventory (TCI) and NEO-Five Factor Inventory (NEO-FFI) in healthy subjects. The present results suggested that the XBP1 gene polymorphism was associated with the NEO-FFI score of neuroticism in female subjects. However, no significant differences in the other personality scale scores of both assessments were observed among normal subjects with -116C/C, C/G and G/G genotypes. Further investigations are necessary to examine the relationship in patients with bipolar disorder, or use full version of various self-rating personality assessments.},
affiliation = {Department of Psychiatry, Hokkaido University Graduate School of Medicine, North 15, West 7, Sapporo, Hokkaido 060-8638, Japan. ikusumi@med.hokudai.ac.jp},
number = {1-2},
pages = {7--10},
volume = {391},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Polymorphism: Genetic, Personality, Statistics as Topic, Personality Assessment, Transcription Factors, Risk Factors, Prevalence, Male, Genetic Predisposition to Disease, Adult, Humans, Japan, Questionnaires, Nuclear Proteins, Female, Bipolar Disorder, Quantitative Trait Loci, DNA-Binding Proteins, Genotype, Risk Assessment},
date-added = {2010-05-09 21:18:08 +0200},
date-modified = {2010-05-09 21:18:08 +0200},
doi = {10.1016/j.neulet.2005.08.023},
pii = {S0304-3940(05)00937-7},
pmid = {16154272},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kusumi-2005-Neurosci%20Lett_Relationship%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11594},
rating = {0}
}
@article{Yeh:2010p12573,
author = {Michelle T Yeh and Emil F Coccaro and Kristen C Jacobson},
journal = {Behav Genet},
title = {Multivariate Behavior Genetic Analyses of Aggressive Behavior Subtypes},
abstract = {This study examined the genetic and environmental architecture underlying aggressive behavior measured by the Life History of Aggression Questionnaire (LHA; Coccaro et al. 1997a). Following preliminary phenotypic factor analysis procedures, multivariate behavioral genetics models were fit to responses from 2,925 adult twins from the PennTwins cohort on five LHA items assessing lifetime frequency of temper tantrums, indirect aggression, verbal aggression, fighting, and physical assault. The best-fitting model was a 2-factor common pathway model, indicating that these five aggressive behaviors are underpinned by two distinct etiological factors with different genetic and nonshared environmental influences. Although there was evidence of significant sex differences, the structure of the two factors appeared to be quite similar in males and females, where General Aggression and Physical Aggression factors emerged. Heritability of these factors ranged from .37 to .57, and nonshared environmental effects ranged from .43 to .63. The results of this study highlight the heterogeneous nature of the aggression construct and the need to consider differences in genetic and environmental influences on individual aggressive behaviors in a multivariate context.},
affiliation = {Department of Psychiatry and Behavioral Neuroscience, University of Chicago, CNPRU, Chicago, IL, USA.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-06-15 22:24:55 +0200},
date-modified = {2010-07-29 20:09:07 +0200},
doi = {10.1007/s10519-010-9363-z},
pmid = {20432061},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yeh-2010-Behav%20Genet_Multivariate%20Behavio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12573},
rating = {0}
}
@article{Hernandez:2006p5908,
author = {Ana Hern{\'a}ndez and Bego{\~n}a Espejo and Vicente Gonz{\'a}lez-Rom{\'a}},
journal = {Psicothema},
title = {The functioning of central categories Middle Level and Sometimes in graded response scales: does the label matter?},
abstract = {The present study evaluates the extent to which central categories explicitly labeled as being in the middle of the other response categories, specifically Middle Level and Sometimes, function as expected according to the integer scoring system. The assumptions are tested by means of Bock's Nominal Model in two 5-response scales. Results show that the assumption of the ordering of the response categories is met for all the items. The ordering of thresholds is satisfied for all but one item with the central category Middle Level . Results are compared with those obtained when middle categories are not explicitly labeled as being in the middle of the other response categories, as in the case of Not Sure , Undecided or?},
affiliation = {Facultad de Psicolog{\'\i}a, Universidad de Valencia, Spain. Ana.Hernandez@uv.es},
number = {2},
pages = {300--6},
volume = {18},
year = {2006},
month = {May},
language = {eng},
keywords = {Quality of Life, Choice Behavior, Models: Theoretical, Job Satisfaction, Research Design, Administrative Personnel, Male, Terminology as Topic, Public Health Administration, Public Health, Spain, Sampling Studies, Adult, Questionnaires, Humans, Work, Female},
date-added = {2010-02-18 23:09:50 +0100},
date-modified = {2010-07-29 19:45:05 +0200},
pmid = {17296048},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hern%C3%A1ndez-2006-Psicothema_The%20functioning%20of%20c.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5908},
rating = {0}
}
@article{Banerjee:1999p2659,
author = {M Banerjee and M Capozzoli and L McSweeney and D Sinha},
journal = {The Canadian Journal of Statistics},
title = {Beyond Kappa: A review of interrater agreement measures},
number = {1},
pages = {3--23},
volume = {27},
year = {1999},
date-added = {2010-01-12 22:46:20 +0100},
date-modified = {2010-01-12 22:47:51 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2659},
rating = {0}
}
@article{Shyn:2009p3964,
author = {S I Shyn and J Shi and J B Kraft and J B Potash and J A Knowles and M M Weissman and H A Garriock and J S Yokoyama and P J McGrath and E J Peters and W A Scheftner and W Coryell and W B Lawson and D Jancic and P V Gejman and A R Sanders and P Holmans and S L Slager and D F Levinson and S P Hamilton},
journal = {Mol Psychiatry},
title = {Novel loci for major depression identified by genome-wide association study of Sequenced Treatment Alternatives to Relieve Depression and meta-analysis of three studies},
abstract = {We report a genome-wide association study (GWAS) of major depressive disorder (MDD) in 1221 cases from the Sequenced Treatment Alternatives to Relieve Depression (STAR(*)D) study and 1636 screened controls. No genome-wide evidence for association was detected. We also carried out a meta-analysis of three European-ancestry MDD GWAS data sets: STAR(*)D, Genetics of Recurrent Early-onset Depression and the publicly available Genetic Association Information Network-MDD data set. These data sets, totaling 3957 cases and 3428 controls, were genotyped using four different platforms (Affymetrix 6.0, 5.0 and 500 K, and Perlegen). For each of 2.4 million HapMap II single-nucleotide polymorphisms (SNPs), using genotyped data where available and imputed data otherwise, single-SNP association tests were carried out in each sample with correction for ancestry-informative principal components. The strongest evidence for association in the meta-analysis was observed for intronic SNPs in ATP6V1B2 (P=6.78 x 10(-7)), SP4 (P=7.68 x 10(-7)) and GRM7 (P=1.11 x 10(-6)). Additional exploratory analyses were carried out for a narrower phenotype (recurrent MDD with onset before age 31, N=2191 cases), and separately for males and females. Several of the best findings were supported primarily by evidence from narrow cases or from either males or females. On the basis of previous biological evidence, we consider GRM7 a strong MDD candidate gene. Larger samples will be required to determine whether any common SNPs are significantly associated with MDD.Molecular Psychiatry advance online publication, 29 December 2009; doi:10.1038/mp.2009.125.},
affiliation = {Department of Psychiatry and Institute for Human Genetics, University of California, San Francisco, CA, USA.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-17 21:42:04 +0100},
date-modified = {2010-01-17 21:42:04 +0100},
doi = {10.1038/mp.2009.125},
pii = {mp2009125},
pmid = {20038947},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3964},
rating = {0}
}
@article{Foxx:2008p6053,
author = {Richard M Foxx},
journal = {Child Adolesc Psychiatr Clin N Am},
title = {Applied behavior analysis treatment of autism: the state of the art},
abstract = {The treatment of individuals with autism is associated with fad, controversial, unsupported, disproven, and unvalidated treatments. Eclecticism is not the best approach for treating and educating children and adolescents who have autism. Applied behavior analysis (ABA) uses methods derived from scientifically established principles of behavior and incorporates all of the factors identified by the US National Research Council as characteristic of effective interventions in educational and treatment programs for children who have autism. ABA is a primary method of treating aberrant behavior in individuals who have autism. The only interventions that have been shown to produce comprehensive, lasting results in autism have been based on the principles of ABA.},
affiliation = {Psychology Program, Penn State University Harrisburg, 777 West Harrisburg Pike, Middletown, PA 17057, USA. rmf4@psu.edu},
number = {4},
pages = {821--34, ix},
volume = {17},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Evidence-Based Medicine, Treatment Outcome, Child Behavior Disorders, Autistic Disorder, Social Behavior, Child, Combined Modality Therapy, Humans, Behavior Therapy, Adolescent},
date-added = {2010-02-19 17:01:17 +0100},
date-modified = {2010-02-19 17:01:17 +0100},
doi = {10.1016/j.chc.2008.06.007},
pii = {S1056-4993(08)00041-2},
pmid = {18775372},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6053},
rating = {0}
}
@article{Goldberg:2006p13887,
author = {L R Goldberg},
journal = {Journal of Research in Personality},
title = {Doing it all Bass-Ackwards: The development of hierarchical factor structures from the top down},
abstract = {A simple method is presented for examining the hierarchical structure of a set of variables, based on factor scores from rotated solutions involving one to many factors. The correlations among orthogonal factor scores from adjoining levels can be viewed as path coeYcients in a hierarchical structure. The method is easily implemented using any of a wide variety of standard computer pro- grams, and it has proved to be extremely useful in a number of diverse applications, some of which are here described.},
pages = {347--358},
volume = {40},
year = {2006},
date-added = {2010-07-29 18:09:30 +0200},
date-modified = {2010-07-29 18:31:12 +0200},
doi = {10.1016/j.jrp.2006.01.001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-2006-Journal%20of%20Research%20in%20Personality_Doing%20it%20all%20Bass-Ac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13887},
rating = {0}
}
@article{Nagoshi:1982p12584,
author = {C T Nagoshi and R C Johnson and F M Ahern and G P Danko and J R Wilson and L S Yamamoto and J Samet-Driver and S G Vandenberg},
journal = {Behav Genet},
title = {Correlations of measures of personality and of cognitive abilities within and across generations},
number = {3},
pages = {327--42},
volume = {12},
year = {1982},
month = {May},
language = {eng},
keywords = {Adolescent, Male, Adult, Cognition, Genotype, Middle Aged, Humans, Female, Personality, Hawaii},
date-added = {2010-06-15 22:36:58 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
pmid = {7126110},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nagoshi-1982-Behav%20Genet_Correlations%20of%20meas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12584},
rating = {3}
}
@article{Page:2001p5388,
author = {A C Page and G R Hooke and E M Rutherford},
journal = {Aust N Z J Psychiatry},
title = {Measuring mental health outcomes in a private psychiatric clinic: Health of the Nation Outcome Scales and Medical Outcomes Short Form SF-36},
abstract = {OBJECTIVE: This study reports on data collected from the routine use of the Health of the Nation Outcome Scales (HoNOS) and the Medical Outcomes Short Form (SF-36). Three main aims were addressed in using these measures: (i) to establish patient disability levels; (ii) to determine the level of treatment effectiveness; and (iii) to explore the ability of these instruments to predict length of stay and mood change. METHOD: The clinician-rate HoNOS and the patient-rated SF-36 were included in the assessment battery, at admission and discharge, of consecutive inpatients (n = 754) at one private psychiatric facility over a 2-year period. RESULTS: The sample, on admission, was comparable in illness severity to levels reported at other Australian private psychiatric facilities. Treatment was shown to be effective, and the degree of changes in HoNOS ratings compared favourably with other private psychiatric facilities. Certain factors underlying the structure of the HoNOS and the SF-36 only weakly predicted length of stay and changes in depression and anxiety levels. CONCLUSION: The HoNOS and the SF-36 provided valid and reliable data on patient function, with the HoNOS being most sensitive to treatment change. However, neither instrument proved useful in predicting length of stay or levels of depression and anxiety at discharge.},
affiliation = {Department of Psychology, The University of Western Australia, Crawley, Australia. andrew@psy.uwa.edu.au},
number = {3},
pages = {377--81},
volume = {35},
year = {2001},
month = {Jun},
language = {eng},
keywords = {Hospitals: Psychiatric, Adult, Mental Disorders, Humans, Personality Assessment, Outcome and Process Assessment (Health Care), Reproducibility of Results, Patient Admission, Male, Hospitals: Private, Western Australia, Psychiatric Status Rating Scales, Middle Aged, Psychometrics, Female},
date-added = {2010-02-11 10:35:38 +0100},
date-modified = {2010-07-29 19:51:56 +0200},
pii = {anp908},
pmid = {11437813},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5388},
rating = {0}
}
@article{Reilly:1997p12568,
author = {M Reilly and M Pepe},
journal = {Stat Med},
title = {The relationship between hot-deck multiple imputation and weighted likelihood},
abstract = {Hot-deck imputation is an intuitively simple and popular method of accommodating incomplete data. Users of the method will often use the usual multiple imputation variance estimator which is not appropriate in this case. However, no variance expression has yet been derived for this easily implemented method applied to missing covariates in regression models. The simple hot-deck method is in fact asymptotically equivalent to the mean-score method for the estimation of a regression model parameter, so that hot-deck can be understood in the context of likelihood methods. Both of these methods accommodate data where missingness may depend on the observed variables but not on the unobserved value of the incomplete covariate, that is, missing at random (MAR). The asymptotic properties of hot-deck are derived here for the case where the fully observed variables are categorical, though the incomplete covariate(s) may be continuous. Simulation studies indicate that the two methods compare well in small samples and for small numbers of imputations. Current users of hot-deck may now conduct their analysis using mean-score, which is a weighted likelihood method and can thus be implemented by a single pass through the data using any standard package which accommodates weighted regression models. Valid inference is now straightforward using the variance expression provided here. The equivalence of mean-score and hot-deck is illustrated using three clinical data sets where an important covariate is missing for a large number of study subjects.},
affiliation = {Department of Statistics, University College Dublin, Belfield, Ireland.},
number = {1-3},
pages = {5--19},
volume = {16},
year = {1997},
month = {Jan},
language = {eng},
keywords = {Pregnancy: Tubal, Computer Simulation, Models: Statistical, Graft vs Host Disease, Recurrence, Female, Pregnancy, Data Interpretation: Statistical, Least-Squares Analysis, Coronary Disease, Sample Size, Follow-Up Studies, Bone Marrow Transplantation, Clinical Trials as Topic, Bayes Theorem, Risk Factors, Humans, Angioplasty: Transluminal: Percutaneous Coronary, Likelihood Functions, Case-Control Studies},
date-added = {2010-06-15 22:19:46 +0200},
date-modified = {2010-06-15 22:19:46 +0200},
pii = {10.1002/(SICI)1097-0258(19970115)16:1<5::AID-SIM469>3.0.CO;2-8},
pmid = {9004380},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12568},
rating = {0}
}
@article{Ji:2008p7234,
author = {Shuiwang Ji and Jieping Ye},
journal = {IEEE transactions on neural networks / a publication of the IEEE Neural Networks Council},
title = {Generalized linear discriminant analysis: a unified framework and efficient model selection},
abstract = {High-dimensional data are common in many domains, and dimensionality reduction is the key to cope with the curse-of-dimensionality. Linear discriminant analysis (LDA) is a well-known method for supervised dimensionality reduction. When dealing with high-dimensional and low sample size data, classical LDA suffers from the singularity problem. Over the years, many algorithms have been developed to overcome this problem, and they have been applied successfully in various applications. However, there is a lack of a systematic study of the commonalities and differences of these algorithms, as well as their intrinsic relationships. In this paper, a unified framework for generalized LDA is proposed, which elucidates the properties of various algorithms and their relationships. Based on the proposed framework, we show that the matrix computations involved in LDA-based algorithms can be simplified so that the cross-validation procedure for model selection can be performed efficiently. We conduct extensive experiments using a collection of high-dimensional data sets, including text documents, face images, gene expression data, and gene expression pattern images, to evaluate the proposed theories and algorithms.},
affiliation = {Department of Computer Science and Engineering, and the Center for Evolutionary Functional Genomics of The Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA. shuiwang.ji@asu.edu},
number = {10},
pages = {1768--82},
volume = {19},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Models: Theoretical, Linear Models, Artificial Intelligence, Algorithms, Numerical Analysis: Computer-Assisted, Computer Simulation, Discriminant Analysis, Pattern Recognition: Automated},
date-added = {2010-03-08 19:33:35 +0100},
date-modified = {2010-03-08 19:33:35 +0100},
doi = {10.1109/TNN.2008.2002078},
pmid = {18842480},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7234},
rating = {0}
}
@article{Lubienski:2006,
author = {S T Lubienski},
journal = {Educationa Policy Analysis Archives},
title = {Examining Instruction, Achievement, and Equity with NAEP Mathematics Data},
number = {14},
volume = {14},
year = {2006},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubienski-2006-Educationa%20Policy%20Analysis%20Archives_Examining%20Instructio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1925},
rating = {0}
}
@article{Li:2008p3830,
author = {Hao Li and Sally Wetten and Li Li and Pamela L St Jean and Ruchi Upmanyu and Linda Surh and David Hosford and Michael R Barnes and James David Briley and Michael Borrie and Natalie Coletta and Richard Delisle and Daniella Dhalla and Margaret G Ehm and Howard H Feldman and Luis Fornazzari and Serge Gauthier and Neil Goodgame and Danilo Guzman and Sandra Hammond and Paul Hollingworth and Ging-Yuek Hsiung and Joan Johnson and Devon D Kelly and Ron Keren and Andrew Kertesz and Karen S King and Simon Lovestone and Inge Loy-English and Paul M Matthews and Michael J Owen and Mary Plumpton and William Pryse-Phillips and Rab K Prinjha and Jill C Richardson and Ann Saunders and Andrew J Slater and Peter H St George-Hyslop and Sandra W Stinnett and Jina E Swartz and Rachel L Taylor and John Wherrett and Julie Williams and David P Yarnall and Rachel A Gibson and Michael C Irizarry and Lefkos T Middleton and Allen D Roses},
journal = {Arch Neurol},
title = {Candidate single-nucleotide polymorphisms from a genomewide association study of Alzheimer disease},
abstract = {OBJECTIVE: To identify single-nucleotide polymorphisms (SNPs) associated with risk and age at onset of Alzheimer disease (AD) in a genomewide association study of 469 438 SNPs. DESIGN: Case-control study with replication. SETTING: Memory referral clinics in Canada and the United Kingdom. PARTICIPANTS: The hypothesis-generating data set consisted of 753 individuals with AD by National Institute of Neurological and Communicative Diseases and Stroke/Alzheimer's Disease and Related Disorders Association criteria recruited from 9 memory referral clinics in Canada and 736 ethnically matched control subjects; control subjects were recruited from nonbiological relatives, friends, or spouses of the patients and did not exhibit cognitive impairment by history or cognitive testing. The follow-up data set consisted of 418 AD cases and 249 nondemented control cases from the United Kingdom Medical Research Council Genetic Resource for Late-Onset AD recruited from clinics at Cardiff University, Cardiff, Wales, and King's College London, London, England. MAIN OUTCOME MEASURES: Odds ratios and 95% confidence intervals for association of SNPs with AD by logistic regression adjusted for age, sex, education, study site, and French Canadian ancestry (for the Canadian data set). Hazard ratios and 95% confidence intervals from Cox proportional hazards regression for age at onset with similar covariate adjustments. RESULTS: Unadjusted, SNP RS4420638 within APOC1 was strongly associated with AD due entirely to linkage disequilibrium with APOE. In the multivariable adjusted analyses, 3 SNPs within the top 120 by P value in the logistic analysis and 1 in the Cox analysis of the Canadian data set provided additional evidence for association at P< .05 within the United Kingdom Medical Research Council data set: RS7019241 (GOLPH2), RS10868366 (GOLPH2), RS9886784 (chromosome 9), and RS10519262 (intergenic between ATP8B4 and SLC27A2). CONCLUSIONS: Our genomewide association analysis again identified the APOE linkage disequilibrium region as the strongest genetic risk factor for AD. This could be a consequence of the coevolution of more than 1 susceptibility allele, such as APOC1, in this region. We also provide new evidence for additional candidate genetic risk factors for AD that can be tested in further studies.},
affiliation = {GlaxoSmithKline, Research Triangle Park, North Carolina, USA.},
number = {1},
pages = {45--53},
volume = {65},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Sex Factors, France, Education, Female, Proportional Hazards Models, Logistic Models, Polymorphism: Single Nucleotide, Canada, Age Factors, Humans, Odds Ratio, Genome: Human, Alzheimer Disease, Great Britain, Male, Confidence Intervals, Registries, Aged, Apolipoproteins E, Oligonucleotide Array Sequence Analysis, Genotype, Case-Control Studies},
date-added = {2010-01-16 21:02:05 +0100},
date-modified = {2010-07-29 19:17:13 +0200},
doi = {10.1001/archneurol.2007.3},
pii = {2007.3},
pmid = {17998437},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3830},
rating = {0}
}
@article{Nosarti:2005p7896,
author = {Chiara Nosarti and Matthew P Allin and Sophia Frangou and Larry Rifkin and Robin M Murray},
journal = {Biol Psychiatry},
title = {Hyperactivity in adolescents born very preterm is associated with decreased caudate volume},
abstract = {BACKGROUND: Several studies have associated preterm birth with impaired behavioral functioning and attention problems. In addition, preterm individuals have an increased risk of brain injury in the neonatal period. Such early lesions have the potential to disrupt subsequent neurodevelopment. This study explored behavioral functioning, particularly externalizing behavior, in a group of adolescents who were born very preterm and its relationship with volume of the caudate, a brain region particularly vulnerable to damage in the preterm neonate. METHODS: We studied 72 adolescents born before 33 weeks and 50 age- and gender-matched full-term control subjects. Behavioral assessment included the Rutter Behavioural Scale and a social adjustment scale. Bilateral caudate volumes were quantified by stereologic methods. RESULTS: Preterm adolescents scored significantly higher than control subjects on the Rutter hyperactivity score, and boys scored higher than girls. In preterm boys only, left caudate volume was negatively correlated with hyperactivity score (r = -.43, p = .018) and social adjustment score in childhood (r = -.40, p = .028). CONCLUSIONS: Our data suggest that boys born very preterm are more likely to experience nonclinical behavioral problems in adolescence compared with full-term control subjects. Our results indicate that behavioral problems in this group might be associated with reductions in volume of the left caudate nucleus.},
affiliation = {Division of Psychological Medicine, Institute of Psychiatry, London, United Kingdom. c.nosarti@iop.kcl.ac.uk},
number = {6},
pages = {661--6},
volume = {57},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Infant: Very Low Birth Weight, Functional Laterality, Humans, Premature Birth, Hyperkinesis, Confidence Intervals, Female, Case-Control Studies, Developmental Disabilities, Retrospective Studies, Analysis of Variance, Infant: Newborn, Infant: Premature, Child Behavior Disorders, Adolescent, Social Adjustment, Cohort Studies, Magnetic Resonance Imaging, Neuropsychological Tests, Caudate Nucleus, Male},
date-added = {2010-03-20 19:20:24 +0100},
date-modified = {2010-07-29 20:19:01 +0200},
doi = {10.1016/j.biopsych.2004.12.003},
pii = {S0006-3223(04)01307-1},
pmid = {15780854},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nosarti-2005-Biol%20Psychiatry_Hyperactivity%20in%20ado.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7896},
rating = {0}
}
@article{Cremeens:2007p8491,
author = {Joanne Cremeens and Christine Eiser and Mark Blades},
journal = {J Pediatr Psychol},
title = {Brief report: assessing the impact of rating scale type, types of items, and age on the measurement of school-age children's self-reported quality of life},
abstract = {OBJECTIVE: To examine the effect of age, scale, and item type on the reliability and reproducibility of children's quality-of-life (QOL) responses. METHODS: The TedQL (ability, social, and mood items) was administered to 266 healthy children (age range of 5-6 and 7-9 years) at two time points, comparing three rating scales (circles, faces, and thermometer). Children were given the same (n = 144) or different (n = 122) scales over time. RESULTS: Reliability for total QOL and ability items was highest for circles and for social items using the faces. Faces and thermometer scales showed highest reproducibility over time. Greater agreement over time across different scales was found between circles and faces (5-6 years) and thermometer and circles (7-9 years). CONCLUSIONS: For maximum internal reliability, circles are recommended for ability items and faces for social items. For maximum reproducibility over time, the thermometer is recommended for 5-6 years and faces for 7-9 years.},
affiliation = {Division of Behavioral Medicine, St. Jude Children's Research Hospital, 332 North Lauderdale, Mail Stop No. 740, Memphis, Tennessee 38105-2794, USA. joanne.cremeens@stjude.org},
number = {2},
pages = {132--8},
volume = {32},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Age Factors, Male, Sickness Impact Profile, Reproducibility of Results, Child: Preschool, Humans, Child, Female, Reference Values, Quality of Life, Psychometrics},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-07-29 19:35:17 +0200},
doi = {10.1093/jpepsy/jsj119},
pii = {jsj119},
pmid = {16625022},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cremeens-2007-J%20Pediatr%20Psychol_Brief%20report%20assess.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8491},
read = {Yes},
rating = {0}
}
@article{Linden:2004p3628,
author = {W J van der Linden and B P Veldkamp and J E Carlson},
journal = {Applied Psychological Measurement},
title = {Optimizing Balanced Incomplete Block Designs for Educational Assessments},
abstract = {A popular design in large-scale educational assessments as well as any other type of survey is the balanced incomplete block design. The design is based on an item pool split into a set of blocks of items that are assigned to sets of ``assessment booklets.'' This article shows how the problem of calculating an optimal balanced incomplete block design can be formulated as a problem in combinatorial optimization. Several examples of structural and practical requirements for balanced incomplete block designs are shown to be linear constraints on the optimization problem. In addition, a variety of possible objective functions to optimize the design is discussed. The technique is demonstrated using the 1996 Grade 8 Mathematics National Assessment of Educational Progress (NAEP) as a case study.},
number = {5},
pages = {317--331},
volume = {28},
year = {2004},
date-added = {2010-01-16 19:15:28 +0100},
date-modified = {2010-01-16 19:16:47 +0100},
doi = {10.1177/0146621604264870},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Linden-2004-Applied%20Psychological%20Measurement_Optimizing%20Balanced.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3628},
rating = {0}
}
@article{Zhang:2010p12343,
author = {Kai Zhang and Joe W Gray and Bahram Parvin},
journal = {Bioinformatics},
title = {Sparse multitask regression for identifying common mechanism of response to therapeutic targets},
abstract = {MOTIVATION: Molecular association of phenotypic responses is an important step in hypothesis generation and for initiating design of new experiments. Current practices for associating gene expression data with multidimensional phenotypic data are typically (i) performed one-to-one, i.e. each gene is examined independently with a phenotypic index and (ii) tested with one stress condition at a time, i.e. different perturbations are analyzed separately. As a result, the complex coordination among the genes responsible for a phenotypic profile is potentially lost. More importantly, univariate analysis can potentially hide new insights into common mechanism of response. RESULTS: In this article, we propose a sparse, multitask regression model together with co-clustering analysis to explore the intrinsic grouping in associating the gene expression with phenotypic signatures. The global structure of association is captured by learning an intrinsic template that is shared among experimental conditions, with local perturbations introduced to integrate effects of therapeutic agents. We demonstrate the performance of our approach on both synthetic and experimental data. Synthetic data reveal that the multi-task regression has a superior reduction in the regression error when compared with traditional L(1)-and L(2)-regularized regression. On the other hand, experiments with cell cycle inhibitors over a panel of 14 breast cancer cell lines demonstrate the relevance of the computed molecular predictors with the cell cycle machinery, as well as the identification of hidden variables that are not captured by the baseline regression analysis. Accordingly, the system has identified CLCA2 as a hidden transcript and as a common mechanism of response for two therapeutic agents of CI-1040 and Iressa, which are currently in clinical use.},
affiliation = {Life Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA.},
number = {12},
pages = {i97--105},
volume = {26},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-06-12 10:21:43 +0200},
date-modified = {2010-06-12 10:21:44 +0200},
doi = {10.1093/bioinformatics/btq181},
pii = {btq181},
pmid = {20529943},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2010-Bioinformatics_Sparse%20multitask%20reg.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12343},
rating = {0}
}
@article{Godderis:2009p12759,
author = {Rebecca Godderis and Carol E Adair and Nancy Brager},
journal = {Women and birth : journal of the Australian College of Midwives},
title = {Applying new techniques to an old ally: a qualitative validation study of the Edinburgh Postnatal Depression Scale},
abstract = {PURPOSE: To present the results of a study that used cognitive interviewing techniques to interview pregnant and postpartum women about their experience of completing the Edinburgh Postnatal Depression Scale. BACKGROUND: Most large-scale initiatives that screen women for depression during pregnancy and the first 3-6 months postpartum use the Edinburgh Postnatal Depression Scale. The scale is a 10-item instrument that is commonly self-administered and has been extensively validated using quantitative methods. However, the authors could find no published research that applied newer in-depth methods for assessing comprehension and interpretation to the scale. PARTICIPANTS AND METHODS: The design was an in-depth, qualitative instrument validation study. A total of nine pregnant and postpartum women who were referred for psychiatric care completed the Edinburgh Postnatal Depression Scale and then were interviewed about their experiences. Cognitive interviewing techniques were used to generate an in-depth examination of how women understood and interpreted the items, and to explore meaning, acceptability, and disclosure issues. RESULTS: Overall, participants felt that the instrument was straightforward, easy to read, and relatively simple to answer. It is important to note that eight of the nine participants had completed some post-secondary education and, thus, participant's average literacy level was relatively high. Women identified minor concerns or expressed interpretive differences on six of the ten Edinburgh Postnatal Depression Scale items. These six items are examined in detail. CONCLUSION: The results suggest that it may be useful for the Edinburgh Postnatal Depression Scale to be administered in the context of a discussion about a woman's mental health concerns, which could involve asking her for more details about her responses to particular items that have been identified in this study as potentially problematic. This will help ensure that practitioners are accurately interpreting a woman's answers to the items on the scale.},
affiliation = {Department of Sociology, University of Calgary, 2500 University Drive NW, Calgary, Alberta T2N 1N4, Canada. rebecca.godderis@ucalgary.ca},
number = {1},
pages = {17--23},
volume = {22},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Young Adult, Female, Patient Acceptance of Health Care, Adult, Depression: Postpartum, Questionnaires, Alberta, Reproducibility of Results, Life Change Events, Psychometrics, Social Environment, Risk Assessment, Humans, Mental Health, Postpartum Period},
date-added = {2010-06-15 22:52:01 +0200},
date-modified = {2010-06-15 22:52:06 +0200},
doi = {10.1016/j.wombi.2008.10.002},
pii = {S1871-5192(08)00102-9},
pmid = {19081313},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Godderis-2009-Women%20and%20birth%20journal%20of%20the%20Australian%20College%20of%20Midwives_Applying%20new%20techniq.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12759},
rating = {3}
}
@article{Macht:2008p1296,
author = {Michael Macht},
journal = {Appetite},
title = {How emotions affect eating: a five-way model},
abstract = {Despite the importance of affective processes in eating behaviour, it remains difficult to predict how emotions affect eating. Emphasizing individual differences, previous research did not pay full attention to the twofold variability of emotion-induced changes of eating (variability across both individuals and emotions). By contrast, the present paper takes into account both individual characteristics and emotion features, and specifies five classes of emotion-induced changes of eating: (1) emotional control of food choice, (2) emotional suppression of food intake, (3) impairment of cognitive eating controls, (4) eating to regulate emotions, and (5) emotion-congruent modulation of eating. These classes are distinguished by antecedent conditions, eating responses and mediating mechanisms. They point to basic functional principles underlying the relations between emotions and biologically based motives: interference, concomitance and regulation. Thus, emotion-induced changes of eating can be a result of interference of eating by emotions, a by-product of emotions, and a consequence of regulatory processes (i.e., emotions may regulate eating, and eating may regulate emotions).},
affiliation = {Department of Psychology, University of W{\"u}rzburg, Marcusstr. 9-11, 97070 W{\"u}rzburg, Germany. macht@psychologie.uni-wuerzburg.de},
number = {1},
pages = {1--11},
volume = {50},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Food Preferences, Models: Biological, Humans, Eating, Emotions, Appetite Regulation, Food},
date-added = {2010-01-07 11:34:34 +0100},
date-modified = {2010-01-07 11:34:34 +0100},
doi = {10.1016/j.appet.2007.07.002},
pii = {S0195-6663(07)00323-6},
pmid = {17707947},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Macht-2008-Appetite_How%20emotions%20affect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1296},
rating = {0}
}
@article{Postlethwaite:1993,
author = {T Neville Postlethwaite},
journal = {Perspectives : revue trimestrielle d'{\'e}ducation compar{\'e}e},
title = {TORSTEN HUS{\'E}N},
number = {3-4},
pages = {697--707},
volume = {XXIII},
year = {1993},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Postlethwaite-1993-Perspectives%20revue%20trimestrielle%20d'%C3%A9ducation%20compar%C3%A9e_TORSTEN%20HUS%C3%89N.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2206},
rating = {0}
}
@article{Bailey:2010p3693,
author = {R A Bailey and P J Cameron},
title = {A family of balanced incomplete-block designs with repeated blocks on which general linear groups act},
abstract = {We give two constructions of a balanced incomplete-block design discovered by van Lint: the design has parameters (13,39,15,5,5), and has repeated blocks and an automorphism group of order 240. One of these methods can be generalised to produce a large class of designs with the properties of the title.},
date-added = {2010-01-16 20:32:48 +0100},
date-modified = {2010-01-16 20:33:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bailey--_A%20family%20of%20balanced.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3693},
rating = {0}
}
@article{Orro:2008p867,
author = {Alessandro Orro and Guia Guffanti and Erika Salvi and Fabio Macciardi and Luciano Milanesi},
journal = {BMC Bioinformatics},
title = {SNPLims: a data management system for genome wide association studies},
abstract = {BACKGROUND: Recent progresses in genotyping technologies allow the generation high-density genetic maps using hundreds of thousands of genetic markers for each DNA sample. The availability of this large amount of genotypic data facilitates the whole genome search for genetic basis of diseases. We need a suitable information management system to efficiently manage the data flow produced by whole genome genotyping and to make it available for further analyses. RESULTS: We have developed an information system mainly devoted to the storage and management of SNP genotype data produced by the Illumina platform from the raw outputs of genotyping into a relational database. The relational database can be accessed in order to import any existing data and export user-defined formats compatible with many different genetic analysis programs. After calculating family-based or case-control association study data, the results can be imported in SNPLims. One of the main features is to allow the user to rapidly identify and annotate statistically relevant polymorphisms from the large volume of data analyzed. Results can be easily visualized either graphically or creating ASCII comma separated format output files, which can be used as input to further analyses. CONCLUSIONS: The proposed infrastructure allows to manage a relatively large amount of genotypes for each sample and an arbitrary number of samples and phenotypes. Moreover, it enables the users to control the quality of the data and to perform the most common screening analyses and identify genes that become "candidate" for the disease under consideration.},
affiliation = {Consorzio Interuniversitario Lombardo per l'Elaborazione Automatica, Via Sanzio Raffaello 4, 20090 Segrate (MI), Italy. alessandro.orro@itb.cnr.it},
pages = {S13},
volume = {9 Suppl 2},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Information Storage and Retrieval, Chromosome Mapping, DNA Mutational Analysis, Database Management Systems, Linkage Disequilibrium, Databases: Genetic, Polymorphism: Single Nucleotide, User-Computer Interface},
date-added = {2010-01-03 18:08:24 +0100},
date-modified = {2010-01-03 18:08:24 +0100},
doi = {10.1186/1471-2105-9-S2-S13},
pii = {1471-2105-9-S2-S13},
pmid = {18387201},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orro-2008-BMC%20Bioinformatics_SNPLims%20a%20data%20mana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p867},
rating = {0}
}
@article{Potkin:2009p9580,
author = {Steven G Potkin and Guia Guffanti and Anita Lakatos and Jessica A Turner and Frithjof Kruggel and James H Fallon and Andrew J Saykin and Alessandro Orro and Sara Lupoli and Erika Salvi and Michael Weiner and Fabio Macciardi and Alzheimer's Disease Neuroimaging Initiative},
journal = {PLoS ONE},
title = {Hippocampal atrophy as a quantitative trait in a genome-wide association study identifying novel susceptibility genes for Alzheimer's disease},
abstract = {BACKGROUND: With the exception of APOE epsilon4 allele, the common genetic risk factors for sporadic Alzheimer's Disease (AD) are unknown. METHODS AND FINDINGS: We completed a genome-wide association study on 381 participants in the ADNI (Alzheimer's Disease Neuroimaging Initiative) study. Samples were genotyped using the Illumina Human610-Quad BeadChip. 516,645 unique Single Nucleotide Polymorphisms (SNPs) were included in the analysis following quality control measures. The genotype data and raw genetic data are freely available for download (LONI, http://www.loni.ucla.edu/ADNI/Data/). Two analyses were completed: a standard case-control analysis, and a novel approach using hippocampal atrophy measured on MRI as an objectively defined, quantitative phenotype. A General Linear Model was applied to identify SNPs for which there was an interaction between the genotype and diagnosis on the quantitative trait. The case-control analysis identified APOE and a new risk gene, TOMM40 (translocase of outer mitochondrial membrane 40), at a genome-wide significance level of < or =10(-6) (10(-11) for a haplotype). TOMM40 risk alleles were approximately twice as frequent in AD subjects as controls. The quantitative trait analysis identified 21 genes or chromosomal areas with at least one SNP with a p-value < or =10(-6), which can be considered potential "new" candidate loci to explore in the etiology of sporadic AD. These candidates included EFNA5, CAND1, MAGI2, ARSB, and PRUNE2, genes involved in the regulation of protein degradation, apoptosis, neuronal loss and neurodevelopment. Thus, we identified common genetic variants associated with the increased risk of developing AD in the ADNI cohort, and present publicly available genome-wide data. Supportive evidence based on case-control studies and biological plausibility by gene annotation is provided. Currently no available sample with both imaging and genetic data is available for replication. CONCLUSIONS: Using hippocampal atrophy as a quantitative phenotype in a genome-wide scan, we have identified candidate risk genes for sporadic Alzheimer's disease that merit further investigation.},
affiliation = {Department of Psychiatry and Human Behavior, University of California Irvine, Irvine, CA, USA. sgpotkin@uci.edu},
number = {8},
pages = {e6501},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Quantitative Trait Loci, Genome-Wide Association Study, Hippocampus, Case-Control Studies, Magnetic Resonance Imaging, Genetic Predisposition to Disease, Male, Humans, Polymorphism: Single Nucleotide, Female, Adult, Alzheimer Disease},
date-added = {2010-03-24 22:26:32 +0100},
date-modified = {2010-03-24 22:26:32 +0100},
doi = {10.1371/journal.pone.0006501},
pmid = {19668339},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Potkin-2009-PLoS%20ONE_Hippocampal%20atrophy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9580},
rating = {0}
}
@article{Onay:2006p2584,
author = {Ven{\"u}s Ummiye Onay and Laurent Briollais and Julia A Knight and Ellen Shi and Yuanyuan Wang and Sean Wells and Hong Li and Isaac Rajendram and Irene L Andrulis and Hilmi Ozcelik},
journal = {BMC Cancer},
title = {SNP-SNP interactions in breast cancer susceptibility},
abstract = {BACKGROUND: Breast cancer predisposition genes identified to date (e.g., BRCA1 and BRCA2) are responsible for less than 5% of all breast cancer cases. Many studies have shown that the cancer risks associated with individual commonly occurring single nucleotide polymorphisms (SNPs) are incremental. However, polygenic models suggest that multiple commonly occurring low to modestly penetrant SNPs of cancer related genes might have a greater effect on a disease when considered in combination. METHODS: In an attempt to identify the breast cancer risk conferred by SNP interactions, we have studied 19 SNPs from genes involved in major cancer related pathways. All SNPs were genotyped by TaqMan 5'nuclease assay. The association between the case-control status and each individual SNP, measured by the odds ratio and its corresponding 95% confidence interval, was estimated using unconditional logistic regression models. At the second stage, two-way interactions were investigated using multivariate logistic models. The robustness of the interactions, which were observed among SNPs with stronger functional evidence, was assessed using a bootstrap approach, and correction for multiple testing based on the false discovery rate (FDR) principle. RESULTS: None of these SNPs contributed to breast cancer risk individually. However, we have demonstrated evidence for gene-gene (SNP-SNP) interaction among these SNPs, which were associated with increased breast cancer risk. Our study suggests cross talk between the SNPs of the DNA repair and immune system (XPD-[Lys751Gln] and IL10-[G(-1082)A]), cell cycle and estrogen metabolism (CCND1-[Pro241Pro] and COMT-[Met108/158Val]), cell cycle and DNA repair (BARD1-[Pro24Ser] and XPD-[Lys751Gln]), and within carcinogen metabolism (GSTP1-[Ile105Val] and COMT-[Met108/158Val]) pathways. CONCLUSION: The importance of these pathways and their communication in breast cancer predisposition has been emphasized previously, but their biological interactions through SNPs have not been described. The strategy used here has the potential to identify complex biological links among breast cancer genes and processes. This will provide novel biological information, which will ultimately improve breast cancer risk management.},
affiliation = {Fred A. Litwin Centre for Cancer Genetics, Samuel Lunenfeld Research Institute, Mount Sinai Hospital, Toronto, Ontario, Canada. onay@mshri.on.ca},
pages = {114},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Breast Neoplasms, Genes: Dominant, Case-Control Studies, Risk Factors, Genotype, Genes: Recessive, Polymorphism: Single Nucleotide, Genetic Predisposition to Disease, Breast Neoplasms: Male, Aged, Logistic Models, Adult, Male, Middle Aged, Female, Humans},
date-added = {2010-01-12 22:28:40 +0100},
date-modified = {2010-01-12 22:28:40 +0100},
doi = {10.1186/1471-2407-6-114},
pii = {1471-2407-6-114},
pmid = {16672066},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2584},
rating = {0}
}
@article{Deary:2009p9085,
author = {Ian J Deary and W Johnson and L M Houlihan},
journal = {Hum Genet},
title = {Genetic foundations of human intelligence},
abstract = {Individual differences in intelligence (cognitive abilities) are a prominent aspect of human psychology, and play a substantial role in influencing important life outcomes. Their phenotypic structure-as described by the science of psychometrics-is well understood and well replicated. Approximately half of the variance in a broad range of cognitive abilities is accounted by a general cognitive factor (g), small proportions of cognitive variance are caused by separable broad domains of mental function, and the substantial remainder is caused by variance that is unique to highly specific cognitive skills. The heritability of g is substantial. It increases from a low value in early childhood of about 30%, to well over 50% in adulthood, which continues into old age. Despite this, there is still almost no replicated evidence concerning the individual genes, which have variants that contribute to intelligence differences. Here, we describe the human intelligence phenotype, summarise the evidence for its heritability, provide an overview of and comment on molecular genetic studies, and comment on future progress in the field.},
affiliation = {Department of Psychology, Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, 7 George Square, Edinburgh EH8 9JZ, Scotland, UK. i.deary@ed.ac.uk},
number = {1},
pages = {215--32},
volume = {126},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Twins: Monozygotic, Intelligence, Twins: Dizygotic, Genome-Wide Association Study, Adolescent, Cognition, Polymorphism: Single Nucleotide, Child, Child Development, Psychometrics, Aging, Twin Studies as Topic, Humans, Linkage (Genetics)},
date-added = {2010-03-22 13:22:41 +0100},
date-modified = {2010-07-29 19:28:44 +0200},
doi = {10.1007/s00439-009-0655-4},
pmid = {19294424},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Deary-2009-Hum%20Genet_Genetic%20foundations.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9085},
rating = {0}
}
@article{Allik:2004p11622,
author = {J Allik and R R Mccrae},
title = {Toward a geography of personality traits. Patterns of profiles across 36 cultures},
abstract = {It has long been believed that personality traits vary by geographical location, but few studies have examined the worldwide distribution of personality profiles. Using the five-factor model of personality---a compre- hensive and apparently universal trait structure---we conducted secondary analyses of data from 36 cultures. Distance from the equator and mean temperature were not meaningfully related to personality factors. How- ever, cluster analysis showed that geographically proximate cultures often have similar profiles, and multidi- mensional scaling showed a clear contrast of European and American cultures with Asian and African cul- tures. The former were higher in extraversion and openness to experience and lower in agreeableness. A second dimension reflected differences in psychological adjustment. Observed differences between cultures may be the result of differences in gene pools or in features of culture; acculturation studies and the analyses of other natural experiments are needed to understand the origins of geographical differences in personality traits.},
year = {2004},
date-added = {2010-05-11 22:17:24 +0200},
date-modified = {2010-05-11 22:18:27 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Allik-2004-_Toward%20a%20geography%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11622},
rating = {5}
}
@article{Hilt:2007p8955,
author = {Lori M Hilt and Lisa C Sander and Susan Nolen-Hoeksema and Arthur A Simen},
journal = {Neurosci Lett},
title = {The BDNF Val66Met polymorphism predicts rumination and depression differently in young adolescent girls and their mothers},
abstract = {A single nucleotide polymorphism (SNP) in the brain-derived neurotrophic factor (BDNF) gene Val66Met has been associated with depression. However, the relationship between this SNP and depression has been mixed, especially when comparing studies of child and adult depression. We examined whether Val66Met would predict depression differentially in mothers versus their daughters. We also examined whether rumination, the tendency to brood and repetitively think about negative information, might serve as a mediator in the path between genotype and depressive symptoms. Participants included 200 individuals (100 mother-daughter pairs) from a high-risk population. The BDNF Val66Met polymorphism was examined in DNA samples from the mothers and daughters, and measures of depressive symptoms and rumination were also obtained. Among the young adolescent girls (ages 10-14), the Val/Val genotype was associated with more depressive symptoms and higher rumination scores compared to the Val/Met genotype. Furthermore, rumination mediated the relationship between genotype and depressive symptoms. However, in the mothers with adult-onset depression the Val/Met genotype was associated with more depressive symptoms, and rumination again mediated the relationship between genotype and depression. Rumination may be an endophenotype in the pathway from the BDNF Val66Met polymorphism to depression. Future work should further explore this mechanism and pursue explanations for its effects at different times in development.},
affiliation = {Department of Psychology, Yale University, New Haven, CT 06520-8250, United States. lori.hilt@yale.edu},
number = {1},
pages = {12--6},
volume = {429},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Depression, Gene Frequency, Family Health, Mother-Child Relations, Adult, Brain-Derived Neurotrophic Factor, Feeding and Eating Disorders of Childhood, Adolescent, Polymorphism: Genetic, Methionine, Middle Aged, DNA Mutational Analysis, Valine, Female, Genetic Predisposition to Disease, Humans},
date-added = {2010-03-22 13:09:12 +0100},
date-modified = {2010-07-29 19:41:43 +0200},
doi = {10.1016/j.neulet.2007.09.053},
pii = {S0304-3940(07)01047-6},
pmid = {17959306},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hilt-2007-Neurosci%20Lett_The%20BDNF%20Val66Met%20po.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8955},
rating = {0}
}
@article{Zhou:2006p3648,
author = {J Zhou and M J Gierl and X Tan},
title = {Evaluating the Performance of SIBTEST and MULTISIB Using Different Matching Criteria},
year = {2006},
date-added = {2010-01-16 19:56:35 +0100},
date-modified = {2010-01-16 19:57:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhou-2006-_Evaluating%20the%20Perfo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3648},
rating = {0}
}
@article{Hwang:2002p2725,
author = {H Hwang and Y Takane},
journal = {Psychometrika},
title = {Generalized constrained multiple correspondance analysis},
number = {2},
pages = {211--224},
volume = {67},
year = {2002},
date-added = {2010-01-13 14:15:11 +0100},
date-modified = {2010-01-13 14:15:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hwang-2002-Psychometrika_Generalized%20constrai.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2725},
rating = {0}
}
@article{Inkster:2010p8815,
author = {Becky Inkster and Thomas E Nichols and Philipp G Saemann and Dorothee P Auer and Florian Holsboer and Pierandrea Muglia and Paul M Matthews},
journal = {Neuroimage},
title = {Pathway-based approaches to imaging genetics association studies: Wnt signaling, GSK3beta substrates and major depression},
abstract = {Several lines of evidence implicate glycogen synthase kinase 3 beta (GSK3beta) in mood disorders. We recently reported associations between GSK3beta polymorphisms and brain structural changes in patients with recurrent major depressive disorder (MDD). Here we provide supporting observations by showing that polymorphisms in additional genes encoding proteins directly related to GSK3beta biological functions are associated with similar regional grey matter (GM) volume changes in MDD patients. We tested specifically for associations with genetic variation in canonical Wnt signaling pathway genes and in genes that encode substrate proteins of GSK3beta. We applied a general linear model with non-stationary cluster-based inference to examine associations between polymorphisms and regional voxel-based morphometry GM volume differences in recurrent MDD patients (n=134) and in age-, gender-, and ethnicity-matched healthy controls (n=144) to test for genotype-by-MDD interactions. We observed associations for polymorphisms in 8/13 canonical Wnt pathway genes and 5/10 GSK3beta substrate genes, predominantly in the temporolateral and medial prefrontal cortices. Similar associations were not found for 100 unrelated polymorphisms tested. This work suggests that identifying SNPs related to genes that encode functionally-interacting proteins that modulate common anatomical regions offers a useful approach to increasing confidence in outcomes from imaging genetics association studies. This is of particular interest when replication datasets are not available. Our observations lend support to the hypothesis that polymorphisms in GSK3beta play a role in MDD susceptibility or expression, in part, by acting via the canonical Wnt signaling pathway and related substrates.},
affiliation = {GlaxoSmithKline Clinical Imaging Centre, Hammersmith Hospital, London, United Kingdom.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-22 12:31:44 +0100},
date-modified = {2010-03-22 12:31:45 +0100},
doi = {10.1016/j.neuroimage.2010.02.065},
pii = {S1053-8119(10)00252-1},
pmid = {20219685},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4YGHGS4-1&_user=2432700&_coverDate=02%252F26%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=10de92a59697e086edce9bdf415f6a75},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Inkster-2010-Neuroimage_Pathway-based%20approa-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8815},
rating = {0}
}
@article{Odent:2010p7676,
author = {Michel Odent},
journal = {Med Hypotheses},
title = {Autism and anorexia nervosa: Two facets of the same disease?},
abstract = {We compiled data included in the Primal Health Research Database (www.primalhealthresearch.com) to test the hypothesis that when two pathological conditions or personality traits share the same critical period for gene-environment interaction, we should expect further similarities, particularly from clinical and pathophysiological perspectives. The keywords 'autism' and 'anorexia nervosa' (but not bulimia nervosa) lead to studies suggesting that for both conditions the perinatal period is critical. We take this example to look at other possible links between these pathological entities. From a clinical perspective, several teams have independently emphasized the importance of autistic traits in anorexia nervosa. Deficits in the processing of oxytocin have been demonstrated in both cases. Autistic groups have significantly lower blood oxytocin levels than normal groups, and oxytocin levels increase with age in the normal group only. In autistic groups there is a high ratio of intermediates of oxytocin synthesis (OX-T) to the nonapeptide oxytocin (OT). On the other hand, it has been reported that the level of oxytocin in the cerebrospinal fluid of anorexic women is significantly lower than the level of oxytocin in bulimic and control subjects. Scanning data reveal similar asymmetric functions with left hemisphere preponderance in autistic spectrum disorders and anorexia. A comparative study of the mirror neurons systems is another promising avenue for research. Such an accumulation of similarities from a great diversity of perspectives suggests that anorexia nervosa might be considered a female variant of the autistic spectrum. A plausible interpretation is that prenatal exposure to male hormones might protect against the expression of this disease: girls who have a twin brother are at low risk for anorexia nervosa, compared with girls who have a twin sister, and with controls; furthermore genetic linkage analyses do not detect change on the X chromosome. From an overview of the database, the perinatal period appears to be critical for all disorders related to the capacity to love (including love of oneself), to the potential for aggression (including self-destructive behaviours), or to sociability. Is the perinatal period critical for the organisation of the oxytocin system? This is an important question at a time when we learn that the widely used synthetic oxytocin can probably diffuse across the placenta. On the other hand, where the genesis of metabolic types is concerned, it is prenatal life that appears to be critical.},
affiliation = {Primal Health Research Centre, 72 Savernake Road, London NW3 2JR, UK.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-15 23:48:20 +0100},
date-modified = {2010-03-15 23:48:20 +0100},
doi = {10.1016/j.mehy.2010.01.039},
pii = {S0306-9877(10)00055-1},
pmid = {20176449},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Odent-2010-Med%20Hypotheses_Autism%20and%20anorexia.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7676},
rating = {0}
}
@article{Ruczinski:2009p2919,
author = {I Ruczinski and Q Li and B Carvalho and M D Fallin and R A Irizarry and T A Louis},
journal = {Johns Hopkins University, Dept. of Biostatistics Working Papers},
title = {Association tests that accomodate genotyping errors},
abstract = {High-throughput SNP arrays provide estimates of genotypes for up to one million loci, often used in genome-wide association studies. While these estimates are typically very accurate, genotyping errors do occur, which can influence in particular the most extreme test statistics and p-values. Estimates for the genotype uncertainties are also available, although typically ignored. In this manuscript, we develop a framework to incorporate these genotype uncertainties in case-control studies for any genetic model. We verify that using the assumption of a ``local alternative'' in the score test is very reasonable for effect sizes typically seen in SNP association studies, and show that the power of the score test is simply a function of the correlation of the genotype probabilities with the true genotypes. We demonstrate that the power to detect a true association can be substantially increased for difficult to call genotypes, resulting in improved inference in asso- ciation studies.},
number = {181},
year = {2009},
date-added = {2010-01-13 21:53:40 +0100},
date-modified = {2010-01-13 21:54:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ruczinski-2009-Johns%20Hopkins%20University%20Dept.%20of%20Biostatistics%20Working%20Papers_Association%20tests%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2919},
rating = {0}
}
@article{Ranucci:2010p8985,
author = {Marco Ranucci and Serenella Castelvecchio and Lorenzo Menicanti and Alessandro Frigiola and Gabriele Pelissero},
journal = {Eur J Cardiothorac Surg},
title = {Accuracy, calibration and clinical performance of the EuroSCORE: can we reduce the number of variables?},
abstract = {BACKGROUND: The European system for cardiac operative risk evaluation (EuroSCORE) is currently used in many institutions and is considered a reference tool in many countries. We hypothesised that too many variables were included in the EuroSCORE using limited patient series. We tested different models using a limited number of variables. METHODS: A total of 11150 adult patients undergoing cardiac operations at our institution (2001-2007) were retrospectively analysed. The 17 risk factors composing the EuroSCORE were separately analysed and ranked for accuracy of prediction of hospital mortality. Seventeen models were created by progressively including one factor at a time. The models were compared for accuracy with a receiver operating characteristics (ROC) analysis and area under the curve (AUC) evaluation. Calibration was tested with Hosmer-Lemeshow statistics. Clinical performance was assessed by comparing the predicted with the observed mortality rates. RESULTS: The best accuracy (AUC 0.76) was obtained using a model including only age, left ventricular ejection fraction, serum creatinine, emergency operation and non-isolated coronary operation. The EuroSCORE AUC (0.75) was not significantly different. Calibration and clinical performance were better in the five-factor model than in the EuroSCORE. Only in high-risk patients were 12 factors needed to achieve a good performance. CONCLUSIONS: Including many factors in multivariable logistic models increases the risk for overfitting, multicollinearity and human error. A five-factor model offers the same level of accuracy but demonstrated better calibration and clinical performance. Models with a limited number of factors may work better than complex models when applied to a limited number of patients.},
affiliation = {Department of Cardiothoracic-Vascular Anesthesia and Intensive Care, IRCCS Policlinico S. Donato, Milan, Italy. cardioanestesia@virgilio.it},
number = {3},
pages = {724--9},
volume = {37},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-22 13:11:05 +0100},
date-modified = {2010-03-22 13:11:05 +0100},
doi = {10.1016/j.ejcts.2009.08.033},
pii = {S1010-7940(09)00902-6},
pmid = {19819158},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T35-4XDKCC1-3&_user=2432700&_coverDate=03%252F31%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=b00365b61bc49ea6645874f1b9dc807e},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ranucci-2010-Eur%20J%20Cardiothorac%20Surg_Accuracy%20calibratio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8985},
rating = {0}
}
@article{Baker:2005p3293,
author = {Stuart G Baker},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {A simple loglinear model for haplotype effects in a case-control study involving two unphased genotypes},
abstract = {Because haplotypes may parsimoniously summarize the effect of genes on disease, there is great interest in using haplotypes in case-control studies of unphased genotype data. Previous methods for investigating haplotypes effects in case-control studies have not allowed for both of the following two scenarios that could have a large impact on results (i) departures from Hardy-Weinberg equilibrium in controls as well as cases, and (ii) an interactive effect of haplotypes and environmental covariates on the probability of disease. A new method is proposed that generalizes the model of Epstein and Satten to incorporate both (i) and (ii). Computations are relatively simple involving a single loglinear design matrix for parameters modeling the distribution of haplotype frequencies in controls, parameters modeling the effect of haplotypes and covariate-haplotype interactions on disease, and nuisance parameters required for correct inference. Based on simulations with realistic sample sizes, the method is recommended with data from two genotypes, a recessive or dominant model linking haplotypes to disease, and estimates of haplotype effects among haplotypes with a frequency greater than 10%. The methodology is most useful with candidate genotype pairs or for searching through pairs of genotypes when scenarios (i) and (ii) are likely. An example without a covariate illustrates the importance of modeling a departure from Hardy-Weinberg equilibrium in controls.},
affiliation = {National Cancer Institute, USA. sb16i@nih.gov},
pages = {Article14},
volume = {4},
year = {2005},
month = {Jan},
language = {eng},
date-added = {2010-01-14 21:23:40 +0100},
date-modified = {2010-01-14 21:23:40 +0100},
doi = {10.2202/1544-6115.1113},
pmid = {16646831},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3293},
rating = {0}
}
@article{Vonesh:1992p2355,
author = {E F Vonesh and R L Carter},
journal = {Biometrics},
title = {Mixed-effects nonlinear regression for unbalanced repeated measures},
abstract = {Repeated measures data, such as clinical pharmacokinetic data, growth data, and dose-response data, are often inherently nonlinear with respect to a given response function and are frequently incomplete and/or unbalanced. Nonlinear random-effects models together with a variety of estimation procedures have been proposed for the analysis of such data. This paper is concerned with a straightforward procedure for estimating and comparing the parameters of a generalized mixed-effects nonlinear regression model. The asymptotic properties of the proposed estimators are given and large-sample tests of hypothesis provided. The results are applied to in vitro data on the water transport kinetics of hemodialyzers used in the treatment of patients with chronic renal failure.},
affiliation = {Applied Statistics Center, Baxter Healthcare Corp., Round Lake, Illinois 60073.},
number = {1},
pages = {1--17},
volume = {48},
year = {1992},
month = {Mar},
language = {eng},
keywords = {Water, Regression Analysis, Kidney: Artificial, Biometry, Kinetics, Humans, Biological Transport: Active, Models: Statistical},
date-added = {2010-01-10 13:38:40 +0100},
date-modified = {2010-01-10 13:38:40 +0100},
pmid = {1581479},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2355},
rating = {0}
}
@article{Toronen:2004p426,
author = {Petri Toronen},
journal = {BMC Bioinformatics},
title = {Selection of informative clusters from hierarchical cluster tree with gene classes},
abstract = {BACKGROUND: A common clustering method in the analysis of gene expression data has been hierarchical clustering. Usually the analysis involves selection of clusters by cutting the tree at a suitable level and/or analysis of a sorted gene list that is obtained with the tree. Cutting of the hierarchical tree requires the selection of a suitable level and it results in the loss of information on the other level. Sorted gene lists depend on the sorting method of the joined clusters. Author proposes that the clusters should be selected using the gene classifications. RESULTS: This article presents a simple method for searching for clusters with the strongest enrichment of gene classes from a cluster tree. The clusters found are presented in the estimated order of importance. The method is demonstrated with a yeast gene expression data set and with two database classifications. The obtained clusters demonstrated a very strong enrichment of functional classes. The obtained clusters are also able to present similar gene groups to those that were observed from the data set in the original analysis and also many gene groups that were not reported in the original analysis. Visualization of the results on top of a cluster tree shows that the method finds informative clusters from several levels of the cluster tree and indicates that the clusters found could not have been obtained by simply cutting the cluster tree. Results were also used in the comparison of cluster trees from different clustering methods. CONCLUSION: The presented method should facilitate the exploratory analysis of big data sets when the associated categorical data is available.},
affiliation = {A. I. Virtanen Institute for Molecular Sciences, Neulaniementie 2, P.O. Box 1627, FIN-70211 Kuopio, Finland. toronen@hytti.uku.fi},
pages = {32},
volume = {5},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Genes: Fungal, Computational Biology, Gene Expression Profiling, Saccharomyces cerevisiae, Random Allocation, Cluster Analysis, Gene Expression Regulation: Fungal},
date-added = {2010-01-03 12:23:05 +0100},
date-modified = {2010-01-03 12:23:05 +0100},
doi = {10.1186/1471-2105-5-32},
pii = {1471-2105-5-32},
pmid = {15043761},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Toronen-2004-BMC%20Bioinformatics_Selection%20of%20informa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p426},
rating = {0}
}
@article{Heath:1990p5518,
author = {A C Heath and N G Martin},
journal = {J Pers Soc Psychol},
title = {Psychoticism as a dimension of personality: a multivariate genetic test of Eysenck and Eysenck's psychoticism construct},
abstract = {In this study, we applied multivariate genetic analysis, a generalization of factor analysis and behavior genetic analysis, to responses to items of the Psychoticism scale of the Eysenck Personality Questionnaire by 2,903 adult same-sex Australian twin pairs. Item loadings on genetic, shared environmental, and nonshared environmental common and specific factors were estimated. The genetic factor structure differed considerably from the environmental structures, particularly in men. The genetic correlation between suspiciousness items and items reflecting unconventional or tough-minded attitudes or hostility to others was negative, but the environmental correlation was positive. Thus, conventional behavior genetic studies that have reported significant heritability of psychoticism, on the basis of analyses of scale scores, are misleading as to what trait is being inherited.},
affiliation = {Department of Human Genetics, Medical College of Virginia.},
number = {1},
pages = {111--21},
volume = {58},
year = {1990},
month = {Jan},
language = {eng},
keywords = {Adult, Personality Tests, Phenotype, Twins: Dizygotic, Humans, Social Environment, Models: Genetic, Twins: Monozygotic, Psychotic Disorders, Risk Factors, Psychometrics, Diseases in Twins},
date-added = {2010-02-12 14:59:25 +0100},
date-modified = {2010-07-29 19:35:33 +0200},
pmid = {2308068},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5518},
rating = {4}
}
@article{Luijsterburg:2007p8367,
author = {Jan Luijsterburg and Joop van den Bogaard and Pieter de Vries Robb{\'e}},
journal = {BMC Psychiatry},
title = {Variety in mental health research data: when does more become too much?},
abstract = {BACKGROUND: Institutes for mental health care consider scientific research an important activity. A good way to stimulate research is by simplifying data collection. Creating a minimal data set for research purposes would be one way to achieve this, however, this would only be possible if the researchers use a limited variety of data types. This article will address the question whether or not this is the case. METHODS: Researchers working in Dutch mental health institutes were approached and asked to complete an internet questionnaire on the individual variables they collected for, and measurement instruments used in, their studies. RESULTS: In the 92 studies described by the researchers, 124 different variables were collected, and 223 different instruments were used. A total of 66% of the variables and 73% of the instruments were only used in one study. CONCLUSION: There is little commonality among research data, hence flexibility will be a crucial factor in facilitating data collection for research in mental health institutes. Nevertheless, reducing the variety of variables and instruments used is important to increase the comparability of results.},
affiliation = {Tranzo, Scientific Center for Transformation in Care and Welfare, Tilburg University, PO box 90153, 5000 LE Tilburg, the Netherlands. j.luijsterburg@ggzmb.nl},
pages = {45},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Research, Humans, Mental Health},
date-added = {2010-03-21 13:00:50 +0100},
date-modified = {2010-03-21 13:00:50 +0100},
doi = {10.1186/1471-244X-7-45},
pii = {1471-244X-7-45},
pmid = {17803813},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luijsterburg-2007-BMC%20Psychiatry_Variety%20in%20mental%20he.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8367},
rating = {0}
}
@article{Nemoda:2010p11861,
author = {Zsofia Nemoda and Karlen Lyons-Ruth and Anna Szekely and Eszter Bertha and Gabor Faludi and Maria Sasvari-Szekely},
journal = {Behav Brain Funct},
title = {Association between dopaminergic polymorphisms and borderline personality traits among at-risk young adults and psychiatric inpatients},
abstract = {ABSTRACT: BACKGROUND: In the development of borderline personality disorder (BPD) both genetic and environmental factors have important roles. The characteristic affective disturbance and impulsive aggression are linked to imbalances in the central serotonin system, and most of the genetic association studies focused on serotonergic candidate genes. However, the efficacy of dopamine D2 receptor (DRD2) blocking antipsychotic drugs in BPD treatment also suggests involvement of the dopamine system in the neurobiology of BPD. METHODS: In the present study we tested the dopamine dysfunction hypothesis of impulsive self- and other-damaging behaviors: borderline and antisocial traits were assessed by Structured Clinical Interview for Diagnosis (SCID) for DSM-IV in a community-based US sample of 99 young adults from low-to-moderate income families. For the BPD trait analyses a second, independent group was used consisting of 136 Hungarian patients with bipolar or major depressive disorder filling out self-report SCID-II Screen questionnaire. In the genetic association analyses the previously indicated polymorphisms of the catechol-O-methyl-transferase (COMT Val158Met) and dopamine transporter (DAT1 40 bp VNTR) were studied. In addition, candidate polymorphisms of the DRD2 and DRD4 dopamine receptor genes were selected from the impulsive behavior literature. RESULTS: The DRD2 TaqI B1-allele and A1-allele were associated with borderline traits in the young adult sample (p = 0.001, and p = 0.005, respectively). Also, the DRD4 -616 CC genotype appeared as a risk factor (p = 0.02). With severity of abuse accounted for in the model, genetic effects of the DRD2 and DRD4 polymorphisms were still significant (DRD2 TaqIB: p = 0.001, DRD2 TaqIA: p = 0.008, DRD4 -616 C/G: p = 0.002). Only the DRD4 promoter finding was replicated in the independent sample of psychiatric inpatients (p = 0.007). No association was found with the COMT and DAT1 polymorphisms. CONCLUSIONS: Our results of the two independent samples suggest a possible involvement of the DRD4 -616 C/G promoter variant in the development of BPD traits. In addition, an association of the DRD2 genetic polymorphisms with impulsive self-damaging behaviors was also demonstrated.},
affiliation = {Institute of Medical Chemistry, Molecular Biology and Pathobiochemistry, Semmelweis University, Budapest, Hungary. zsofia.nemoda@eok.sote.hu.},
pages = {4},
volume = {6},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-05-23 11:45:12 +0200},
date-modified = {2010-07-29 19:18:41 +0200},
doi = {10.1186/1744-9081-6-4},
pii = {1744-9081-6-4},
pmid = {20205808},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nemoda-2010-Behav%20Brain%20Funct_Association%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11861},
rating = {0}
}
@article{Polderman:2010p5660,
author = {T J C Polderman and M Bartels and F C Verhulst and A C Huizink and C E M van Beijsterveldt and Dorret I Boomsma},
journal = {J Epidemiol Community Health},
title = {No effect of classroom sharing on educational achievement in twins: a prospective, longitudinal cohort study},
abstract = {BACKGROUND: A returning dilemma for families with multiple births is whether twins should share the same, or a parallel classroom, or in other words, whether they should be separated at school or not. This study investigated the effects of sharing a classroom during primary school on cognitive achievement in twins. METHOD: Subjects were 839 monozygotic and 1164 dizygotic twin pairs who were registered at birth at The Netherlands Twin Register. A prospective, longitudinal study design was used with educational achievement at age 12 years, measured with a standardised test (CITO test), as outcome measure. RESULTS: Most twin pairs (72%) shared a classroom during their schooling, 19% were in separate, but parallel, classes, and 9% "partly" shared a classroom. Twins who were in parallel classrooms had higher CITO scores (mean 539.51; SD 8.12), compared to twins who shared a classroom (537.99; SD 8.52). When controlling for socioeconomic status, and externalising problems before starting primary school (age 3), there was no significant difference in educational achievement between separated and non-separated twin pairs (p = 0.138). In addition, there was no interaction with sex or zygosity of the twins (p = 0.798). CONCLUSION: There is no difference in educational achievement between twins who share a classroom and twins who do not share a classroom during their primary school time. The choice of separation should be made by teachers, parents and their twin children, based on individual characteristics of a twin pair.},
affiliation = {Department of Biological Psychology, VU University Amsterdam, Van der Boechorststraat 1, 1081 BT, Amsterdam, The Netherlands. jc.polderman@psy.vu.nl},
number = {1},
pages = {36--40},
volume = {64},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-12 20:23:23 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1136/jech.2009.091629},
pii = {64/01/36},
pmid = {20007633},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Polderman-2010-J%20Epidemiol%20Community%20Health_No%20effect%20of%20classro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5660},
rating = {0}
}
@article{Kocalevent:2009p7354,
author = {R{\"u}ya-Daniela Kocalevent and Matthias Rose and Janine Becker and Otto B Walter and Herbert Fliege and Jakob B Bjorner and Dieter Kleiber and Burghard F Klapp},
journal = {Journal of Clinical Epidemiology},
title = {An evaluation of patient-reported outcomes found computerized adaptive testing was efficient in assessing stress perception},
abstract = {OBJECTIVES: This study aimed to develop and evaluate a first computerized adaptive test (CAT) for the measurement of stress perception (Stress-CAT), in terms of the two dimensions: exposure to stress and stress reaction. STUDY DESIGN AND SETTING: Item response theory modeling was performed using a two-parameter model (Generalized Partial Credit Model). The evaluation of the Stress-CAT comprised a simulation study and real clinical application. A total of 1,092 psychosomatic patients (N1) were studied. Two hundred simulees (N2) were generated for a simulated response data set. Then the Stress-CAT was given to n=116 inpatients, (N3) together with established stress questionnaires as validity criteria. RESULTS: The final banks included n=38 stress exposure items and n=31 stress reaction items. In the first simulation study, CAT scores could be estimated with a high measurement precision (SE<0.32; rho>0.90) using 7.0+/-2.3 (M+/-SD) stress reaction items and 11.6+/-1.7 stress exposure items. The second simulation study reanalyzed real patients data (N1) and showed an average use of items of 5.6+/-2.1 for the dimension stress reaction and 10.0+/-4.9 for the dimension stress exposure. Convergent validity showed significantly high correlations. CONCLUSIONS: The Stress-CAT is short and precise, potentially lowering the response burden of patients in clinical decision making.},
affiliation = {Clinic for Internal Medicine, Department of Psychosomatic Medicine and Psychotherapy, Charit{\'e} University Medicine Berlin, Berlin, Germany. rueya.kocalevent@fu-berlin.de},
number = {3},
pages = {278-87, 287.e1--3},
volume = {62},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Aged: 80 and over, Confidence Intervals, Quality of Health Care, Questionnaires, Reproducibility of Results, Stress: Psychological, Female, Humans, Adult, Adolescent, Male, Perception, Sickness Impact Profile, Middle Aged, Aged, Treatment Outcome, Diagnosis: Computer-Assisted},
date-added = {2010-03-10 20:25:21 +0100},
date-modified = {2010-03-10 20:25:21 +0100},
doi = {10.1016/j.jclinepi.2008.03.003},
pii = {S0895-4356(08)00090-5},
pmid = {18639439},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kocalevent-2009-Journal%20of%20Clinical%20Epidemiology_An%20evaluation%20of%20pat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7354},
rating = {0}
}
@article{Lung:2004p13088,
author = {For-Wey Lung and Yi-Lin Huang and Bih-Ching Shu and Fei-Yin Lee},
journal = {Compr Psychiatry},
title = {Parental rearing style, premorbid personality, mental health, and quality of life in chronic regional pain: A causal analysis},
abstract = {The aim of the current study was to establish the causal model among parental bonding, personality characteristics, mental health, quality of life, and chronic regional pain (CRP). Thirty CRP patients and 56 mental illness patients were compared using the Visual Analogue Scale (VAS), Chinese Health Questionnaire (CHQ), Eysenck Personality Questionnaire (EPQ), World Health Organization Quality of Life-Brief-Tawain Version (WHOQOL-BREF-TW), and Parental Bonding Instrument (PBI). There were significant differences in mental health, personality characteristics, and quality of life between the CRP and mental illness groups. Structural equation modeling showed that parental bonding could directly affect personality characteristics, and, hence, directly impact disease and quality of life. CRP is different from mental illness in many dimensions. In this study, CRP appeared to be caused by actual physical dysfunction rather than mental dysfunction.},
affiliation = {Department of Psychiatry, Military Kaohsiung General Hospital, Kaohsiung City, and Institute of Allied Health Sciences and School of Nursing, National Cheng Kung University, Taiwan City, Taiwan.},
number = {3},
pages = {206--12},
volume = {45},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Pain Measurement, Mental Disorders, Child: Preschool, Logistic Models, Extraversion (Psychology), Quality of Life, Middle Aged, Child Rearing, Sex Factors, Object Attachment, Case-Control Studies, Taiwan, Mental Health, Models: Psychological, Humans, Parent-Child Relations, Personality Assessment, Chronic Disease, Pain},
date-added = {2010-06-26 10:18:44 +0200},
date-modified = {2010-07-29 19:24:13 +0200},
doi = {10.1016/j.comppsych.2004.02.009},
pii = {S0010440X04000240},
pmid = {15124151},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lung-2004-Compr%20Psychiatry_Parental%20rearing%20sty.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13088},
rating = {0}
}
@article{GomezBenito:2009p535,
author = {Juana Gomez-Benito and M Dolores Hidalgo and Jose-Luis Padilla},
journal = {Methodology},
title = {Efficacy of Effect Size Measures in Logistic Regression. An Application for Detecting DIF},
abstract = {Statistical techniques based on logistic regression (LR) are adequate for the detection of differential item functioning (DIF) in dichotomous items. Nevertheless, they return more false positives (FPs) than do other DIF detection techniques. This paper compares the efficacy of DIF detection using the LR significance test and the estimation of the effect size that these procedures provide using R2 of Nagelkerke. The variables manipulated were different conditions of sample size, focal and reference group sample size ratio, amount of DIF, test length and percentage of test items with DIF. In addition, examinee responses were generated to simulate both uniform and nonuniform DIF (symmetric and asymmetric). In all cases, dichotomous response tests were used. The results show that the use of R2 as a strategy for detecting DIF obtained lower correct detection percentages than those obtained from significance tests. Moreover, the LR significance test showed adequate control of FP rates, close to the nominal 5%, although the rate was slightly higher than the nominal 5% when the sample size was smaller. However, when the effect size measure was used to detect DIF, the FP rates were lower and <1% for a wide number of conditions. In addition, a statistically significant main effect of the sample size variable was obtained. Thus, the FP percentages were higher when the sample size was small (100/100). The results obtained indicate that the use of R2 as a measure of effect size together with the statistical significance test reduces the rate of FP.},
affiliation = {University of Barcelona, Spain},
number = {1},
pages = {18--25},
volume = {5},
year = {2009},
keywords = {logistic regression analysis, R2 of Nagelkerke, differential item functioning, effect size measure},
date-added = {2010-01-03 13:51:36 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
doi = {10.1027/1614-2241.5.1.18},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gomez-Benito-2009-Methodology_Efficacy%20of%20Effect%20S.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p535},
rating = {0}
}
@article{McCarthy:2009p5447,
author = {Denis M McCarthy and Sarah L Pedersen and Elizabeth J D'Amico},
journal = {Psychol Assess},
title = {Analysis of item response and differential item functioning of alcohol expectancies in middle school youths},
abstract = {Drinking behavior in preadolescence is a significant predictor of both short- and long-term negative consequences. This study examined the psychometric properties of 1 known risk factor for drinking in this age group, alcohol expectancies, within an item response theory framework. In a sample of middle school youths (N = 1,273), the authors tested differential item functioning (DIF) in positive and negative alcohol expectancies across grade, gender, and ethnicity. Multiple-indicator multiple-cause model analyses tested differences in alcohol use as a potential explanation for observed DIF across groups. Results showed that most expectancy items did not exhibit DIF. For items where DIF was indicated, differences in alcohol use did not explain differences in item parameters. Positive and negative expectancies also systematically differed in the location parameter. Latent variable scale scores of both positive and negative expectancies were associated with drinking behavior cross-sectionally, while only positive expectancies predicted drinking prospectively. Improving the measurement of alcohol expectancies can help researchers better assess this important risk factor for drinking in this population, particularly the identification of those with either very high positive or very low negative alcohol expectancies.},
affiliation = {Department of Psychological Sciences, University of Missouri, Columbia, MO 65211, USA. mccarthydm@missouri.edu},
number = {3},
pages = {444--9},
volume = {21},
year = {2009},
month = {Sep},
language = {eng},
keywords = {California, Female, Alcohol Drinking, Child Behavior, Cross-Sectional Studies, Factor Analysis: Statistical, Ethnic Groups, Questionnaires, Child, Humans, Risk Factors, Male, Analysis of Variance, Psychometrics},
date-added = {2010-02-12 14:09:17 +0100},
date-modified = {2010-07-29 19:45:39 +0200},
doi = {10.1037/a0016319},
pii = {2009-12887-019},
pmid = {19719355},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5447},
rating = {0}
}
@article{Bottomley:2009p8808,
author = {Andrew Bottomley and Dave Jones and Lily Claassens},
journal = {Eur J Cancer},
title = {Patient-reported outcomes: assessment and current perspectives of the guidelines of the Food and Drug Administration and the reflection paper of the European Medicines Agency},
abstract = {AIMS: Patient-reported outcomes (PROs) have recently gained greater credibility with regulatory bodies aiming to standardise their use and interpretation in RCTs, thereby supporting medicinal product submissions. For this reason, the United States (US) Food and Drug Administration (FDA) and the European Medicines Agency (EMEA) have released guidelines. This review paper provides an overview of the current perspectives and views on these guidelines. METHOD: To evaluate the FDA and EMEA PRO guidelines, 47 expert responses to the FDA guidance were qualitatively reviewed. Two reviewers independently extracted data from these letters and checked these responses to warrant consistency and agreement in the evaluation process. A PubMed literature review was systematically examined to obtain supporting evidence or related articles for both the guidance documents. RESULTS: Generally, there is agreement between regulatory authorities and the research community on the contents of the FDA and EMEA PRO draft guidance. However, disagreements exist on significant philosophical topics (e.g. the FDA focuses more on conceptual models and symptoms than the EMEA) and design topics (e.g. the FDA is more restrictive on issues of recall bias, blinding of oncology trials and degrees of psychometric validation than researchers and the EMEA). This could influence the approval of PRO claims. CONCLUSION: PRO guidance from the EMEA and FDA has been valuable, and has raised the profile and active debate of PROs in oncology. However, our review of the current opinion shows that there are controversial aspects of the guidance. Consequently, greater latitude should be given to how the guidance is interpreted and applied.},
affiliation = {EORTC Quality of Life Department, EORTC Headquarters, Avenue E. Mounierlaan, 83/11, Brussels 1200, Belgium. andrew.bottomley@eortc.be},
number = {3},
pages = {347--53},
volume = {45},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Humans, United States Food and Drug Administration, Quality of Life, Health Status, Drug Approval, Practice Guidelines as Topic, Male, Clinical Trials as Topic, Outcome Assessment (Health Care), Patient Satisfaction, Oncology Service: Hospital, Reproducibility of Results, Female, Europe, United States},
date-added = {2010-03-22 12:09:47 +0100},
date-modified = {2010-03-22 12:09:47 +0100},
doi = {10.1016/j.ejca.2008.09.032},
pii = {S0959-8049(08)00792-2},
pmid = {19013787},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bottomley-2009-Eur%20J%20Cancer_Patient-reported%20out.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8808},
rating = {0}
}
@article{Streiner:2006p7504,
author = {David L Streiner and Geoffrey R Norman},
journal = {Journal of Clinical Epidemiology},
title = {"Precision" and "accuracy": two terms that are neither},
abstract = {OBJECTIVE: In some publications, the terms "precision" and "accuracy" are used as if they were synonyms for "reliability" and "validity." METHODS AND RESULTS: This article shows that these terms are neither precise nor accurate when used in this way. Scales can demonstrate high test-retest or interrater reliability (i.e., they are "precise") but still be unreliable in certain circumstances; and "imprecise" scales can still show good reliability. Further, "accuracy" as a synonym for validity reflects an outdated conceptualization of validity, which has been superseded by one that emphasizes that validity tells us what conclusions can be drawn about a person based on a test result. CONCLUSION: The article ends with a call for the use of the more traditional terms as better reflecting the process of scale development and the uses to which they are put.},
affiliation = {Baycrest Centre for Geriatric Care, Department of Psychiatry, Kunin-Lunenfeld Applied Research Unit, University of Toronto, 3560 Bathurst Street, Toronto, Ontario M6A 2E1, Canada. dstreiner@klaru-baycrest.on.ca},
number = {4},
pages = {327--30},
volume = {59},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Health Status Indicators, Terminology as Topic, Humans, Reproducibility of Results, Observer Variation},
date-added = {2010-03-10 20:46:08 +0100},
date-modified = {2010-03-10 20:46:14 +0100},
doi = {10.1016/j.jclinepi.2005.09.005},
pii = {S0895-4356(05)00340-9},
pmid = {16549250},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Streiner-2006-Journal%20of%20Clinical%20Epidemiology_%22Precision%22%20and%20%22acc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7504},
rating = {5}
}
@article{Fidler:2006p8600,
author = {Deborah J Fidler and Susan Hepburn and Sally Rogers},
journal = {Downs Syndr Res Pract},
title = {Early learning and adaptive behaviour in toddlers with Down syndrome: evidence for an emerging behavioural phenotype?},
abstract = {BACKGROUND: Though the Down syndrome behavioural phenotype has been described as involving relative strengths in visuo-spatial processing and sociability, and relative weaknesses in verbal skills and motor planning, the early emergence of this phenotypic pattern of strengths and weaknesses has not yet been fully explored. METHOD: In this study, we compared the performance of eighteen 2 to 3-year-olds with Down syndrome to an MA-matched comparison group of nineteen 2 to 3-year-olds with mixed developmental disabilities, and an MA-matched comparison group of 24 children with typical development on two developmental measures: the Mullen Scales of Early Learning and the Vineland Adaptive Behaviour Scales. RESULTS: While the specificity of the Down syndrome profile was (for the most part) not yet evident, results showed that toddlers with Down syndrome in this study did show emerging areas of relative strength and weakness similar to that which has been described in older children and young adults with Down syndrome. This pattern included relatively stronger social skills, weaker expressive language, and poor motor coordination. When this pattern of strengths and weaknesses was compared to the developmental profiles of the two comparison groups, socialisation strengths differentiated the Down syndrome group from the mixed developmental disabilities group.},
affiliation = {Human Development and Family Studies, Colorado State University, USA. Deborah.Fidler@colostate.edu},
number = {3},
pages = {37--44},
volume = {9},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Socialization, Adaptation: Psychological, Male, Socioeconomic Factors, Phenotype, Social Behavior, Down Syndrome, Visual Perception, Female, Child: Preschool, Child Behavior, Psychological Tests, Longitudinal Studies, Infant, Motor Skills, Humans, Developmental Disabilities, Language Development, Learning},
date-added = {2010-03-22 00:24:28 +0100},
date-modified = {2010-03-22 00:24:28 +0100},
pmid = {16869373},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fidler-2006-Downs%20Syndr%20Res%20Pract_Early%20learning%20and%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8600},
rating = {0}
}
@article{PsychiatricGWASConsortiumCoordinatingCommittee:2009p816,
author = {Psychiatric GWAS Consortium Coordinating Committee and Sven Cichon and Nick Craddock and Mark Daly and Stephen V Faraone and Pablo V Gejman and John Kelsoe and Thomas Lehner and Douglas F Levinson and Audra Moran and Pamela Sklar and Patrick F Sullivan},
journal = {Am J Psychiatry},
title = {Genomewide association studies: history, rationale, and prospects for psychiatric disorders},
abstract = {OBJECTIVE: The authors conducted a review of the history and empirical basis of genomewide association studies (GWAS), the rationale for GWAS of psychiatric disorders, results to date, limitations, and plans for GWAS meta-analyses. METHOD: A literature review was carried out, power and other issues discussed, and planned studies assessed. RESULTS: Most of the genomic DNA sequence differences between any two people are common (frequency >5%) single nucleotide polymorphisms (SNPs). Because of localized patterns of correlation (linkage disequilibrium), 500,000 to 1,000,000 of these SNPs can test the hypothesis that one or more common variants explain part of the genetic risk for a disease. GWAS technologies can also detect some of the copy number variants (deletions and duplications) in the genome. Systematic study of rare variants will require large-scale resequencing analyses. GWAS methods have detected a remarkable number of robust genetic associations for dozens of common diseases and traits, leading to new pathophysiological hypotheses, although only small proportions of genetic variance have been explained thus far and therapeutic applications will require substantial further effort. Study design issues, power, and limitations are discussed. For psychiatric disorders, there are initial significant findings for common SNPs and for rare copy number variants, and many other studies are in progress. CONCLUSIONS: GWAS of large samples have detected associations of common SNPs and of rare copy number variants with psychiatric disorders. More findings are likely, since larger GWAS samples detect larger numbers of common susceptibility variants, with smaller effects. The Psychiatric GWAS Consortium is conducting GWAS meta-analyses for schizophrenia, bipolar disorder, major depressive disorder, autism, and attention deficit hyperactivity disorder. Based on results for other diseases, larger samples will be required. The contribution of GWAS will depend on the true genetic architecture of each disorder.},
number = {5},
pages = {540--56},
volume = {166},
year = {2009},
month = {May},
language = {eng},
keywords = {Phenotype, Genome, Linkage Disequilibrium, Mental Disorders, History: 21st Century, Linkage (Genetics), Humans, History: 20th Century, Alleles, Polymorphism: Single Nucleotide},
date-added = {2010-01-03 17:25:51 +0100},
date-modified = {2010-01-03 17:25:51 +0100},
doi = {10.1176/appi.ajp.2008.08091354},
pii = {appi.ajp.2008.08091354},
pmid = {19339359},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Psychiatric%20GWAS%20Consortium%20Coordinating%20Committee-2009-Am%20J%20Psychiatry_Genomewide%20associati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p816},
read = {Yes},
rating = {0}
}
@article{Leveille:2005p3626,
author = {J Leveille and J Leveille},
journal = {SUGI 30},
title = {Sexy SAS/IntrNet{\textregistered}: A Macromedia Flash front-end for SAS{\textregistered} Web Applications},
abstract = {Many of us remember the ``eureka'' effect we experienced the first time we saw a SAS/IntrNet application come to life and connect SAS Software to the web browser. For some of us that was as many as seven years ago. Since that time, the landscape of the Internet has changed drastically. Web applications are everywhere and the capabilities of these applications, as well as the look and feel of their associated web sites, has steadily improved.
The ubiquitous Flash{\textregistered} player from Macromedia{\textregistered} has emerged as a leading technology for developing next generation web sites and application user interfaces. With Flash you can leap beyond the limitations of the web browser and have a fast, dynamic, customizable user interface at your disposal.
This paper demonstrates how you can utilize Flash functionality in order to create a dynamic, platform-independent web application that is configured and driven by SAS Software.},
year = {2005},
date-added = {2010-01-16 18:53:27 +0100},
date-modified = {2010-01-16 18:54:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leveille-2005-SUGI%2030_Sexy%20SASIntrNet%C2%AE%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3626},
rating = {0}
}
@article{Lopes:2003p13126,
author = {P N Lopes and P Salovey and R Straus},
journal = {Personality and Individual Differences},
title = {Emotional intelligence, personality, and the perceived quality of social relationships},
abstract = {This study explored links between emotional intelligence, measured as a set of abilities, and personality traits, as well as the contribution of both to the perceived quality of one's interpersonal relationships. In a sample of 103 college students, we found that both emotional intelligence and personality traits were associated with concurrent self-reports of satisfaction with social relationships. Individuals scoring highly on the managing emotions subscale of the Mayer, Salovey, and Caruso Emotional Intelligence Test (MSCEIT), were more likely to report positive relations with others, as well as perceived parental support, and less likely to report negative interactions with close friends. These associations remained statistically significant even controlling for significant Big Five personality traits and verbal intelligence. Global satis- faction with one's relationships was associated with extraversion, neuroticism (negatively), and the ability to manage one's emotions, as assessed by the MSCEIT.},
pages = {641--658},
volume = {35},
year = {2003},
date-added = {2010-06-26 10:51:58 +0200},
date-modified = {2010-06-26 10:53:04 +0200},
pii = {S0191-8869(02)00242-8},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lopes-2003-Personality%20and%20Individual%20Differences_Emotional%20intelligen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13126},
rating = {0}
}
@article{Morton:2007p3884,
author = {Newton Morton and Nikolas Maniatis and Weihua Zhang and Sarah Ennis and Andrew Collins},
journal = {Am J Hum Genet},
title = {Genome scanning by composite likelihood},
abstract = {Ambitious programs have recently been advocated or launched to create genomewide databases for meta-analysis of association between DNA markers and phenotypes of medical and/or social concern. A necessary but not sufficient condition for success in association mapping is that the data give accurate estimates of both genomic location and its standard error, which are provided for multifactorial phenotypes by composite likelihood. That class includes the Malecot model, which we here apply with an illustrative example. This preliminary analysis leads to five inferences: permutation of cases and controls provides a test of association free of autocorrelation; two hypotheses give similar estimates, but one is consistently more accurate; estimation of the false-discovery rate is extended to causal genes in a small proportion of regions; the minimal data for successful meta-analysis are inferred; and power is robust for all genomic factors except minor-allele frequency. An extension to meta-analysis is proposed. Other approaches to genome scanning and meta-analysis should, if possible, be similarly extended so that their operating characteristics can be compared.},
affiliation = {Human Genetics Division, University of Southampton, Southampton General Hospital, Southampton ,SO16 6YD, UK. nem@soton.ac.uk},
number = {1},
pages = {19--28},
volume = {80},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Meta-Analysis as Topic, Models: Theoretical, Humans, Genome: Human, Genetic Markers, Chromosome Mapping},
date-added = {2010-01-16 21:03:55 +0100},
date-modified = {2010-01-16 21:03:55 +0100},
doi = {10.1086/510401},
pii = {S0002-9297(07)60918-5},
pmid = {17160891},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3884},
rating = {0}
}
@article{Huh:2008p1771,
author = {Jimi Huh and Jo Ann Prause and C David Dooley},
journal = {Journal of immigrant and minority health / Center for Minority Public Health},
title = {The impact of nativity on chronic diseases, self-rated health and comorbidity status of Asian and Hispanic immigrants},
abstract = {This study examines the physical health status of immigrants with specific considerations of Asian and Hispanic populations and explores possible mechanisms through which health outcomes of interest can be explained. Analyses of the National Health Interview Surveys (NHIS) of 2000 and 2001 revealed that foreign-born individuals reported fewer chronic diseases (hypertension, heart disease, asthma, cancer and diabetes) and had lower prevalences of various chronic diseases compared with U.S.-born whites, controlling for possible confounders and mediators. However, U.S-born minority groups did not show the health advantage seen in foreign-born immigrants, reflecting the importance of nativity distinctions in studying immigrant health. Despite having fewer chronic diseases, foreign-born Asians were more likely to rate their health negatively relative to their U.S.-born counterparts and to U.S.-born whites. In addition, our findings provide evidence that failure to consider comorbid status may attenuate the nativity effect on certain chronic diseases.},
affiliation = {Department of Psychology and Social Behavior, University of California at Irvine, 3340 Social Ecology Building II, Irvine, CA 92697-7085, USA. huhj@uci.edu},
number = {2},
pages = {103--18},
volume = {10},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Hispanic Americans, Middle Aged, Asian Americans, Adult, Chronic Disease, Female, Risk Factors, Male, Health Status Disparities, Humans, Health Behavior, Emigrants and Immigrants, Comorbidity, Socioeconomic Factors},
date-added = {2010-01-09 21:31:58 +0100},
date-modified = {2010-01-09 21:31:58 +0100},
doi = {10.1007/s10903-007-9065-7},
pmid = {17546500},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1771},
rating = {0}
}
@article{Box:1980p11754,
author = {G E P Box},
journal = {Journal of the Royal Society, Serie A},
title = {Sampling and Bayes' Inference in Scientific Modelling and Robustness},
number = {4},
pages = {383--430},
volume = {143},
year = {1980},
date-added = {2010-05-23 09:53:46 +0200},
date-modified = {2010-05-23 09:54:54 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Box-1980-Journal%20of%20the%20Royal%20Society%20Serie%20A_Sampling%20and%20Bayes'.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11754},
rating = {0}
}
@article{Mevik:2007p12909,
author = {B H Mevik and R Wehrens},
journal = {Journal of Statistical Software},
title = {The pls Package: Principal Component and Partial Least Squares Regression in R},
abstract = {The pls package implements principal component regression (PCR) and partial least squares regression (PLSR) in R (R Development Core Team 2006b), and is freely available from the Comprehensive R Archive Network (CRAN), licensed under the GNU General Public License (GPL).
The user interface is modelled after the traditional formula interface, as exemplified by lm. This was done so that people used to R would not have to learn yet another interface, and also because we believe the formula interface is a good way of working interactively with models. It thus has methods for generic functions like predict, update and coef. It also has more specialised functions like scores, loadings and RMSEP, and a flexible cross- validation system. Visual inspection and assessment is important in chemometrics, and the pls package has a number of plot functions for plotting scores, loadings, predictions, coefficients and RMSEP estimates.
The package implements PCR and several algorithms for PLSR. The design is modular, so that it should be easy to use the underlying algorithms in other functions. It is our hope that the package will serve well both for interactive data analysis and as a building block for other functions or packages using PLSR or PCR.
We will here describe the package and how it is used for data analysis, as well as how it can be used as a part of other packages. Also included is a section about formulas and data frames, for people not used to the R modelling idioms.},
number = {2},
volume = {18},
year = {2007},
date-added = {2010-06-24 17:38:25 +0200},
date-modified = {2010-06-24 17:39:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mevik-2007-Journal%20of%20Statistical%20Software_The%20pls%20Package%20Pri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12909},
rating = {0}
}
@article{Avery:2006p11370,
author = {C L Avery and B I Freedman and A T Kraja and I B Borecki and M B Miller and J S Pankow and D Arnett and C E Lewis and R H Myers and S C Hunt and K E North},
journal = {Diabetologia},
title = {Genotype-by-sex interaction in the aetiology of type 2 diabetes mellitus: support for sex-specific quantitative trait loci in Hypertension Genetic Epidemiology Network participants},
abstract = {AIMS/HYPOTHESIS: While there are sex-related differences in both the prevalence of type 2 diabetes mellitus and disease risk factors, there is only limited research on sex-specific influences on type 2 diabetes aetiology within the same study population. Thus, we assessed genotype-by-sex interaction using a liability threshold model in an attempt to localise sex-specific type 2 diabetes quantitative trait loci (QTLs). SUBJECTS, MATERIALS AND METHODS: Hypertensive siblings and their offspring and/or parents in the Hypertension Genetic Epidemiology Network of the Family Blood Pressure Program were recruited from five field centres. The diabetic phenotype was adjusted for race, study centre, age and non-linear age effects. In total, 567 diabetic individuals were identified in 385 families. Variance component linkage analyses in the combined sample and stratified by sex and race were performed (SOLAR program) using race-specific marker allele frequencies derived from a random sample of participants at each centre. RESULTS: We observed a QTL-specific genotype-by-sex interaction (p=0.009) on chromosome 17 at 31 cM, with females displaying a robust adjusted logarithm of odds (LOD) of 3.0 compared with 0.2 in males and 1.3 in the combined sample. Three additional regions demonstrating suggestive evidence for linkage were detected: chromosomes 2 and 5 in the female sample and chromosome 22 (adjusted LOD=1.9) in the combined sample. CONCLUSIONS/INTERPRETATION: These findings suggest that multiple genes may regulate susceptibility to type 2 diabetes, demonstrating the importance of considering the interaction of genes and environment in the aetiology of common complex traits.},
affiliation = {Department of Epidemiology, CB {\#}8050, The University of North Carolina, Chapel Hill, NC 27514, USA.},
number = {10},
pages = {2329--36},
volume = {49},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Humans, Genotype, Adult, United States, Sex Characteristics, Aged, Hypertension, Female, Nuclear Family, Middle Aged, Risk Factors, Phenotype, Diabetes Mellitus: Type 2, Male, Continental Population Groups, Quantitative Trait Loci, Prevalence},
date-added = {2010-04-26 23:09:00 +0200},
date-modified = {2010-04-26 23:09:01 +0200},
doi = {10.1007/s00125-006-0375-4},
pmid = {16906437},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Avery-2006-Diabetologia_Genotype-by-sex%20inte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11370},
rating = {0}
}
@article{Anderson:2008p5437,
author = {Emily R Anderson and Debra A Hope},
journal = {Clin Psychol Rev},
title = {A review of the tripartite model for understanding the link between anxiety and depression in youth},
abstract = {Although research from numerous investigations indicates that there is substantial overlap in anxiety and depressive symptoms and comorbid diagnoses in youth, these constructs can be adequately differentiated. Clark and Watson [Clark, L. A. {\&} Watson, D., (1991). Tripartite model of anxiety and depression: Psychometric evidence and taxonomic implications. Journal of Abnormal Psychology, 100, 316-336] proposed a tripartite model to account for the symptom overlap and diagnostic comorbidity between anxiety and depression. This tripartite model posits that anxiety and depression share a common component of negative affect, but can be differentiated by low positive affect associated with depression and high physiological hyperarousal associated with anxiety. The present article reviews initial research which has supported the utility of the tripartite model for explaining the association between anxiety and depression in adult and youth samples. Following that review, more recent investigations which have called into question the applicability of the tripartite constructs for youth are presented. Finally, the paper reviews evidence suggesting that the tripartite factors may not function similarly across all anxiety and depressive disorders. This article concludes by suggesting that more research is necessary with children and adolescents in order to determine the functioning of tripartite constructs across anxiety disorders in youth.},
affiliation = {University of Nebraska-Lincoln, Department of Psychology, 238 Burnett Hall, Lincoln, NE 68588-0308, United States. anderso3@bigred.unl.edu},
number = {2},
pages = {275--87},
volume = {28},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Models: Psychological, Child, Depressive Disorder, Arousal, Comorbidity, Questionnaires, Humans, Personality Assessment, Male, Anxiety Disorders, Female, Adolescent, Adult},
date-added = {2010-02-11 17:23:52 +0100},
date-modified = {2010-02-11 17:23:52 +0100},
doi = {10.1016/j.cpr.2007.05.004},
pii = {S0272-7358(07)00104-3},
pmid = {17582665},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5437},
rating = {0}
}
@article{Simon:2010p9604,
author = {Joe J Simon and Stephan Walther and Christian J Fiebach and Hans-Christoph Friederich and Christoph Stippich and Matthias Weisbrod and Stefan Kaiser},
journal = {Neuroimage},
title = {Neural reward processing is modulated by approach- and avoidance-related personality traits},
abstract = {The neural processing of reward can be differentiated into two sub-components with different functions, "wanting" (i.e., the expectation of a reward which includes appetitive and motivational components) and "liking" (i.e., the hedonic impact experienced during the receipt of a reward), involving distinct neural systems. We hypothesize that variability in neural reward processing previously observed in healthy subjects could reflect inter-individual differences in personality. Therefore, the aim of this study was to investigate how the neural processing during expectation and reception of a reward depends on interpersonal differences in reward sensitivity, more specifically the tendency to approach vs. avoid reward-related situations. We employed event-related functional magnetic resonance imaging during a monetary incentive delay task. Subjects with a high approach motivation showed more activation of the Ventral Striatum (VS) during the receipt of a reward, and more medial orbitofrontal activity during both the receipt and omission of a reward. Subjects with a high behavioral inhibition showed less activation in the VS during the receipt of a reward. These findings indicate that the tendency to approach or avoid reward-related situations exhibits a distinct relation with neural reward processing. Specifically, subjects with high behavioral approach appear to be sensitive mainly to positive outcomes and to a lesser extent to the omissions of rewards, whereas subjects with low behavioral approach as well as those with a high inhibition tendency display a blunted response to rewards.},
affiliation = {Section of Experimental Psychopathology, Department of Psychiatry, University of Heidelberg, Germany. joe.simon@psychologie.uni-heidelberg.de},
note = {genim},
number = {2},
pages = {1868--74},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Reaction Time, Executive Function, Male, Psychometrics, Task Performance and Analysis, Brain Mapping, Female, Reward, Magnetic Resonance Imaging, Cues, Humans, Personality Tests, Brain, Neuropsychological Tests, Young Adult, Personality},
date-added = {2010-03-25 14:36:25 +0100},
date-modified = {2010-03-25 18:16:29 +0100},
doi = {10.1016/j.neuroimage.2009.09.016},
pii = {S1053-8119(09)00995-1},
pmid = {19770056},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4X85F8S-4&_user=2432700&_coverDate=01%252F15%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=b673ff8c9f4514a5297a3375d2cd8855},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Simon-2010-Neuroimage_Neural%20reward%20proces.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9604},
rating = {0}
}
@article{Rapaport:2008p12331,
author = {F Rapaport and E Barillot and J-P Vert},
journal = {Bioinformatics},
title = {Classification of arrayCGH data using fused SVM},
abstract = {Motivation: Array-based comparative genomic hybridization (arrayCGH) has recently become a popular tool to identify DNA copy number variations along the genome. These profiles are starting to be used as markers to improve prognosis or diagnosis of cancer, which implies that methods for automated supervised classification of arrayCGH data are needed. Like gene expression profiles, arrayCGH profiles are characterized by a large number of variables usually measured on a limited number of samples. However, arrayCGH profiles have a particular structure of correlations between variables, due to the spatial organization of bacterial artificial chromosomes along the genome. This suggests that classical classification methods, often based on the selection of a small number of discriminative features, may not be the most accurate methods and may not produce easily interpretable prediction rules. Results: We propose a new method for supervised classification of arrayCGH data. The method is a variant of support vector machine that incorporates the biological specificities of DNA copy number variations along the genome as prior knowledge. The resulting classifier is a sparse linear classifier based on a limited number of regions automatically selected on the chromosomes, leading to easy interpretation and identification of discriminative regions of the genome. We test this method on three classification problems for bladder and uveal cancer, involving both diagnosis and prognosis. We demonstrate that the introduction of the new prior on the classifier leads not only to more accurate predictions, but also to the identification of known and new regions of interest in the genome.},
pages = {i375--i382},
volume = {24},
year = {2008},
date-added = {2010-06-12 10:09:25 +0200},
date-modified = {2010-06-12 10:10:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rapaport-2008-Bioinformatics_Classification%20of%20ar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12331},
rating = {0}
}
@article{Manica:2005p1726,
author = {Andrea Manica and Franck Prugnolle and Fran{\c c}ois Balloux},
journal = {Hum Genet},
title = {Geography is a better determinant of human genetic differentiation than ethnicity},
abstract = {Individuals differ genetically in their susceptibility to particular diseases and their response to drugs. However, personalized treatments are difficult to develop, because disease susceptibility and drug response generally have poorly characterized genetic architecture. It is thus tempting to use the ethnicity of patients to capture some of the variation in allele frequencies at the genes underlying a clinical trait. The success of such a strategy depends on whether human populations can be accurately classified into discrete genetic ethnic groups. Despite the heated discussions and controversies surrounding this issue, there has been essentially no attempt so far to quantify the relative power of ethnic groups and geography at predicting the proportion of shared alleles between human populations. Here, we present the first such quantification using a dataset of 51 populations typed at 377 autosomal microsatellite markers, and show that pair-wise geographic distances across landmasses constitute a far better predictor than ethnicity. Allele-sharing between human populations worldwide decays smoothly with increasing physical distance. We discuss the relevance of these patterns for the expected distribution of variants of medical interest. The distribution patterns of gene coding for simple traits are expected to be highly heterogeneous, as most such genes experienced strong natural selection. However, variants involved in complex traits are expected to behave essentially neutrally, and we expect them to fit closely our predictions based on microsatellites. We conclude that the use of ethnicity alone will often be inadequate as a basis for medical treatment.},
affiliation = {Evolutionary Ecology Group, Department of Zoology, University of Cambridge, Downing Street, CB2 3EJ, Cambridge, UK.},
number = {3-4},
pages = {366--71},
volume = {118},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Genetic Predisposition to Disease, Geography, Microsatellite Repeats, Ethnic Groups, Genetics: Population, Selection: Genetic, Predictive Value of Tests, Humans},
date-added = {2010-01-09 20:34:16 +0100},
date-modified = {2010-01-09 20:34:20 +0100},
doi = {10.1007/s00439-005-0039-3},
pmid = {16189711},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Manica-2005-Hum%20Genet_Geography%20is%20a%20bette.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1726},
rating = {3}
}
@article{BenDavid:2010p13156,
author = {S Ben-David and D Pal and H U Simon},
title = {Stability of k-Means Clustering},
abstract = {We consider the stability of k-means clustering problems. Clustering stability is a common heuristics used to determine the num- ber of clusters in a wide variety of clustering applications. We continue the theoretical analysis of clustering stability by establishing a complete characterization of clustering stability in terms of the number of optimal solutions to the clustering optimization problem. Our results complement earlier work of Ben-David, von Luxburg and P ́al, by settling the main problem left open there. Our analysis shows that, for probability distri- butions with finite support, the stability of k-means clusterings depends solely on the number of optimal solutions to the underlying optimization problem for the data distribution. These results challenge the common belief and practice that view stability as an indicator of the validity, or meaningfulness, of the choice of a clustering algorithm and number of clusters.},
date-added = {2010-06-26 11:14:49 +0200},
date-modified = {2010-06-26 11:15:25 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ben-David--_Stability%20of%20k-Means.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13156},
rating = {0}
}
@article{Thomas:2005p3930,
author = {Duncan C Thomas and Robert W Haile and David Duggan},
journal = {Am J Hum Genet},
title = {Recent developments in genomewide association scans: a workshop summary and review},
abstract = {With the imminent availability of ultra-high-volume genotyping platforms (on the order of 100,000-1,000,000 genotypes per sample) at a manageable cost, there is growing interest in the possibility of conducting genomewide association studies for a variety of diseases but, so far, little consensus on methods to design and analyze them. In April 2005, an international group of >100 investigators convened at the University of Southern California over the course of 2 days to compare notes on planned or ongoing studies and to debate alternative technologies, study designs, and statistical methods. This report summarizes these discussions in the context of the relevant literature. A broad consensus emerged that the time was now ripe for launching such studies, and several common themes were identified--most notably the considerable efficiency gains of multistage sampling design, specifically those made by testing only a portion of the subjects with a high-density genomewide technology, followed by testing additional subjects and/or additional SNPs at regions identified by this initial scan.},
affiliation = {Department of Preventive Medicine, University of Southern California, Los Angeles, CA 90089-9011, USA. dthomas@usc.edu},
number = {3},
pages = {337--45},
volume = {77},
year = {2005},
month = {Sep},
language = {eng},
keywords = {Genetic Markers, Data Interpretation: Statistical, Genotype, Genomics, Research Design, Genetic Testing, Genetic Diseases: Inborn},
date-added = {2010-01-16 21:06:06 +0100},
date-modified = {2010-01-16 21:06:06 +0100},
doi = {10.1086/432962},
pii = {S0002-9297(07)63015-8},
pmid = {16080110},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3930},
rating = {0}
}
@article{Harlow:1989,
author = {SD Harlow and MS Linet},
journal = {Am J Epidemiol},
title = {Agreement between questionnaire data and medical records: The evidence for accuracy of recall},
pages = {233--248},
volume = {129},
year = {1989},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p955},
rating = {0}
}
@article{Kosinski:2005p14144,
author = {B Kosinski and J Cummings},
title = {The Scientific Method: An Introduction Using Reaction Time},
year = {2005},
date-added = {2010-08-18 17:04:00 +0200},
date-modified = {2010-08-18 17:04:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kosinski-2005-_The%20Scientific%20Metho.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14144},
rating = {0}
}
@article{Rodriguez:2009p822,
author = {Santiago Rodriguez and Tom R Gaunt and Ian N M Day},
journal = {Am J Epidemiol},
title = {Hardy-Weinberg equilibrium testing of biological ascertainment for Mendelian randomization studies},
abstract = {Mendelian randomization (MR) permits causal inference between exposures and a disease. It can be compared with randomized controlled trials. Whereas in a randomized controlled trial the randomization occurs at entry into the trial, in MR the randomization occurs during gamete formation and conception. Several factors, including time since conception and sampling variation, are relevant to the interpretation of an MR test. Particularly important is consideration of the "missingness" of genotypes that can be originated by chance, genotyping errors, or clinical ascertainment. Testing for Hardy-Weinberg equilibrium (HWE) is a genetic approach that permits evaluation of missingness. In this paper, the authors demonstrate evidence of nonconformity with HWE in real data. They also perform simulations to characterize the sensitivity of HWE tests to missingness. Unresolved missingness could lead to a false rejection of causality in an MR investigation of trait-disease association. These results indicate that large-scale studies, very high quality genotyping data, and detailed knowledge of the life-course genetics of the alleles/genotypes studied will largely mitigate this risk. The authors also present a Web program (http://www.oege.org/software/hwe-mr-calc.shtml) for estimating possible missingness and an approach to evaluating missingness under different genetic models.},
affiliation = {Bristol Genetic Epidemiology Laboratories and MRC Centre for Causal Analyses in Translational Epidemiology, Department of Social Medicine, University of Bristol, Bristol, United Kingdom.},
number = {4},
pages = {505--14},
volume = {169},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Genotype, Randomized Controlled Trials as Topic, Gene Frequency, Genetic Variation, Molecular Epidemiology, Epidemiologic Methods, Software, Internet, Models: Genetic, Humans, Causality, Genetics: Population, Alleles, Confounding Factors (Epidemiology)},
date-added = {2010-01-03 17:39:43 +0100},
date-modified = {2010-07-29 19:13:24 +0200},
doi = {10.1093/aje/kwn359},
pii = {kwn359},
pmid = {19126586},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rodriguez-2009-Am%20J%20Epidemiol_Hardy-Weinberg%20equil.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p822},
rating = {0}
}
@article{Rubin:2010p12851,
author = {D B Rubin and E R Zell},
journal = {Statistical Methodology},
title = {Dealing with noncompliance and missing outcomes in a randomized trial using Bayesian technology: Prevention of perinatal sepsis clinical trial, Soweto, South Africa},
abstract = {The success of interventions designed to address important issues in social and medical science is best addressed by randomized experiments. With human beings there are often complications, however, such as noncompliance and missing data. Such complications are often addressed by statistically invalid methods of analysis, in particular, intention-to-treat and per- protocol analyses. Here we address these two complications using a statistically valid approach based on principal stratification with a fully Bayesian analysis. This analysis is applied to a randomized trial of a potentially important intervention designed to reduce the transmission of bacterial colonization between mothers and their infants through vaginal delivery in South Africa: the Prevention of Perinatal Sepsis (PoPs).},
pages = {338--350},
volume = {7},
year = {2010},
date-added = {2010-06-21 20:15:43 +0200},
date-modified = {2010-07-29 20:06:22 +0200},
doi = {10.1016/j.stamet.2009.10.001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rubin-2010-Statistical%20Methodology_Dealing%20with%20noncomp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12851},
rating = {0}
}
@article{Heer:2010p13985,
author = {J Heer and M Bostock and V Ogievetsky},
journal = {acmqueue},
title = {A Tour through the Visualization Zoo},
year = {2010},
date-added = {2010-07-30 21:35:41 +0200},
date-modified = {2010-07-30 21:36:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heer-2010-acmqueue_A%20Tour%20through%20the%20V.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13985},
rating = {0}
}
@article{Dudoit:2002p3010,
author = {Sandrine Dudoit and Jane Fridlyand},
journal = {Genome Biol},
title = {A prediction-based resampling method for estimating the number of clusters in a dataset},
abstract = {BACKGROUND: Microarray technology is increasingly being applied in biological and medical research to address a wide range of problems, such as the classification of tumors. An important statistical problem associated with tumor classification is the identification of new tumor classes using gene-expression profiles. Two essential aspects of this clustering problem are: to estimate the number of clusters, if any, in a dataset; and to allocate tumor samples to these clusters, and assess the confidence of cluster assignments for individual samples. Here we address the first of these problems. RESULTS: We have developed a new prediction-based resampling method, Clest, to estimate the number of clusters in a dataset. The performance of the new and existing methods were compared using simulated data and gene-expression data from four recently published cancer microarray studies. Clest was generally found to be more accurate and robust than the six existing methods considered in the study. CONCLUSIONS: Focusing on prediction accuracy in conjunction with resampling produces accurate and robust estimates of the number of clusters.},
affiliation = {Division of Biostatistics, School of Public Health, University of California Berkeley, 140 Earl Warren Hall, Berkeley, CA 94720-7360, USA. sandrine@stat.berkeley.edu},
number = {7},
pages = {RESEARCH0036},
volume = {3},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Reproducibility of Results, Oligonucleotide Array Sequence Analysis, Neoplasms, Algorithms, Computer Simulation, Humans, Gene Expression Profiling, Cluster Analysis, Computational Biology},
date-added = {2010-01-13 23:24:22 +0100},
date-modified = {2010-07-29 19:27:22 +0200},
pmid = {12184810},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dudoit-2002-Genome%20Biol_A%20prediction-based%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3010},
rating = {0}
}
@article{Goldberg:1994p13845,
author = {L R Goldberg and J M Digman},
title = {Revealing Structure in the Data: PrincipIes of
Exploratory Factor Analysis},
year = {1994},
date-added = {2010-07-29 17:21:15 +0200},
date-modified = {2010-07-29 17:21:47 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1994-_Revealing%20Structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13845},
rating = {0}
}
@article{Gonzales:2008p3597,
author = {I Gonzales and S D{\'e}jean and P G Martin and A Baccini},
journal = {Journal of Statistical Software},
title = {CCA: An R Package to Extend Canonical Correlation Analysis},
abstract = {Canonical correlations analysis (CCA) is an exploratory statistical method to high- light correlations between two data sets acquired on the same experimental units. The cancor() function in R (R Development Core Team 2007) performs the core of computa- tions but further work was required to provide the user with additional tools to facilitate the interpretation of the results. We implemented an R package, CCA, freely available from the Comprehensive R Archive Network (CRAN, http://CRAN.R-project.org/), to develop numerical and graphical outputs and to enable the user to handle missing values. The CCA package also includes a regularized version of CCA to deal with data sets with more variables than units. Illustrations are given through the analysis of a data set coming from a nutrigenomic study in the mouse.},
number = {12},
volume = {23},
year = {2008},
date-added = {2010-01-15 21:27:41 +0100},
date-modified = {2010-01-15 21:29:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonzales-2008-Journal%20of%20Statistical%20Software_CCA%20An%20R%20Package%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3597},
rating = {0}
}
@article{FeldmanStewart:2009p9442,
author = {D Feldman-Stewart and M D Brundage},
journal = {Qual Life Res},
title = {A conceptual framework for patient-provider communication: a tool in the PRO research tool box},
abstract = {PURPOSE: To demonstrate how a previously described conceptual framework of physician-patient communication can inform the application of existing theory and the extension of new theory regarding the impact of patient-reported outcomes (PROs) in clinical practice. METHOD: We used a communication framework to guide interpretation of empirical results relating to three situations: Collecting PROs from individual patients, providing individual patient's PROs to his/her physician, and providing PROs from clinical trials to individual patients. RESULTS: For each of the selected situations, results of empirical studies of PROs are discussed in terms of the elements of the communication framework. These influences are developed into testable hypotheses regarding the impact of PROs and alternative hypotheses explaining empirical research results. We further illustrate how the conceptual framework can be knitted to other theories of communication to enhance understanding of the use of PROs in clinical practice. CONCLUSION: Guidance of a conceptual framework of communication can enhance understanding of PRO study results and lead to testable hypotheses about how to further improve the clinical use of PROs.},
affiliation = {Division of Cancer Care and Epidemiology, Queen's University Cancer Research Institute, Level 2, 10 Stuart St., Kingston, ON, K7L 3N6, Canada. deb.feldman-stewart@krcc.on.ca},
number = {1},
pages = {109--14},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Professional-Patient Relations, Communication, Data Collection, Clinical Trials as Topic, Concept Formation, Outcome Assessment (Health Care), Humans, Medical Oncology, Patient Satisfaction},
date-added = {2010-03-23 19:36:12 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
doi = {10.1007/s11136-008-9417-3},
pmid = {19043804},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Feldman-Stewart-2009-Qual%20Life%20Res_A%20conceptual%20framewo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9442},
rating = {0}
}
@article{Dick:2006p12132,
author = {Danielle M Dick and Arpana Agrawal and Marc A Schuckit and Laura Bierut and Anthony Hinrichs and Louis Fox and Joseph Mullaney and C Robert Cloninger and Victor Hesselbrock and John I Nurnberger and Laura Almasy and Tatiana Foroud and Bernice Porjesz and Howard Edenberg and Henri Begleiter},
journal = {J Stud Alcohol},
title = {Marital status, alcohol dependence, and GABRA2: evidence for gene-environment correlation and interaction},
abstract = {OBJECTIVE: The gene GABRA2 has been associated with the risk for alcohol dependence in independent samples. This article explores how this genetic risk factor interacts with marital status, another factor previously shown to be associated with the risk for alcohol dependence. METHOD: Data from more than 1,900 male and female subjects from the Collaborative Study of the Genetics of Alcoholism (COGA) sample were analyzed. Subjects were recruited based on membership in a family with multiple individuals with alcoholism. A series of analyses was performed to evaluate the relationship between the following: (1) GABRA2 and alcohol dependence, (2) marital status and alcohol dependence, (3) GABRA2 and marital status, and (4) interactions between GABRA2 and marital status on the development of alcohol dependence in the high-risk COGA sample. Additional analyses were carried out in a sample of approximately 900 individuals from control families to test the generalizability of results. RESULTS: Both GABRA2 and marital status contributed independently to the development of alcohol dependence in the COGA sample. The high-risk genotype at GABRA2 was also related to a decreased likelihood of marrying and an increased likelihood of divorce, which appeared to be mediated in part by personality characteristics. There was also differential risk associated with the GABRA2 genotype according to marital status. CONCLUSIONS: These analyses provide evidence of both gene-environment correlation and gene-environment interaction associated with GABRA2, marital status, and alcohol dependence. They illustrate the complex pathways by which genotype and environmental risk factors act and interact to influence alcohol dependence and challenge traditional conceptualizations of "environmental" risk factors.},
affiliation = {Department of Psychiatry, Washington University in St. Louis, Box 8134, 660 South Euclid Ave., St. Louis, MO 63130, USA. dickd@psychiatry.wustl.edu},
number = {2},
pages = {185--94},
volume = {67},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Risk Factors, Statistics as Topic, Aged: 80 and over, Male, Humans, Genotype, Adult, Middle Aged, Social Environment, Marital Status, Aged, Adolescent, Alcoholism, Female, Receptors: GABA-A},
date-added = {2010-05-30 10:18:44 +0200},
date-modified = {2010-05-30 10:18:45 +0200},
pmid = {16562401},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12132},
rating = {0}
}
@article{Jackman:2005p6781,
author = {S Jackman},
title = {An Introduction to Factor Analysis},
year = {2005},
date-added = {2010-03-05 22:22:35 +0100},
date-modified = {2010-03-05 22:22:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jackman-2005-_An%20Introduction%20to%20F.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6781},
rating = {0}
}
@article{Kassai:2003p7452,
author = {Behrouz Kassai and Fran{\c c}ois Gueyffier and Jean-Pierre Boissel and Florent Boutitie and Michel Cucherat},
journal = {Journal of Clinical Epidemiology},
title = {Absolute benefit, number needed to treat and gain in life expectancy: which efficacy indices for measuring the treatment benefit?},
abstract = {The absolute benefit (AB) is extensively used to summarize the results of clinical trials. As the AB depends directly on the patient's baseline risk, therapeutic decisions based on AB tend to favor patients at high risk. To evaluate the consequences of this decision's procedure for life-long therapy, we compare the AB with the gain in event-free life expectancy in a simulated hypertensive population. Our results show that the AB goes through a maximum and then declines as the duration of treatment increases. The amplitude of the variation of AB is independent of the baseline risks but the maximum is reached more quickly in the high-risk patients. Considering the gain in event-free life expectancy, low-risk patients benefit more than high-risk patients do, at the expense of a longer treatment exposure. The interpretation of the AB changes depending on follow-up.},
affiliation = {EA 643/Clinical Pharmacology Unit, Claude Bernard University, Facult{\'a} RTH Laennec, Rue Guillaume Paradin BP 8071-69376, Lyon 08, France. bkoupai@ucla.edu},
number = {10},
pages = {977--82},
volume = {56},
year = {2003},
month = {Oct},
language = {eng},
keywords = {Aged: 80 and over, Research Design, Randomized Controlled Trials as Topic, Hypertension, Female, Disease-Free Survival, Adult, Risk Assessment, Humans, Drug Administration Schedule, Male, Life Expectancy, Antihypertensive Agents, Aged, Life Tables, Middle Aged, Treatment Outcome},
date-added = {2010-03-10 20:41:40 +0100},
date-modified = {2010-03-10 20:41:45 +0100},
pii = {S0895435603001598},
pmid = {14568629},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kassai-2003-Journal%20of%20Clinical%20Epidemiology_Absolute%20benefit%20nu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7452},
rating = {3}
}
@incollection{Hoerl1988,
author = {A Hoerl and R Kennard},
journal = {Collection},
title = {Ridge regression},
pages = {129--136},
volume = {8},
year = {1988},
date-added = {2010-01-12 14:26:48 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2542},
rating = {0}
}
@article{Preau:2005p13150,
author = {Marie Pr{\'e}au and Emmanuelle Vincent and Bruno Spire and V{\'e}ronique Reliquet and Isabelle Fournier and Christian Michelet and Catherine Leport and Michel Morin and APROCO study group},
journal = {J Psychosom Res},
title = {Health-related quality of life and health locus of control beliefs among HIV-infected treated patients},
abstract = {OBJECTIVE: This study examined the relations between health locus of control (HLOC) beliefs and health-related quality of life (HRQL) in 302 HIV-infected patients enrolled in a French cohort, 44 months (M44) after they began highly active antiretroviral therapy (HAART). METHODS: HLOC beliefs were measured with the Multidimensional Health Locus of Control (MHLOC) scale and HRQL, with the Medical Outcome Study Short-Form Health Survey (MOS-SF-36). RESULTS: Internal HLOC beliefs at the initiation of treatment were associated with both physical HRQL in multivariate analysis, while chance HLOC beliefs on beginning HAART were associated with mental HRQL at M44. CONCLUSION: These findings suggest the importance of considering the psychological characteristics and psychosocial beliefs of patients at the initiation of ARV treatment to optimise the long-term HRQL of HIV-infected patient and to develop adaptive intervention on coping strategies.},
affiliation = {INSERM U379/ORS, Marseille, France. preau@marseille.inserm.fr},
number = {6},
pages = {407--13},
volume = {59},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Antigens: CD4, Male, Culture, Severity of Illness Index, Attitude to Health, HIV Infections, Adult, Female, Antiretroviral Therapy: Highly Active, Quality of Life, Health Status, Humans, Questionnaires, Internal-External Control},
date-added = {2010-06-26 11:09:17 +0200},
date-modified = {2010-06-26 11:09:17 +0200},
doi = {10.1016/j.jpsychores.2005.06.005},
pii = {S0022-3999(05)00122-4},
pmid = {16310023},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pr%C3%A9au-2005-J%20Psychosom%20Res_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13150},
rating = {0}
}
@article{Sheng:2001p811,
author = {X Sheng and K C Carri{\`e}re},
title = {An Improved CML Estimation Procedure for the Rasch Model with Item Response Data},
abstract = {Ordinal response data are commonly observed in health and medical investigationsthat include several items. The primary goal in the modeling ofitem response data is to find a unique measurement of the person's abilitiesand of the item difficulties that satisfies the properties of the fundamentalmeasurement. One such analytic method in item response theory is theRasch measurement, which is a way to convert ordinal observations into linearmeasures. Current estimation strategies assume the independence of theRasch model parameters. In this paper, based on the conditional maximumlikelihood, we implemented a simultaneous estimation method that can comparethe Rasch parameters more efficiently. We also obtained the asymptoticproperties of these estimators and developed the conditional likelihood ratiotest for the goodness-of-fit of the model. Simulation studies were usedto demonstrate the improved performance of our estimators as compared tothat of currently used conditional meth...},
affiliation = {; Department of Mathematical Sciences , University of Alberta; University of Alberta , Edmonton , AB T6G 2G1 , CANADA .},
year = {2001},
month = {Jan},
language = {eng},
date-added = {2010-01-03 17:21:42 +0100},
date-modified = {2010-01-03 17:22:13 +0100},
pmid = {410993},
url = {http://citeseer.ist.psu.edu/410993},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sheng-2001-_An%20Improved%20CML%20Esti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p811},
read = {Yes},
rating = {0}
}
@article{Groenen:2006p2435,
author = {P J Groenen and L Andries van der Ark},
journal = {Statistica Neerlandica},
title = {Visions of 70 years of psychometrics: the past, present, and future},
abstract = {Psychometrics as a separate discipline is approximately 70 years old. Over the last 60 years, there has been an active participation of Dutch researchers in psychometrics. Ten years ago, Van der Heijden and Sijtsma [Statistica Neerlandica (1996) vol. 50, pp. 111--135] described the development of Dutch psychometrics and, as a follow up, we investigated the current state of psychometrics. This study is done through a series of interviews with 12 prominent psychometricians who participated in the International Meeting of the Psychometric Society in Tilburg from July 4 to 9, 2005. Their opinions on the past and present contributions of psychometrics, and their outlook on future develop- ments were sought.},
number = {2},
pages = {135--144},
volume = {60},
year = {2006},
date-added = {2010-01-11 23:44:27 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Groenen-2006-Statistica%20Neerlandica_Visions%20of%2070%20years-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2435},
rating = {0}
}
@article{MeyerLindenberg:2009p3455,
author = {Andreas Meyer-Lindenberg},
journal = {Hum Brain Mapp},
title = {Neural connectivity as an intermediate phenotype: brain networks under genetic control},
abstract = {Recent evidence suggests that default mode connectivity characterizes neural states that account for a sizable proportion of brain activity and energy expenditure, and therefore represent a plausible neural intermediate phenotype. This implies the possibility of genetic control over systems-level connectivity features. Imaging genetics is an approach to combine genetic assessment with multimodal neuroimaging to discover neural systems linked to genetic abnormalities or variation. In the present contribution, we report results obtained from applying this strategy to both structural connectivity and functional connectivity data. Using data for serotonergic (5-HTTLPR, MAO-A) and dopaminergic (DARPP-32) genes as examples, we show that systems-level connectivity networks under genetic control can be identified. Remarkable similarities are observed across modalities and scales of description. Features of connectivity often better account for behavioral effects of genetic variation than regional parameters of activation or structure. These data provide convergent evidence for genetic control in humans over connectivity systems, whose characterization has promise for identifying neural systems mediating genetic risk for complex human behavior and psychiatric disease.},
affiliation = {Central Institute of Mental Health, J5, 68159 Mannheim, Germany. a.meyer-lindenberg@zi-mannheim.de},
number = {7},
pages = {1938--46},
volume = {30},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Brain, Depression, Haplotypes, Neural Pathways, Behavior, Genes, Phenotype, Serotonin Plasma Membrane Transport Proteins, Magnetic Resonance Imaging, Monoamine Oxidase, Synaptic Transmission, Humans, Genotype, Dopamine and cAMP-Regulated Phosphoprotein 32, Serotonin},
date-added = {2010-01-15 15:18:28 +0100},
date-modified = {2010-01-15 15:18:28 +0100},
doi = {10.1002/hbm.20639},
pmid = {19294651},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3455},
rating = {0}
}
@article{Cella:2007p5999,
author = {David Cella and Richard Gershon and Jin-Shei Lai and Seung Choi},
journal = {Qual Life Res},
title = {The future of outcomes measurement: item banking, tailored short-forms, and computerized adaptive assessment},
abstract = {The use of item banks and computerized adaptive testing (CAT) begins with clear definitions of important outcomes, and references those definitions to specific questions gathered into large and well-studied pools, or "banks" of items. Items can be selected from the bank to form customized short scales, or can be administered in a sequence and length determined by a computer programmed for precision and clinical relevance. Although far from perfect, such item banks can form a common definition and understanding of human symptoms and functional problems such as fatigue, pain, depression, mobility, social function, sensory function, and many other health concepts that we can only measure by asking people directly. The support of the National Institutes of Health (NIH), as witnessed by its cooperative agreement with measurement experts through the NIH Roadmap Initiative known as PROMIS (www.nihpromis.org), is a big step in that direction. Our approach to item banking and CAT is practical; as focused on application as it is on science or theory. From a practical perspective, we frequently must decide whether to re-write and retest an item, add more items to fill gaps (often at the ceiling of the measure), re-test a bank after some modifications, or split up a bank into units that are more unidimensional, yet less clinically relevant or complete. These decisions are not easy, and yet they are rarely unforgiving. We encourage people to build practical tools that are capable of producing multiple short form measures and CAT administrations from common banks, and to further our understanding of these banks with various clinical populations and ages, so that with time the scores that emerge from these many activities begin to have not only a common metric and range, but a shared meaning and understanding across users. In this paper, we provide an overview of item banking and CAT, discuss our approach to item banking and its byproducts, describe testing options, discuss an example of CAT for fatigue, and discuss models for long term sustainability of an entity such as PROMIS. Some barriers to success include limitations in the methods themselves, controversies and disagreements across approaches, and end-user reluctance to move away from the familiar.},
affiliation = {Psychiatry and Behavioral Sciences, Institute for Healthcare Studies, Feinberg School of Medicine, Northwestern University, Evanston, IL 60201, USA. d-cella@northwestern.edu},
pages = {133--41},
volume = {16 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Humans, Outcome Assessment (Health Care), Software, Quality of Life, Psychometrics, Health Status, Questionnaires, Fatigue},
date-added = {2010-02-18 23:33:58 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-007-9204-6},
pmid = {17401637},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cella-2007-Qual%20Life%20Res_The%20future%20of%20outcom.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5999},
rating = {0}
}
@article{Kelemen:2009p7184,
author = {Arpad Kelemen and Athanasios V Vasilakos and Yulan Liang},
journal = {IEEE Trans Inf Technol Biomed},
title = {Computational intelligence in bioinformatics: SNP/haplotype data in genetic association study for common diseases},
abstract = {Comprehensive evaluation of common genetic variations through association of single-nucleotide polymorphism (SNP) structure with common complex disease in the genome-wide scale is currently a hot area in human genome research due to the recent development of the Human Genome Project and HapMap Project. Computational science, which includes computational intelligence (CI), has recently become the third method of scientific enquiry besides theory and experimentation. There have been fast growing interests in developing and applying CI in disease mapping using SNP and haplotype data. Some of the recent studies have demonstrated the promise and importance of CI for common complex diseases in genomic association study using SNP/haplotype data, especially for tackling challenges, such as gene-gene and gene-environment interactions, and the notorious "curse of dimensionality" problem. This review provides coverage of recent developments of CI approaches for complex diseases in genetic association study with SNP/haplotype data.},
affiliation = {Department of Organizational Systems and Adult Health, University of Maryland, Baltimore, MD 21201, USA. akele001@umaryland.edu},
number = {5},
pages = {841--7},
volume = {13},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Genetic Predisposition to Disease, Epistasis: Genetic, Polymorphism: Single Nucleotide, Artificial Intelligence, Computational Biology, Haplotypes, Humans, Models: Genetic},
date-added = {2010-03-06 21:18:59 +0100},
date-modified = {2010-03-06 21:18:59 +0100},
doi = {10.1109/TITB.2009.2024144},
pmid = {19556205},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7184},
rating = {0}
}
@misc{Zhang:1996a,
author = {J Zhang and D D Boos},
journal = {Miscellaneous},
title = {Mantel-Haenszel Test Statistics for Correlated Binary Data},
year = {1996},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-1996-Miscellaneous_Mantel-Haenszel%20Test.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1911},
rating = {0}
}
@article{Simier:1999p12055,
author = {M Simier and L Blanc and F Pellegrin and D Nandris},
journal = {Revue de Statistique Appliqu{\'e}e},
title = {Approche simultan{\'e}e de K couples de tableaux : application {\`a} l'{\'e}tude des relations pathologie v{\'e}g{\'e}tale-environnement},
number = {1},
pages = {31--46},
volume = {47},
year = {1999},
date-added = {2010-05-24 10:40:13 +0200},
date-modified = {2010-05-24 10:51:51 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Simier-1999-Revue%20de%20Statistique%20Appliqu%C3%A9e_Approche%20simultan%C3%A9e.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12055},
rating = {4}
}
@article{Hsiao:2005p2311,
author = {Albert Hsiao and Trey Ideker and Jerrold M Olefsky and Shankar Subramaniam},
journal = {Nucleic Acids Res},
title = {VAMPIRE microarray suite: a web-based platform for the interpretation of gene expression data},
abstract = {Microarrays are invaluable high-throughput tools used to snapshot the gene expression profiles of cells and tissues. Among the most basic and fundamental questions asked of microarray data is whether individual genes are significantly activated or repressed by a particular stimulus. We have previously presented two Bayesian statistical methods for this level of analysis, collectively known as variance-modeled posterior inference with regional exponentials (VAMPIRE). These methods each require a sophisticated modeling step followed by integration of a posterior probability density. We present here a publicly available, web-based platform that allows users to easily load data, associate related samples and identify differentially expressed features using the VAMPIRE statistical framework. In addition, this suite of tools seamlessly integrates a novel gene annotation tool, known as GOby, which identifies statistically overrepresented gene groups. Unlike other tools in this genre, GOby can localize enrichment while respecting the hierarchical structure of annotation systems like Gene Ontology (GO). By identifying statistically significant enrichment of GO terms, Kyoto Encyclopedia of Genes and Genomes pathways, and TRANSFAC transcription factor binding sites, users can gain substantial insight into the physiological significance of sets of differentially expressed genes. The VAMPIRE microarray suite can be accessed at http://genome.ucsd.edu/microarray.},
affiliation = {Department of Bioengineering, University of California San Diego, La Jolla, CA 92093, USA.},
number = {Web Server issue},
pages = {W627--32},
volume = {33},
year = {2005},
month = {Jul},
language = {eng},
keywords = {User-Computer Interface, Database Management Systems, Internet, Gene Expression Profiling, Bayes Theorem, Oligonucleotide Array Sequence Analysis, Software, Data Interpretation: Statistical},
date-added = {2010-01-10 12:26:56 +0100},
date-modified = {2010-01-10 12:26:56 +0100},
doi = {10.1093/nar/gki443},
pii = {33/suppl_2/W627},
pmid = {15980550},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hsiao-2005-Nucleic%20Acids%20Res_VAMPIRE%20microarray%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2311},
rating = {0}
}
@article{Lee:2008p2496,
author = {B-T Lee and B-J Ham},
journal = {Genes Brain Behav},
title = {Serotonergic genes and amygdala activity in response to negative affective facial stimuli in Korean women},
abstract = {Serotonergic genes have been implicated in mood disorders, alcoholism and certain personality traits. We investigated the possible relationship between several polymorphisms in the serotonin (5-HT) system and amygdala responses to negative facial stimuli in Korean women using functional magnetic resonance imaging. All participants were genotyped with regard to the following polymorphisms: the serotonin transporter-gene-linked polymorphic region (5-HTTLPR), tryptophan hydroxylase 2 (TPH2) G(-703)T, 5-HT(1A) C(-1019)G and 5-HT(2A) single nucleotide polymorphism (SNP) rs6311. We found increased activations in response to angry facial stimuli in the bilateral amygdala of subjects with the long allele of 5-HTTLPR compared with those with two copies of the short allele. Higher activations in response to sad facial stimuli were found in the bilateral amygdala of subjects with the T/T genotype of 5-HT(2A) SNP rs6311, compared with C allele carriers, and in subjects with the G/G genotype of TPH2 G(-703)T, compared with those with T/T and G/T genotypes. Our results for individuals from an Asian population countered a previous finding for a Caucasian population and identified the moderating role of genetic background in the relationships between these serotonergic gene polymorphisms and amygdala function elicited by negative emotional stimuli.},
affiliation = {Department of Psychiatry, Hangang Sacred Heart Hospital, Hallym University Medical Center, Seoul National University, Seoul, South Korea.},
number = {8},
pages = {899--905},
volume = {7},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Tryptophan Hydroxylase, Amygdala, Genetic Predisposition to Disease, Receptor: Serotonin: 5-HT1A, Asian Continental Ancestry Group, Female, Genetic Testing, Genotype, Humans, Young Adult, Receptor: Serotonin: 5-HT2A, Serotonin Plasma Membrane Transport Proteins, Magnetic Resonance Imaging, Adult, Photic Stimulation, DNA Mutational Analysis, Neuropsychological Tests, Serotonin, Brain Chemistry, Korea, Mood Disorders, Facial Expression},
date-added = {2010-01-12 13:34:02 +0100},
date-modified = {2010-01-12 13:34:02 +0100},
doi = {10.1111/j.1601-183X.2008.00429.x},
pii = {GBB429},
pmid = {18826444},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2008-Genes%20Brain%20Behav_Serotonergic%20genes%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2496},
rating = {0}
}
@article{Vivien:2009p12012,
author = {M Vivien and F Sune},
journal = {Food Qualify and Prefrence},
title = {Two four-way multiblock methods used for comparing two consumer panels of children},
abstract = {Two four-way multiblock methods, Generalized Orthogonal Multiple Co-Inertia Analysis (GOMCIA) and DOuble-Analyse Conjointe de Tableaux (DO-ACT) are used as a tool to compare the agreement of two experts or consumer panels. GOMCIA is a PLS-based method, while DO-ACT is a generalization of STATIS. Both methods are capable of analysing four-way multiblock data tables (i.e. two multiblock data tables) and take into account the block structure of the data. The main advantage of these two methods is that they can evaluate the agreement between the panels and the agreement between individual assessors within each panel simultaneously. These two methods are used to compare two consumer panels of chil- dren who evaluated eight chocolate bars on 14 sensory descriptors. With these methods, all the original data set is used without averaging over one direction of the multiblock. The results show great potential of both GOMCIA and DO-ACT for sensory data analysis.},
pages = {472--481},
volume = {20},
year = {2009},
date-added = {2010-05-23 22:32:45 +0200},
date-modified = {2010-07-29 19:26:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vivien-2009-Food%20Qualify%20and%20Prefrence_Two%20four-way%20multibl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12012},
rating = {4}
}
@article{Schultz:1995a,
author = {KF Schultz},
journal = {JAMA},
title = {Subverting randomisation in controlled trails},
abstract = {Recent empirical evidence supports the importance of adequate randomization in controlled trials. Trials with inadequate allocation concealment have been associated with larger treatment effects compared with trials in which authors reported adequate allocation concealment. While that provides empirical evidence of bias being interjected into trials, trial investigators rarely document the sensitive details of subverting the intended purpose of randomization. This article relates anonymous accounts of deciphering assignment sequences before allocation based on experiences acquired from epidemiologic workshops for physicians. These accounts run the gamut from simple to intricate operations, from transillumination of envelopes to searching for code in the office files of the principal investigator. They indicate that deciphering is something more frequent than a rare occurrence. These accounts prompt some methodological recommendations to help prevent deciphering. Randomized controlled trials appear to annoy human nature-if properly conducted, indeed they should.},
pages = {1456--1458},
volume = {274},
year = {1995},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:00:58 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1049},
rating = {0}
}
@article{Davis:2008p5756,
author = {O S P Davis and Y Kovas and N Harlaar and P Busfield and A McMillan and J Frances and S A Petrill and P S Dale and R Plomin},
journal = {Genes Brain Behav},
title = {Generalist genes and the Internet generation: etiology of learning abilities by web testing at age 10},
abstract = {A key translational issue for neuroscience is to understand how genes affect individual differences in brain function. Although it is reasonable to suppose that genetic effects on specific learning abilities, such as reading and mathematics, as well as general cognitive ability (g), will overlap very little, the counterintuitive finding emerging from multivariate genetic studies is that the same genes affect these diverse learning abilities: a Generalist Genes hypothesis. To conclusively test this hypothesis, we exploited the widespread access to inexpensive and fast Internet connections in the UK to assess 2541 pairs of 10-year-old twins for reading, mathematics and g, using a web-based test battery. Heritabilities were 0.38 for reading, 0.49 for mathematics and 0.44 for g. Multivariate genetic analysis showed substantial genetic correlations between learning abilities: 0.57 between reading and mathematics, 0.61 between reading and g, and 0.75 between mathematics and g, providing strong support for the Generalist Genes hypothesis. If genetic effects on cognition are so general, the effects of these genes on the brain are also likely to be general. In this way, generalist genes may prove invaluable in integrating top-down and bottom-up approaches to the systems biology of the brain.},
affiliation = {Social, Genetic and Developmental Psychiatry Centre, Institute of Psychiatry, King's College London, London, United Kingdom. oliver.davis@iop.kcl.ac.uk},
number = {4},
pages = {455--62},
volume = {7},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Cognition, Genome: Human, Intelligence Tests, Reading, Verbal Behavior, Models: Statistical, Intelligence, Learning Disorders, Female, Humans, Mathematics, Quantitative Trait: Heritable, Genetic Variation, Multivariate Analysis, Child, Learning, Male, Inheritance Patterns, Cohort Studies, Internet, Gene Expression Regulation: Developmental, Age Factors},
date-added = {2010-02-15 20:30:00 +0100},
date-modified = {2010-02-15 20:30:00 +0100},
doi = {10.1111/j.1601-183X.2007.00370.x},
pii = {GBB370},
pmid = {17983460},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5756},
rating = {0}
}
@article{Turk:2006p13738,
author = {Dennis C Turk and Robert H Dworkin and Laurie B Burke and Richard Gershon and Margaret Rothman and Jane Scott and Robert R Allen and J Hampton Atkinson and Julie Chandler and Charles Cleeland and Penny Cowan and Rozalina Dimitrova and Raymond Dionne and John T Farrar and Jennifer A Haythornthwaite and Sharon Hertz and Alejandro R Jadad and Mark P Jensen and David Kellstein and Robert D Kerns and Donald C Manning and Susan Martin and Mitchell B Max and Michael P McDermott and Patrick McGrath and Dwight E Moulin and Turo Nurmikko and Steve Quessy and Srinivasa Raja and Bob A Rappaport and Christine Rauschkolb and James P Robinson and Mike A Royal and Lee Simon and Joseph W Stauffer and Gerold Stucki and Jane Tollett and Thorsten von Stein and Mark S Wallace and Joachim Wernicke and Richard E White and Amanda C Williams and James Witter and Kathleen W Wyrwich and Initiative on Methods, Measurement and Pain Assessment in Clinical Trials},
journal = {Pain},
title = {Developing patient-reported outcome measures for pain clinical trials: IMMPACT recommendations},
affiliation = {University of Washington, Seattle, WA 98195, USA. Turkdc@u.washington.edu},
number = {3},
pages = {208--15},
volume = {125},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Physician's Practice Patterns, Clinical Trials as Topic, Humans, United States, Practice Guidelines as Topic, Outcome Assessment (Health Care), Pain, Pain Measurement, Questionnaires},
date-added = {2010-07-24 12:31:45 +0200},
date-modified = {2010-07-24 12:31:46 +0200},
doi = {10.1016/j.pain.2006.09.028},
pii = {S0304-3959(06)00501-X},
pmid = {17069973},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Turk-2006-Pain_Developing%20patient-r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13738},
rating = {0}
}
@article{Canals:2002p4388,
author = {Josepa Canals and Gentzane Carbajo and Joan Fern{\'a}ndez-Ballart},
journal = {Psychol Rep},
title = {Discriminant validity of the Eating Attitudes Test according to American Psychiatric Association and World Health Organization criteria of eating disorders},
abstract = {The purpose of this study was to assess the sensitivity, the specificity, and the positive predictive value of the Eating Attitudes Test in a sample of Spanish nonclinical 18-yr.-olds. 304 subjects answered the Eating Attitudes Test-40, 290 of whom were interviewed individually with the Spanish version of the Schedules for Clinical Assessment in Neuropsychiatry. Eating disorders were diagnosed using ICD-10 and DSM-III-R criteria. The prevalence of eating disorders was higher for ICD-10 (5.2%) than for DSM-III-R (2.6%) and only affected the rate of diagnosis in women. According to ICD-10 criteria, the cut-off of 25 was more sensitive (87.5%) than the cut-off of 30 (75%) and varied little in specificity (93.9% vs 97.1%). The positive predictive value of the Eating Attitudes Test cut-off of 30 for eating disorders (ICD-10) was 36%. Our results support the test as useful for identifying eating disturbances in 18-yr.-olds and suggest assessment of a cut-off lower than 30 may be appropriate in the general population if confirmed in further research with a representative sample of adults.},
affiliation = {Department of Psychology, Rovira i Virgili University, Cta Valls s/n 43007 Tarragona, Spain. jcs@fcep.urv.es},
number = {3 Pt 2},
pages = {1052--6},
volume = {91},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Cross-Cultural Comparison, Personality Inventory, World Health Organization, Eating Disorders, Female, Societies: Medical, Male, Psychiatry, Humans, Spain, Psychometrics, Reproducibility of Results, Attitude to Health, United States, Adolescent},
date-added = {2010-01-28 16:32:17 +0100},
date-modified = {2010-01-28 16:32:17 +0100},
pmid = {12585511},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4388},
rating = {0}
}
@article{Schmitt:2010p7648,
author = {J Eric Schmitt and Gregory L Wallace and Rhoshel K Lenroot and Sarah E Ordaz and Dede Greenstein and Liv Clasen and Kenneth S Kendler and Michael C Neale and Jay N Giedd},
journal = {Behav Genet},
title = {A twin study of intracerebral volumetric relationships},
abstract = {Using high resolution magnetic resonance imaging data, we examined the interrelationships between eight cerebral lobar volumetric measures via both exploratory and confirmatory factor analyses in a large sample (N = 484) of pediatric twins and singletons. These analyses suggest the presence of strong genetic correlations between cerebral structures, particularly between regions of like tissue type or in spatial proximity. Structural modeling estimated that most of the variance in all structures is associated with highly correlated lobar latent factors, with differences in genetic covariance and heritability driven by a common genetic factor that influenced gray and white matter differently. Reanalysis including total brain volume as a covariate dramatically reduced the total residual variance and disproportionately influenced the additive genetic variance in all regions of interest.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, 800 East Leigh Street, suite 100, PO Box 980003, Richmond, VA, 23298-0003, USA. eric.schmitt@stanfordalumni.org},
number = {2},
pages = {114--24},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:18:41 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9332-6},
pmid = {20112130},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmitt-2010-Behav%20Genet_A%20twin%20study%20of%20intr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7648},
rating = {0}
}
@article{Romano:2006p4749,
author = {J P Romano and A M Shaikh},
journal = {The Annals of Statistics},
title = {STEPUP PROCEDURES FOR CONTROL OF GENERALIZATIONS OF THE FAMILYWISE ERROR RATE},
abstract = {Consider the multiple testing problem of testing null hypotheses H1 , . . . , Hs . A classical approach to dealing with the multiplicity prob- lem is to restrict attention to procedures that control the familywise error rate (FWER), the probability of even one false rejection. But if s is large, control of the FWER is so stringent that the ability of a procedure that controls the FWER to detect false null hypotheses is limited. It is therefore desirable to consider other measures of error control. This article considers two generalizations of the FWER. The first is the k-FWER, in which one is willing to tolerate k or more false rejections for some fixed k ≥ 1. The second is based on the false discovery proportion (FDP), defined to be the number of false rejec- tions divided by the total number of rejections (and defined to be 0 if there are no rejections). Benjamini and Hochberg [J. Roy. Statist. Soc. Ser. B 57 (1995) 289--300] proposed control of the false discov- ery rate (FDR), by which they meant that, for fixed α, E(FDP) ≤ α. Here, we consider control of the FDP in the sense that, for fixed γ and α, P {FDP > γ} ≤ α. Beginning with any nondecreasing se- quence of constants and p-values for the individual tests, we derive stepup procedures that control each of these two measures of error control without imposing any assumptions on the dependence struc- ture of the p-values. We use our results to point out a few interesting connections with some closely related stepdown procedures. We then compare and contrast two FDP-controlling procedures obtained us- ing our results with the stepup procedure for control of the FDR of Benjamini and Yekutieli [Ann. Statist. 29 (2001) 1165--1188].},
number = {4},
pages = {1850--1873},
volume = {34},
year = {2006},
date-added = {2010-02-01 12:01:49 +0100},
date-modified = {2010-02-01 12:02:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Romano-2006-The%20Annals%20of%20Statistics_STEPUP%20PROCEDURES%20FO.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4749},
rating = {0}
}
@article{Constantine:1999p11159,
author = {N A Constantine and B Benard and M Diaz},
journal = {Seventh Annual Meeting of the Society for Prevention Research},
title = {Measuring Protective Factors and Resilience Traits in Youth: The Healthy Kids Resilience Assessment},
year = {1999},
date-added = {2010-04-25 20:24:34 +0200},
date-modified = {2010-04-25 20:26:08 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Constantine-1999-Seventh%20Annual%20Meeting%20of%20the%20Society%20for%20Prevention%20Research_Measuring%20Protective.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11159},
rating = {0}
}
@article{Huitzing:2004aa,
author = {Hiddo A Huitzing and Bernard P Veldkamp and Angela J Verschoor},
title = {Infeasibility in Automated Test Assembly Models: A Comparison Study of Different Methods},
abstract = {Several techniques exist to automatically put together a test meeting a number of specifications. In an item bank, the items are stored with their characteristics. A test is constructed by selecting a set of items that fulfills the specifications set by the test assembler. Test assembly problems are often formulated in terms of a model consisting of restrictions and an objective to be maximized or minimized. A problem arises when it is impossible to construct a test from the item pool that meets all specifications, that is, when the model is not feasible. Several methods exist to handle these infeasibility problems. In this paper, test assembly models resulting from two practical testing programs were reconstructed to be infeasible. These models were analyzed using methods that either forced a solution (Goal programming, Multiple-Goal programming, Greedy Heuristic), that analyzed the causes (Relaxed and Ordered Deletion Algorithm, Integer Randomized Deletion Algorithm, Set Covering and Item Sampling), or that analyzed the causes and used this information to force a solution (Irreducible-Infeasible-Set Solver). Specialized methods like the Integer Randomized Deletion Algorithm, and the Irreducible-Infeasible-Set-Solver performed best. Recommendations about the use of different methods are given.},
year = {2004},
month = {Jun},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huitzing-2004-_Infeasibility%20in%20Aut.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1217},
rating = {0}
}
@article{Calle:2008p1450,
author = {M L Calle and V Urrea and G Vellalta and N Malats and K V Steen},
journal = {Stat Med},
title = {Improving strategies for detecting genetic patterns of disease susceptibility in association studies},
abstract = {The analysis of gene interactions and epistatic patterns of susceptibility is especially important for investigating complex diseases such as cancer characterized by the joint action of several genes. This work is motivated by a case-control study of bladder cancer, aimed at evaluating the role of both genetic and environmental factors in bladder carcinogenesis. In particular, the analysis of the inflammation pathway is of interest, for which information on a total of 282 SNPs in 108 genes involved in the inflammatory response is available. Detecting and interpreting interactions with such a large number of polymorphisms is a great challenge from both the statistical and the computational perspectives. In this paper we propose a two-stage strategy for identifying relevant interactions: (1) the use of a synergy measure among interacting genes and (2) the use of the model-based multifactor dimensionality reduction method (MB-MDR), a model-based version of the MDR method, which allows adjustment for confounders.},
affiliation = {Department of Systems Biology, Universitat de Vic, Carrer de la Sagrada Fam{\'\i}lia, 7-08500 Vic, Spain. malu.calle@uvic.cat},
number = {30},
pages = {6532--46},
volume = {27},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Genotype, Spain, Models: Genetic, Humans, Adult, Inflammation, Models: Statistical, Genetic Predisposition to Disease, Epistasis: Genetic, Aged: 80 and over, Case-Control Studies, Algorithms, Middle Aged, Risk Factors, Male, Polymorphism: Single Nucleotide, Computational Biology, Aged, Multicenter Studies as Topic, Female, Logistic Models, Urinary Bladder Neoplasms},
date-added = {2010-01-07 12:23:48 +0100},
date-modified = {2010-01-07 12:23:48 +0100},
doi = {10.1002/sim.3431},
pmid = {18837071},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Calle-2008-Stat%20Med_Improving%20strategies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1450},
rating = {0}
}
@article{Molinaro:2005p2570,
author = {Annette M Molinaro and Richard Simon and Ruth M Pfeiffer},
journal = {Bioinformatics},
title = {Prediction error estimation: a comparison of resampling methods},
abstract = {MOTIVATION: In genomic studies, thousands of features are collected on relatively few samples. One of the goals of these studies is to build classifiers to predict the outcome of future observations. There are three inherent steps to this process: feature selection, model selection and prediction assessment. With a focus on prediction assessment, we compare several methods for estimating the 'true' prediction error of a prediction model in the presence of feature selection. RESULTS: For small studies where features are selected from thousands of candidates, the resubstitution and simple split-sample estimates are seriously biased. In these small samples, leave-one-out cross-validation (LOOCV), 10-fold cross-validation (CV) and the .632+ bootstrap have the smallest bias for diagonal discriminant analysis, nearest neighbor and classification trees. LOOCV and 10-fold CV have the smallest bias for linear discriminant analysis. Additionally, LOOCV, 5- and 10-fold CV, and the .632+ bootstrap have the lowest mean square error. The .632+ bootstrap is quite biased in small sample sizes with strong signal-to-noise ratios. Differences in performance among resampling methods are reduced as the number of specimens available increase. SUPPLEMENTARY INFORMATION: A complete compilation of results and R code for simulations and analyses are available in Molinaro et al. (2005) (http://linus.nci.nih.gov/brb/TechReport.htm).},
affiliation = {Biostatistics Branch, Division of Cancer Epidemiology and Genetics, NCI, NIH, Rockville, MD 20852, USA. annette.molinaro@yale.edu},
number = {15},
pages = {3301--7},
volume = {21},
year = {2005},
month = {Aug},
language = {eng},
keywords = {Sensitivity and Specificity, Data Interpretation: Statistical, Models: Genetic, Reproducibility of Results, Gene Expression Profiling, Sample Size, Algorithms, Oligonucleotide Array Sequence Analysis, Models: Statistical, Computer Simulation, Software},
date-added = {2010-01-12 22:23:08 +0100},
date-modified = {2010-01-12 22:23:08 +0100},
doi = {10.1093/bioinformatics/bti499},
pii = {bti499},
pmid = {15905277},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Molinaro-2005-Bioinformatics_Prediction%20error%20est.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2570},
rating = {0}
}
@article{Chiang:2010p7205,
author = {C W K Chiang},
journal = {PLoS Genet},
title = {Rapid Assessment of Genetic Ancestry in Populations of Unknown Origin by Genome-Wide Genotyping of Pooled Samples},
abstract = {As we move forward from the current generation of genome-wide association (GWA) studies, additional cohorts of different ancestries will be studied to increase power, fine map association signals, and generalize association results to additional populations. Knowledge of genetic ancestry as well as population substructure will become increasingly important for GWA studies in populations of unknown ancestry. Here we propose genotyping pooled DNA samples using genome-wide SNP arrays as a viable option to efficiently and inexpensively estimate admixture proportion and identify ancestry informative markers (AIMs) in populations of unknown origin. We constructed DNA pools from African American, Native Hawaiian, Latina, and Jamaican samples and genotyped them using the Affymetrix 6.0 array. Aided by individual genotype data from the African American cohort, we established quality control filters to remove poorly performing SNPs and estimated allele frequencies for the remaining SNPs in each panel. We then applied a regression-based method to estimate the proportion of admixture in each cohort using the allele frequencies estimated from pooling and populations from the International HapMap Consortium as reference panels, and identified AIMs unique to each population. In this study, we demonstrated that genotyping pooled DNA samples yields estimates of admixture proportion that are both consistent with our knowledge of population history and similar to those obtained by genotyping known AIMs. Furthermore, through validation by individual genotyping, we demonstrated that pooling is quite effective for identifying SNPs with large allele frequency differences (i.e., AIMs) and that these AIMs are able to differentiate two closely related populations (HapMap JPT and CHB).},
number = {3},
volume = {6},
year = {2010},
date-added = {2010-03-06 21:24:26 +0100},
date-modified = {2010-03-06 21:25:16 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chiang-2010-PLoS%20Genet_Rapid%20Assessment%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7205},
rating = {0}
}
@article{Ristic:2005p6085,
author = {Jelena Ristic and Laurent Mottron and Chris Kelland Friesen and Grace Iarocci and Jacob A Burack and Alan Kingstone},
journal = {Brain Res Cogn Brain Res},
title = {Eyes are special but not for everyone: the case of autism},
abstract = {Current research indicates that human gaze direction is a special cue for shifting attention for one of two reasons: (1) it reflects social desires and intentions and (2) its basic perceptual features usually correspond to important events in the environment. This study, conducted with individuals with autism and with age- and IQ-matched typically developing individuals, dissociates these two often-confounded explanations and demonstrates that eyes appear to be special for typically developing individuals because of their social power, whereas gaze effects are mediated by feature correspondence among persons with autism.},
affiliation = {Department of Psychology, University of British Columbia, 2136 West Mall, Vancouver, BC, Canada V6T 1Z4. jelena.ristic@telus.net},
number = {3},
pages = {715--8},
volume = {24},
year = {2005},
month = {Aug},
language = {eng},
keywords = {Autistic Disorder, Attention, Social Behavior, Eye Movements, Eye, Fixation: Ocular, Social Perception, Humans},
date-added = {2010-02-19 17:05:05 +0100},
date-modified = {2010-02-19 17:05:06 +0100},
doi = {10.1016/j.cogbrainres.2005.02.007},
pii = {S0926-6410(05)00049-2},
pmid = {16099372},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6085},
rating = {0}
}
@article{Li:2008p3326,
author = {Xin Li and Jing Li},
journal = {Comput Syst Bioinformatics Conf},
title = {Efficient haplotype inference from pedigrees with missing data using linear systems with disjoint-set data structures},
abstract = {We study the haplotype inference problem from pedigree data under the zero recombination assumption, which is well supported by real data for tightly linked markers (i.e., single nucleotide polymorphisms (SNPs)) over a relatively large chromosome segment. We solve the problem in a rigorous mathematical manner by formulating genotype constraints as a linear system of inheritance variables. We then utilize disjoint-set structures to encode connectivity information among individuals, to detect constraints from genotypes, and to check consistency of constraints. On a tree pedigree without missing data, our algorithm can output a general solution as well as the number of total specific solutions in a nearly linear time O (mn x alpha(n)), where m is the number of loci, n is the number of individuals and alpha is the inverse Ackermann function, which is a further improvement over existing ones. We also extend the idea to looped pedigrees and pedigrees with missing data by considering existing (partial) constraints on inheritance variables. The algorithm has been implemented in C++ and will be incorporated into our PedPhase package. Experimental results show that it can correctly identify all 0-recombinant solutions with great efficiency. Comparisons with other two popular algorithms show that the proposed algorithm achieves 10 to 10(5)-fold improvements over a variety of parameter settings. The experimental study also provides empirical evidences on the complexity bounds suggested by theoretical analysis.},
affiliation = {Department of Electrical Engineering and Computer Science, Case Western Reserve University, Cleveland, OH 44106, USA.},
pages = {297--308},
volume = {7},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Sequence Analysis: DNA, Computer Simulation, Linear Models, Databases: Genetic, Base Sequence, Haplotypes, Information Storage and Retrieval, Models: Genetic, Chromosome Mapping, Molecular Sequence Data, Pedigree},
date-added = {2010-01-15 12:16:58 +0100},
date-modified = {2010-01-15 12:16:58 +0100},
pmid = {19642289},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2008-Comput%20Syst%20Bioinformatics%20Conf_Efficient%20haplotype.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3326},
rating = {0}
}
@article{Isogai:1985p12127,
author = {T Isogai},
journal = {Ann. Inst. Statist. Math.},
title = {Some extension of haldane's multivariate median and its application},
abstract = {Some extension of Haldane's multivariate median is carried out by minimization principle of a specified distance function. Then, making use of the median, three types of measures of multivariate skewness are introduced and their asymptotic null distributions are obtained.},
pages = {289--301},
volume = {37},
year = {1985},
date-added = {2010-05-30 10:11:51 +0200},
date-modified = {2010-05-30 10:12:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Isogai-1985-Ann.%20Inst.%20Statist.%20Math._Some%20extension%20of%20ha.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12127},
rating = {0}
}
@article{Suh:2010p12923,
author = {Y Suh and D M Bolt},
journal = {Psychometrika},
title = {Nested logit models for multiple-choice item response data},
abstract = {Nested logit item response models for multiple-choice data are presented. Relative to previous mod- els, the new models are suggested to provide a better approximation to multiple-choice items where the application of a solution strategy precedes consideration of response options. In practice, the models also accommodate collapsibility across all distractor categories, making it easier to allow decisions about in- cluding distractor information to occur on an item-by-item or application-by-application basis without altering the statistical form of the correct response curves. Marginal maximum likelihood estimation al- gorithms for the models are presented along with simulation and real data analyses.},
year = {2010},
date-added = {2010-06-24 18:10:35 +0200},
date-modified = {2010-06-24 18:11:31 +0200},
doi = {10.1007/S11336-010-9163-7},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Suh-2010-Psychometrika_Nested%20logit%20models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12923},
rating = {0}
}
@article{Epstein:2003p3294,
author = {Michael P Epstein and Glen A Satten},
journal = {American Journal of Human Genetics},
title = {Inference on haplotype effects in case-control studies using unphased genotype data},
abstract = {A variety of statistical methods exist for detecting haplotype-disease association through use of genetic data from a case-control study. Since such data often consist of unphased genotypes (resulting in haplotype ambiguity), such statistical methods typically apply the expectation-maximization (EM) algorithm for inference. However, the majority of these methods fail to perform inference on the effect of particular haplotypes or haplotype features on disease risk. Since such inference is valuable, we develop a retrospective likelihood for estimating and testing the effects of specific features of single-nucleotide polymorphism (SNP)-based haplotypes on disease risk using unphased genotype data from a case-control study. Our proposed method has a flexible structure that allows, among other choices, modeling of multiplicative, dominant, and recessive effects of specific haplotype features on disease risk. In addition, our method relaxes the requirement of Hardy-Weinberg equilibrium of haplotype frequencies in case subjects, which is typically required of EM-based haplotype methods. Also, our method easily accommodates missing SNP information. Finally, our method allows for asymptotic, permutation-based, or bootstrap inference. We apply our method to case-control SNP genotype data from the Finland-United States Investigation of Non-Insulin-Dependent Diabetes Mellitus (FUSION) Genetics study and identify two haplotypes that appear to be significantly associated with type 2 diabetes. Using the FUSION data, we assess the accuracy of asymptotic P values by comparing them with P values obtained from a permutation procedure. We also assess the accuracy of asymptotic confidence intervals for relative-risk parameters for haplotype effects, by a simulation study based on the FUSION data.},
affiliation = {Department of Human Genetics, Emory University, Atlanta, GA, 30322, USA. mepstein@genetics.emory.edu},
number = {6},
pages = {1316--29},
volume = {73},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Risk Factors, Likelihood Functions, Haplotypes, Humans, Diabetes Mellitus: Type 2, Polymorphism: Single Nucleotide, Case-Control Studies, Models: Genetic, Algorithms, Genetic Predisposition to Disease},
date-added = {2010-01-14 21:23:35 +0100},
date-modified = {2010-01-14 21:23:35 +0100},
doi = {10.1086/380204},
pii = {S0002-9297(07)63984-6},
pmid = {14631556},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Epstein-2003-American%20Journal%20of%20Human%20Genetics_Inference%20on%20haploty.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3294},
rating = {0}
}
@article{Hasher:1978p3650,
author = {L Hasher and M Griffin},
journal = {Journal of Experimental Psychology: Human Learning and Memory},
title = {Reconstructive and reproductive processes in memory},
number = {4},
pages = {318--330},
volume = {4},
year = {1978},
date-added = {2010-01-16 19:58:17 +0100},
date-modified = {2010-01-16 20:55:49 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hasher-1978-Journal%20of%20Experimental%20Psychology%20Human%20Learning%20and%20Memory_Reconstructive%20and%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3650},
read = {Yes},
rating = {0}
}
@article{Lawrence:2005,
author = {Neil Lawrence},
journal = {Journal of Machine Learning},
title = {Probabilistic non-linear principal component analysis with gaussian process latent variables models},
pages = {1783--1816},
volume = {6},
year = {2005},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 19:34:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lawrence-2005-Journal%20of%20Machine%20Learning_Probabilistic%20non-li.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1969},
rating = {0}
}
@article{Luiz:2003p7404,
author = {Ronir Raggio Luiz and Antonio Jos{\'e} Leal Costa and Pauline Lorena Kale and Guilherme L Werneck},
journal = {Journal of Clinical Epidemiology},
title = {Assessment of agreement of a quantitative variable: a new graphical approach},
abstract = {In clinical or epidemiologic research, the measurement of variables always implies some degree of error. Because it is impossible to control the various sources of variation, the assessment of the reliability of a measurement is essential. Otherwise, concordance analysis must take into account the "clinical" interpretation of the measurement under study, because its practical usefulness is of central importance. In this article, we propose a new approach to assess the reliability of a quantitative measurement. We use a graphical approach familiar to statisticians and data analysts of the biomedical area, associating to it the useful feature of interpretation based on the proportion of concordant cases. We believe that the proposed graphical approach can serve as a complement, or as a alternative, to the Altman-Bland method for agreement analysis. It allows a simple interpretation of agreement that takes into account the "clinical" importance of the differences between observers or methods. In addition, it allows the analysis of reliability or agreement, by means of survival analysis techniques.},
affiliation = {NESC/UFRJ, Pr{\'e}dio do HUCFF, 5 andar Cidade Universit{\'a}ria, Ilha do Fund{\~a}o 21941-590, Rio de Janeiro, Brazil. ronir@acd.ufrj.br},
number = {10},
pages = {963--7},
volume = {56},
year = {2003},
month = {Oct},
language = {eng},
keywords = {Reproducibility of Results, Survival Analysis, Kidney Pelvis, Humans, Urography, Data Interpretation: Statistical, Tomography: X-Ray Computed, Observer Variation},
date-added = {2010-03-10 20:37:05 +0100},
date-modified = {2010-03-10 20:37:08 +0100},
pii = {S0895435603001641},
pmid = {14568627},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luiz-2003-Journal%20of%20Clinical%20Epidemiology_Assessment%20of%20agreem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7404},
rating = {2}
}
@article{Fountoulakis:2007p9970,
author = {Konstantinos N Fountoulakis and Apostolos Iacovides and Michael Karamouzis and George S Kaprinis and Charalambos Ierodiakonou},
journal = {Annals of general psychiatry},
title = {Season of birth, clinical manifestations and Dexamethasone Suppression Test in unipolar major depression},
abstract = {BACKGROUND: Reports in the literature suggest that the season of birth might constitute a risk factor for the development of a major psychiatric disorder, possibly because of the effect environmental factors have during the second trimester of gestation. The aim of the current paper was to study the possible relationship of the season of birth and current clinical symptoms in unipolar major depression. METHODS: The study sample included 45 DSM-IV major depressive patients and 90 matched controls. The SCAN v. 2.0, Hamilton Depression Rating Scale (HDRS) and Hamilton Anxiety Scale (HAS) were used to assess symptomatology, and the 1 mg Dexamethasone Suppression Test (DST) was used to subcategorize patients. RESULTS: Depressed patients as a whole did not show differences in birth season from controls. However, those patients born during the spring manifested higher HDRS while those born during the summer manifested the lowest HAS scores. DST non-suppressors were almost exclusively (90%) likely to be born during autumn and winter. No effect from the season of birth was found concerning the current severity of suicidal ideation or attempts. DISCUSSION: The current study is the first in this area of research using modern and rigid diagnostic methodology and a biological marker (DST) to categorize patients. Its disadvantages are the lack of data concerning DST in controls and a relatively small size of patient sample. The results confirm the effect of seasonality of birth on patients suffering from specific types of depression.},
affiliation = {Third Department of Psychiatry, Aristotle University of Thessaloniki, Greece. kfount@med.auth.gr.},
pages = {20},
volume = {6},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-03-31 19:45:15 +0200},
date-modified = {2010-07-29 19:14:44 +0200},
doi = {10.1186/1744-859X-6-20},
pii = {1744-859X-6-20},
pmid = {17683542},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fountoulakis-2007-Annals%20of%20general%20psychiatry_Season%20of%20birth%20cli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9970},
rating = {0}
}
@article{Ponocny:2001p14103,
author = {I Ponocny},
journal = {Psychometrika},
title = {Nonparametric goodness-of-fit tests for the rasch model},
abstract = {A Monte Carlo algorithm realizing a family of nonparametric tests for the Rasch model is intro- duced which are conditional on the item and subject marginals. The algorithm is based on random changes of elements of data matrices without changing the maxginals; most powerful tests against all alternative hypotheses are given for which a monotone characteristic may be computed from the data matrix; alterna- tives may also be composed. Computation times are long, but exact p-values are approximated with the quality of approximation only depending on calculation time, but not on the number of persons. The power and the flexibility of the procedure is demonstrated by means of an empirical example where, among oth- ers, indicators for increased item similarities, the existence of subscales, violations of sufficiency of the raw score as well as learning processes were found. Many of the features described are implemented in the program T-Rasch 1.0 by Ponocny and Ponocny-Seliger (1999).},
number = {3},
pages = {437--460},
volume = {66},
year = {2001},
date-added = {2010-08-18 11:18:14 +0200},
date-modified = {2010-08-18 11:20:16 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ponocny-2001-Psychometrika_Nonparametric%20goodne.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14103},
rating = {0}
}
@article{LeNormand:1999p7878,
author = {M T Le Normand and H Cohen},
journal = {Journal of Neurolinguistics},
title = {The delayed emergence of lexical morphology in preterm children: the case of verbs},
abstract = {A linguistic analysis in low-risk preterm (PT) children was conducted to determine whether the acquisition of complex aspects of the lexicon, such as verbs, was in ̄uenced by their premature birth status and whether sociocultural factors played a modulating role in this aspect of cognitive development. Fifty-one PT children, distributed in three birthweight groups Ð extremely low (780$\pm$1200 g), very low (1201$\pm$1500 g) and low (1501$\pm$2210 g) Ð were evaluated at 42 months and 60 months of age to assess their production of main, auxiliary and non-{\textregistered}nite verb types and tokens relative to that of two control groups of full- term children matched for age and socioeconomic level. The children's verb lexicon was collected during a 20-min controlled play context. Analyses of transcript data revealed {\textregistered}rst that the eect of sociocultural variables was independent of birth status or age. Further analyses revealed signi{\textregistered}cant dierences, indicating a marked increase in both verb type and token usage in the control children, whereas verb production in the three groups of PT children remained generally poorer. The data suggest that impaired language development is a cognitive consequence of prematurity independently of birthweight. },
pages = {235--246},
volume = {12},
year = {1999},
date-added = {2010-03-20 19:17:02 +0100},
date-modified = {2010-03-20 19:17:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Le%20Normand-1999-Journal%20of%20Neurolinguistics_The%20delayed%20emergenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7878},
rating = {0}
}
@article{Osgood:2002p263,
author = {D Wayne Osgood and Barbara J McMorris and Maria T Potenza},
journal = {Journal of Quantitative Criminology},
title = {Analyzing Multiple-item Measures of Crime and Deviance I: Item Response Theory Scaling},
abstract = {Multiple-item measures of self-reported offending typically provide the principal outcome measures for individual level research on the causes of crime and devi- ance. This article directs attention to the substantial problems presented by the task of forming composite scores for these measures, and it presents a possible solution to those problems. We consider scaling by means of the graded response model from item response theory (IRT) as a potential means of overcoming the shortcomings of traditional summative scaling and of obtaining valuable infor- mation about the strengths and weaknesses of our measures. We illustrate this strategy through a scale analysis of a fourteen-item, self-report measure of delin- quency, using three years of data from the Monitoring the Future study, an annual national survey of high school seniors. The graded response model proves to be consistent with the data, and it provides results that address important substantive questions about self-report measures. The findings are informative about the strengths and weaknesses of alternative strategies for developing self- report instruments, indicating that there is little to be gained by making fine distinctions in the frequency of individual delinquent acts.},
affiliation = {Crime, Law, and Justice Program, Pennsylvania State University, University Park, PA, 16802},
number = {3},
pages = {267--296},
volume = {18},
year = {2002},
month = {Jun},
keywords = {self-reported meas- ures of offending, Item Response Theory, measurement, summative scaling},
date-added = {2010-01-03 10:55:02 +0100},
date-modified = {2010-01-03 11:05:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Osgood-2002-Journal%20of%20Quantitative%20Criminology_Analyzing%20Multiple-i-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p263},
read = {Yes},
rating = {0}
}
@article{Marsaglia:2004p3692,
author = {G Marsaglia and W W Tsang and J Wang},
journal = {Journal of Statistical Software},
title = {Fast Generation of Discrete Random Variables},
abstract = {We describe two methods---and provide C programs---for generating discrete random variables with functions that are simple and fast, averaging ten times as fast as published methods and more than five times as fast as the fastest of those. We provide general procedures for implementing the two methods, as well as specific procedures for three of the most important discrete distributions: Poisson, binomial and hypergeometric.},
number = {3},
volume = {11},
year = {2004},
date-added = {2010-01-16 20:31:55 +0100},
date-modified = {2010-01-16 20:32:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marsaglia-2004-Journal%20of%20Statistical%20Software_Fast%20Generation%20of%20D.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3692},
rating = {0}
}
@article{Schwender:2008p4680,
author = {H Schwender and K Ickstadt},
title = {Imputing Missing Genotypes with Weighted k Nearest Neighbors},
abstract = {Motivation: Missing values are a common problem in genetic association studies con- cerned with single nucleotide polymorphisms (SNPs). Since most statistical methods cannot handle missing values, they have to be removed prior to the actual analysis. Considering only complete observations, however, often leads to an immense loss of in- formation. Therefore, procedures are needed that can be used to replace such missing values. In this article, we propose a method based on weighted k nearest neighbors that can be employed for imputing such missing genotypes.
Results: In a comparison to other imputation approaches, our procedure called KN- NcatImpute shows the lowest rates of falsely imputed genotypes when applied to the SNP data from the GENICA study, a study dedicated to the identification of genetic and gene-environment interactions associated with sporadic breast cancer. Moreover, in contrast to other imputation methods that take all variables into account when replacing missing values of a particular variable, KNNcatImpute is not restricted to association studies comprising several ten to a few hundred SNPs, but can also be applied to data from whole-genome studies, as an application to a subset of the HapMap data shows.},
year = {2008},
date-added = {2010-01-30 16:08:57 +0100},
date-modified = {2010-01-30 16:09:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schwender-2008-_Imputing%20Missing%20Gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4680},
rating = {0}
}
@article{Kasl:1979,
author = {SV Kasl},
journal = {Am J Public Health},
title = {Mortality and the business cycle: some questions about research strategies when utilizing macro-social and ecological data},
pages = {784--788},
volume = {69},
year = {1979},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1064},
rating = {0}
}
@article{Fox:2001,
author = {Jean-Paul Fox and Cees A W Glas},
journal = {Psychometrika},
title = {Bayesian Estimation of a Multilevel IRT Model using Gibbs Sampling},
pages = {269--286},
volume = {66},
year = {2001},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2001-Psychometrika_Bayesian%20Estimation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2218},
rating = {0}
}
@article{Newcombe:2003p1709,
author = {Robert G Newcombe},
journal = {Stat Med},
title = {Confidence intervals for the mean of a variable taking the values 0,1 and 2},
abstract = {The problem of setting a confidence interval for the mean of a variable on (0, 1,2) arises in three contexts: paired organ procedure rates; estimation of gene frequency, and three-point Likert scales. An effective approach to its estimation may be based on a good interval for a paired difference of proportions. Four good methods due to Newcombe and Tango are shown to have much better performance than more naive methods over regions of the parameter space corresponding to the above applications.},
affiliation = {University of Wales College of Medicine, Heath Park, Cardiff, CF14 4XN, UK. newcombe@cardiff.ac.uk},
number = {17},
pages = {2737--50},
volume = {22},
year = {2003},
month = {Sep},
language = {eng},
keywords = {Biopsy: Needle, Prevalence, Female, Confidence Intervals, Humans, Methylenetetrahydrofolate Reductase (NADPH2), Gene Frequency, Models: Statistical, Breast Neoplasms, Mass Screening},
date-added = {2010-01-09 19:26:09 +0100},
date-modified = {2010-01-09 19:26:09 +0100},
doi = {10.1002/sim.1479},
pmid = {12939783},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1709},
rating = {0}
}
@article{Bulayeva:2006p9961,
author = {K B Bulayeva and J J McGrath},
journal = {Central European Journal of Medicine},
title = {Season of birth interacts with measures of inbreeding in multiplex schizophrenia pedigrees: evidence from genetic isolates in Daghestan},
abstract = {While the season-of-birth effect is one of the most consistent epidemiological features of schizophrenia, there is a lack of consistency with respect to the interaction between season of birth and family history of schizophrenia. Apart from family history, measures related to consanguinity can be used as proxy markers of genomic heterogeneity. Thus, these measures may provide an alternate, indirect index of genetic susceptibility. We had the opportunity to explore the interaction between season of birth and measure of consanguinity in well-described genetic isolates in Daghestan, some of which are known for their relatively high prevalence of schizophrenia. Our previous population-genetic study showed Daghestan has an extremely high genetic diversity between the ethnic populations and a low genetic diversity within them. The isolates selected for this study include some with more than 200 and some with less than 100 generations of demographical history since their founding. Based on pedigrees of multiply-affected families, we found that among individuals with schizophrenia, the measure of consanguinity was significantly higher in the parents of those born in winter/spring compared to those born in summer/autumn. Furthermore, compared to summer/autumn born, winter/spring born individuals with schizophrenia had an earlier age-of-onset, and more prominent auditory hallucinations. Our results suggest that the offspring of consanguineous marriages, and thus those with reduced allelic heterogeneity, may be more susceptible to the environmental factor(s) underpinning the season-of-the effect in schizophrenia.},
number = {4},
pages = {392--398},
volume = {1},
year = {2006},
date-added = {2010-03-31 19:41:30 +0200},
date-modified = {2010-03-31 19:42:46 +0200},
doi = {10.2478/s11536-006-0041-8},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bulayeva-2006-Central%20European%20Journal%20of%20Medicine_Season%20of%20birth%20inte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9961},
rating = {0}
}
@article{Bashford:2007p5240,
author = {J L Bashford},
title = {THE CANNABIS USE PROBLEMS
IDENTIFICATION TEST (CUPIT): DEVELOPMENT AND PSYCHOMETRICS},
abstract = {Lack of a brief empirically-verified screener for problematic and potentially problematic cannabis use has hampered implementation of a proactive opportunistic cannabis screening and early intervention (SEI) initiative in New Zealand. Addressing this instrumentation need was the primary aim of this thesis. This thesis also investigated the nature, prevalence, severity, and natural history of cannabis-related problems among a heterogeneous sample of 212 `at risk' adolescent and adult users recruited from the community. In a 3-phase developmental design the CUPIT question candidates were first generated employing an Expert Panels methodology. The CUPIT structure, cross- sectional, and longitudinal psychometric properties were then systematically tested, incorporating measures of cannabis-related pathology and DSM-IV/ICD-10 diagnoses of cannabis use disorders as criterion standard.
High levels of cannabis consumption and related health and psychosocial problems reported portrayed a highly-disordered sample, most marked among adolescents. DSM- IV/ICD-10 diagnoses were almost universal with no significant adolescent/adult differences in dependence symptoms count or severity. The two CUPIT subscales (Impaired Control, Problems) derived from principal components analyses exhibited good test-retest and internal consistency reliability and highly significant ability to discriminate diagnostic subgroups along the severity continuum (nonproblematic, risky, problematic use).
At the 12-month follow-up, 194 adolescents and adults reported significantly increased cannabis consumption (adolescents), symptoms, and dependence severity. Baseline CUPIT subscale scores demonstrated highly significant longitudinal predictive utility for respondents' diagnostic group membership, health and psychosocial problems, and significantly improved prediction of other measured outcomes in conjunction with age and gender. ROC analyses identified a CUPIT score of 12 to be the optimal cut-point for maximum sensitivity for both currently diagnosable cannabis use disorder and those `at risk' in this sample.The empirical findings of this thesis research provide a compelling rationale for systematic implementation of opportunistic SEI among consumers of publicly-funded health and social services in New Zealand. Data confirmed that the vast majority of those needing help are unaware, or do not perceive, they need help. This thesis argues that, facilitated by the CUPIT, reliable proactive detection and appropriate intervention for early-stage cannabis use problems has potential for enormous cumulative impact on public health gains and the individual's quality of life.},
year = {2007},
date-added = {2010-02-08 20:14:29 +0100},
date-modified = {2010-02-08 20:16:14 +0100},
url = {http://muir.massey.ac.nz/bitstream/10179/705/1/02whole.pdf},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bashford-2007-_THE%20CANNABIS%20USE%20PRO.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5240},
rating = {0}
}
@article{Kooperberg:2007p2274,
author = {Charles Kooperberg and Joshua C Bis and Kristin D Marciante and Susan R Heckbert and Thomas Lumley and Bruce M Psaty},
journal = {Am J Epidemiol},
title = {Logic regression for analysis of the association between genetic variation in the renin-angiotensin system and myocardial infarction or stroke},
abstract = {Recent developments in genetic sequencing technology now make it possible to genotype large numbers of single nucleotide polymorphisms (SNPs) in large samples. Many association studies using SNP data are now being carried out. Typically, these observational studies establish whether certain haplotypes or individual SNPs are associated with a health outcome. Few methods exist for finding interaction effects among multiple SNPs or between SNPs and environmental factors. In this paper, the authors describe logic regression, an exploratory method with which to identify interactions for further research. They illustrate this method using data from a US case-control study of myocardial infarction and stroke (1995-1999) carried out among 1,614 persons in Washington State who were genotyped for 32 SNPs on five genes in the renin-angiotensin system.},
affiliation = {Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. clk@fhcrc.org},
number = {3},
pages = {334--43},
volume = {165},
year = {2007},
month = {Feb},
language = {eng},
keywords = {epidemiologic methods, Genotype, Stroke, Angiotensins, Male, Receptor: Angiotensin: Type 1, Case-Control Studies, Antihypertensive Agents, Humans, Receptor: Angiotensin: Type 2, Polymorphism: Single Nucleotide, Regression Analysis, Haplotypes, Female, Drug Utilization, Myocardial Infarction, Epistasis: Genetic, Renin-Angiotensin System},
date-added = {2010-01-10 12:00:42 +0100},
date-modified = {2010-01-10 12:00:42 +0100},
doi = {10.1093/aje/kwk006},
pii = {kwk006},
pmid = {17082497},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kooperberg-2007-Am%20J%20Epidemiol_Logic%20regression%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2274},
rating = {0}
}
@article{Gelernter:2006p3534,
author = {Joel Gelernter and Carolien Panhuysen and Marsha Wilcox and Victor Hesselbrock and Bruce Rounsaville and James Poling and Roger Weiss and Susan Sonne and Hongyu Zhao and Lindsay Farrer and Henry R Kranzler},
journal = {Am J Hum Genet},
title = {Genomewide linkage scan for opioid dependence and related traits},
abstract = {Risk of opioid dependence is genetically influenced. We recruited a sample of 393 small nuclear families (including 250 full-sib and 46 half-sib pairs), each with at least one individual with opioid dependence. Subjects underwent a detailed evaluation of substance dependence-related traits. As planned a priori to reduce heterogeneity, we used cluster analytic methods to identify opioid dependence-related symptom clusters, which were shown to be heritable. We then completed a genomewide linkage scan (with 409 markers) for the opioid-dependence diagnosis and for the two cluster-defined phenotypes represented by >250 families: the heavy-opioid-use cluster and the non-opioid-use cluster. Further exploratory analyses were completed for the other cluster-defined phenotypes. The statistically strongest results were seen with the cluster-defined traits. For the heavy-opioid-use cluster, we observed a LOD score of 3.06 on chromosome 17 (empirical pointwise P = .0002) for European American (EA) and African American (AA) subjects combined, and, for the non-opioid-use cluster, we observed a LOD score of 3.46 elsewhere on chromosome 17 (empirical pointwise P = .00002, uncorrected for multiple traits studied) for EA subjects only. We also identified a possible linkage (LOD score 2.43) of opioid dependence with chromosome 2 markers for the AA subjects. These results are an initial step in identifying genes for opioid dependence on the basis of a genomewide investigation (i.e., a study not conditioned on prior physiological candidate-gene hypotheses).},
affiliation = {Division of Human Genetics, Department of Psychiatry, Yale University School of Medicine, West Haven, CT 06516, USA. joel.gelernter@yale.edu},
number = {5},
pages = {759--69},
volume = {78},
year = {2006},
month = {May},
language = {eng},
keywords = {Chromosomes: Human: Pair 17, Pedigree, Chromosomes: Human: Pair 3, Gene Frequency, Statistics: Nonparametric, Phenotype, Opioid-Related Disorders, Adult, Chromosomes: Human: Pair 11, Cocaine-Related Disorders, Linkage (Genetics), Male, Female, Lod Score, Genotype, Humans, Cluster Analysis, Nuclear Family, Quantitative Trait Loci},
date-added = {2010-01-15 20:50:30 +0100},
date-modified = {2010-01-15 20:50:31 +0100},
doi = {10.1086/503631},
pii = {S0002-9297(07)63811-7},
pmid = {16642432},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gelernter-2006-Am%20J%20Hum%20Genet_Genomewide%20linkage%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3534},
rating = {0}
}
@article{Ip:2004,
author = {E H Ip and Y J Wang and Paul De Boeck},
journal = {Psychometrika},
title = {Locally dependent latent trait model for polytomous responses with application to inventory of hostility},
number = {2},
pages = {191--216},
volume = {69},
year = {2004},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ip-2004-Psychometrika_Locally%20dependent%20la.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2031},
rating = {0}
}
@article{Tenenhaus:2005p4080,
author = {M Tenenhaus and V Esposito Vinzi and Y M Chatelin and C Lauro},
journal = {Computational Statistics},
title = {PLS path modeling},
abstract = {A presentation of the Partial Least Squares approach to Structural Equation Modeling (or PLS Path Modeling) is given together with a discussion of its extensions. This approach is compared with the estimation of Structural Equation Modeling by means of maximum likelihood (SEM- ML). Notwithstanding, this approach still shows some weaknesses. In this respect, some new improvements are proposed. Furthermore, PLS path modeling can be used for analyzing multiple tables so as to be related to more classical data analysis methods used in this eld. Finally, a complete treatment of a real example is shown through the available software.},
pages = {159--205},
volume = {48},
year = {2005},
date-added = {2010-01-19 15:58:46 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tenenhaus-2005-Computational%20Statistics_PLS%20path%20modeling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4080},
rating = {0}
}
@article{Casey:2010p8821,
author = {B J Casey and Rebecca M Jones and Liat Levita and Victoria Libby and Siobhan S Pattwell and Erika J Ruberry and Fatima Soliman and Leah H Somerville},
journal = {Developmental psychobiology},
title = {The storm and stress of adolescence: Insights from human imaging and mouse genetics},
abstract = {The characterization of adolescence as a time of "storm and stress" remains an open debate. Intense and frequent negative affect during this period has been hypothesized to explain the increased rates of affective disorders, suicide, and accidental death during this time of life. Yet some teens emerge from adolescence with minimal turmoil. We provide a neurobiological model of adolescence that proposes an imbalance in the development of subcortical limbic (e.g., amygdala) relative to prefrontal cortical regions as a potential mechanism for heightened emotionality during this period. Empirical support for this model is provided from recent behavioral and human imaging studies on the development of emotion regulation. We then provide examples of environmental factors that may exacerbate imbalances in amygdala-ventrofrontal function increasing risk for anxiety related behaviors. Finally we present data from human and mouse studies to illustrate how genetic factors may enhance or diminish this risk. Together, these studies provide a converging methods approach for understanding the highly variable stress and turmoil experienced in adolescence. (c) 2010 Wiley Periodicals, Inc.},
affiliation = {Sackler Institute for Developmental Psychobiology, Weil Cornell Medical College, 1300 York Avenue, Box 140, New York, NY 10065.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-22 12:30:48 +0100},
date-modified = {2010-03-22 12:30:55 +0100},
doi = {10.1002/dev.20447},
pmid = {20222060},
url = {http://www3.interscience.wiley.com/journal/123317425/abstract?CRETRY=1&SRETRY=0},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Casey-2010-Developmental%20psychobiology_The%20storm%20and%20stress.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8821},
rating = {0}
}
@article{Schlaepfer:2007p9650,
author = {Isabel R Schlaepfer and Hilary V Clegg and Robin P Corley and Thomas J Crowley and John K Hewitt and Christian J Hopfer and Kenneth Krauter and Jeffrey Lessem and Soo Hyun Rhee and Michael C Stallings and Jeanne M Wehner and Susan E Young and Marissa A Ehringer},
journal = {Addict Biol},
title = {The human protein kinase C gamma gene (PRKCG) as a susceptibility locus for behavioral disinhibition},
abstract = {This study explores the association between a highly heritable behavioral disinhibition phenotype and the protein kinase C gamma (PRKCG) gene in an ethnically diverse youth sample from Colorado, USA. The rationale for this study was based on the impulsive behavior and increased ethanol consumption observed in the protein kinase C gamma (PKC-gamma)-deficient mouse model. Two composite behavioral disinhibition phenotypes and their component behavioral scores [conduct disorder, attention-deficit hyperactivity disorder (ADHD), substance experimentation (SUB) and novelty-seeking] were examined for association with five independent PRKCG single nucleotide polymorphisms (SNPs). Association analysis for the five individual SNPs revealed modest genetic association of Exon 14 (rs2242244) and Upstream (rs307941) markers with the behavioral disinhibition composite variables in the combined, Hispanic and African-American samples. Additionally, haplotype-based association analysis for two SNPs located in Intron 3 (rs402691) and Exon 6 (rs3745406) indicated a significant overall association of the PRKCG locus with the ADHD-hyperactive subscale scores in the combined and Caucasian samples, supporting the relation between impulsive behaviors and the PRKCG gene. A significant haplotype association was also observed with SUB scores but only in the Hispanic ethnic group, highlighting the marker variability for each ethnic group. In conclusion, our results support the role of the PKC-gamma enzyme in behavioral impulsivity previously observed in mice. This study provides the first exploration of the PRKCG gene and its association with behavioral disinhibition and warrants further study in other larger population samples.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, USA, and Department of Integrative Physiology, University of Colorado, Boulder, CO 80309, USA. Isabel.Schlaepfer@colorado.edu},
number = {2},
pages = {200--9},
volume = {12},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Substance-Related Disorders, Adolescent, Haplotypes, Attention Deficit Disorder with Hyperactivity, Inhibition (Psychology), Female, Chromosome Mapping, Exploratory Behavior, Antisocial Personality Disorder, Humans, Protein Kinase C, European Continental Ancestry Group, Linkage Disequilibrium, Hispanic Americans, Male, Polymorphism: Single Nucleotide, Gene Frequency, Impulsive Behavior, African Continental Ancestry Group, Adult, Conduct Disorder, Genetic Predisposition to Disease, Phenotype},
date-added = {2010-03-25 14:57:31 +0100},
date-modified = {2010-03-25 14:57:31 +0100},
doi = {10.1111/j.1369-1600.2007.00063.x},
pii = {ADB063},
pmid = {17508994},
url = {http://www3.interscience.wiley.com/journal/118498427/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9650},
rating = {0}
}
@article{Fabbro:2007p7762,
author = {Thomas Fabbro and Anthony C Davison and Thomas Steinger},
journal = {Theor Appl Genet},
title = {Reliable confidence intervals in quantitative genetics: narrow-sense heritability},
abstract = {Many quantitative genetic statistics are functions of variance components, for which a large number of replicates is needed for precise estimates and reliable measures of uncertainty, on which sound interpretation depends. Moreover, in large experiments the deaths of some individuals can occur, so methods for analysing such data need to be robust to missing values. We show how confidence intervals for narrow-sense heritability can be calculated in a nested full-sib/half-sib breeding design (males crossed with several females) in the presence of missing values. Simulations indicate that the method provides accurate results, and that estimator uncertainty is lowest for sampling designs with many males relative to the number of females per male, and with more females per male than progenies per female. Missing data generally had little influence on estimator accuracy, thus suggesting that the overall number of observations should be increased even if this results in unbalanced data. We also suggest the use of parametrically simulated data for prior investigation of the accuracy of planned experiments. Together with the proposed confidence intervals an informed decision on the optimal sampling design is possible, which allows efficient allocation of resources.},
affiliation = {Department of Biology, University of Fribourg, 1700, Fribourg, Switzerland. thomas.fabbro@unibas.ch},
number = {7},
pages = {933--44},
volume = {115},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Genetics: Population, Models: Statistical, Female, Analysis of Variance, Humans, Male, Confidence Intervals, Models: Genetic},
date-added = {2010-03-17 20:57:43 +0100},
date-modified = {2010-03-17 20:57:43 +0100},
doi = {10.1007/s00122-007-0619-9},
pmid = {17874063},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7762},
rating = {0}
}
@article{E-V-Smith:2006,
author = {Jr E V Smith},
journal = {Applied Psychological Measurement},
title = {Book Review: Developing and Validating Multiple-Choice Test Items (3rd ed.)},
pages = {69--72},
volume = {30},
year = {2006},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/E%20V%20Smith-2006-Applied%20Psychological%20Measurement_Book%20Review%20Develop.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1871},
rating = {0}
}
@article{Vacha-Haase:1998,
author = {T Vacha-Haase},
journal = {Educational and Psychological Measurement},
title = {Reliability generalization: Exploring variance in measurement error affecting score reliability across studies},
pages = {6--20},
volume = {58},
year = {1998},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2117},
rating = {0}
}
@article{Ashby:1982p14108,
author = {F G Ashby},
journal = {Mem Cognit},
title = {Testing the assumptions of exponential, additive reaction time models},
number = {2},
pages = {125--34},
volume = {10},
year = {1982},
month = {Mar},
language = {eng},
keywords = {Humans, Models: Psychological, Cognition, Reaction Time},
date-added = {2010-08-18 13:14:16 +0200},
date-modified = {2010-08-18 13:14:16 +0200},
pmid = {7087775},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ashby-1982-Mem%20Cognit_Testing%20the%20assumpti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14108},
rating = {0}
}
@article{Toulopoulou:2007p5245,
author = {Timothea Toulopoulou and Marco Picchioni and Fruhling Rijsdijk and Mei Hua-Hall and Ulrich Ettinger and Pak Sham and Robin Murray},
journal = {Arch Gen Psychiatry},
title = {Substantial genetic overlap between neurocognition and schizophrenia: genetic modeling in twin samples},
abstract = {CONTEXT: The use of endophenotypes, biological traits that increase the liability to a disorder, represents one strategy to facilitate the detection of susceptibility genes for complex behavioral disorders such as schizophrenia. Establishing that a candidate trait is both heritable and linked genetically to schizophrenia is integral to its validity as an endophenotypic marker. Neurocognitive deficits are among the most promising indicators of increased risk for schizophrenia; however, it is not clear to what extent these deficits are genetically linked to the disorder. OBJECTIVES: To quantify the genetic and environmental contributions to the variability of selected neurocognitive measures and to estimate the genetic relationship between these and schizophrenia. DESIGN: Genetic model fitting to monozygotic and dizygotic twin data. SETTING: United Kingdom psychiatric research institute. PARTICIPANTS: Two hundred sixty-seven monozygotic and dizygotic twins concordant and discordant for schizophrenia, and healthy monozygotic and dizygotic control twin pairs. MAIN OUTCOME MEASURES: The heritabilities of intelligence, working memory, processing speed, perceptual organization, and verbal comprehension were estimated, and the genetic relationship between each of these and schizophrenia was quantified. RESULTS: Genetic influences contributed substantially to all of the cognitive domains, but intelligence and working memory were the most heritable. A significant correlation was found between intelligence and schizophrenia (r = -0.61; 95% confidence interval, -0.71 to -0.48), with shared genetic variance accounting for 92% of the covariance between the two. Genetic influences also explained most of the covariance between working memory and schizophrenia. Significant but lesser portions of covariance between the other cognitive domains and schizophrenia were also found to be genetically shared. Environmental effects, although separately linked to neurocognition and schizophrenia, did not generally contribute to their covariance. CONCLUSION: Genomewide searches using factorial designs stratifying for levels of intelligence and working memory will assist in the search for finding quantitative trait loci for schizophrenia.},
affiliation = {Department of Psychiatry, Harvard Medical School, Boston, Massachusetts, USA. t.toulopoulou@iop.kcl.ac.uk},
number = {12},
pages = {1348--55},
volume = {64},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Twins: Monozygotic, Middle Aged, Genetic Predisposition to Disease, Female, Cognition Disorders, Twins: Dizygotic, Male, Brain, Humans, Wechsler Scales, Twins, Schizophrenia, Phenotype, Adult, Questionnaires},
date-added = {2010-02-09 22:24:43 +0100},
date-modified = {2010-02-09 22:24:44 +0100},
doi = {10.1001/archpsyc.64.12.1348},
pii = {64/12/1348},
pmid = {18056542},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5245},
rating = {0}
}
@article{ShariffMarco:2010p10586,
author = {Salma Shariff-Marco and Gilbert C Gee and Nancy Breen and Gordon Willis and Bryce B Reeve and David Grant and Ninez A Ponce and Nancy Krieger and Hope Landrine and David R Williams and Margarita Alegria and Vickie M Mays and Timothy P Johnson and E Richard Brown},
journal = {Ethn Dis},
title = {A mixed-methods approach to developing a self-reported racial/ethnic discrimination measure for use in multiethnic health surveys},
abstract = {OBJECTIVE: The development of measures of self-reported racial/ethnic discrimination is an active area of research, but few measures have been validated across multiple racial/ethnic and language groups. Our goal is to develop and evaluate a discrimination measure that is appropriate for use in surveys of racially and ethnically diverse populations. METHODS: To develop our measure, we employ a mixed-methods approach for survey research, drawing from both qualitative and quantitative traditions, including literature review, cognitive testing, psychometric analyses, behavior coding as well as two rounds of field testing using a split-sample design. We tested our new measure using two different approaches to elicit self-reported experiences of racial/ethnic discrimination. RESULTS: Our new measure captures four dimensions of racial/ethnic discrimination: 1) frequency of encounters with discrimination across several domains (eg, medical care, school, work, street and other public places); 2) timing of exposure (eg recent, lifetime); 3) appraisal of discrimination as stressful; and 4) responses to discrimination. CONCLUSIONS: Because of the growing interest in measurement of racial/ethnic discrimination in health surveys, we think this report on the methods informing the development and testing of the discrimination module that will be used on the California Health Interview Survey would be useful to other researchers. The application of mixed methods to rigorously test the validity and reliability of our instrument proves to be a good roadmap for measuring racial/ethnic discrimination in multicultural and multilingual populations.},
affiliation = {Applied Research Program, Division of Cancer Control and Population Sciences, National Cancer Institute, Bethesda, MD 20892-7344, USA. shariffs@mail.nih.gov},
number = {4},
pages = {447--53},
volume = {19},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Cross-Cultural Comparison, Ethnic Groups, Prejudice, Humans, Psychometrics, Health Surveys, Data Collection},
date-added = {2010-04-07 11:40:34 +0200},
date-modified = {2010-07-29 19:26:06 +0200},
pmid = {20073147},
url = {http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Retrieve&list_uids=20073147&dopt=abstractplus},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shariff-Marco-2010-Ethn%20Dis_A%20mixed-methods%20appr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10586},
rating = {0}
}
@article{Seminara:2007p9155,
author = {Daniela Seminara and Muin J Khoury and Thomas R O'Brien and Teri Manolio and Marta L Gwinn and Julian Little and Julian P T Higgins and Jonine L Bernstein and Paolo Boffetta and Melissa Bondy and Molly S Bray and Paul E Brenchley and Patricia A Buffler and Juan Pablo Casas and Anand P Chokkalingam and John Danesh and George Davey Smith and Siobhan Dolan and Ross Duncan and Nelleke A Gruis and Mia Hashibe and David Hunter and Marjo-Riitta Jarvelin and Beatrice Malmer and Demetrius M Maraganore and Julia A Newton-Bishop and Elio Riboli and Georgia Salanti and Emanuela Taioli and Nic Timpson and Andr{\'e} G Uitterlinden and Paolo Vineis and Nick Wareham and Deborah M Winn and Ron Zimmern and John P A Ioannidis and Human Genome Epidemiology Network and Network of Investigator Networks},
journal = {Epidemiology},
title = {The emergence of networks in human genome epidemiology: challenges and opportunities},
affiliation = {Epidemiology and Genetics Research Branch, Division of Cancer Control and Population Sciences, National Cancer Institute, NIH, EPN Bldg., Rm. 5142, MSC 7393, 6130 Executive Blvd., Bethesda, MD 20892, USA. seminard@mail.nih.gov},
number = {1},
pages = {1--8},
volume = {18},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Internet, Genome: Human, Humans, Epidemiologic Methods, Information Services},
date-added = {2010-03-22 13:33:43 +0100},
date-modified = {2010-03-22 13:33:44 +0100},
doi = {10.1097/01.ede.0000249540.17855.b7},
pii = {00001648-200701000-00001},
pmid = {17179752},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Seminara-2007-Epidemiology_The%20emergence%20of%20net.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9155},
rating = {0}
}
@misc{Linardakis:1996,
author = {Michalis Linardakis and Petros Dellaportas},
journal = {Miscellaneous},
title = {An approach to multidimensional item response modeling},
year = {1996},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Linardakis-1996-Miscellaneous_An%20approach%20to%20multi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2042},
rating = {0}
}
@article{Hamon:2010p3629,
author = {A Hamon and M Mesbah},
title = {De la th{\'e}orie classique {\`a} la th{\'e}orie psychom{\'e}trique moderne},
abstract = {In a previous paper, M. Mesbah has presented the classical psychometric theory. In this paper we present an alternative statistical approache to evaluate the psychometric properties of a questionnaire for assessment of subjective variables. More recently, modern response theory gives a better statistical framework to deal with unidimensionnal latent traits. These models describe the probability of positive answer to an item as a function of the actual value of the latent trait and an item parameter. We expose the principles of the Rasch model: hypothesis, estimations methods and fit tests. Finally practical applications to the validation process of a questionnaire are explored with data from a study of a short french version of the SIP questionnaire.},
date-added = {2010-01-16 19:16:56 +0100},
date-modified = {2010-01-16 19:17:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamon--_De%20la%20the%CC%81orie%20class.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3629},
rating = {0}
}
@article{Boshuizen:2009p11778,
author = {Hendriek C Boshuizen and Pieter H M van Baal},
journal = {Value Health},
title = {Probabilistic Sensitivity Analysis: Be a Bayesian},
abstract = {ABSTRACT Objective: To give guidance in defining probability distributions for model inputs in probabilistic sensitivity analysis (PSA) from a full Bayesian perspective. Methods: A common approach to defining probability distributions for model inputs in PSA on the basis of input-related data is to use the likelihood of the data on an appropriate scale as the foundation for the distribution around the inputs. We will look at this approach from a Bayesian perspective, derive the implicit prior distributions in two examples (proportions and relative risks), and compare these to alternative prior distributions. Results: In cases where data are sparse (in which case sensitivity analysis is crucial), commonly used approaches can lead to unexpected results. Weshow that this is because of the prior distributions that are implicitly assumed, namely that these are not as "uninformative" or "vague" as believed. We propose priors that we believe are more sensible for two examples and which are just as easy to apply. Conclusions: Input probability distributions should not be based on the likelihood of the data, but on the Bayesian posterior distribution calculated from this likelihood and an explicitly stated prior distribution.},
affiliation = {National Institute of Public Health and the Environment (RIVM), Bilthoven, The Netherlands.},
pages = {},
year = {2009},
month = {Aug},
language = {ENG},
date-added = {2010-05-23 10:40:25 +0200},
date-modified = {2010-05-23 10:40:25 +0200},
doi = {10.1111/j.1524-4733.2009.00590.x},
pii = {VHE590},
pmid = {19695002},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boshuizen-2009-Value%20Health_Probabilistic%20Sensit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11778},
rating = {0}
}
@article{Conrod:2006p1372,
author = {Patricia J Conrod and Sherry H Stewart and Nancy Comeau and A Michael Maclean},
journal = {J Clin Child Adolesc Psychol},
title = {Efficacy of cognitive-behavioral interventions targeting personality risk factors for youth alcohol misuse},
abstract = {Sensation seeking, anxiety sensitivity, and hopelessness are personality risk factors for alcohol use disorders, each associated with specific risky drinking motives in adolescents. We developed a set of interventions and manuals that were designed to intervene at the level of personality risk and associated maladaptive coping strategies, including alcohol misuse. Manuals contained psychoeducational information on the target personality risk factor and how it is associated with maladaptive coping, as well as exercises targeting maladaptive cognitions and behaviors specific to each personality type. We tested the efficacy of these novel interventions on reducing drinking behavior by randomly assigning 297 Canadian high school students (56% girls, mean age 16, mean grade 11) to personality-targeted interventions (group format; 2 sessions) or to a no-treatment control group. Intent-to-treat analyses indicated beneficial effects of the intervention and Intervention x Personality interactions on drinking rates, drinking quantity, binge drinking, and problem drinking symptoms at 4-month follow-up.},
affiliation = {Department of Psychological Medicine and Psychiatry, Section of Addiction, King's College London, University of London, London, UK. p.conrod@iop.kcl.ac.uk},
number = {4},
pages = {550--63},
volume = {35},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Risk Factors, Male, Female, Anxiety Disorders, Drinking Behavior, Cognitive Therapy, Humans, Sex Distribution, Follow-Up Studies, Risk-Taking, Treatment Outcome, Personality Disorders, Personality Assessment, Adolescent, Adolescent Behavior, Adaptation: Psychological, Canada, Alcoholism},
date-added = {2010-01-07 12:16:12 +0100},
date-modified = {2010-05-11 22:13:55 +0200},
doi = {10.1207/s15374424jccp3504_6},
pmid = {17007600},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Conrod-2006-J%20Clin%20Child%20Adolesc%20Psychol_Efficacy%20of%20cognitiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1372},
read = {Yes},
rating = {4}
}
@article{Hornik:2005p12025,
author = {K Hornik},
journal = {Journal of Statistical Software},
title = {A CLUE for CLUster Ensembles},
abstract = {Cluster ensembles are collections of individual solutions to a given clustering problem which are useful or necessary to consider in a wide range of applications. The R pack- age clue provides an extensible computational environment for creating and analyzing cluster ensembles, with basic data structures for representing partitions and hierarchies, and facilities for computing on these, including methods for measuring proximity and obtaining consensus and ``secondary'' clusterings.},
number = {12},
volume = {14},
year = {2005},
date-added = {2010-05-24 10:16:40 +0200},
date-modified = {2010-05-24 10:17:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hornik-2005-Journal%20of%20Statistical%20Software_A%20CLUE%20for%20CLUster%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12025},
rating = {5}
}
@article{Rane:2010p12098,
author = {L J Rane and A Fekadu and S Wooderson and L Poon and K Markopoulou and A J Cleare},
journal = {J Psychiatr Res},
title = {Discrepancy between subjective and objective severity in treatment-resistant depression: Prediction of treatment outcome},
abstract = {OBJECTIVE: Identifying predictors of outcome among patients with treatment-resistant depression (TRD) is challenging. We hypothesised that discrepancy between self-rated and observer-rated scales may be a simple way of making such a prediction. METHOD: 102 patients were admitted to a unit specialising in the treatment of resistant depression and underwent fortnightly assessment with clinician-rated (Hamilton Depression Rating Scale-21, HAM-D) and self-rated (Beck Depression Inventory, BDI) measures. All patients had significant depressive symptoms that were treatment resistant, 70% as part of a major depressive disorder and the remainder as part of a bipolar or other disorder. A discrepancy score between the HAM-D and BDI was calculated on admission and its association with patient clinico-demographic factors was determined. A subset of 67 patients remained as inpatients for 40 weeks or until clinical response and were entered into a responder analysis, in which response was defined as >/=50% reduction in admission HAM-D score. The association of the admission BDI-HAM-D discrepancy score with subsequent patient response, was determined. RESULTS: The magnitude of BDI-HAM-D discrepancy was higher in those with co-morbid personality disorder, lower in those with psychosis and positively correlated with anxiety. High BDI-HAM-D discrepancy score predicted delayed treatment response (odds ratio 5.40, p = 0.005). CONCLUSION: Within TRD, higher discrepancy predicts slower response to treatment independent of objective illness severity; this may be mediated by underlying personality traits and co-morbid anxiety.},
affiliation = {King's College London, Institute of Psychiatry, Division of Psychological Medicine and Psychiatry, Section of Neurobiology of Mood Disorders, 103 Denmark Hill, London SE5 8AZ, UK; The National Affective Disorder Unit, South London and Maudsley NHS Foundation Trust, UK.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-24 12:37:55 +0200},
date-modified = {2010-05-24 12:37:55 +0200},
doi = {10.1016/j.jpsychires.2010.03.020},
pii = {S0022-3956(10)00109-3},
pmid = {20471031},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rane-2010-J%20Psychiatr%20Res_Discrepancy%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12098},
rating = {0}
}
@article{Takane:2003p1752,
author = {Y Takane},
title = {Relationships among Various Kinds of Eigenvalue and Singular Value Decompositions},
abstract = {Eigenvalue decomposition (EVD) and/or singular value decomposition (SVD) play important roles in many multivariate data analysis techniques as com- putational tools for dimension reduction. A variety of EVD and SVD have been developed to deal with specific kinds of dimension reduction problems. This paper explicates various relationships among those decompositions with the prospect of exploiting them in practical applications of multivariate analysis.},
affiliation = {McGill University, 1205 Dr. Penfield Avenue Montreal QC H3A 1B1},
year = {2003},
date-added = {2010-01-09 20:58:32 +0100},
date-modified = {2010-01-09 20:59:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-2003-_Relationships%20among.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1752},
rating = {0}
}
@article{Aickin:1996p384,
author = {M Aickin and H Gensler},
journal = {Am J Public Health},
title = {Adjusting for multiple testing when reporting research results: the Bonferroni vs Holm methods},
abstract = {Public health researchers are sometimes required to make adjustments for multiple testing in reporting their results, which reduces the apparent significance of effects and thus reduces statistical power. The Bonferroni procedure is the most widely recommended way of doing this, but another procedure, that of Holm, is uniformly better. Researchers may have neglected Holm's procedure because it has been framed in terms of hypothesis test rejection rather than in terms of P values. An adjustment to P values based on Holm's method is presented in order to promote the method's use in public health research.},
affiliation = {Arizona Cancer Center, University of Arizona, Tucson 85724, USA.},
number = {5},
pages = {726--8},
volume = {86},
year = {1996},
month = {May},
language = {eng},
keywords = {Public Health, Humans, Biometry, Mice, Research, Animals, Skin Neoplasms},
date-added = {2010-01-03 11:52:41 +0100},
date-modified = {2010-01-03 11:52:41 +0100},
pmid = {8629727},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aickin-1996-Am%20J%20Public%20Health_Adjusting%20for%20multip.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p384},
rating = {0}
}
@article{Finch:2009p533,
author = {W Holmes Finch and Teresa Davenport},
journal = {Methodology},
title = {Performance of Monte Carlo Permutation and Approximate Tests for Multivariate Means Comparisons With Small Sample Sizes When Parametric Assumptions are Violated},
abstract = {Permutation testing has been suggested as an alternative to the standard F approximate tests used in multivariate analysis of variance (MANOVA). These approximate tests, such as Wilks' Lambda and Pillai's Trace, have been shown to perform poorly when assumptions of normally distributed dependent variables and homogeneity of group covariance matrices were violated. Because Monte Carlo permutation tests do not rely on distributional assumptions, they may be expected to work better than their approximate cousins when the data do not conform to the assumptions described above. The current simulation study compared the performance of four standard MANOVA test statistics with their Monte Carlo permutation-based counterparts under a variety of conditions with small samples, including conditions when the assumptions were met and when they were not. Results suggest that for sample sizes of 50 subjects, power is very low for all the statistics. In addition, Type I error rates for both the approximate F and Monte Carlo tests were inflated under the condition of nonnormal data and unequal covariance matrices. In general, the performance of the Monte Carlo permutation tests was slightly better in terms of Type I error rates and power when both assumptions of normality and homogeneous covariance matrices were not met. It should be noted that these simulations were based upon the case with three groups only, and as such results presented in this study can only be generalized to similar situations.},
affiliation = {Ball State University, IN},
number = {2},
pages = {60--70},
volume = {5},
year = {2009},
keywords = {assumption violations, Roy's Greatest Root, MANOVA, permutation tests, Pillai's Trace},
date-added = {2010-01-03 13:47:00 +0100},
date-modified = {2010-07-29 20:04:05 +0200},
doi = {10.1027/1614-2241.5.2.60},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Finch-2009-Methodology_Performance%20of%20Monte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p533},
rating = {0}
}
@article{Crawford:2003p5493,
author = {John R Crawford and Julie D Henry},
journal = {Br J Clin Psychol},
title = {The Depression Anxiety Stress Scales (DASS): normative data and latent structure in a large non-clinical sample},
abstract = {OBJECTIVES: To provide UK normative data for the Depression Anxiety and Stress Scale (DASS) and test its convergent, discriminant and construct validity. DESIGN: Cross-sectional, correlational and confirmatory factor analysis (CFA). METHODS: The DASS was administered to a non-clinical sample, broadly representative of the general adult UK population (N = 1,771) in terms of demographic variables. Competing models of the latent structure of the DASS were derived from theoretical and empirical sources and evaluated using confirmatory factor analysis. Correlational analysis was used to determine the influence of demographic variables on DASS scores. The convergent and discriminant validity of the measure was examined through correlating the measure with two other measures of depression and anxiety (the HADS and the sAD), and a measure of positive and negative affectivity (the PANAS). RESULTS: The best fitting model (CFI =.93) of the latent structure of the DASS consisted of three correlated factors corresponding to the depression, anxiety and stress scales with correlated error permitted between items comprising the DASS subscales. Demographic variables had only very modest influences on DASS scores. The reliability of the DASS was excellent, and the measure possessed adequate convergent and discriminant validity Conclusions: The DASS is a reliable and valid measure of the constructs it was intended to assess. The utility of this measure for UK clinicians is enhanced by the provision of large sample normative data.},
affiliation = {Department of Psychology, King's College, University of Aberdeen, UK. j.crawford@abdn.ac.uk},
number = {Pt 2},
pages = {111--31},
volume = {42},
year = {2003},
month = {Jun},
language = {eng},
keywords = {Cross-Sectional Studies, Female, Depressive Disorder, Middle Aged, Aged: 80 and over, Adult, Reference Values, Reproducibility of Results, Adolescent, Stress: Psychological, Sensitivity and Specificity, Aged, Anxiety, Humans, Demography, Psychiatric Status Rating Scales, Male, Factor Analysis: Statistical},
date-added = {2010-02-12 14:45:00 +0100},
date-modified = {2010-02-12 14:45:00 +0100},
doi = {10.1348/014466503321903544},
pmid = {12828802},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5493},
rating = {0}
}
@article{Serovich:2008p5647,
author = {Julianne M Serovich and Ji-Young Lim and Tina L Mason},
journal = {Health Soc Work},
title = {A retest of two HIV disclosure theories: the women's story},
abstract = {The purpose of this study was to evaluate the applicability of two theories of HIV disclosure previously tested with men. Participants included 125 HIV-positive women enrolled in a larger, longitudinal study of HIV disclosure and mental health. Structural equation modeling was used to analyze the proposed theoretical models. The disease progression model contained two single-indicator exogenous variables (disease progression) and one endogenous latent variable (disclosure). The original consequences model contained two single-indicator exogenous variables (disease progression), two single-indicator endogenous variables (consequences), and one endogenous latent variable (disclosure). The revised consequences model contained two single-indicator exogenous variables (consequences) and one endogenous latent variable (disclosure). The results of this study support the revised consequences theory and an earlier claim that disease progression may not be a direct predictor of HIV disclosure. This suggests that women may evaluate the consequences of disclosure to family and friends, particularly the reward, before the disclosure occurs.},
affiliation = {Department of Human Development and Family Science, Ohio State University, Columbus 43210, USA. serovich.1@osu.edu},
number = {1},
pages = {23--31},
volume = {33},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Humans, United States, Longitudinal Studies, Female, Truth Disclosure, HIV Infections, Adolescent, Questionnaires, Disease Progression, Models: Theoretical, Middle Aged, Adult},
date-added = {2010-02-12 20:19:30 +0100},
date-modified = {2010-02-12 20:19:30 +0100},
pmid = {18326447},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5647},
rating = {0}
}
@article{Hollo:2002p7935,
author = {Outi Hollo and P{\"a}ivi Rautava and Tapio Korhonen and Hans Helenius and Pentti Kero and Matti{\"a} Sillanp{\"a}{\"a}},
journal = {Arch Pediatr Adolesc Med},
title = {Academic achievement of small-for-gestational-age children at age 10 years},
abstract = {OBJECTIVES: To provide current information on the academic achievement of small-for-gestational-age (SGA) children at age 10 years, to analyze predictors, and to evaluate the smallness of a newborn as a risk factor for school failure. DESIGN: Prospective, population-based birth cohort study with 10-year follow-up. PARTICIPANTS: The SGA group consisted of 106 children born in 1985 whose birth weight had been below the 2.5th percentile on the population-based fetal growth chart. The control group consisted of 105 appropriate-for-gestational-age (AGA) children born as closely as possible in time to SGA infants and matched for gestational age and mode of delivery. Both groups were evaluated at age 10 years. MAIN OUTCOME MEASURE: Academic achievement. RESULTS: Twenty-five percent of SGA children were school failures (vs 14% of AGA children; P =.05). There were significantly more SGA than AGA children with unfavorable backgrounds and deficient performances associated with poor academic achievement. Independent predictors of poor academic achievement in SGA and AGA children were inattention-passiveness as rated by their teachers (masked to grouping; corresponding to a 1-point increase in inattention-passiveness score: odds ratio, 5.1; 95% confidence interval, 2.1-12.1), a low verbal IQ score (psychologists masked; corresponding to a 10-point decrease in IQ score: odds ratio, 3.2; 95% confidence interval, 1.6-6.2), and restlessness at the follow-up visit (one examiner masked and the other not; odds ratio, 14.3; 95% confidence interval, 2.1-97.3). CONCLUSION: Being SGA at birth has a clinically significant impact on the academic achievement of a 10-year-old child.},
affiliation = {Department of Public Health, University of Turku, Lemmink{\"a}isenkatu 1, FIN-20014 Turun Yliopisto, Finland. outi.hollo@utu.fi},
number = {2},
pages = {179--87},
volume = {156},
year = {2002},
month = {Feb},
language = {eng},
keywords = {Predictive Value of Tests, Intelligence Tests, Infant: Newborn, Infant: Small for Gestational Age, Humans, Prospective Studies, Child, Child Behavior, Educational Status, Social Class, Memory},
date-added = {2010-03-20 19:25:36 +0100},
date-modified = {2010-03-20 19:25:36 +0100},
pii = {poa10176},
pmid = {11814381},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hollo-2002-Arch%20Pediatr%20Adolesc%20Med_Academic%20achievement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7935},
rating = {0}
}
@article{Wilson:2003,
author = {M Wilson},
journal = {Methods of Psychological Research Online},
title = {On choosing a model for measuring},
number = {3},
pages = {1--22},
volume = {8},
year = {2003},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 19:40:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wilson-2003-Methods%20of%20Psychological%20Research%20Online_On%20choosing%20a%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2141},
rating = {0}
}
@article{Fjell:2004p4365,
author = {Anders M Fjell and Kristine B Walhovd},
journal = {Scand J Psychol},
title = {Thinking styles in relation to personality traits: an investigation of the Thinking Styles Inventory and NEO-PI-R},
abstract = {This study is an investigation of the Sternberg-Wagner Thinking Style Inventory (TSI), with regard to cross-cultural replication and relation to the five-factor personality model (FFM). TSI and NEO-PI-R were administered to 107 participants from USA and 114 participants from Norway. Inter-correlations between NEO-PI-R dimensions and TSI-scales and factors were not very strong, few exceeding 0.40, and the correlations were in predicted directions. Joint factor analyses of TSI and NEO-PI-R showed that TSI covers variance that NEO-PI-R does not explain. Thus, it is argued that the thinking styles give an independent contribution beyond FFM dimensions. However, TSI did not relate to FFM in the same manner in the two samples. Finally, the TSI-scales and factors were replicable across samples by Procrustes rotation. The question whether thinking style may be regarded as a valid and reliable construct is discussed.},
affiliation = {Institute of Psychology, University of Oslo, Norway. a.m.fjell@psykologi.uio.no},
number = {4},
pages = {293--300},
volume = {45},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Thinking, Personality, Norway, United States, Cross-Cultural Comparison, Personality Inventory, Factor Analysis: Statistical, Humans},
date-added = {2010-01-28 16:29:23 +0100},
date-modified = {2010-01-28 16:29:23 +0100},
doi = {10.1111/j.1467-9450.2004.00408.x},
pii = {SJOP408},
pmid = {15281918},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4365},
rating = {0}
}
@article{Whynes:2008p13552,
author = {David K Whynes and TOMBOLA Group},
journal = {Health Qual Life Outcomes},
title = {Correspondence between EQ-5D health state classifications and EQ VAS scores},
abstract = {BACKGROUND: The EQ-5D health-related quality of life instrument comprises a health state classification followed by a health evaluation using a visual analogue scale (VAS). The EQ-5D has been employed frequently in economic evaluations, yet the relationship between the two parts of the instrument remains ill-understood. In this paper, we examine the correspondence between VAS scores and health state classifications for a large sample, and identify variables which contribute to determining the VAS scores independently of the health states as classified. METHODS: A UK trial of management of low-grade abnormalities detected on screening for cervical pre-cancer (TOMBOLA) provided EQ-5D data for over 3,000 women. Information on distress and multi-dimensional health locus of control had been collected using other instruments. A linear regression model was fitted, with VAS score as the dependent variable. Independent variables comprised EQ-5D health state classifications, distress, locus of control, and socio-demographic characteristics. Equivalent EQ-5D and distress data, collected at twelve months, were available for over 2,000 of the women, enabling us to predict changes in VAS score over time from changes in EQ-5D classification and distress. RESULTS: In addition to EQ-5D health state classification, VAS score was influenced by the subject's perceived locus of control, and by her age, educational attainment, ethnic origin and smoking behaviour. Although the EQ-5D classification includes a distress dimension, the independent measure of distress was an additional determinant of VAS score. Changes in VAS score over time were explained by changes in both EQ-5D severities and distress. Women allocated to the experimental management arm of the trial reported an increase in VAS score, independently of any changes in health state and distress. CONCLUSION: In this sample, EQ VAS scores were predictable from the EQ-5D health state classification, although there also existed other group variables which contributed systematically and independently towards determining such scores. These variables comprised psychological disposition, socio-demographic factors such as age and education, clinically-important distress, and the clinical intervention itself. TRIAL REGISTRATION: ISRCTN34841617.},
affiliation = {School of Economics, University of Nottingham, Nottingham, UK. david.whynes@nottingham.ac.uk},
pages = {94},
volume = {6},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Smoking, Great Britain, Precancerous Conditions, Logistic Models, Psychometrics, Mass Screening, Middle Aged, Risk-Taking, Adult, Vaginal Smears, Algorithms, Uterine Cervical Neoplasms, Anxiety, Humans, Age Factors, Female, Selection Bias, Internal-External Control, Sickness Impact Profile, Demography, Educational Status, Pain Measurement},
date-added = {2010-07-07 21:14:35 +0200},
date-modified = {2010-07-07 21:14:35 +0200},
doi = {10.1186/1477-7525-6-94},
pii = {1477-7525-6-94},
pmid = {18992139},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Whynes-2008-Health%20and%20Quality%20of%20Life%20Outcomes_Correspondence%20betwe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13552},
rating = {0}
}
@article{Becker:2009p14303,
author = {Natalia Becker and Wiebke Werft and Grischa Toedt and Peter Lichter and Axel Benner},
journal = {Bioinformatics},
title = {penalizedSVM: a R-package for feature selection SVM classification},
abstract = {SUMMARY: Support vector machine (SVMs) classification is a widely used and one of the most powerful classification techniques. However, a major limitation is that SVM cannot perform automatic gene selection. To overcome this restriction, a number of penalized feature selection methods have been proposed. In the R package 'penalizedSVM' implemented penalization functions L(1) norm and Smoothly Clipped Absolute Deviation (SCAD) provide automatic feature selection for SVM classification tasks. AVAILABILITY: The R package 'penalizedSVM' is available from the Comprehensive R Archive Network (http://cran.r-project.org/) under GPL-2 or later.},
affiliation = {Division Molecular Genetics and Division Biostatistics, Heidelberg, Germany. natalia.becker@dkfz.de},
number = {13},
pages = {1711--2},
volume = {25},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Gene Regulatory Networks, Artificial Intelligence, Gene Expression Profiling, Software, Databases: Genetic, Algorithms, Computational Biology, Classification},
date-added = {2010-08-24 14:21:04 +0200},
date-modified = {2010-08-24 14:23:53 +0200},
doi = {10.1093/bioinformatics/btp286},
pii = {btp286},
pmid = {19398451},
url = {http://bioinformatics.oxfordjournals.org/cgi/content/full/25/13/1711?view=long&pmid=19398451},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Becker-2009-Bioinformatics_penalizedSVM%20a%20R-pa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14303},
rating = {3}
}
@article{Lau:2008p3508,
author = {Christopher Lau and Lydia Ng and Carol Thompson and Sayan Pathak and Leonard Kuan and Allan Jones and Mike Hawrylycz},
journal = {BMC Bioinformatics},
title = {Exploration and visualization of gene expression with neuroanatomy in the adult mouse brain},
abstract = {BACKGROUND: Spatially mapped large scale gene expression databases enable quantitative comparison of data measurements across genes, anatomy, and phenotype. In most ongoing efforts to study gene expression in the mammalian brain, significant resources are applied to the mapping and visualization of data. This paper describes the implementation and utility of Brain Explorer, a 3D visualization tool for studying in situ hybridization-based (ISH) expression patterns in the Allen Brain Atlas, a genome-wide survey of 21,000 expression patterns in the C57BL\6J adult mouse brain. RESULTS: Brain Explorer enables users to visualize gene expression data from the C57Bl/6J mouse brain in 3D at a resolution of 100 microm3, allowing co-display of several experiments as well as 179 reference neuro-anatomical structures. Brain Explorer also allows viewing of the original ISH images referenced from any point in a 3D data set. Anatomic and spatial homology searches can be performed from the application to find data sets with expression in specific structures and with similar expression patterns. This latter feature allows for anatomy independent queries and genome wide expression correlation studies. CONCLUSION: These tools offer convenient access to detailed expression information in the adult mouse brain and the ability to perform data mining and visualization of gene expression and neuroanatomy in an integrated manner.},
affiliation = {Allen Institute for Brain Science, Seattle, WA, USA. chrisl@alleninstitute.org},
pages = {153},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Brain, Nerve Tissue Proteins, Computer Simulation, Animals, Computer Graphics, Models: Anatomic, Software, Tissue Distribution, Mice, Models: Biological, Mice: Inbred C57BL, Gene Expression, User-Computer Interface, Oligonucleotide Array Sequence Analysis, Gene Expression Profiling},
date-added = {2010-01-15 15:45:27 +0100},
date-modified = {2010-01-15 15:45:27 +0100},
doi = {10.1186/1471-2105-9-153},
pii = {1471-2105-9-153},
pmid = {18366675},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3508},
rating = {0}
}
@article{Kaelbling:1996p3646,
author = {L P Kaelbling and M L Littman and A W Moore},
journal = {Journal of Artificial Intelligence Research},
title = {Reinforcement learning: A survey},
pages = {237--285},
volume = {4},
year = {1996},
date-added = {2010-01-16 19:50:36 +0100},
date-modified = {2010-01-16 19:53:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kaelbling-1996-Journal%20of%20Artificial%20Intelligence%20Research_Reinforcement%20learni.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3646},
rating = {0}
}
@article{Niitsuma:2010p1670,
author = {H Niitsuma and T Okada},
title = {Covariance and PCA for Categorical Variables},
abstract = {Covariances from categorical variables are defined using a regular simplex expression for categories. The method follows the vari- ance definition by Gini, and it gives the covariance as a solution of si- multaneous equations using the Newton method. The calculated results give reasonable values for test data. A method of principal component analysis (RS-PCA) is also proposed using regular simplex expressions, which allows easy interpretation of the principal components.},
affiliation = {Department of Informatics, Kwansei Gakuin University, 2-1 Gakuen-cho, Sanda 669-1323, Japan},
date-added = {2010-01-08 22:15:07 +0100},
date-modified = {2010-01-08 22:16:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Niitsuma--_Covariance%20and%20PCA%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1670},
rating = {0}
}
@article{Kreiner:2001p1835,
author = {S Kreiner and K B Christensen},
journal = {Statistical methods for measurement of subjective variables in health},
title = {Graphical rasch models},
abstract = {This paper defines a class of multivariate models combining features of Rasch type models with features of graphical interaction models into a common framework for analysis of criterion related construct validity and differential item functioning. Item analysis by Graphical Rasch models is illustrated with reanalysis of a summary Health scale counting numbers of experienced symptoms within the last six months.},
year = {2001},
keywords = {Partial Credit models, Rasch models, local independence, differential item functioning, item bias, Rating Scale models, graphical models},
date-added = {2010-01-09 23:03:42 +0100},
date-modified = {2010-01-09 23:06:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kreiner-2001-Statistical%20methods%20for%20measurement%20of%20subjective%20variables%20in%20health_Graphical%20rasch%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1835},
rating = {3}
}
@article{Pater:2004p6451,
author = {Cornel Pater},
journal = {Curr Control Trials Cardiovasc Med},
title = {Equivalence and noninferiority trials - are they viable alternatives for registration of new drugs? (III)},
abstract = {The scientific community's reliance on active-controlled trials is steadily increasing, as widespread agreement emerges concerning the role of these trials as viable alternatives to placebo trials. These trials present substantial challenges with regard to design and interpretation as their complexity increases, and the potential need for larger sample sizes impacts the cost and time variables of the drug development process. The potential efficacy and safety benefits derived from these trials may never be demonstrated by other methods. Active-controlled trials can develop valuable data to inform both prescribers and patients about the dose- and time-dependent actions of any new drug and can contribute to the management and communication of risks associated with the relevant therapeutic products.},
affiliation = {Hannover, Germany. drcornelpater@aol.com},
number = {1},
pages = {8},
volume = {5},
year = {2004},
month = {Aug},
language = {ENG},
date-added = {2010-02-23 08:29:10 +0100},
date-modified = {2010-02-23 08:29:10 +0100},
doi = {10.1186/1468-6708-5-8},
pii = {1468-6708-5-8},
pmid = {15312236},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pater-2004-Curr%20Control%20Trials%20Cardiovasc%20Med_Equivalence%20and%20noni.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6451},
rating = {0}
}
@article{Hemker:2000aa,
author = {B T Hemker and L Andries van der Ark and K Sijtsma},
title = {On Measurement Properties of Continuation Ratio Models},
abstract = {Three classes of polytomous IRT models are distinguished. These classes are the adjacent category models, the cumulative probability models, and the continuation ratio models. So far, the latter class has received relatively little attention. The class of continuation ratio models includes logistic models, such as the sequential model (Tutz, 1990), and non-logistic models, such as the acceleration model (Samejima, 1995) and the nonparametric sequential model (Hemker, 1996). Four measurement properties are discussed. These are monotone likelihood ratio of the total score, stochastic ordering of the latent trait by the total score, stochastic ordering of the total score by the latent trait, and invariant item ordering. These properties have been investigated previously for the adjacent category models and the cumulative probability models, and for the continuation ratio models this is done here. It is shown that stochastic ordering of the total score by the latent trait is implied by all continuation ratio models, while monotone likelihood ratio of the total score and stochastic ordering on the latent trait by the total score are not implied by any of the continuation ratio models. Only the sequential rating scale model implies the property of invariant item ordering. Also, we present a Venn-diagram showing the relationships between all known polytomous IRT models from all three classes.},
year = {2000},
month = {Nov},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hemker-2000-_On%20Measurement%20Prope.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1206},
rating = {0}
}
@article{Kermarrec:2006p5362,
author = {Solenn Kermarrec and Bernard Kabuth and Claude Bursztejn and Francis Guillemin},
journal = {Can J Psychiatry},
title = {French adaptation and validation of the helping alliance questionnaires for child, parents, and therapist},
abstract = {OBJECTIVES: To adapt the Helping Alliance Questionnaires for Child and Parents (HAQ-CP) into French and to assess their validity and reproducibility for use with the child, parent, and therapist. METHOD: First, the 3 US versions of the questionnaires were translated into French by 3 French-English bilingual translators (who were native speakers), and the translations were then discussed by an expert committee to ensure that the concept explored within the French context was efficiently targeted. Second, the psychometric properties of the French version were investigated in a cross-sectional, multicentre study. The questionnaires were completed by 148 children and adolescents, aged 9 years or older and with various conditions, who were followed in 3 university hospital outpatient clinics and 2 ambulatory psychiatry units, and also by their parents and therapists. RESULTS: The instruments were quick and easy to administer, and acceptability was good. All 3 versions proved unidimensional in factorial analysis (80% of variance was explained) with high internal construct validity (Cronbach's alpha = 0.8). Reproducibility was satisfactory (intraclass correlation coefficients were as follows: child, 0.84; parent, 0.84; and therapist, 0.87). Concordance of the 3 alliance assessments was moderate. CONCLUSION: This work provides child psychiatrists with a valid measure of the therapeutic alliance. Its predictive value, while recognized in adults, remains to be demonstrated in children.},
affiliation = {Service de psychiatrie de l'enfant et de l'adolescent, CHU Nancy, Vandoeuvre-L{\`e}s-Nancy, France.},
number = {14},
pages = {913--22},
volume = {51},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Questionnaires, Social Support, Translations, Cooperative Behavior, Female, Parents, Diagnostic and Statistical Manual of Mental Disorders, Humans, Male, Professional-Family Relations, Cross-Cultural Comparison, Child, Language, Reproducibility of Results},
date-added = {2010-02-11 09:10:59 +0100},
date-modified = {2010-07-29 19:22:45 +0200},
pmid = {17249634},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5362},
rating = {0}
}
@article{Wu:2010p4079,
author = {W W Wu},
journal = {Expert Systems with Applications},
title = {Linking Bayesian networks and PLS path modeling for causal analysis},
abstract = {Causal knowledge based on causal analysis can advance the quality of decision-making and thereby facil- itate a process of transforming strategic objectives into effective actions. Several creditable studies have emphasized the usefulness of causal analysis techniques. Partial least squares (PLS) path modeling is one of several popular causal analysis techniques. However, one difficulty often faced when we commence research is that the causal direction is unknown due to the lack of background knowledge. To solve this difficulty, this paper proposes a method that links the Bayesian network and PLS path modeling for causal analysis. An empirical study is presented to illustrate the application of the proposed method. Based on the findings of this study, conclusions and implications for management are discussed.},
pages = {134--139},
volume = {37},
year = {2010},
date-added = {2010-01-19 15:57:43 +0100},
date-modified = {2010-01-19 15:58:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2010-Expert%20Systems%20with%20Applications_Linking%20Bayesian%20net.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4079},
rating = {0}
}
@article{Ware:1998p5876,
author = {J E Ware and M Kosinski and B Gandek and Neil K Aaronson and G Apolone and P Bech and J Brazier and M Bullinger and S Kaasa and A Lepl{\`e}ge and L Prieto and M Sullivan},
journal = {Journal of Clinical Epidemiology},
title = {The factor structure of the SF-36 Health Survey in 10 countries: results from the IQOLA Project. International Quality of Life Assessment},
abstract = {Studies of the factor structure of the SF-36 Health Survey are an important step in its construct validation. Its structure is also the psychometric basis for scoring physical and mental health summary scales, which are proving useful in simplifying and interpreting statistical analyses. To test the generalizability of the SF-36 factor structure, product-moment correlations among the eight SF-36 Health Survey scales were estimated for representative samples of general populations in each of 10 countries. Matrices were independently factor analyzed using identical methods to test for hypothesized physical and mental health components, and results were compared with those published for the United States. Following simple orthogonal rotation of two principal components, they were easily interpreted as dimensions of physical and mental health in all countries. These components accounted for 76% to 85% of the reliable variance in scale scores across nine European countries, in comparison with 82% in the United States. Similar patterns of correlations between the eight scales and the components were observed across all countries and across age and gender subgroups within each country. Correlations with the physical component were highest (0.64 to 0.86) for the Physical Functioning, Role Physical, and Bodily Pain scales, whereas the Mental Health, Role Emotional, and Social Functioning scales correlated highest (0.62 to 0.91) with the mental component. Secondary correlations for both clusters of scales were much lower. Scales measuring General Health and Vitality correlated moderately with both physical and mental health components. These results support the construct validity of the SF-36 translations and the scoring of physical and mental health components in all countries studied.},
affiliation = {Health Assessment Lab at the Health Institute, New England Medical Center, Boston, Massachusetts 02111, USA.},
number = {11},
pages = {1159--65},
volume = {51},
year = {1998},
month = {Nov},
language = {eng},
keywords = {Cross-Cultural Comparison, Male, Europe, Health Status Indicators, Questionnaires, Psychometrics, Female, Quality of Life, Humans, Factor Analysis: Statistical},
date-added = {2010-02-17 15:02:59 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
pii = {S0895435698001073},
pmid = {9817133},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ware-1998-Journal%20of%20Clinical%20Epidemiology_The%20factor%20structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5876},
read = {Yes},
rating = {0}
}
@article{Debruyne:2006p12128,
author = {M Debruyne and S Engelen and M Hubert and P J Rousseuw},
title = {Robustness and Outlier Detection in Chemometrics},
abstract = {In analytical chemistry, experimental data often contain outliers of one type or another. The most often used chemometrical/statistical techniques are sensitive to such outliers, and the results may be adversely affected by them. This paper presents an overview of robust chemometrical/statistical methods which search for the model fitted by the majority of the data, and hence are far less affected by outliers. As an extra benefit, we can then detect the outliers by their large deviation from the robust fit. We discuss robust procedures for estimating location and scatter, and for performing multiple linear regression, PCA, PCR, PLS, and classification. We also describe recent results concerning the robustness of Support Vector Machines, which are kernel-based methods for fitting non-linear models. Finally, we present robust approaches for the analysis of multiway data.},
year = {2006},
date-added = {2010-05-30 10:13:23 +0200},
date-modified = {2010-05-30 10:14:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Debruyne-2006-_Robustness%20and%20Outli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12128},
rating = {0}
}
@article{Reeve:2010p11154,
author = {B B Reeve and P Fayers},
title = {Applying item response theory modelling for evaluating questionnaire item and scale properties},
date-added = {2010-04-25 19:21:25 +0200},
date-modified = {2010-04-25 19:22:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reeve--_Applying%20item%20respon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11154},
rating = {5}
}
@article{Fox:2004a,
author = {Jean-Paul Fox},
journal = {Statistica Neerlandica},
title = {Modelling Response Error in School Effectiveness Research},
pages = {138--160},
volume = {58},
year = {2004},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 19:50:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2004-Statistica%20Neerlandica_Modelling%20Response%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2225},
rating = {0}
}
@article{Qannari:1995p12016,
author = {E M Qannari and I Wakeling and H J H MacFie},
journal = {Food Qualify and Prefrence},
title = {A hierarchy of models for analysing sensory data},
abstract = {We propose a hierarchy of models for averaging sensory profile data. The models follow from formulating the data from each assessor in terms of association matrices and con-
sidering different strategies for weighted averaging of these matrices. It turns out that two forms of weighting contained within the hierarchy are very close to Generalised Procrustes Analysis (GPA) and Individual Differences Scaling (IXDSCAL) . The advantage of the current approach is that the methods are not iterative. The methods are illu- strated using data based on perception ofyoghurts.},
pages = {309--314},
volume = {6},
year = {1995},
date-added = {2010-05-23 22:39:08 +0200},
date-modified = {2010-07-29 19:26:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Qannari-1995-Food%20Qualify%20and%20Prefrence_A%20hierarchy%20of%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12016},
rating = {0}
}
@article{Mokkink:2010p12099,
author = {Lidwine B Mokkink and Caroline B Terwee and Donald L Patrick and Jordi Alonso and Paul W Stratford and Dirk L Knol and Lex M Bouter and Henrica C W de Vet},
journal = {Journal of Clinical Epidemiology},
title = {The COSMIN study reached international consensus on taxonomy, terminology, and definitions of measurement properties for health-related patient-reported outcomes},
abstract = {OBJECTIVE: Lack of consensus on taxonomy, terminology, and definitions has led to confusion about which measurement properties are relevant and which concepts they represent. The aim was to clarify and standardize terminology and definitions of measurement properties by reaching consensus among a group of experts and to develop a taxonomy of measurement properties relevant for evaluating health instruments. STUDY DESIGN AND SETTING: An international Delphi study with four written rounds was performed. Participating experts had a background in epidemiology, statistics, psychology, and clinical medicine. The panel was asked to rate their (dis)agreement about proposals on a five-point scale. Consensus was considered to be reached when at least 67% of the panel agreed. RESULTS: Of 91 invited experts, 57 agreed to participate and 43 actually participated. Consensus was reached on positions of measurement properties in the taxonomy (68-84%), terminology (74-88%, except for structural validity [56%]), and definitions of measurement properties (68-88%). The panel extensively discussed the positions of internal consistency and responsiveness in the taxonomy, the terms "reliability" and "structural validity," and the definitions of internal consistency and reliability. CONCLUSIONS: Consensus on taxonomy, terminology, and definitions of measurement properties was reached. Hopefully, this will lead to a more uniform use of terms and definitions in the literature on measurement properties.},
affiliation = {Department of Epidemiology and Biostatistics, The EMGO Institute for Health and Care Research, VU University Medical Center, Amsterdam, The Netherlands.},
number = {7},
pages = {737--745},
volume = {63},
year = {2010},
month = {Jul},
language = {ENG},
date-added = {2010-05-25 22:54:32 +0200},
date-modified = {2010-05-25 22:54:32 +0200},
doi = {10.1016/j.jclinepi.2010.02.006},
pii = {S0895-4356(10)00090-9},
pmid = {20494804},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mokkink-2010-Journal%20of%20Clinical%20Epidemiology_The%20COSMIN%20study%20rea-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12099},
rating = {0}
}
@misc{Heijden:2002,
author = {P G M van der Heijden and L Andries van der Ark and A Mooijaart},
journal = {Miscellaneous},
title = {Some Examples of Latent Budget Analysis and its Extensions},
year = {2002},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heijden-2002-Miscellaneous_Some%20Examples%20of%20Lat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1875},
rating = {0}
}
@book{Haladyna:2006,
author = {T M Haladyna and S M Downing},
journal = {Book},
title = {Handbook of Test Development},
year = {2006},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haladyna-2006-Book_Handbook%20of%20Test%20Dev.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2001},
rating = {0}
}
@article{MotsingerReif:2008p12956,
author = {Alison A Motsinger-Reif and David M Reif and Theresa J Fanelli and Marylyn D Ritchie},
journal = {Genet Epidemiol},
title = {A comparison of analytical methods for genetic association studies},
abstract = {The explosion of genetic information over the last decade presents an analytical challenge for genetic association studies. As the number of genetic variables examined per individual increases, both variable selection and statistical modeling tasks must be performed during analysis. While these tasks could be performed separately, coupling them is necessary to select meaningful variables that effectively model the data. This challenge is heightened due to the complex nature of the phenotypes under study and the complex underlying genetic etiologies. To address this problem, a number of novel methods have been developed. In the current study, we compare the performance of six analytical approaches to detect both main effects and gene-gene interactions in a range of genetic models. Multifactor dimensionality reduction, grammatical evolution neural networks, random forests, focused interaction testing framework, step-wise logistic regression, and explicit logistic regression were compared. As one might expect, the relative success of each method is context dependent. This study demonstrates the strengths and weaknesses of each method and illustrates the importance of continued methods development.},
affiliation = {Bioinformatics Research Center, Department of Statistics, North Carolina State University, Raleigh, North Carolina, USA.},
number = {8},
pages = {767--78},
volume = {32},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Models: Statistical, Phenotype, Software, Epistasis: Genetic, Regression Analysis, Genetic Techniques, Genome, Models: Theoretical, Linkage (Genetics), Data Interpretation: Statistical, Models: Genetic, Neural Networks (Computer), Humans, Probability},
date-added = {2010-06-25 22:07:05 +0200},
date-modified = {2010-06-25 22:07:06 +0200},
doi = {10.1002/gepi.20345},
pmid = {18561203},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12956},
rating = {0}
}
@article{Bradley:2002p4023,
author = {K M Bradley and G M Bydder and M M Budge and J V Hajnal and S J White and B D Ripley and A D Smith},
journal = {Br J Radiol},
title = {Serial brain MRI at 3-6 month intervals as a surrogate marker for Alzheimer's disease},
abstract = {A surrogate marker is needed for Alzheimer's disease (AD) both to aid diagnosis and to assess interventions. Despite widespread use, brain imaging markers have largely been confounded by overlap with "normal" ageing. 39 elderly subjects completed up to four serial volumetric brain MRI scans with intervals from 2.5 months to 7 months. By National Institute of Neurological and Communicative Disorders and Stroke (NINCDS) criteria, five subjects had probable AD, two possible AD and 32 were negative for AD, although this group included memory-impaired subjects. Total brain and ventricular volumes were measured for each scan, and rates of change for each interval calculated. The rate of change in ventricle-to-brain ratio was 15.6% per year (standard deviation (SD) 2.8%) for probable AD compared with 4.3% per year (SD 1.1%) for negative AD (p<0.001). There was no significant difference between these groups' mean ventricle-to-brain ratios measured at a single time point (p=0.25). Rates of change in brain or ventricular volume over time also differed between the two groups (p<0.001). Power calculations reveal that to detect a 20% reduction in the excess rate of atrophy of a probable AD cohort in just 6 months, with 90% power, 135 subjects would be required in each arm of a randomized placebo controlled trial. For a 30% reduction in the excess rate of atrophy, 61 subjects would be required. Rate of change analysis makes serial brain MRI a valuable surrogate marker for Alzheimer's disease. Since only 6 months or less is required between scans, this procedure has both clinical relevance and potential for monitoring interventions.},
affiliation = {Oxford Project to Investigate Memory and Ageing, University of Oxford, Radcliffe Infirmary, Woodstock Road, Oxford OX2 6HE, UK.},
number = {894},
pages = {506--13},
volume = {75},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Magnetic Resonance Imaging, Disease Progression, Longitudinal Studies, Aged, Severity of Illness Index, Linear Models, Middle Aged, Aged: 80 and over, Cerebral Ventricles, Brain, Alzheimer Disease, Humans, Atrophy},
date-added = {2010-01-19 08:22:52 +0100},
date-modified = {2010-01-19 08:22:52 +0100},
pmid = {12124237},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bradley-2002-Br%20J%20Radiol_Serial%20brain%20MRI%20at.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4023},
rating = {0}
}
@article{Moineddin:2007p7202,
author = {Rahim Moineddin and Flora I Matheson and Richard H Glazier},
journal = {BMC Med Res Methodol},
title = {A simulation study of sample size for multilevel logistic regression models},
abstract = {BACKGROUND: Many studies conducted in health and social sciences collect individual level data as outcome measures. Usually, such data have a hierarchical structure, with patients clustered within physicians, and physicians clustered within practices. Large survey data, including national surveys, have a hierarchical or clustered structure; respondents are naturally clustered in geographical units (e.g., health regions) and may be grouped into smaller units. Outcomes of interest in many fields not only reflect continuous measures, but also binary outcomes such as depression, presence or absence of a disease, and self-reported general health. In the framework of multilevel studies an important problem is calculating an adequate sample size that generates unbiased and accurate estimates. METHODS: In this paper simulation studies are used to assess the effect of varying sample size at both the individual and group level on the accuracy of the estimates of the parameters and variance components of multilevel logistic regression models. In addition, the influence of prevalence of the outcome and the intra-class correlation coefficient (ICC) is examined. RESULTS: The results show that the estimates of the fixed effect parameters are unbiased for 100 groups with group size of 50 or higher. The estimates of the variance covariance components are slightly biased even with 100 groups and group size of 50. The biases for both fixed and random effects are severe for group size of 5. The standard errors for fixed effect parameters are unbiased while for variance covariance components are underestimated. Results suggest that low prevalent events require larger sample sizes with at least a minimum of 100 groups and 50 individuals per group. CONCLUSION: We recommend using a minimum group size of 50 with at least 50 groups to produce valid estimates for multi-level logistic regression models. Group size should be adjusted under conditions where the prevalence of events is low such that the expected number of events in each group should be greater than one.},
affiliation = {Department of Public Health Sciences, University of Toronto, Toronto, Canada. rahim.moineddin@utoronto.ca},
pages = {34},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Computer Simulation, Sampling Studies, Outcome Assessment (Health Care), Logistic Models, Sample Size, Humans, Prevalence, Selection Bias},
date-added = {2010-03-06 21:20:15 +0100},
date-modified = {2010-03-06 21:20:15 +0100},
doi = {10.1186/1471-2288-7-34},
pii = {1471-2288-7-34},
pmid = {17634107},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moineddin-2007-BMC%20Med%20Res%20Methodol_A%20simulation%20study%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7202},
rating = {0}
}
@article{Wigginton:2005p516,
author = {Janis E Wigginton and David J Cutler and Gon{\c c}alo R Abecasis},
journal = {Am J Hum Genet},
title = {A note on exact tests of Hardy-Weinberg equilibrium},
abstract = {Deviations from Hardy-Weinberg equilibrium (HWE) can indicate inbreeding, population stratification, and even problems in genotyping. In samples of affected individuals, these deviations can also provide evidence for association. Tests of HWE are commonly performed using a simple chi2 goodness-of-fit test. We show that this chi2 test can have inflated type I error rates, even in relatively large samples (e.g., samples of 1,000 individuals that include approximately 100 copies of the minor allele). On the basis of previous work, we describe exact tests of HWE together with efficient computational methods for their implementation. Our methods adequately control type I error in large and small samples and are computationally efficient. They have been implemented in freely available code that will be useful for quality assessment of genotype data and for the detection of genetic association or population stratification in very large data sets.},
affiliation = {Center for Statistical Genetics, Department of Biostatistics, University of Michigan, Ann Arbor, MI 48109, USA.},
number = {5},
pages = {887--93},
volume = {76},
year = {2005},
month = {May},
language = {eng},
keywords = {Humans, Statistics as Topic, Models: Genetic, Genotype, Genetics: Population},
date-added = {2010-01-03 13:10:34 +0100},
date-modified = {2010-07-29 20:14:14 +0200},
doi = {10.1086/429864},
pii = {S0002-9297(07)60735-6},
pmid = {15789306},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wigginton-2005-Am%20J%20Hum%20Genet_A%20note%20on%20exact%20test.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p516},
rating = {0}
}
@article{Zekry:2010p7870,
author = {Dina Zekry and Bernardo Hermont Loures Valle and Claudia Lardi and Christoph Graf and Jean-Pierre Michel and Gabriel Gold and Karl-Heinz Krause and Fran{\c c}ois R Herrmann},
journal = {Journal of Clinical Epidemiology},
title = {Geriatrics index of comorbidity was the most accurate predictor of death in geriatric hospital among six comorbidity scores},
abstract = {OBJECTIVES: To compare the abilities of six validated comorbidity indices (Charlson index, cumulative illness rating scale [CIRS], index of coexistent diseases, Kaplan scale, geriatrics index of comorbidity [GIC], and chronic disease score) to predict adverse hospitalization outcomes (death during hospitalization, length of stay, and institutionalization). STUDY DESIGN AND SETTING: Prospective cohort of 444 elderly inpatients (mean age 85.3) was randomly selected from Geneva geriatric hospital. RESULTS: In univariate analyses, GIC was the best predictor for all outcomes. The risk of death was 30 times higher and the risk of prolonged hospitalization and being institutionalized was eight to nine times higher in patients with scores of class 3 or 4. In adjusted logistic regression models, GIC remained the best predictor of death during hospitalization. Higher GIC scores accounted for 25% of the variance of this outcome, with mortality rates differing by a factor of four between the highest and the lowest scores. CIRS was a strong predictor of a prolonged hospital stay and institutionalization, accounting for 10% of the variance of these outcomes. CONCLUSION: GIC was the most accurate predictor of death during hospitalization. CIRS could be used to select elderly patients at admission as an indicator of improvement at discharge.},
affiliation = {Rehabilitation and Geriatrics Department, Geneva University, 3, chemin du Pont-Bochet, 1226, Th{\^o}nex, Switzerland.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-20 19:11:00 +0100},
date-modified = {2010-03-20 19:11:01 +0100},
doi = {10.1016/j.jclinepi.2009.11.013},
pii = {S0895-4356(09)00383-7},
pmid = {20236800},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zekry-2010-Journal%20of%20Clinical%20Epidemiology_Geriatrics%20index%20of-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7870},
rating = {0}
}
@article{Snapinn:2004p8029,
author = {Steven M Snapinn and Qi Jiang and Boris Iglewicz},
journal = {Curr Control Trials Cardiovasc Med},
title = {Informative noncompliance in endpoint trials},
abstract = {Noncompliance with study medications is an important issue in the design of endpoint clinical trials. Including noncompliant patient data in an intention-to-treat analysis could seriously decrease study power. Standard methods for calculating sample size account for noncompliance, but all assume that noncompliance is noninformative, i.e., that the risk of discontinuation is independent of the risk of experiencing a study endpoint. Using data from several published clinical trials (OPTIMAAL, LIFE, RENAAL, SOLVD-Prevention and SOLVD-Treatment), we demonstrate that this assumption is often untrue, and we discuss the effect of informative noncompliance on power and sample size.},
affiliation = {Steven Snapinn, Amgen, One Amgen Center Drive 24-2-C, Thousand Oaks CA 91320 USA. ssnapinn@amgen.com},
number = {1},
pages = {5},
volume = {5},
year = {2004},
month = {Jul},
language = {ENG},
date-added = {2010-03-20 19:43:10 +0100},
date-modified = {2010-03-20 19:43:10 +0100},
doi = {10.1186/1468-6708-5-5},
pii = {1468-6708-5-5},
pmid = {15233844},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Snapinn-2004-Curr%20Control%20Trials%20Cardiovasc%20Med_Informative%20noncompl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8029},
rating = {0}
}
@article{Derks:2004p1261,
author = {E M Derks and J J Hudziak and C E M van Beijsterveldt and C V Dolan and Dorret I Boomsma},
journal = {Behav Genet},
title = {A study of genetic and environmental influences on maternal and paternal CBCL syndrome scores in a large sample of 3-year-old Dutch twins},
abstract = {BACKGROUND: There is increasing evidence that behavioral problems are common in very young children, yet little is known about the etiology of individual differences in these problems. It is unclear to what degree environmental and genetic factors influence the development of early child psychopathology. In this paper, we focus on the following issues. Firstly, to what degree do genetic and environmental factors influence variation in behavioral problems? Secondly, to what degree are these underlying etiological factors moderated by sex and informant? We investigate these issues by analyzing Child Behavior Checklist (CBCL) data on 9689 3-year-old twin pairs. METHODS: Rater Bias and Psychometric Models were fitted to CBCL/2-3 data obtained from mothers and fathers to determine the genetic and environmental contributions to the five CBCL syndromes:aggressive, oppositional, overactive, withdrawn, and anxious/depressed behavior. RESULTS: Parental ratings are influenced by aspects of the child's behavior that are experienced in the same way by both parents and by aspects of the child's behavior that are experienced uniquely by each parent. There is evidence for high genetic contributions to all CBCL syndromes. Shared and non-shared environmental influences play significant roles as well. One exception is overactive behavior, which is influenced by genetic and non-shared environmental influences only. CONCLUSIONS: Variation in behavior problems in the very young shows high heritability. Individual raters offer unique perspectives that can have an impact on estimates of problem behavior and genetic architecture. Therefore, multi-informant approaches in the assessment of the very young will be useful to clinicians and researchers alike.},
affiliation = {Department of Biological Psychology, Vrije Universiteit, Amsterdam, The Netherlands. em.derks@psy.vu.nl},
number = {6},
pages = {571--83},
volume = {34},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Models: Psychological, Male, Maternal Behavior, Female, Adult, Child Behavior, Models: Genetic, Paternal Behavior, Analysis of Variance, Humans, Child: Preschool},
date-added = {2010-01-07 11:24:37 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1007/s10519-004-5585-2},
pii = {495585},
pmid = {15520514},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1261},
rating = {0}
}
@article{Aulchenko:2007p3853,
author = {Yurii S Aulchenko and Dirk-Jan de Koning and Chris Haley},
journal = {Genetics},
title = {Genomewide rapid association using mixed model and regression: a fast and simple method for genomewide pedigree-based quantitative trait loci association analysis},
abstract = {For pedigree-based quantitative trait loci (QTL) association analysis, a range of methods utilizing within-family variation such as transmission-disequilibrium test (TDT)-based methods have been developed. In scenarios where stratification is not a concern, methods exploiting between-family variation in addition to within-family variation, such as the measured genotype (MG) approach, have greater power. Application of MG methods can be computationally demanding (especially for large pedigrees), making genomewide scans practically infeasible. Here we suggest a novel approach for genomewide pedigree-based quantitative trait loci (QTL) association analysis: genomewide rapid association using mixed model and regression (GRAMMAR). The method first obtains residuals adjusted for family effects and subsequently analyzes the association between these residuals and genetic polymorphisms using rapid least-squares methods. At the final step, the selected polymorphisms may be followed up with the full measured genotype (MG) analysis. In a simulation study, we compared type 1 error, power, and operational characteristics of the proposed method with those of MG and TDT-based approaches. For moderately heritable (30%) traits in human pedigrees the power of the GRAMMAR and the MG approaches is similar and is much higher than that of TDT-based approaches. When using tabulated thresholds, the proposed method is less powerful than MG for very high heritabilities and pedigrees including large sibships like those observed in livestock pedigrees. However, there is little or no difference in empirical power of MG and the proposed method. In any scenario, GRAMMAR is much faster than MG and enables rapid analysis of hundreds of thousands of markers.},
affiliation = {Department of Epidemiology and Biostatistics, Erasmus MC, 3000 CA Rotterdam, The Netherlands. i.aoultchenko@erasmusmc.nl},
number = {1},
pages = {577--85},
volume = {177},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Genome: Human, Models: Biological, Models: Genetic, Humans, Software, Male, Pedigree, Genotype, Quantitative Trait Loci, Computer Simulation, Chromosome Mapping, Female},
date-added = {2010-01-16 21:02:37 +0100},
date-modified = {2010-01-16 21:02:37 +0100},
doi = {10.1534/genetics.107.075614},
pii = {genetics.107.075614},
pmid = {17660554},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3853},
rating = {0}
}
@article{Qu:2008p417,
author = {Annie Qu and J Jack Lee and Bruce G Lindsay},
journal = {Biometrika},
title = {Model diagnostic tests for selecting informative correlation structure in correlated data},
abstract = {In the generalized method of moments approach to longitudinal data analysis, unbiased esti- mating functions can be constructed to incorporate both the marginal mean and the correlation structure of the data. Increasing the number of parameters in the correlation structure corresponds to increasing the number of estimating functions. Thus, building a correlation model is equivalent to selecting estimating functions. This paper proposes a chi-squared test to choose informative unbiased estimating functions. We show that this methodology is useful for identifying which source of correlation it is important to incorporate when there are multiple possible sources of correlation. This method can also be applied to determine the optimal working correlation for the generalized estimating equation approach.},
affiliation = {Department of Statistics, University of Illinois at Urban-Champaign, Champaign, Illinois 61820, U.S.A.},
number = {4},
pages = {891--905},
volume = {95},
year = {2008},
keywords = {Working correlation, Cancer prevention, Generalized estimating equation, Information matrix test, Generalized method of moments, Quadratic inference function, Goodness-of-fit test, Model selection, Chi-squared test},
date-added = {2010-01-03 12:08:17 +0100},
date-modified = {2010-01-03 12:12:12 +0100},
doi = {10.1093/biomet/asn051},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Qu-2008-Biometrika_Model%20diagnostic%20tes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p417},
rating = {0}
}
@article{Bechger:2003aa,
author = {Timo M Bechger and Gunier Maria and Huub Verstralen and Norman Verhelst},
title = {The Nedelsky model for multiple choice items},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bechger-2003-_The%20Nedelsky%20model%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1208},
rating = {0}
}
@article{BerriosHernandez:2007p8313,
author = {Mayra N Berrios-Hernandez and Sonia Rodr{\'\i}guez-Ruiz and Marisol Perez and David H Gleaves and Marielisa Maysonet and Antonio Cepeda-Benito},
journal = {Eur Eat Disord Rev},
title = {Cross-cultural assessment of eating disorders: psychometric properties of a Spanish version of the Bulimia Test-Revised},
abstract = {The purpose of this study was to examine the psychometric properties of a Spanish version of the Bulimia Test-Revised (BULIT-R). The goal was to test the factor-structure equivalence of the BULIT-R across two samples of college students from two different cultures, Spain and the US. Researchers using exploratory factor analysis (EFA) and confirmatory factor analysis (CFA) have reported different model solutions for the factor-structure of the BULIT-R: a one-factor model, a four-factor model, a five-factor model and a six-factor model. For the two samples, CFA did not support any of the models previously reported in the literature. EFA supported a six- and a four-factor models for the US and Spanish samples, respectively.},
affiliation = {Department of Psychology, Texas A{\&}M University, College Station, Texas, USA.},
number = {6},
pages = {418--24},
volume = {15},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Language, Cross-Cultural Comparison, Adult, Female, United States, Humans, Bulimia Nervosa, Psychometrics, Spain, Severity of Illness Index, Questionnaires},
date-added = {2010-03-20 20:11:21 +0100},
date-modified = {2010-03-20 20:11:21 +0100},
doi = {10.1002/erv.791},
pmid = {17960775},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8313},
rating = {0}
}
@article{Engelhard:1994,
author = {G Engelhard},
journal = {Journal of Educational Measurement},
title = {Examining Rater Errors in the Assessment of Written Composition with a Many-Faceted Rasch Model},
number = {2},
pages = {93--112},
volume = {31},
year = {1994},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1129},
read = {Yes},
rating = {0}
}
@article{Turner:2002p6108,
author = {Gillian Turner and Michael Partington and Bronwyn Kerr and Marie Mangelsdorf and Jozef Gecz},
journal = {Am J Med Genet},
title = {Variable expression of mental retardation, autism, seizures, and dystonic hand movements in two families with an identical ARX gene mutation},
abstract = {Two families, originally diagnosed as having nonsyndromic X-linked mental retardation (NSXLMR), were reviewed when it was shown that they had a 24-bp duplication (428-45 1dup(24bp)) in the ARX gene [Stromme et al., 2002: Nat Genet 30:441-445]. This same duplication had also been found in three other families: one with X-linked infantile spasms and hypsarrhythmia (X-linked West syndrome, MIM 308350) and two with XLMR and dystonic movements of the hands (Partington syndrome, MIM 309510). On review, manifestations of both West and Partington syndromes were found in some individuals from both families. In addition, it was found that one individual had autism and two had autistic behavior, one of whom had epilepsy. The degree of mental retardation ranged from mild to severe. A GCG trinucleotide expansion (GCG)10+7 and a deletion of 1,517 bp in the ARX gene have also been found in association with the West syndrome, and a missense mutation (1058C>T) in a family with a newly recognized form of myoclonic epilepsy, severe mental retardation, and spastic paraplegia [Scheffer et al., 2002: Neurology, in press]. Evidently all these disorders are expressions of mutations in the same gene. It remains to be seen what proportions of patients with infantile spasms, focal dystonia, autism, epilepsy, and nonsyndromic mental retardation are accounted for by mutations in the ARX gene.},
affiliation = {Hunter Genetics and the University of Newcastle, Waratah, NSW, Australia. parturn@ozemail.com.au},
number = {4},
pages = {405--11},
volume = {112},
year = {2002},
month = {Nov},
language = {eng},
keywords = {Chromosomes: Human: X, Autistic Disorder, Child, Male, Mental Retardation, Linkage (Genetics), Mutation, Sex Factors, Family Health, Tremor, Infant, Humans, Transcription Factors, Homeodomain Proteins, Female, Dystonia, Adult, Seizures, Pedigree, Middle Aged},
date-added = {2010-02-19 17:07:25 +0100},
date-modified = {2010-07-29 19:13:48 +0200},
doi = {10.1002/ajmg.10714},
pmid = {12376946},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6108},
rating = {0}
}
@article{Lindsay:1991p6287,
author = {B Lindsay and C C Clogg and J Grego},
journal = {JAMA},
title = {Semiparametric Estimation in the Rasch Model and Related Exponential Response Models, Including a Simple Latent Class Model for Item Analysis},
number = {413},
pages = {96--107},
volume = {86},
year = {1991},
date-added = {2010-02-20 19:58:04 +0100},
date-modified = {2010-07-29 20:01:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lindsay-1991-JAMA_Semiparametric%20Estim.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6287},
rating = {0}
}
@article{Penke:2010p7649,
author = {Lars Penke and Susana Mu{\~n}oz Maniega and Lorna M Houlihan and Catherine Murray and Alan J Gow and Jonathan D Clayden and Mark E Bastin and Joanna M Wardlaw and Ian J Deary},
journal = {Behav Genet},
title = {White matter integrity in the splenium of the corpus callosum is related to successful cognitive aging and partly mediates the protective effect of an ancestral polymorphism in ADRB2},
abstract = {It has recently been reported that the evolutionarily ancestral alleles of two functional polymorphisms in the beta(2)-adrenergic receptor gene (ADRB2) were related to higher cognitive ability in the 70 year old participants of the Lothian Birth Cohort 1936 (LBC1936). One emerging important factor in cognitive aging is the integrity of white matter tracts in the brain. Here, we used diffusion tensor MRI-based tractography to assess the integrity of eight white matter tracts in a subsample of the LBC1936. Higher integrity of the splenium of the corpus callosum predicted better cognitive ability in old age, even after controlling for IQ at age 11. Also, the ancestral allele of one ADRB2 SNP was associated with both splenium integrity and better cognitive aging. While the effects of the SNP and splenium integrity on cognitive aging were largely independent, there was some evidence for a partial mediation effect of ADRB2 status via splenium integrity.},
affiliation = {Centre for Cognitive Ageing and Cognitive Epidemiology, Department of Psychology, The University of Edinburgh, 7 George Square, Edinburgh, EH8 9JZ, UK. lars.penke@ed.ac.uk},
number = {2},
pages = {146--56},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:19:47 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9318-4},
pmid = {20087642},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Penke-2010-Behav%20Genet_White%20matter%20integri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7649},
rating = {0}
}
@article{Derringer:2010p12574,
author = {Jaime Derringer and Robert F Krueger and Daniel E Irons and William G Iacono},
journal = {Behav Genet},
title = {Harsh Discipline, Childhood Sexual Assault, and MAOA Genotype: An Investigation of Main and Interactive Effects on Diverse Clinical Externalizing Outcomes},
abstract = {We studied the impact of MAOA genotype, childhood sexual assault, and harsh discipline on clinical externalizing symptoms (substance problems, adult antisocial behavior, and conduct disorder). Participants were 841 individual twins from the Minnesota Twin Family Study assessed through age 25. MAOA genotype was not associated with differences in any phenotype, nor was there a significant interaction between MAOA and harsh discipline for any phenotype or a significant interaction between MAOA and childhood sexual assault for substance problems. We found evidence that childhood sexual assault interacted with MAOA genotype to predict antisocial behavior and conduct disorder symptoms. Individuals with the low MAOA activity genotype who reported childhood sexual assault had more symptoms than individuals with either the high MAOA activity genotype and/or no history of childhood sexual assault. These findings suggest that the previously reported interaction between MAOA and childhood maltreatment may be specific to the antisocial subset of externalizing disorders.},
affiliation = {Department of Psychology, Washington University, Campus Box 1125, St. Louis, MO, 63130, USA, derringer@wustl.edu.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-06-15 22:25:19 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9358-9},
pmid = {20364435},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Derringer-2010-Behav%20Genet_Harsh%20Discipline%20Ch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12574},
rating = {0}
}
@article{Mitchell:2009p7420,
author = {A J Mitchell and J B McGlinchey and D Young and I Chelminski and M Zimmerman},
journal = {Psychol Med},
title = {Accuracy of specific symptoms in the diagnosis of major depressive disorder in psychiatric out-patients: data from the MIDAS project},
abstract = {BACKGROUND: There is uncertainty about the diagnostic significance of specific symptoms of major depressive disorder (MDD). There is also interest in using one or two specific symptoms in the development of brief scales. Our aim was to elucidate the best possible specific symptoms that would assist in ruling in or ruling out a major depressive episode in a psychiatric out-patient setting. METHOD: A total of 1523 psychiatric out-patients were evaluated in the Methods to Improve Diagnostic Assessment and Services (MIDAS) project. The accuracy and added value of specific symptoms from a comprehensive item bank were compared against the Structured Clinical Interview for DSM-IV (SCID). RESULTS: The prevalence of depression in our sample was 54.4%. In this high prevalence setting the optimum specific symptoms for ruling in MDD were psychomotor retardation, diminished interest/pleasure and indecisiveness. The optimum specific symptoms for ruling out MDD were the absence of depressed mood, the absence of diminished drive and the absence of loss of energy. However, some discriminatory items were relatively uncommon. Correcting for frequency, the most clinically valuable rule-in items were depressed mood, diminished interest/pleasure and diminished drive. The most clinically valuable rule-out items were depressed mood, diminished interest/pleasure and poor concentration. CONCLUSIONS: The study supports the use of the questions endorsed by the two-item Patient Health Questionnaire (PHQ-2) with the additional consideration of the item diminished drive as a rule-in test and poor concentration as a rule-out test. The accuracy of these questions may be different in primary care studies where prevalence differs and when they are combined into multi-question tests or algorithmic models.},
affiliation = {Liaison Psychiatry, Leicester General Hospital and Department of Cancer and Molecular Medicine, Leicester Royal Infirmary, Leicester, UK. alex.mitchell@leicspart.nhs.uk},
number = {7},
pages = {1107--16},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Reproducibility of Results, Cross-Sectional Studies, Female, Rhode Island, Adult, Humans, Ambulatory Care, Interview: Psychological, Male, Diagnostic and Statistical Manual of Mental Disorders, Diagnosis: Differential, ROC Curve, Middle Aged, Personality Assessment, Psychometrics, Depressive Disorder: Major},
date-added = {2010-03-10 20:37:53 +0100},
date-modified = {2010-03-10 20:37:53 +0100},
doi = {10.1017/S0033291708004674},
pii = {S0033291708004674},
pmid = {19000337},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7420},
rating = {0}
}
@article{vonEye:2005p13823,
author = {A von Eye and G A Bogat},
journal = {Psychology Science},
title = {Logistic regression and Prediction Configural Frequency Analysis - a comparison},
abstract = {Logistic regression (LR) and Prediction Configural Frequency Analysis (PCFA) are compared. First, the underlying statistical models are presented. Second, sample design matrices are created. Third, data are analyzed using both methods. Two data examples are analyzed. The first is artificial, the second uses data from a project on domestic violence. Fourth, the goals of LR, a variable-oriented approach, and PCFA, a person-oriented approach are discussed. One conclusion of the comparisons is that, for researchers who wish to enrich results by employing both methods, the standard model of LR needs to be extended so that it becomes parallel to the base model of PCFA.},
number = {3/4},
pages = {326--341},
volume = {47},
year = {2005},
date-added = {2010-07-29 12:54:44 +0200},
date-modified = {2010-07-29 12:55:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/von%20Eye-2005-Psychology%20Science_Logistic%20regression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13823},
rating = {0}
}
@article{Kamen:2010p8990,
author = {Charles Kamen and Lauren R Pryor and Eric T Gaughan and Joshua D Miller},
journal = {Psychiatry Res},
title = {Affective lability: Separable from neuroticism and the other big four?},
abstract = {The goals of the current study were to use specific measures of affective lability and neuroticism to examine the nomological network surrounding both constructs and to test the degree to which a measure of general personality can account for variability in affective lability. Using a psychiatric outpatient sample (n=48), we assessed personality disorder (PD) symptoms, personality, and level of functioning across a range of domains. Neuroticism and affective lability demonstrated a small but significant positive correlation and manifested a divergent pattern of correlations with PDs and measures of functioning. Specifically, neuroticism was correlated primarily with Borderline, Avoidant and Dependent PDs, whereas affective lability was primarily correlated with Cluster B PDs. In addition, neuroticism evinced significant correlations with a range of functional impairments, whereas affective lability was correlated only with self-harm. Regression analyses demonstrated that a substantial portion of the variance in affective lability scales can be explained by Five-Factor Model domains, particularly if the narrower facets are used. The current findings suggest that neuroticism and affective lability are related but in a complex manner that involves other basic personality domains in addition to neuroticism.},
affiliation = {Department of Psychology, University of Georgia, Athens, GA 30602-3013, United States.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-22 13:12:28 +0100},
date-modified = {2010-07-29 19:45:28 +0200},
doi = {10.1016/j.psychres.2008.08.002},
pii = {S0165-1781(08)00256-4},
pmid = {20188424},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0165-1781(08)00256-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kamen-2010-Psychiatry%20Res_Affective%20lability.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8990},
rating = {0}
}
@article{Penttila:2009p5003,
author = {Jani Penttil{\"a} and Marie-Laure Paill{\`e}re-Martinot and Jean-Luc Martinot and Damien Ringuenet and Mich{\`e}le Wessa and Josselin Houenou and Thierry Gallarda and Frank Bellivier and Andr{\'e} Galinowski and Pascale Brugui{\`e}re and Fran{\c c}ois Pinabel and Marion Leboyer and Jean-Pierre Oli{\'e} and Edouard Duchesnay and Eric Artiges and Jean-Fran{\c c}ois Mangin and Arnaud Cachia},
journal = {J Psychiatry Neurosci},
title = {Cortical folding in patients with bipolar disorder or unipolar depression},
abstract = {BACKGROUND: Analysis of cortical folding may provide insight into neurodevelopment deviations, which, in turn, can predispose to depression that responds particularly poorly to medications. We hypothesized that patients with treatment-resistant depression would exhibit measurable alterations in cortical folding. METHODS: We computed hemispheric global sulcal indices (g-SIs) in T(1)-weighted magnetic resonance images obtained from 76 patients and 70 healthy controls. We separately searched for anatomic deviations in patients with bipolar disorder (16 patients with treatment-resistant depression, 25 with euthymia) and unipolar depression (35 patients with treatment-resistant depression). RESULTS: Compared with healthy controls, both groups of patients with treatment-resistant depression exhibited reduced g-SIs: in the right hemisphere among patients with bipolar disorder and in both hemispheres among those with unipolar depression. Patients with euthymic bipolar disorder did not differ significantly from depressed patients or healthy controls. Among patients with bipolar disorder who were taking lithium, we found positive correlations between current lithium dose and g-SIs in both hemispheres. LIMITATIONS: We cannot estimate the extent to which the observed g-SI reductions are linked to treatment resistance and to what extent they are state-dependent. Furthermore, we cannot disentangle the impact of medications from that of the affective disorder. Finally, there is interindividual variation and overlap of g-SIs among patients and healthy controls that need to be considered when interpreting our results. CONCLUSION: Reduced global cortical folding surface appears to be characteristic of patients with treatment-resistant depression, either unipolar or bipolar. In patients with bipolar disorder, treatment with lithium may modify cortical folding surface.},
affiliation = {INSERM, U797 Research Unit Neuroimaging {\&} Psychiatry, CEA, Hospital Department Fr{\'e}d{\'e}ric Joliot {\&} Neurospin, Paris Sud University, Orsay, France.},
number = {2},
pages = {127--35},
volume = {34},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Antimanic Agents, Bipolar Disorder, Electroconvulsive Therapy, Magnetic Resonance Imaging, Functional Laterality, Psychiatric Status Rating Scales, Antidepressive Agents, Drug Resistance, Cerebral Cortex, Male, Adult, Depressive Disorder, Middle Aged, Humans, Lithium Carbonate, Female},
date-added = {2010-02-05 00:07:06 +0100},
date-modified = {2010-02-05 00:07:06 +0100},
pmid = {19270763},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Penttil%C3%A4-2009-J%20Psychiatry%20Neurosci_Cortical%20folding%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5003},
rating = {0}
}
@article{Gajewski:2007p6973,
author = {Byron J Gajewski and Sara Hart and Sandra Bergquist-Beringer and Nancy Dunton},
journal = {Stat Med},
title = {Inter-rater reliability of pressure ulcer staging: ordinal probit Bayesian hierarchical model that allows for uncertain rater response},
abstract = {This article describes a method for estimating the inter-rater reliability of pressure ulcer (PU) staging (stages I-IV) from raters in National Database of Nursing Quality Indicators (NDNQI) participating hospitals. The method models ordinal spanning data utilizing an ordinal probit Bayesian hierarchical model (BHM) across several hospitals in which raters monitor patient's PUs. An ulcer that cannot be accurately assessed because the base of the wound cannot be seen is defined as unstageable. Our novel approach allows for an unstageable PU rating to be included in the analysis. We compare the ordinal probit BHM to an approximate random-effects (standard approach in the literature) model that assumes that the raw ordinal data are continuous.},
affiliation = {Schools of Allied Health and Nursing, Center for Biostatistics and Advanced Informatics, The University of Kansas Medical Center, Kansas City, KS 66160, U.S.A. bgajewski@kumc.edu},
number = {25},
pages = {4602--18},
volume = {26},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Reproducibility of Results, Humans, Observer Variation, Bayes Theorem, Pressure Ulcer, Models: Statistical},
date-added = {2010-03-06 12:25:30 +0100},
date-modified = {2010-03-06 12:25:30 +0100},
doi = {10.1002/sim.2877},
pmid = {17393413},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gajewski-2007-Stat%20Med_Inter-rater%20reliabil.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6973},
rating = {0}
}
@article{Butcher:2006p5758,
author = {Lee M Butcher and Joanna Kj Kennedy and Robert Plomin},
journal = {Curr Opin Neurobiol},
title = {Generalist genes and cognitive neuroscience},
abstract = {Multivariate genetic research suggests that a single set of genes affects most cognitive abilities and disabilities. This finding already has far-reaching implications for cognitive neuroscience, and will become even more revealing when this - presumably large - set of generalist genes is identified. Similar to other complex disorders and dimensions, molecular genetic research on cognitive abilities and disabilities is adopting genome-wide association strategies. These strategies involve very large samples to detect DNA associations of small effect size using microarrays that simultaneously assess hundreds of thousands of DNA markers. When this set of generalist genes is identified, it can be used to provide solid footholds in the climb towards a systems-level understanding of how genetically driven brain processes work together to affect diverse cognitive abilities and disabilities.},
affiliation = {Social, Genetic and Developmental Psychiatry Centre, Number P080, Institute of Psychiatry, DeCrespigny Park, London, SE5 8AF, United Kingdom.},
number = {2},
pages = {145--51},
volume = {16},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Molecular Biology, Genetic Variation, Multivariate Analysis, Genetic Processes, Genetic Predisposition to Disease, Chromosome Mapping, Intelligence, Neurosciences, Cognitive Science, Humans, Cognition Disorders},
date-added = {2010-02-15 20:29:30 +0100},
date-modified = {2010-04-07 11:09:41 +0200},
doi = {10.1016/j.conb.2006.03.004},
pii = {S0959-4388(06)00029-8},
pmid = {16563732},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VS3-4JJGB2T-2&_user=2432700&_coverDate=04%252F30%252F2006&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=cdc0130bcbfa8ab6bfac1596cf84962e},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Butcher-2006-Curr%20Opin%20Neurobiol_Generalist%20genes%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5758},
rating = {0}
}
@article{Eisen1998,
author = {M B Eisen and P T Spellman and P O Brown and D Botstein},
journal = {Proceedings of the National Academy of Sciences},
title = {Cluster analysis and display of genome-wide expression patterns},
number = {25},
pages = {14863--14868},
volume = {95},
year = {1998},
date-added = {2010-01-12 14:26:40 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2551},
rating = {0}
}
@article{Bastian:2005p13125,
author = {V A Bastian and N R Burns and T Nettelbeck},
journal = {Personality and Individual Differences},
title = {Emotional intelligence predicts life skills, but not as well as personality and cognitive abilities},
abstract = {Emotional Intelligence (EI) is held to explain how emotions advance life goals. While different theories of EI have been proposed there is still controversy about how EI should be conceptualised and measured. It is agreed, however, that EI{\~O}s relevance depends on it being able to predict significant life outcomes. A study of 246 predominantly first-year tertiary students investigated relationships between EI and a number of 'life skills' (academic achievement, life satisfaction, anxiety, problem-solving and coping). Correlations between EI and academic achievement were small and not statistically significant, although higher EI was correlated with higher life satisfaction, better perceived problem-solving and coping ability and lower anxiety. How- ever, after controlling for the influence of personality and cognitive abilities, shared variance between EI and life skills was 6% or less.},
pages = {1135--1145},
volume = {39},
year = {2005},
date-added = {2010-06-26 10:50:28 +0200},
date-modified = {2010-06-26 10:51:51 +0200},
doi = {10.1016/j.paid.2005.04.006},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bastian-2005-Personality%20and%20Individual%20Differences_Emotional%20intelligen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13125},
rating = {0}
}
@article{Bock:1970,
author = {R Darrell Bock and Marcus Lieberman},
journal = {Psychometrika},
title = {Fitting a response model for n dichotomously scored items},
number = {2},
pages = {179--197},
volume = {35},
year = {1970},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bock-1970-Psychometrika_Fitting%20a%20response%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1883},
rating = {0}
}
@article{Sterne:2001p3601,
author = {J A Sterne and M Egger and G D Smith},
journal = {BMJ},
title = {Systematic reviews in health care: Investigating and dealing with publication and other biases in meta-analysis},
affiliation = {Medical Research Council Health Services Research Collaboration, Department of Social Medicine, University of Bristol, Bristol BS8 2PR. jonathan.sterne@bristol.ac.uk},
number = {7304},
pages = {101--5},
volume = {323},
year = {2001},
month = {Jul},
language = {eng},
keywords = {Statistics as Topic, Mathematics, Meta-Analysis as Topic, Bias (Epidemiology), Homeopathy, Humans, Placebo Effect},
date-added = {2010-01-15 21:41:34 +0100},
date-modified = {2010-01-15 21:41:34 +0100},
pmid = {11451790},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sterne-2001-BMJ_Systematic%20reviews%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3601},
rating = {0}
}
@article{Smyth:1996p13485,
author = {P Smyth},
journal = {KDD-96 Proceedings},
title = {CLustering using Monte Carlo cross-validation},
year = {1996},
date-added = {2010-07-01 22:18:11 +0200},
date-modified = {2010-07-01 22:19:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smyth-1996-KDD-96%20Proceedings_CLustering%20using%20Mon.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13485},
rating = {5}
}
@article{Rubio:2007p11862,
author = {Gabriel Rubio and M{\'o}nica Jim{\'e}nez and Roberto Rodr{\'\i}guez-Jim{\'e}nez and Isabel Mart{\'\i}nez and Martin Miguel Iribarren and Miguel Angel Jim{\'e}nez-Arriero and Guillermo Ponce and Cesar Avila},
journal = {Alcohol Clin Exp Res},
title = {Varieties of impulsivity in males with alcohol dependence: the role of Cluster-B personality disorder},
abstract = {BACKGROUND/RATIONALE: Impulsivity has been associated with alcohol dependence, but impulsivity in alcohol-dependent subjects with a Cluster-B personality disorder (PD) has not been well characterized. Using a variety of laboratory measures of impulsivity, we assessed whether alcohol-dependent patients (ADP) with borderline personality disorder (BPD) exhibited the same pattern of behavioral impulsivity than ADP with antisocial personality disorder (AntPD). Also, differences between ADP without PDs and healthy controls were assessed. METHODS: A cross-sectional patient survey with a community comparison group. Diagnoses were made using the Structured Interview for DSM-IV. Sustained attention and rapid-response impulsivity were assessed using the continuous performance test. Inhibitory control was measured by the stop-signal task. Ability to delay reward task was assessed using differential reinforcement for low-rate responding (DRLR). A final sample of 247 males with alcohol-dependence recruited from 2 alcoholism treatment centers was compared with a matched nonsubstance-abusing comparison group (n = 96). RESULTS: Alcohol-dependent patients with BPD made more omission errors than ADP with AntPD, but individuals with AntPD exhibited the poorest efficiency in DRLR. ADPs with a Cluster-B PD displayed more impairment across all behavioral measures than ADP without PD and than controls. In contrast, with respect to controls ADP without a Cluster-B PD showed more impairment only in DRLR. CONCLUSIONS: Our findings support the suggestion of 2 paradigms in alcohol dependence. The first, based on inability to delay gratification, might be a vulnerability marker for alcohol dependence. The second was related to inhibitory control and might be specific for AntPD and BPDs.},
affiliation = {Alcoholism Research Program, Retiro Mental Health Center, Madrid, Spain. garuva@inicia.es},
number = {11},
pages = {1826--32},
volume = {31},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Neuropsychological Tests, Cross-Sectional Studies, Middle Aged, Borderline Personality Disorder, Adult, Case-Control Studies, Humans, Impulsive Behavior, Alcoholism, Antisocial Personality Disorder, Male, Health Surveys},
date-added = {2010-05-23 11:45:35 +0200},
date-modified = {2010-07-29 19:13:02 +0200},
doi = {10.1111/j.1530-0277.2007.00506.x},
pii = {ACER506},
pmid = {17850221},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rubio-2007-Alcohol%20Clin%20Exp%20Res_Varieties%20of%20impulsi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11862},
rating = {4}
}
@article{Heinze:2004p3622,
author = {G Heinze and M Ploner},
title = {A SAS macro, S-PLUS library and R package to perform logistic regression without convergence problems},
abstract = {The phenomenon of separation is observed in the fitting process of a logistic model if the likelihood converges while at least one parameter estimate diverges to $\pm$ infinity. Separation primarily occurs in small samples with several unbalanced and highly predictive covariates (cf. Heinze, 1999). A procedure by Firth (1993) originally developed to reduce the bias of maximum likelihood estimates provides an ideal solution to monotone likelihood (cf. Heinze {\&} Schemper, 2002). It produces finite parameter estimates by means of penalized maximum likelihood estimation. Corresponding Wald tests and confidence intervals are available but it was shown that penalized likelihood ratio tests and profile penalized likelihood confidence intervals are often preferable.
This Technical Report presents a SAS macro, an S-PLUS library and an R package to apply Firth's procedure to logistic regression. The present report contains the complete User's Guide to these programs including syntax, computational methods and examples.},
year = {2004},
date-added = {2010-01-16 18:42:21 +0100},
date-modified = {2010-01-16 18:42:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heinze-2004-_A%20SAS%20macro%20S-PLUS.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3622},
rating = {0}
}
@article{Kim:2008p12122,
author = {Kyung In Kim and Mark A van de Wiel},
journal = {BMC Bioinformatics},
title = {Effects of dependence in high-dimensional multiple testing problems},
abstract = {BACKGROUND: We consider effects of dependence among variables of high-dimensional data in multiple hypothesis testing problems, in particular the False Discovery Rate (FDR) control procedures. Recent simulation studies consider only simple correlation structures among variables, which is hardly inspired by real data features. Our aim is to systematically study effects of several network features like sparsity and correlation strength by imposing dependence structures among variables using random correlation matrices. RESULTS: We study the robustness against dependence of several FDR procedures that are popular in microarray studies, such as Benjamin-Hochberg FDR, Storey's q-value, SAM and resampling based FDR procedures. False Non-discovery Rates and estimates of the number of null hypotheses are computed from those methods and compared. Our simulation study shows that methods such as SAM and the q-value do not adequately control the FDR to the level claimed under dependence conditions. On the other hand, the adaptive Benjamini-Hochberg procedure seems to be most robust while remaining conservative. Finally, the estimates of the number of true null hypotheses under various dependence conditions are variable. CONCLUSION: We discuss a new method for efficient guided simulation of dependent data, which satisfy imposed network constraints as conditional independence structures. Our simulation set-up allows for a structural study of the effect of dependencies on multiple testing criterions and is useful for testing a potentially new method on pi0 or FDR estimation in a dependency context.},
affiliation = {Department of Mathematics and Computer Science, Eindhoven University of Technology, Eindhoven, The Netherlands. k.i.kim@tue.nl},
pages = {114},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Sensitivity and Specificity, Reproducibility of Results, Statistics as Topic, Gene Expression Profiling, Artifacts, Algorithms, Oligonucleotide Array Sequence Analysis},
date-added = {2010-05-30 10:06:36 +0200},
date-modified = {2010-05-30 10:06:40 +0200},
doi = {10.1186/1471-2105-9-114},
pii = {1471-2105-9-114},
pmid = {18298808},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kim-2008-BMC%20Bioinformatics_Effects%20of%20dependenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12122},
rating = {3}
}
@article{Jin:2009p7856,
author = {C Jin and G Zhao and F Zhang and L Feng and N Wu},
journal = {HIV Med},
title = {The psychological status of HIV-positive people and their psychosocial experiences in eastern China},
abstract = {Objectives The aim of the study was to investigate the psychological status and the psychosocial experiences of HIV-positive people using Symptom Check List 90 (SCL-90) in eastern China. Methods Two hundred and fourteen HIV-positive people and 200 controls were recruited to the study. Participants were given an anonymous questionnaire which included questions pertaining to demography, SCL-90 and psychosocial experiences. Results The mean subscale scores for SCL-90 in the HIV-positive group were all higher than those of the control group (P<0.001), especially for depression, anxiety, obsessive-compulsive disorder and hostility. Female HIV-positive individuals had significantly higher depression and anxiety scores (P<0.05) and more scores higher than 2.0 than male HIV-positive individuals. The average number of subscales with mean scores higher than 2.0 was 4.1 for female HIV-positive individuals and 3.7 for male HIV-positive individuals. The most common psychosocial experiences related to HIV infection were fear (36.9%) and helplessness (31.8%). 90.2% of HIV-positive people would not tell others about their disease because of fear of discrimination against family members (42.2%), exclusion by community members (26.9%) and abandonment (23.3%). Discrimination from acquaintances (38.8%) was a main stressor in the HIV-positive individuals' daily life. Most members of HIV-positive individuals' communities expressed negative attitudes: alienation, coldness, aversion and fear. 38.3% of the HIV-positive participants reported that their family members had been discriminated against. Conclusions The results demonstrate that HIV-positive people in eastern China live in a negative psychosocial environment and suffer from psychological distress. It is necessary to provide psychological interventions for people living with AIDS and to educate community members in order to improve the psychosocial environment.},
affiliation = {State Key Laboratory for Diagnosis and Treatment of Infectious Disease, The First Affiliated Hospital, School of Medicine, Zhejiang University, Hangzhou 310003, China.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-03-18 21:06:56 +0100},
date-modified = {2010-07-29 19:27:54 +0200},
doi = {10.1111/j.1468-1293.2009.00770.x},
pii = {HIV770},
pmid = {20002782},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jin-2009-HIV%20Med_The%20psychological%20st.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7856},
rating = {3}
}
@article{Vacha-Haase:2001,
author = {T Vacha-Haase and L Kogan and C R Tani and R A Woodall},
journal = {Educational and Psychological Measurement},
title = {Reliability generalization: Exploring reliability coefficients of MMPI clinical scales scores},
pages = {45--59},
volume = {61},
year = {2001},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1895},
rating = {0}
}
@article{Hothorn:2005p4618,
author = {T Hothorn and F Leisch and A Zeilis and K Hornik},
journal = {Journal of Computational and Graphical Statistics},
title = {The Design and Analysis of Benchmark Experiments},
abstract = {The assessment of the performance of learners by means of benchmark experiments is an established exercise. In practice, benchmark studies are a tool to compare the performance of several competing algorithms for a certain learning problem. Cross-validation or resampling techniques are commonly used to derive point estimates of the performances which are com- pared to identify algorithms with good properties. For several benchmarking problems, test procedures taking the variability of those point estimates into account have been suggested. Most of the recently proposed inference procedures are based on special variance estimators for the cross-validated performance.
We introduce a theoretical framework for inference problems in benchmark experiments and show that standard statistical test procedures can be used to test for differences in the performances. The theory is based on well defined distributions of performance measures which can be compared with established tests. To demonstrate the usefulness in practice, the theoretical results are applied to regression and classification benchmark studies based on artificial and real world data.},
number = {3},
pages = {675--699},
volume = {14},
year = {2005},
date-added = {2010-01-30 15:25:08 +0100},
date-modified = {2010-01-30 15:26:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hothorn-2005-Journal%20of%20Computational%20and%20Graphical%20Statistics_The%20Design%20and%20Analy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4618},
rating = {0}
}
@misc{Leeuw:2003,
author = {Jan de Leeuw},
journal = {Miscellaneous},
title = {Principal component analysis with binary data. Applications to roll-call analysis},
year = {2003},
month = {Aug},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2003-Miscellaneous_Principal%20component.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2071},
rating = {0}
}
@article{Deerwester:1990,
author = {Scott Deerwester and Susan T Dumais and Richard Harshman},
journal = {Journal of the American Society for Information Science},
title = {Indexing by latent semantic analysis},
number = {6},
pages = {391--407},
volume = {41},
year = {1990},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Deerwester-1990-Journal%20of%20the%20American%20Society%20for%20Information%20Science_Indexing%20by%20latent%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1963},
rating = {0}
}
@article{Luciano:2008p5755,
author = {Michelle Luciano and Penelope A Lind and Ian J Deary and Antony Payton and Danielle Posthuma and Lee M Butcher and Zoltan Bochdanovits and Lawrence J Whalley and Peter M Visscher and Sarah E Harris and Tinca J C Polderman and Oliver S P Davis and Margaret J Wright and John M Starr and Eco J C de Geus and Timothy C Bates and Grant W Montgomery and Dorret I Boomsma and Nicholas G Martin and Robert Plomin},
journal = {Eur J Hum Genet},
title = {Testing replication of a 5-SNP set for general cognitive ability in six population samples},
abstract = {A 5-single nucleotide polymorphism (SNP) set has been associated with general cognitive ability in 5000 7-year-old children from the Twins Early Development Study (TEDS). Four of these SNPs were identified through a 10 K microarray analysis and one was identified through a targeted analysis of brain-expressed genes. The present study tested this association with general cognitive ability in six population samples of varying size and age from Australia, the UK (Scotland and England) and the Netherlands. Results from the largest sample (N=1310) approached significance (P=0.06) in the direction of the original finding, but results from the other samples (N=205-758) were mixed. A meta-analysis of the results--allowing for effect size heterogeneity between samples--yielded a non-significant correlation (r=-0.01, P=0.57), indicating that this SNP set was not associated with general cognitive ability in the populations studied.},
affiliation = {Department of Psychology, MRC Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, Edinburgh, UK. michelle.luciano@ed.ac.uk},
number = {11},
pages = {1388--95},
volume = {16},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Humans, Cognition, Polymorphism: Single Nucleotide, Child, Twins: Monozygotic, Child: Preschool, Follow-Up Studies, Meta-Analysis as Topic, Adult, Female, Twins: Dizygotic, Male, Adolescent},
date-added = {2010-02-15 20:29:45 +0100},
date-modified = {2010-02-15 20:29:45 +0100},
doi = {10.1038/ejhg.2008.100},
pii = {ejhg2008100},
pmid = {18493267},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5755},
rating = {0}
}
@article{Ioannidis:2006p9158,
author = {John P A Ioannidis and Marta Gwinn and Julian Little and Julian P T Higgins and Jonine L Bernstein and Paolo Boffetta and Melissa Bondy and Molly S Bray and Paul E Brenchley and Patricia A Buffler and Juan Pablo Casas and Anand Chokkalingam and John Danesh and George Davey Smith and Siobhan Dolan and Ross Duncan and Nelleke A Gruis and Patricia Hartge and Mia Hashibe and David J Hunter and Marjo-Riitta Jarvelin and Beatrice Malmer and Demetrius M Maraganore and Julia A Newton-Bishop and Thomas R O'Brien and Gloria Petersen and Elio Riboli and Georgia Salanti and Daniela Seminara and Liam Smeeth and Emanuela Taioli and Nic Timpson and Andre G Uitterlinden and Paolo Vineis and Nick Wareham and Deborah M Winn and Ron Zimmern and Muin J Khoury and Human Genome Epidemiology Network and the Network of Investigator Networks},
journal = {Nat Genet},
title = {A road map for efficient and reliable human genome epidemiology},
abstract = {Networks of investigators have begun sharing best practices, tools and methods for analysis of associations between genetic variation and common diseases. A Network of Investigator Networks has been set up to drive the process, sponsored by the Human Genome Epidemiology Network. A workshop is planned to develop consensus guidelines for reporting results of genetic association studies. Published literature databases will be integrated, and unpublished data, including 'negative' studies, will be captured by online journals and through investigator networks. Systematic reviews will be expanded to include more meta-analyses of individual-level data and prospective meta-analyses. Field synopses will offer regularly updated overviews.},
affiliation = {Clinical and Molecular Epidemiology Unit, Department of Hygiene and Epidemiology, University of Ioannina School of Medicine, and Biomedical Research Institute, Foundation for Research and Technology-Hellas, Ioannina 45110, Greece. jioannid@cc.uoi.gr},
number = {1},
pages = {3--5},
volume = {38},
year = {2006},
month = {Jan},
language = {eng},
keywords = {MEDLINE, Research Design, Genome: Human, Human Genome Project, Epidemiologic Methods, Databases: Factual, Humans, Genetic Predisposition to Disease},
date-added = {2010-03-22 13:34:39 +0100},
date-modified = {2010-03-22 13:34:43 +0100},
pmid = {16468121},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ioannidis-2006-Nat%20Genet_A%20road%20map%20for%20effic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9158},
rating = {4}
}
@article{Flynn:2008p13510,
author = {Terry N Flynn and Jordan J Louviere and Anthony Aj Marley and Joanna Coast and Tim J Peters},
journal = {Popul Health Metr},
title = {Rescaling quality of life values from discrete choice experiments for use as QALYs: a cautionary tale},
abstract = {ABSTRACT: BACKGROUND: Researchers are increasingly investigating the potential for ordinal tasks such as ranking and discrete choice experiments to estimate QALY health state values. However, the assumptions of random utility theory, which underpin the statistical models used to provide these estimates, have received insufficient attention. In particular, the assumptions made about the decisions between living states and the death state are not satisfied, at least for some people. Estimated values are likely to be incorrectly anchored with respect to death (zero) in such circumstances. METHODS: Data from the Investigating Choice Experiments for the preferences of older people CAPability instrument (ICECAP) valuation exercise were analysed. The values (previously anchored to the worst possible state) were rescaled using an ordinal model proposed previously to estimate QALY-like values. Bootstrapping was conducted to vary artificially the proportion of people who conformed to the conventional random utility model underpinning the analyses. RESULTS: Only 26% of respondents conformed unequivocally to the assumptions of conventional random utility theory. At least 14% of respondents unequivocally violated the assumptions. Varying the relative proportions of conforming respondents in sensitivity analyses led to large changes in the estimated QALY values, particularly for lower-valued states. As a result these values could be either positive (considered to be better than death) or negative (considered to be worse than death). CONCLUSION: Use of a statistical model such as conditional (multinomial) regression to anchor quality of life values from ordinal data to death is inappropriate in the presence of respondents who do not conform to the assumptions of conventional random utility theory. This is clearest when estimating values for that group of respondents observed in valuation samples who refuse to consider any living state to be worse than death: in such circumstances the model cannot be estimated. Only a valuation task requiring respondents to make choices in which both length and quality of life vary can produce estimates that properly reflect the preferences of all respondents.},
affiliation = {Department of Health Economics, Public Health Building, University of Birmingham, Birmingham B15 2TT, UK. j.coast@bham.ac.uk.},
pages = {6},
volume = {6},
year = {2008},
month = {Jan},
language = {eng},
date-added = {2010-07-07 21:03:00 +0200},
date-modified = {2010-07-29 19:44:07 +0200},
doi = {10.1186/1478-7954-6-6},
pii = {1478-7954-6-6},
pmid = {18945358},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Flynn-2008-Popul%20Health%20Metr_Rescaling%20quality%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13510},
rating = {0}
}
@article{Smith:2005,
author = {A B Smith and E P Wright and R Rush and D P Stark and G Velikova and P J Selby},
journal = {Psycho-Oncology},
title = {Rasch analysis of the dimensional structure of the hospital anxiety and depression scale},
year = {2005},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-2005-Psycho-Oncology_Rasch%20analysis%20of%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1888},
rating = {0}
}
@article{Roberson:2009p1621,
author = {Elisha D O Roberson and Jonathan Pevsner},
journal = {PLoS ONE},
title = {Visualization of shared genomic regions and meiotic recombination in high-density SNP data},
abstract = {BACKGROUND: A fundamental goal of single nucleotide polymorphism (SNP) genotyping is to determine the sharing of alleles between individuals across genomic loci. Such analyses have diverse applications in defining the relatedness of individuals (including unexpected relationships in nominally unrelated individuals, or consanguinity within pedigrees), analyzing meiotic crossovers, and identifying a broad range of chromosomal anomalies such as hemizygous deletions and uniparental disomy, and analyzing population structure. PRINCIPAL FINDINGS: We present SNPduo, a command-line and web accessible tool for analyzing and visualizing the relatedness of any two individuals using identity by state. Using identity by state does not require prior knowledge of allele frequencies or pedigree information, and is more computationally tractable and is less affected by population stratification than calculating identity by descent probabilities. The web implementation visualizes shared genomic regions, and generates UCSC viewable tracks. The command-line version requires pedigree information for compatibility with existing software and determining specified relationships even though pedigrees are not required for IBS calculation, generates no visual output, is written in portable C++, and is well-suited to analyzing large datasets. We demonstrate how the SNPduo web tool identifies meiotic crossover positions in siblings, and confirm our findings by visualizing meiotic recombination in synthetic three-generation pedigrees. We applied SNPduo to 210 nominally unrelated Phase I / II HapMap samples and, consistent with previous findings, identified six undeclared pairs of related individuals. We further analyzed identity by state in 2,883 individuals from multiplex families with autism and identified a series of anomalies including related parents, an individual with mosaic loss of chromosome 18, an individual with maternal heterodisomy of chromosome 16, and unexplained replicate samples. CONCLUSIONS: SNPduo provides the ability to explore and visualize SNP data to characterize the relatedness between individuals. It is compatible with, but distinct from, other established analysis software such as PLINK, and performs favorably in benchmarking studies for the analyses of genetic relatedness.},
affiliation = {Program in Human Genetics, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America.},
number = {8},
pages = {e6711},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-08 21:49:56 +0100},
date-modified = {2010-01-08 21:49:56 +0100},
doi = {10.1371/journal.pone.0006711},
pmid = {19696932},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roberson-2009-PLoS%20ONE_Visualization%20of%20sha.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1621},
rating = {0}
}
@article{Altman:1996p5845,
author = {J Altman and B J Everitt and S Glautier and A Markou and D Nutt and R Oretti and G D Phillips and T W Robbins},
journal = {Psychopharmacology (Berl)},
title = {The biological, social and clinical bases of drug addiction: commentary and debate},
abstract = {This article summarizes the main discussions at a meeting on the biological, social and clinical bases of drug addiction focused on contemporary topics in drug dependence. Four main domains are surveyed, reflecting the structure of the meeting: psychological and pharmacological factors; neurobiological substrates; risk factors (including a consideration of vulnerability from an environmental and genetic perspective); and clinical treatment. Among the topics discussed were tolerance, sensitization, withdrawal, craving and relapse; mechanisms of reinforcing actions of drugs at the behavioural, cognitive and neural levels; the role of subjective factors in drug dependence; approaches to the behavioural and molecular genetics of drug dependence; the use of functional neuroimaging; pharmaceutical and psychosocial strategies for treatment; epidemiological and sociological aspects of drug dependence. The survey takes into account the considerable disagreements and controversies arising from the discussions, but also reaches a degree of consensus in certain areas.},
affiliation = {Department of Experimental Psychology, University of Cambridge, UK.},
number = {4},
pages = {285--345},
volume = {125},
year = {1996},
month = {Jun},
language = {eng},
keywords = {Ethanol, Narcotics, Substance-Related Disorders, Brain, Humans, Drug Tolerance, Nicotine, Substance Withdrawal Syndrome, Risk Factors},
date-added = {2010-02-17 10:19:02 +0100},
date-modified = {2010-07-29 19:47:40 +0200},
pmid = {8826538},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5845},
rating = {0}
}
@article{Michailidis:2010p4268,
author = {G Michailidis and Jan de Leeuw},
title = {Homogeneity analysis using absolute deviations},
abstract = {Homogeneity analysis is a technique for making graphical representations of categor- ical multivariate data sets. Such data sets can also be represented by the adjacency matrix of a bipartite graph. Homogeneity analysis optimizes a weighted least squares criterion and the optimal graph drawing is computed by an alternating least squares algorithm. Heiser (1987) looked at homo- geneity analysis under a weighted least absolute deviations criterion. In this paper, we take a closer look at the mathematical structure of this problem and show that the graph drawings are created by reciprocal computation of multivariate medians. Several algorithms for computing the solution are investigated and applications to actual data suggest that the resulting -dimensional drawings
are degenerate, in the sense that all object points are clustered in locations. We also examine some variations of the criterion used and conclude that the generate solutions observed are a consequence of the normalization constraint employed in this class of problems.},
date-added = {2010-01-23 21:32:21 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Michailidis--_Homogeneity%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4268},
rating = {0}
}
@article{Carskadon:1993p10135,
author = {M A Carskadon and C Acebo},
journal = {J Adolesc Health},
title = {A self-administered rating scale for pubertal development},
abstract = {The purpose of this study was to assess the reliability and validity of a new self-rating scale to measure children's pubertal status without pictorial representations or interviews. The scale is an adaptation of an interview-based puberty-rating scale by Petersen, and included scores for each of five items rating physical development, an overall maturation measure, and a categorical maturation score designed to be similar to Tanner staging categories. Each measure was obtained from independent ratings by students and parents, and a 3-point categorical scale was also obtained from teachers. Subjects included 698 5th- and 6th-grade students (323 boys and 375 girls) from 61 schools and their parents and teachers. Fifth-grade students rated themselves and were rated by parents as less mature than 6th graders; 6th-grade girls were consistently rated more mature than boys of the same age. Significant correlations were found between parents and students for all of the measures for 6th-graders and 5th-grade girls and several measures for 5th-grade boys. This new scale is a useful tool for assessing pubertal status in settings that require noninvasive measures.},
affiliation = {E. P. Bradley Hospital, Department of Psychiatry and Human Behavior, Brown University School of Medicine, East Providence, Rhode Island 02915.},
number = {3},
pages = {190--5},
volume = {14},
year = {1993},
month = {May},
language = {eng},
keywords = {Puberty, Adolescent, Human Development, Female, Teaching, Male, Evaluation Studies as Topic, Reproducibility of Results, Parents, Humans, Questionnaires, Child, Data Collection, Sex Characteristics},
date-added = {2010-03-31 20:38:30 +0200},
date-modified = {2010-03-31 20:38:30 +0200},
pmid = {8323929},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carskadon-1993-J%20Adolesc%20Health_A%20self-administered.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10135},
rating = {0}
}
@article{Hunter:2002p2724,
author = {M A Hunter and Y Takane},
journal = {Journal of Educational and Behavioral Statistics},
title = {Constrained Principal Component Analysis: Various applications},
number = {2},
pages = {105--145},
volume = {27},
year = {2002},
date-added = {2010-01-13 14:14:08 +0100},
date-modified = {2010-01-13 14:15:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hunter-2002-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Constrained%20Principa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2724},
rating = {0}
}
@article{Bickel:2008p5662,
author = {P J Bickel and E Levina},
journal = {The Annals of Statistics},
title = {COVARIANCE REGULARIZATION BY THRESHOLDING},
abstract = {This paper considers regularizing a covariance matrix of p variables estimated from n observations, by hard thresholding. We show that the thresholded estimate is consistent in the operator norm as long as the true covariance matrix is sparse in a suitable sense, the variables are Gaussian or sub-Gaussian, and (log p)/n → 0, and obtain explicit rates. The results are uniform over families of covariance matrices which satisfy a fairly natural no- tion of sparsity. We discuss an intuitive resampling scheme for threshold se- lection and prove a general cross-validation result that justifies this approach. We also compare thresholding to other covariance estimators in simulations and on an example from climate data.},
number = {6},
pages = {2577--2604},
volume = {36},
year = {2008},
date-added = {2010-02-12 20:26:44 +0100},
date-modified = {2010-02-12 20:27:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bickel-2008-The%20Annals%20of%20Statistics_COVARIANCE%20REGULARIZ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5662},
rating = {0}
}
@article{Lloyd:2009p925,
author = {Jennifer E V Lloyd and Bruno D Zumbo and Linda S Siegel},
journal = {Journal of Educational Research {\&} Policy Studies},
title = {When Measures Change over Time: A Workable Solution for Analysing Change and Growth across Multiple Waves},
abstract = {In the past 20 years, the analysis of individual change has become a key focus in educational research. There are several parametric analyses that centre upon quantifying change. Some researchers state that such analyses should only occur if the measure itself remains completely unchanged across waves, arguing that it is not possible to link or connect the scores, either methodologically or conceptually, of measures whose content, wording, response categories, or response formats vary across waves. Because it is not always possible or warranted to use the exact same measure over time, however, it is vital to explore more fully the problem of analysing change and growth with measures that vary across waves. To this end, the primary objective of this paper is to expand upon the statistical work of Lloyd and Zumbo (2007) by introducing the non- parametric hierarchical linear model (NPAR-HLM), a workable solution to the problem of analysing change/growth with measures that change over multiple waves. An example of the implementation of the solution is provided, as is a discussion of the solution's assumptions, strengths, and limitations.},
affiliation = {University of British Columbia},
number = {2},
pages = {81--100},
volume = {9},
year = {2009},
date-added = {2010-01-03 19:19:41 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lloyd-2009-Journal%20of%20Educational%20Research%20&%20Policy%20Studies_When%20Measures%20Change.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p925},
rating = {0}
}
@article{Rivas:2010p11226,
author = {M A Rivas and M J Daly and I Pe'er},
title = {Age, Sex, and Genetic Architecture of Human Gene Expression in EBV Transformed Cell Line},
abstract = {Individual expression profiles from EBV transformed cell lines are an emerging resource for genomic investigation. In this study we characterize the effects of age, sex, and genetic variation on gene expression by surveying public datasets of such profiles. We establish that the expression space of cell lines maintains genetic as well as non-germline information, in an individual-specific and cross-tissue manner. Age of donor is associated with the expression of 949 genes in the derived cell line. Age-associated genes include over-representation of immune-related genes, specifically MHC Class I genes, a phenomenon that replicates across tissues and organisms. Sex associated genes in these cell lines include likely candidates, such as genes that escape X-inactivation, testis specific expressed genes, androgen and estrogen specific genes, but also gene families previously unknown to be sex associated such as common microRNA targets (MIR-490, V_ARP1_01, MIR-489). Finally, we report 494 transcripts whose expression levels are associated with a genetic variant in cis, overlapping and validating previous reports. Incorporating age in analysis of association facilitates additional discovery of trans-acting regulatory genetic variants. Our findings promote expression profiling of transformed cell lines as a vehicle for understanding cellular systems beyond the specific lines.},
date-added = {2010-04-25 21:29:26 +0200},
date-modified = {2010-04-25 21:30:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rivas--_Age%20Sex%20and%20Geneti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11226},
rating = {0}
}
@article{Nicodemus:2007p5842,
author = {Kristin K Nicodemus and Bhaskar S Kolachana and Radhakrishna Vakkalanka and Richard E Straub and Ina Giegling and Michael F Egan and Dan Rujescu and Daniel R Weinberger},
journal = {Hum Genet},
title = {Evidence for statistical epistasis between catechol-O-methyltransferase (COMT) and polymorphisms in RGS4, G72 (DAOA), GRM3, and DISC1: influence on risk of schizophrenia},
abstract = {Catechol-O-methyltransferase (COMT) regulates dopamine degradation and is located in a genomic region that is deleted in a syndrome associated with psychosis, making it a promising candidate gene for schizophrenia. COMT also has been shown to influence prefrontal cortex processing efficiency. Prefrontal processing dysfunction is a common finding in schizophrenia, and a background of inefficient processing may modulate the effect of other candidate genes. Using the NIMH sibling study (SS), a non-independent case-control set, and an independent German (G) case-control set, we performed conditional/unconditional logistic regression to test for epistasis between SNPs in COMT (rs2097603, Val158Met (rs4680), rs165599) and polymorphisms in other schizophrenia susceptibility genes. Evidence for interaction was evaluated using a likelihood ratio test (LRT) between nested models. SNPs in RGS4, G72, GRM3, and DISC1 showed evidence for significant statistical epistasis with COMT. A striking result was found in RGS4: three of five SNPs showed a significant increase in risk [LRT P-values: 90387 = 0.05 (SS); SNP4 = 0.02 (SS), 0.02 (G); SNP18 = 0.04 (SS), 0.008 (G)] in interaction with COMT; main effects for RGS4 SNPs were null. Significant results for SNP4 and SNP18 were also found in the German study. We were able to detect statistical interaction between COMT and polymorphisms in candidate genes for schizophrenia, many of which had no significant main effect. In addition, we were able to replicate other studies, including allelic directionality. The use of epistatic models may improve replication of psychiatric candidate gene studies.},
affiliation = {Clinical Brain Disorders Branch, National Institute of Mental Health, National Institute of Health, Bethesda, MD 20892, USA.},
number = {6},
pages = {889--906},
volume = {120},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Middle Aged, Alleles, Case-Control Studies, Schizophrenia, Genetic Predisposition to Disease, Risk Factors, Epistasis: Genetic, Genotype, Haplotypes, Carrier Proteins, Humans, Catechol O-Methyltransferase, Models: Genetic, Receptors: Metabotropic Glutamate, RGS Proteins, Female, Adolescent, Polymorphism: Single Nucleotide, Adult, Male, Siblings, Nerve Tissue Proteins},
date-added = {2010-02-17 10:17:40 +0100},
date-modified = {2010-07-29 19:28:44 +0200},
doi = {10.1007/s00439-006-0257-3},
pmid = {17006672},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicodemus-2007-Hum%20Genet_Evidence%20for%20statist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5842},
rating = {0}
}
@article{Sulek:2007p1319,
author = {S Sulek and Z Lacinov{\'a} and M Dolinkov{\'a} and M Haluzik},
journal = {Prague Med Rep},
title = {Genetic polymorphisms as a risk factor for anorexia nervosa},
abstract = {Anorexia nervosa (AN) is an eating disorder affecting mostly young people which could lead to serious complications and consequences. There are ethnical and gender differences in the incidence and prevalence of AN, but the influence of urbanization has not yet been proved. The relationship of genetic background to the risk of AN is still being investigated. In this review we summarize current knowledge about the relationship between AN and polymorphism of substances known to be regulating eating behaviour or metabolic pathways e.g. serotonin, ghrelin, catechol-O-methyl transferase, neuropeptide Y, brain-derived neurotrophic factor and adipokines.},
affiliation = {Department of Paediatrics and Adolescent Medicine, Charles University in Prague, First Faculty of Medicine and General Teaching Hospital, Prague, Czech Republic. stepan.sulek@gmail.com},
number = {3},
pages = {215--25},
volume = {108},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Ghrelin, Catechol O-Methyltransferase, Genetic Predisposition to Disease, Humans, Polymorphism: Genetic, Anorexia Nervosa, Adipokines, Serotonin, Neuropeptide Y, Risk Factors},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
pmid = {18399059},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1319},
rating = {0}
}
@article{Abdo:2008p4588,
author = {Ayman A Abdo},
journal = {Saudi J Gastroenterol},
title = {Hepatitis C and poor quality of life: is it the virus or the patient?},
abstract = {Hepatitis C is a systemic disease that has many extrahepatic manifestations in addition to hepatic inflammation and fibrosis, some of which may result in a poor health-related quality of life (HRQOL). Fatigue is perhaps the most frequent and disabling extrahepatic symptom of hepatitis C virus (HCV), reported in almost one-half of all chronically infected individuals. Many other factors are associated with a poor quality of life in patients with HCV, including a number of physical and psychological factors. The objective of this article is to review the association between HCV and impaired HRQOL due to fatigue and psychological disturbances.},
affiliation = {Division of Gastroenterology, Department of Medicine, King Saud University, Riyadh, Saudi Arabia. aabdo@ksu.edu.sa},
number = {3},
pages = {109--13},
volume = {14},
year = {2008},
month = {Jul},
language = {eng},
date-added = {2010-01-29 22:33:23 +0100},
date-modified = {2010-01-29 22:33:23 +0100},
doi = {10.4103/1319-3767.41727},
pmid = {19568517},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abdo-2008-Saudi%20J%20Gastroenterol_Hepatitis%20C%20and%20poor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4588},
read = {Yes},
rating = {0}
}
@article{CostaSantos:2010p6657,
author = {Cristina Costa-Santos and Jo{\~a}o Bernardes and Diogo Ayres-de-Campos and Ant{\'o}nia Costa and C{\'e}lia Costa},
journal = {Journal of Clinical Epidemiology},
title = {The limits of agreement and the intraclass correlation coefficient may be inconsistent in the interpretation of agreement},
abstract = {OBJECTIVE: To compare the interpretation of agreement in the prediction of neonatal outcome variables, using the limits of agreement (LA) and the intraclass correlation coefficient (ICC). STUDY DESIGN AND SETTING: Three obstetricians were asked to predict neonatal outcomes independently based on the evaluation of intrapartum cardiotocographic tracings. Interobserver agreement was assessed with the LA and the ICC, and the results obtained were interpreted by six clinicians and six statisticians on a scale that established agreement as very poor, poor, fair, good, or very good. RESULTS: Interpretation of the LA results was less consensual than the ICC results, with proportions of agreement of 0.36 (95% confidence interval [CI]: 0.28-0.44) vs. 0.63 (95% CI: 0.54-0.73), respectively. LA results suggested a fair to good agreement among obstetricians, whereas interpretation of ICC results suggested a poor to fair agreement. LA results were more plausible with reality, suggesting that obstetricians predicted neonatal outcomes better than randomly generated values, whereas it was not always the case with the ICC. CONCLUSIONS: LA and ICC can provide inconsistent results in agreement studies. Accordingly, in the absence of better strategies to assess agreement, both should be used for this purpose, but their results need to be interpreted with caution keeping their respective limitations in mind.},
affiliation = {Biostatistics and Medical Informatics Department, Faculty of Medicine, University of Porto, Porto, Portugal; Center for Research in Health Technologies and Information Systems, Faculty of Medicine, University of Porto, Porto, Portugal.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-03 20:40:39 +0100},
date-modified = {2010-03-03 20:40:41 +0100},
doi = {10.1016/j.jclinepi.2009.11.010},
pii = {S0895-4356(09)00364-3},
pmid = {20189765},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Costa-Santos-2010-Journal%20of%20Clinical%20Epidemiology_The%20limits%20of%20agreem-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6657},
rating = {3}
}
@article{GonzalezRoma:2003p5888,
author = {V Gonzalez-Roma and B Espejo},
journal = {Psicothema},
title = {Testing the middle response categories «Not sure», «In between» and «?» in polytomous items},
abstract = {The first aim of this study is to test two assumptions of integer scoring (the assumption of ordered res- ponse categories, and the assumption of ordered thresholds). We tested these assumptions using a set of items extracted from the social boldness scale of the 16PF questionnaire that were presented with three different middle response categories: «Not sure», «In between» and «?». The second aim was to compare a 3-point response scale with a dichotomous response scale in terms of the information func- tion and correlations with external criteria. The sample was composed of 816 undergraduate students. The results obtained showed that both assumptions were met only when the middle response category was «In between». The results also revealed that a 3-point response scale including «In between» pro- vided more information than a dichotomous response scale. Both scales showed similar correlations with the considered external criteria.},
number = {2},
pages = {278--284},
volume = {15},
year = {2003},
date-added = {2010-02-17 20:59:50 +0100},
date-modified = {2010-02-17 21:00:59 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gonzalez-Roma-2003-Psicothema_Testing%20the%20middle%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5888},
rating = {0}
}
@article{Gray:2002p10560,
author = {Jeremy R Gray and Todd S Braver and Marcus E Raichle},
journal = {Proc Natl Acad Sci USA},
title = {Integration of emotion and cognition in the lateral prefrontal cortex},
abstract = {We used functional MRI to test the hypothesis that emotional states can selectively influence cognition-related neural activity in lateral prefrontal cortex (PFC), as evidence for an integration of emotion and cognition. Participants (n = 14) watched short videos intended to induce emotional states (pleasant/approach related, unpleasant/withdrawal related, or neutral). After each video, the participants were scanned while performing a 3-back working memory task having either words or faces as stimuli. Task-related neural activity in bilateral PFC showed a predicted pattern: an Emotion x Stimulus crossover interaction, with no main effects, with activity predicting task performance. This highly specific result indicates that emotion and higher cognition can be truly integrated, i.e., at some point of processing, functional specialization is lost, and emotion and cognition conjointly and equally contribute to the control of thought and behavior. Other regions in lateral PFC showed hemispheric specialization for emotion and for stimuli separately, consistent with a hierarchical and hemisphere-based mechanism of integration.},
affiliation = {Department of Psychology, Washington University, One Brookings Drive, St. Louis, MO 63130, USA.},
number = {6},
pages = {4115--20},
volume = {99},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Prefrontal Cortex, Behavior, Male, Memory, Cognition, Photic Stimulation, Functional Laterality, Emotions, Videotape Recording, Pattern Recognition: Visual, Female, Magnetic Resonance Imaging, Language, Humans, Adult},
date-added = {2010-04-07 11:32:38 +0200},
date-modified = {2010-04-07 11:32:38 +0200},
doi = {10.1073/pnas.062381899},
pii = {99/6/4115},
pmid = {11904454},
url = {http://www.pnas.org/content/99/6/4115.long},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gray-2002-Proc%20Natl%20Acad%20Sci%20USA_Integration%20of%20emoti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10560},
rating = {0}
}
@article{Greenland:1991p1684,
author = {S Greenland and J M Robins},
title = {Empirical-Bayes adjustments for multiple comparisons are sometimes useful},
year = {1991},
date-added = {2010-01-08 22:30:37 +0100},
date-modified = {2010-01-09 18:24:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Greenland-1991-_Empirical-Bayes%20adju.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1684},
rating = {0}
}
@article{Williams:2009p8911,
author = {Leanne M Williams and Justine M Gatt and Peter R Schofield and Gloria Olivieri and Anthony Peduto and Evian Gordon},
journal = {Neuroimage},
title = {'Negativity bias' in risk for depression and anxiety: brain-body fear circuitry correlates, 5-HTT-LPR and early life stress},
abstract = {The INTEGRATE Model draws on the framework of 'integrative neuroscience' to bring together brain-body and behavioral concepts of emotion, thinking and feeling and their regulation. The key organizing principle is the drive to 'minimize danger and maximize reward' that determines what is significant to us at each point in time. Traits of 'negativity bias' reflect the tendency to perceive danger rather than reward related information, and this bias influences emotion, thinking and feeling processes. Here, we examined a self-report measure of Negativity Bias in relation to its impact on brain and body correlates of emotion processing. The contributions of the serotonin transporter (5-HTT-LPR) allelic variants and early life stress to both negativity bias and these correlates were also examined. Data were accessed in collaboration with the Brain Resource International Database (BRID) which provides standardized data across these domains of measurement. From an initial sample of 303 nonclinical subjects from the BRID, subjects scoring one standard deviation below (n=55) and above (n=47) the mean on the measure of negativity bias were identified as 'Negativity Bias' and 'Positivity Bias' groups for analysis, respectively. These subjects had been genotyped for 5-HTT-LPR Short allele versus LL homozygote status, and completed the early life stress scale, and recording of startle responses and heart rate for conscious and nonconscious fear conditions. A matched subset (n=39) of BRID subjects completed functional MRI with the same facial emotion tasks. The Negativity Bias (compared to Positivity Bias) group was distinguished by both arousal and brain function correlates: higher startle amplitude, higher heart rate for conscious and nonconscious fear conditions, and heightened activation in neural circuitry for both fear conditions. Regions of heightened activation included brainstem and bilateral amygdala, anterior cingulate and ventral and dorsal medial prefrontal cortex (mPFC) for conscious fear, and brainstem and right-sided amygdala, anterior cingulate and ventral, mPFC for nonconscious fear. The 5-HTT-LPR Short allele (versus LL) conferred a similar pattern of arousal and neural activation. For those with the 5-HTT-LPR Short allele, the addition of early life stress contributed to enhanced negativity bias, and to further effects on heart rate and neural activation for nonconscious fear in particular. These findings suggest that traits of negativity bias impact brain-body arousal correlates of fear circuitry. Both genetic variation and life stressors contribute to the impact of negativity bias. Given that negativity bias is a feature of conditions such as depression and associated biological alterations, the findings have implications for translation into clinical decision support.},
affiliation = {Brain Dynamics Centre, Westmead Millennium Institute and University of Sydney at Westmead Hospital, Westmead, NSW 2145, Australia. lea_williams@wmi.usyd.edu.au},
number = {3},
pages = {804--14},
volume = {47},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Brain Mapping, Brain, Young Adult, Heart Rate, Emotions, Fear, Adult, Middle Aged, Risk Factors, Depression, Electromyography, Personality, Stress: Psychological, Male, Female, Adolescent, Humans, Arousal, Genetic Predisposition to Disease, Startle Reaction, Anxiety, Serotonin Plasma Membrane Transport Proteins, Magnetic Resonance Imaging},
date-added = {2010-03-22 12:57:13 +0100},
date-modified = {2010-03-22 12:57:13 +0100},
doi = {10.1016/j.neuroimage.2009.05.009},
pii = {S1053-8119(09)00491-1},
pmid = {19446647},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4W91PVH-2&_user=2432700&_coverDate=09%252F30%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=77ce2f8319f094e029373ae1069c935a},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-2009-Neuroimage_'Negativity%20bias'%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8911},
rating = {0}
}
@article{vanBuuren:2006p13984,
author = {Stef van Buuren and J P L Brand and C G M Groothuis-Oudshoorn and D B Rubin},
journal = {Journal of Statistical Computation and Simulation},
title = {Fully conditional specification in multivariate imputation},
abstract = {The use of the Gibbs sampler with fully conditionally specified models, where the distribution of each variable given the other variables is the starting point, has become a popular method to create imputations in incomplete multivariate data. The theoretical weakness of this approach is that the specified conditional densities can be incompatible, and therefore the stationary distribution to which the Gibbs sampler attempts to converge may not exist. This study investigates practical consequences of this problem by means of simulation. Missing data are created under four different missing data mechanisms. Attention is given to the statistical behavior under compatible and incompatible models. The results indicate that multiple imputation produces essentially unbiased estimates with appropriate coverage in the simple cases investigated, even for the incompatible models. Of particular interest is that these results were produced using only five Gibbs iterations starting from a simple draw from observed marginal distributions. It thus appears that, despite the theoretical weaknesses, the actual performance of conditional model specification for multivariate imputation can be quite good, and therefore deserves further study.},
number = {12},
pages = {1049--1064},
volume = {76},
year = {2006},
date-added = {2010-07-30 21:33:53 +0200},
date-modified = {2010-07-30 21:35:33 +0200},
doi = {10.1080/10629360600810434},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Buuren-2006-Journal%20of%20Statistical%20Computation%20and%20Simulation_Fully%20conditional%20sp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13984},
rating = {0}
}
@article{Singh:2009p11625,
author = {K Singh},
journal = {Journal of the Indian Academy of Applied Psychology},
title = {NEO-PI-R Factor Structure in College Students},
abstract = {Little is known about the effectiveness and validity of the revised NEO personality inventory (NEO-PI-R) for identifying the personality traits of the big five in Indian context on students' sample. The main objectives of this study were to examine the replicability of the five-factor model and to establish external validity for personality traits in this population. A total of 205 technology students completed the NEO-PI-R, Emotional intelligence scale and Oxford Happiness Questionnaire. Using principal component analysis with varimax rotation, the dimensions of personality in the Indian students sample clearly replicate the five-factor structure for N,C, and A except A5 facet. Whereas, O and E did not get high loading of their all facets. Psychometric properties of NEO-PI-R have been discussed in this paper.},
number = {1},
pages = {17--25},
volume = {35},
year = {2009},
date-added = {2010-05-11 22:45:37 +0200},
date-modified = {2010-05-11 22:46:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Singh-2009-Journal%20of%20the%20Indian%20Academy%20of%20Applied%20Psychology_NEO-PI-R%20Factor%20Stru.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11625},
rating = {0}
}
@article{Sluyter:2010p12086,
author = {Ronald Sluyter and Leanne Stokes and Stephen J Fuller and Kristen K Skarratt and Ben J Gu and James S Wiley},
journal = {J Psychiatr Res},
title = {Functional significance of P2RX7 polymorphisms associated with affective mood disorders},
affiliation = {School of Biological Sciences, University of Wollongong, Wollongong, NSW, Australia.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-24 12:31:37 +0200},
date-modified = {2010-05-24 12:31:37 +0200},
doi = {10.1016/j.jpsychires.2010.04.013},
pii = {S0022-3956(10)00123-8},
pmid = {20462595},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sluyter-2010-J%20Psychiatr%20Res_Functional%20significa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12086},
rating = {0}
}
@techreport{Wang:1998,
author = {Wen-Chung Wang},
journal = {Techreport},
title = {An ANOVA-like Rasch analysis of differential item functioning},
affiliation = {National Chung Cheng University},
year = {1998},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-1998-Techreport_An%20ANOVA-like%20Rasch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1870},
rating = {0}
}
@article{Pan:2005p9851,
author = {Zhiying Pan and D Y Lin},
journal = {Biometrics},
title = {Goodness-of-fit methods for generalized linear mixed models},
abstract = {We develop graphical and numerical methods for checking the adequacy of generalized linear mixed models (GLMMs). These methods are based on the cumulative sums of residuals over covariates or predicted values of the response variable. Under the assumed model, the asymptotic distributions of these stochastic processes can be approximated by certain zero-mean Gaussian processes, whose realizations can be generated through Monte Carlo simulation. Each observed process can then be compared, both visually and analytically, to a number of realizations simulated from the null distribution. These comparisons enable one to assess objectively whether the observed residual patterns reflect model misspecification or random variation. The proposed methods are particularly useful for checking the functional form of a covariate or the link function. Extensive simulation studies show that the proposed goodness-of-fit tests have proper sizes and are sensitive to model misspecification. Applications to two medical studies lead to improved models.},
affiliation = {Department of Biostatistics, University of North Carolina, CB 7420, McGavran-Greenberg Hall, Chapel Hill, 27599-7420, USA.},
number = {4},
pages = {1000--9},
volume = {61},
year = {2005},
month = {Dec},
language = {eng},
keywords = {HIV Infections, Female, Vitamin A, Data Interpretation: Statistical, Humans, Monte Carlo Method, Male, Zidovudine, CD4 Lymphocyte Count, Linear Models, Computer Simulation, Indonesia, Child: Preschool, Respiratory Tract Infections, Anti-HIV Agents},
date-added = {2010-03-26 19:29:49 +0100},
date-modified = {2010-03-26 19:29:49 +0100},
doi = {10.1111/j.1541-0420.2005.00365.x},
pii = {BIOM365},
pmid = {16401273},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pan-2005-Biometrics_Goodness-of-fit%20meth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9851},
rating = {0}
}
@article{Rabe-Hesketh:2001a,
author = {Sophia Rabe-Hesketh and Anders Skrondal and Andrew Pickles},
journal = {The Stata Joumal},
title = {Maximum likelihood estimation of generalized linear model with covariate measurement error},
number = {1},
volume = {1},
year = {2001},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:53:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2001-The%20Stata%20Joumal_Maximum%20likelihood%20e.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1101},
rating = {0}
}
@article{Soto:2008p13864,
author = {Christopher J Soto and Oliver P John and Samuel D Gosling and Jeff Potter},
journal = {J Pers Soc Psychol},
title = {The developmental psychometrics of big five self-reports: acquiescence, factor structure, coherence, and differentiation from ages 10 to 20},
abstract = {How do youths' personality reports differ from those of adults? To identify the year-by-year timing of developmental trends from late childhood (age 10) to early adulthood (age 20), the authors examined Big Five self-report data from a large and diverse Internet sample. At younger ages within this range, there were large individual differences in acquiescent responding, and acquiescence variability had pronounced effects on psychometric characteristics. Beyond the effects of acquiescence, self-reports generally became more coherent within domains, and better differentiated across domains, at older ages. Importantly, however, different Big Five domains showed different developmental trends. Extraversion showed especially pronounced age gains in coherence but no gains in differentiation. In contrast, Agreeableness and Conscientiousness showed large age gains in differentiation but only trivial gains in coherence. Neuroticism and Openness showed moderate gains in both coherence and differentiation. Comparisons of items that were relatively easy versus difficult to comprehend indicated that these patterns were not simply due to verbal comprehension. These findings have important implications for the study of personality characteristics and other psychological attributes in childhood and adolescence.},
affiliation = {Department of Psychology, University of California, Berkeley, CA 94720-5050, USA. cjsoto@berkeley.edu},
number = {4},
pages = {718--37},
volume = {94},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Patient Selection, Humans, Informed Consent, Self Concept, Child, Psychometrics, Language Development, Male, Vocabulary, Data Collection, Reproducibility of Results, Adolescent, Extraversion (Psychology), Adult, Personality Development, Internet, Personality Inventory, Comprehension, Female},
date-added = {2010-07-29 17:44:35 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
doi = {10.1037/0022-3514.94.4.718},
pii = {2008-02998-010},
pmid = {18361680},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13864},
rating = {0}
}
@article{Nering:1995p2698,
author = {M L Nering},
journal = {Applied Psychological Measurement},
title = {The Distribution of Person Fit Using True and Estimated Person Parameters},
number = {2},
pages = {121--129},
volume = {19},
year = {1995},
date-added = {2010-01-13 10:16:54 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nering-1995-Applied%20Psychological%20Measurement_The%20Distribution%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2698},
rating = {0}
}
@article{Felsted:2010p8906,
author = {Jennifer A Felsted and Xueying Ren and Francois Chouinard-Decorte and Dana M Small},
journal = {J Neurosci},
title = {Genetically determined differences in brain response to a primary food reward},
abstract = {Combining genetic and neuroimaging techniques may elucidate the biological underpinnings of individual differences in neurophysiology and potential vulnerabilities to disease. The TaqIA A1 variant is associated with diminished dopamine D(2) receptor density, higher body mass, and food reinforcement. It also moderates the relationship between brain response to food and future weight gain. This suggests that the polymorphism is associated with a fundamental difference in the neurophysiology of food that may predispose toward overeating. An alternative possibility is that factors, such as impulsivity, eating style, reward drive, and perception, which may covary with the polymorphism, influence reward coding and eating behavior. To distinguish between these alternatives, we used functional magnetic resonance imaging to measure neural response to the ingestion of palatable and caloric milkshakes in healthy subjects with (A1+; n = 13) and without (A1-; n = 13) the TaqIA A1 allele. The groups were selected from a larger group to be matched for linked individual factors such as age, gender, education, body mass index, impulsivity, eating style, and perceptual responses to the milkshake. We demonstrate an interaction between genotype (A1+ vs A1-) and stimulus (milkshake vs a tasteless/odorless baseline) in the midbrain, thalamus, and orbital frontal cortex; whereas A1- shows increased responses to milkshake, A1+ shows decreased responses to milkshake relative to baseline. This interaction occurs despite similar ratings of milkshake pleasantness, intensity, and familiarity. We therefore conclude that there is a specific association between the TaqIA A1 polymorphism and brain response during ingestion of a palatable food.},
affiliation = {The John B. Pierce Laboratory, New Haven, Connecticut 06519, USA.},
number = {7},
pages = {2428--32},
volume = {30},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Body Mass Index, Gene Frequency, Receptors: Dopamine D2, Brain, Image Processing: Computer-Assisted, Eating, Analysis of Variance, Oxygen, Reward, Taste, Magnetic Resonance Imaging, Polymorphism: Genetic, Feeding Behavior, Personality Inventory, Genotype, Brain Mapping, Food Preferences, Humans},
date-added = {2010-03-22 12:53:23 +0100},
date-modified = {2010-07-29 19:52:28 +0200},
doi = {10.1523/JNEUROSCI.5483-09.2010},
pii = {30/7/2428},
pmid = {20164326},
url = {http://www.jneurosci.org/cgi/content/full/30/7/2428},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Felsted-2010-J%20Neurosci_Genetically%20determin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8906},
rating = {0}
}
@article{RevahLevy:2007p2916,
author = {Anne Revah-Levy and Boris Birmaher and Isabelle Gasquet and Bruno Falissard},
journal = {BMC Psychiatry},
title = {The Adolescent Depression Rating Scale (ADRS): a validation study},
abstract = {BACKGROUND: To examine the psychometric properties of the Adolescent Depression Rating Scale (ADRS), a new measure was specifically designed to evaluate adolescent depression. METHODS: The 11-item clinician-report and 44-item self-report versions of the ADRS were developed from a qualitative phase involving interviews of experts and adolescents. These two instruments were then administered to 402 French speaking adolescents with and without depressive disorders. Item distribution, internal consistency, convergent validity, discriminant validity and factorial structure were assessed. RESULTS: After reduction procedures, a 10-item clinician version and a 10-item self-report version were obtained. The ADRS demonstrated good internal consistency (alpha Cronbach coefficient >.70). It also discriminated better between adolescents with and without depression than the Hamilton Depressive Rating Scale and the Beck Depression Inventory (BDI-13). CONCLUSION: The ADRS is a useful, short, clinician-report and self-report scale to evaluate adolescent depression. Further studies to replicate our findings and evaluate ADRS sensitivity to effects of treatment and psychometric properties in populations of adolescents with several psychiatric disorders are warranted.},
affiliation = {INSERM U669, Universit{\'e} Paris Sud 11, Centre Hospitalier V, Dupouy, 95107 Argenteuil, France. anne.revah-levy@ch-argenteuil.fr},
pages = {2},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Female, Sensitivity and Specificity, Adolescent, Psychometrics, Depressive Disorder, Adult, Adolescent Psychiatry, Male, Humans, Psychiatric Status Rating Scales},
date-added = {2010-01-13 21:50:48 +0100},
date-modified = {2010-01-13 21:50:51 +0100},
doi = {10.1186/1471-244X-7-2},
pii = {1471-244X-7-2},
pmid = {17222346},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revah-Levy-2007-BMC%20Psychiatry_The%20Adolescent%20Depre-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2916},
rating = {3}
}
@article{Beguin:2001p2771,
author = {A A B{\'e}guin and C A W Glas},
journal = {Psychometrika},
title = {MCMC estimation and some model-fit analysis of multidimensional IRT models},
number = {4},
pages = {541--562},
volume = {66},
year = {2001},
date-added = {2010-01-13 14:27:37 +0100},
date-modified = {2010-01-13 14:28:30 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/B%C3%A9guin-2001-Psychometrika_MCMC%20estimation%20and-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2771},
rating = {0}
}
@article{Denny:2010p11433,
author = {Joshua C Denny and Marylyn D Ritchie and Melissa A Basford and Jill M Pulley and Lisa Bastarache and Kristin Brown-Gentry and Deede Wang and Dan R Masys and Dan M Roden and Dana C Crawford},
journal = {Bioinformatics},
title = {PheWAS: demonstrating the feasibility of a phenome-wide scan to discover gene-disease associations},
abstract = {MOTIVATION: Emergence of genetic data coupled to longitudinal electronic medical records (EMRs) offers the possibility of phenome-wide association scans (PheWAS) for disease-gene associations. We propose a novel method to scan phenomic data for genetic associations using International Classification of Disease (ICD9) billing codes, which are available in most EMR systems. We have developed a code translation table to automatically define 776 different disease populations and their controls using prevalent ICD9 codes derived from EMR data. As a proof of concept of this algorithm, we genotyped the first 6005 European-Americans accrued into BioVU, Vanderbilt's DNA biobank, at five single nucleotide polymorphisms (SNPs) with previously reported disease associations: atrial fibrillation, Crohn's disease, carotid artery stenosis, coronary artery disease, multiple sclerosis, systemic lupus erythematosus and rheumatoid arthritis. The PheWAS software generated cases and control populations across all ICD9 code groups for each of these five SNPs, and disease-SNP associations were analyzed. The primary outcome of this study was replication of seven previously known SNP-disease associations for these SNPs. RESULTS: Four of seven known SNP-disease associations using the PheWAS algorithm were replicated with P-values between 2.8 x 10(-6) and 0.011. The PheWAS algorithm also identified 19 previously unknown statistical associations between these SNPs and diseases at P < 0.01. This study indicates that PheWAS analysis is a feasible method to investigate SNP-disease associations. Further evaluation is needed to determine the validity of these associations and the appropriate statistical thresholds for clinical significance. AVAILABILITY: The PheWAS software and code translation table are freely available at http://knowledgemap.mc.vanderbilt.edu/research.},
affiliation = {Department of Biomedical Informatics, Vanderbilt University, Nashville, TN, USA. josh.denny@vanderbilt.edu},
number = {9},
pages = {1205--10},
volume = {26},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-05-01 17:16:17 +0200},
date-modified = {2010-05-01 17:16:17 +0200},
doi = {10.1093/bioinformatics/btq126},
pii = {btq126},
pmid = {20335276},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Denny-2010-Bioinformatics_PheWAS%20demonstratin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11433},
rating = {0}
}
@article{vandenWollenberg:1982p2678,
author = {A L van den Wollenberg},
journal = {Applied Psychological Measurement},
title = {A Simple and Effective Method to Test the Dimensionality Axiom of the Rasch Model},
number = {1},
pages = {83--91},
volume = {6},
year = {1982},
date-added = {2010-01-13 09:52:47 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20den%20Wollenberg-1982-Applied%20Psychological%20Measurement_A%20Simple%20and%20Effecti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2678},
rating = {0}
}
@article{Leeuw:1986,
author = {Jan de Leeuw and I Kreft},
journal = {Journal of Educational Statistics},
title = {Random coefficient models for multilevel analysis},
pages = {57--85},
volume = {11},
year = {1986},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-1986-Journal%20of%20Educational%20Statistics_Random%20coefficient%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2077},
rating = {0}
}
@article{deWit:2007p9735,
author = {H de Wit and J D Flory and A Acheson and M McCloskey and S B Manuck},
journal = {Personality and Individual Differences},
title = {IQ and nonplanning impulsivity are independently associated with delay discounting in middle-aged adults},
abstract = {Impulsivity is a complex and multidimensional construct measured using both self-report measures and objective behavioral tasks. However, most studies using behavioral tasks have utilized relatively small homogeneous populations. In this project we examined both self-reported impulsivity, using the Barratt Impulsiveness Scale (BIS), and delay discounting, a behavioral measure of preference for immediate over delayed rewards, in a large sample of adults (N = 606). Performance on the self-report and behavioral mea- sures was examined in relation to demographic characteristics including age, sex, race, IQ, years of school and family income. Using hierarchical multiple regression we found that preference for immediate rewards was related to the Nonplanning impulsiveness subscale of the BIS and, after controlling for other variables, also related to intelligence. The finding that delay discounting, or preference for immediate rewards, is related to intelligence even after taking into account other variables, including socioeconomic indicators, suggests that there may be previously unrecognized links between this form of impulsivity and intelligence. This also suggests that intelligence should be taken into account in studies designed to measure impulsive behaviors.},
pages = {111--121},
volume = {42},
year = {2007},
date-added = {2010-03-25 15:16:42 +0100},
date-modified = {2010-03-25 15:17:41 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Wit-2007-Personality%20and%20Individual%20Differences_IQ%20and%20nonplanning%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9735},
rating = {0}
}
@article{Nicodemus:2009p3393,
author = {Kristin K Nicodemus and James D Malley},
journal = {Bioinformatics},
title = {Predictor correlation impacts machine learning algorithms: implications for genomic studies},
abstract = {MOTIVATION: The advent of high-throughput genomics has produced studies with large numbers of predictors (e.g. genome-wide association, microarray studies). Machine learning algorithms (MLAs) are a computationally efficient way to identify phenotype-associated variables in high-dimensional data. There are important results from mathematical theory and numerous practical results documenting their value. One attractive feature of MLAs is that many operate in a fully multivariate environment, allowing for small-importance variables to be included when they act cooperatively. However, certain properties of MLAs under conditions common in genomic-related data have not been well-studied--in particular, correlations among predictors pose a problem. RESULTS: Using extensive simulation, we showed considering correlation within predictors is crucial in making valid inferences using variable importance measures (VIMs) from three MLAs: random forest (RF), conditional inference forest (CIF) and Monte Carlo logic regression (MCLR). Using a case-control illustration, we showed that the RF VIMs--even permutation-based--were less able to detect association than other algorithms at effect sizes encountered in complex disease studies. This reduction occurred when 'causal' predictors were correlated with other predictors, and was sharpest when RF tree building used the Gini index. Indeed, RF Gini VIMs are biased under correlation, dependent on predictor correlation strength/number and over-trained to random fluctuations in data when tree terminal node size was small. Permutation-based VIM distributions were less variable for correlated predictors and are unbiased, thus may be preferred when predictors are correlated. MLAs are a powerful tool for high-dimensional data analysis, but well-considered use of algorithms is necessary to draw valid conclusions. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.},
affiliation = {Department of Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. kristin.nicodemus@well.ox.ac.uk},
number = {15},
pages = {1884--90},
volume = {25},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Artificial Intelligence, Genome-Wide Association Study, Polymorphism: Single Nucleotide, Phenotype, Genome, Oligonucleotide Array Sequence Analysis, Genomics, Algorithms},
date-added = {2010-01-15 14:40:21 +0100},
date-modified = {2010-01-15 14:40:27 +0100},
doi = {10.1093/bioinformatics/btp331},
pii = {btp331},
pmid = {19460890},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3393},
rating = {3}
}
@article{Borenstein:2005p3615,
author = {M Borenstein},
title = {Software for Publication Bias},
year = {2005},
date-added = {2010-01-16 18:33:12 +0100},
date-modified = {2010-01-16 18:33:37 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borenstein-2005-_Software%20for%20Publica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3615},
rating = {0}
}
@article{McCrae:2005p8312,
author = {Robert R McCrae and Paul T Costa Jr and Thomas A Martin},
journal = {J Pers Assess},
title = {The NEO-PI-3: a more readable revised NEO Personality Inventory},
abstract = {Use of the Revised NEO Personality Inventory (NEO-PI-R; Costa {\&} McCrae, 1992) in adolescent samples has shown that a few respondents have difficulty with a subset of items. We identified 30 items that were not understood by at least 2% of adolescent respondents and 18 additional items with low item-total correlations, and we wrote 2 trial replacement items for each. We used self-report and observer rating data from 500 respondents aged 14 to 20 to select replacement items. The modified instrument retained the intended factor structure and showed slightly better internal consistency, cross-observer agreement, and readability (Flesch-Kincaid grade level = 5.3). The NEO-PI-3 appears to be useful in high school and college samples and may have wider applicability to adults as well.},
affiliation = {National Institute on Aging, National Institutes of Health, Department of Health and Human Services, Baltimore, Maryland 21224-6825, USA. mccraej@grc.nia.nih.gov},
note = {psytools},
number = {3},
pages = {261--70},
volume = {84},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Adolescent Behavior, Male, Terminology as Topic, Female, Adult, Humans, Psychometrics, Adolescent, Comprehension, Personality Inventory},
date-added = {2010-03-20 20:10:05 +0100},
date-modified = {2010-03-20 20:10:25 +0100},
doi = {10.1207/s15327752jpa8403_05},
pmid = {15907162},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCrae-2005-Journal%20of%20Personality%20Assessment_The%20NEO-PI-3%20a%20more.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8312},
read = {Yes},
rating = {0}
}
@article{Bergsma:1997p1618,
author = {W P Bergsma},
title = {Marginal Models},
year = {1997},
date-added = {2010-01-07 17:18:43 +0100},
date-modified = {2010-01-07 17:19:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bergsma-1997-_Marginal%20Models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1618},
read = {Yes},
rating = {3}
}
@article{Lachman:2007p3873,
author = {Herbert M Lachman and Cathy S J Fann and Michael Bartzis and Oleg V Evgrafov and Richard N Rosenthal and Edward V Nunes and Christian Miner and Maria Santana and Jebediah Gaffney and Amy Riddick and Chia-Lin Hsu and James A Knowles},
journal = {Hum Mol Genet},
title = {Genomewide suggestive linkage of opioid dependence to chromosome 14q},
abstract = {The genetic predisposition to addiction to opioids and other substances is transmitted as a complex genetic trait, which investigators are attempting to characterize using genetic linkage and association. We now report a high-density genome-wide linkage study of opioid dependence. We ascertained 305 DSM-IV opioid dependent affected sibling pairs from an ethnically mixed population of methadone maintained subjects and genotyped their DNA using Affymetrix 10K v2 arrays. Analysis with MERLIN identified a region on chromosome 14q with a non-parametric lod (NPL) of 3.30. Secondary analyses indicated that this locus was relatively specific to the self-identified Puerto Rican subset, as the NPL increased from 3.30 to 5.00 (NPL(Caucasian) = 0.05 and NPL(African Amer.) = 0.15). The 14q peak encompasses the NRXN3 gene (neurexin 3), which was previously identified as a potential candidate gene for addiction. Secondary analyses also identified several regions with gender-specific NPL scores greater than 2.00. The most significant was a peak on (10q) that increased from 0.90 to 3.22 when only males were considered (NPL(female) = 0.05). Our linkage data suggest specific chromosomal loci for future fine-mapping genetic analysis and support the hypothesis that ethnic and gender specific genes underlie addiction susceptibility.},
affiliation = {Division of Basic Research, Department of Psychiatry and Behavioral Sciences, Albert Einstein College of MedicineBronx, NY 10461, USA. lachman@aecom.yu.edu},
number = {11},
pages = {1327--34},
volume = {16},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Substance-Related Disorders, Genome: Human, Female, Linkage (Genetics), Analgesics: Opioid, Genetic Predisposition to Disease, Male, Humans, Siblings, Chromosomes: Human: Pair 14},
date-added = {2010-01-16 21:03:24 +0100},
date-modified = {2010-01-16 21:03:25 +0100},
doi = {10.1093/hmg/ddm081},
pii = {ddm081},
pmid = {17409192},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3873},
rating = {0}
}
@article{Bacanu:2002p4956,
author = {Silviu-Alin Bacanu and Bernie Devlin and Kathryn Roeder},
journal = {Genet Epidemiol},
title = {Association studies for quantitative traits in structured populations},
abstract = {Association between disease and genetic polymorphisms often contributes critical information in our search for the genetic components of common diseases. Devlin and Roeder [1999: Biometrics 55:997-1004] introduced genomic control, a statistical method that overcomes a drawback to the use of population-based samples for tests of association, namely spurious associations induced by population structure. In essence, genomic control (GC) uses markers throughout the genome to adjust for any inflation in test statistics due to substructure. To date, genomic control (GC) has been developed for binary traits and bi- or multiallelic markers. Tests of association using GC have been limited to single genes. In this report, we generalize GC to quantitative traits (QT) and multilocus models. Using statistical analysis and simulations, we show that GC controls spurious associations in reasonable settings of population substructure for QT models, including gene-gene interaction. Through simulations, we explore GC power for both random and selected samples, assuming the QT locus tested is causal and its specific heritability is 2.5-5%. We find that GC, combined with either random or selected samples, has good power in this setting, and that more complex models induce smaller GC corrections. The latter suggests greater power can be achieved by specifying more complex genetic models, but this observation only follows when such models are largely correct and specified a priori.},
affiliation = {Department of Psychiatry, University of Pittsburgh School of Medicine, 3811 O'Hara Street, Pittsburgh, PA 15213, USA. roeder@stat.cmu.edu},
number = {1},
pages = {78--93},
volume = {22},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Quantitative Trait: Heritable, Genome: Human, Humans, Phenotype, Genotype, Probability, Models: Genetic, Polymorphism: Genetic, Genetic Markers, Alleles},
date-added = {2010-02-03 21:01:26 +0100},
date-modified = {2010-02-03 21:01:26 +0100},
doi = {10.1002/gepi.1045},
pii = {10.1002/gepi.1045},
pmid = {11754475},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bacanu-2002-Genet%20Epidemiol_Association%20studies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4956},
rating = {0}
}
@article{Diaz2006,
author = {R D\'iaz-Uriarte and Sara Alvarez de Andr{\'e}s},
journal = {BMC Bioinformatics},
title = {Gene selection and classification of microarray data using random forest},
number = {3},
volume = {7},
year = {2006},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-07-29 20:21:27 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2562},
rating = {0}
}
@article{Gelhorn:2005p9524,
author = {Heather L Gelhorn and Michael C Stallings and Susan E Young and Robin P Corley and Soo Hyun Rhee and John K Hewitt},
journal = {J Child Psychol Psychiatry},
title = {Genetic and environmental influences on conduct disorder: symptom, domain and full-scale analyses},
abstract = {BACKGROUND: We used variable threshold models which accounted for age and gender differences to investigate the genetic and environmental influences on DSM-IV conduct disorder (CD) at the level of symptoms, aggressive versus non-aggressive domains, and full-scale. METHOD: A community sample of 1100 twin pairs (age 11-18) was interviewed using the Diagnostic Interview Schedule for Children. RESULTS: Behavior genetic model fitting suggested that genetic and environmental influences on individual symptoms varied by symptom. The best-fitting models for aggressive and non-aggressive domains, and full-scale CD included additive genetic effects and unique environmental effects only (AE models). These effects could be constrained across age cohorts and sex. The results suggest that using models that incorporate age- and gender-appropriate thresholds specific to each subject we can account for prevalence differences between cohorts. Heritability estimates were .49, .55 and .53 for the aggressive domain, non-aggressive domain, and full-scales, respectively. These results are in contrast to previous research on antisocial behavior measured with the CBCL reporting higher heritability for aggressive versus non-aggressive domains. CONCLUSIONS: Results suggest that individual symptoms of CD may be differentially heritable. Additionally, CD assessed using DSM-IV criteria may show differing patterns of heritability compared with estimates obtained for other measures of antisocial behavior such as the CBCL.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, CO 80309-0447, USA. gelhorn@colorado.edu},
number = {6},
pages = {580--91},
volume = {46},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Conduct Disorder, Female, Sex Factors, Phenotype, Antisocial Personality Disorder, Humans, Child, Diagnostic and Statistical Manual of Mental Disorders, Models: Psychological, Male, Interviews as Topic, Chi-Square Distribution, Environment, Genetic Heterogeneity, Adolescent, Age Factors, Aggression},
date-added = {2010-03-23 19:44:05 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
doi = {10.1111/j.1469-7610.2004.00373.x},
pii = {JCPP373},
pmid = {15877764},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9524},
rating = {0}
}
@article{Cremeens:2006p8496,
author = {Joanne Cremeens and Christine Eiser and Mark Blades},
journal = {Health Qual Life Outcomes},
title = {Factors influencing agreement between child self-report and parent proxy-reports on the Pediatric Quality of Life Inventory 4.0 (PedsQL) generic core scales},
abstract = {BACKGROUND: In situations where children are unable or unwilling to respond for themselves, measurement of quality of life (QOL) is often obtained by parent proxy-report. However the relationship between child self and parent proxy-reports has been shown to be poor in some circumstances. Additionally the most appropriate statistical method for comparing ratings between child and parent proxy-reports has not been clearly established. The objectives of this study were to assess the: 1) agreement between child and parent proxy-reports on an established child QOL measure (the PedsQL) using two different statistical methods; 2) effect of chronological age and domain type on agreement between children's and parents' reports on the PedsQL; 3) relationship between parents' own well-being and their ratings of their child's QOL. METHODS: One hundred and forty-nine healthy children (5.5 - 6.5, 6.5 - 7.5, and 7.5 - 8.5 years) completed the PedsQL. One hundred and three of their parents completed these measures in relation to their child, and a measure of their own QOL (SF-36). RESULTS: Consistency between child and parent proxy-reports on the PedsQL was low, with Intra-Class correlation coefficients ranging from 0.02 to 0.23. Correlations were higher for the oldest age group for Total Score and Psychosocial Health domains, and for the Physical Health domain in the youngest age group. Statistically significant median differences were found between child and parent-reports on all subscales of the PedsQL. The largest median differences were found for the two older age groups. Statistically significant correlations were found between parents' own QOL and their proxy-reports of child QOL across the total sample and within the middle age group. CONCLUSION: Intra-Class correlation coefficients and median difference testing can provide different information on the relationship between parent proxy-reports and child self-reports. Our findings suggest that differences in the levels of parent-child agreement previously reported may be an artefact of the statistical method used. In addition, levels of agreement can be affected by child age, domains investigated, and parents' own QOL. Further studies are needed to establish the optimal predictors of levels of parent-child agreement.},
affiliation = {Division of Behavioral Medicine, St. Jude Children's Research Hospital, Memphis, TN, USA. Joanne.Cremeens@stjude.org},
pages = {58},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Self Assessment (Psychology), Parents, Quality of Life, Adolescent, Middle Aged, Adult, Proxy, Age Factors, Child: Preschool, Male, Child Psychology, Attitude to Health, Pediatrics, Child, Consensus, Psychometrics, Female, Humans, Health Status},
date-added = {2010-03-21 18:01:02 +0100},
date-modified = {2010-03-21 18:01:02 +0100},
doi = {10.1186/1477-7525-4-58},
pii = {1477-7525-4-58},
pmid = {16942613},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cremeens-2006-Health%20and%20Quality%20of%20Life%20Outcomes_Factors%20influencing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8496},
read = {Yes},
rating = {0}
}
@article{Gibson:1960p12006,
author = {W A Gibson},
journal = {Psychometrika},
title = {Remarks on Tucker's inter-battery method of factor analysis},
number = {1},
pages = {19--25},
volume = {25},
year = {1960},
date-added = {2010-05-23 17:34:16 +0200},
date-modified = {2010-05-23 17:35:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gibson-1960-Psychometrika_Remarks%20on%20Tucker's.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12006},
rating = {0}
}
@article{Huang:2006p12327,
author = {J Huang and S Ma and C-H Zhang},
title = {Adaptive lasso for sparse high-dimensional regression models},
abstract = {We study the asymptotic properties of adaptive LASSO estimators in sparse, high-dimensional, linear regression models when the number of covariates may increase with the sample size. We consider variable selection using the adaptive LASSO, where the L1 norms in the penalty are re-weighted by data-dependent weights. We show that, if a reasonable initial estimator is available, then under appropriate conditions, adaptive LASSO correctly select covariates with nonzero coefficients with probability converging to one and that the estimators of nonzero coefficients have the same asymptotic dis- tribution that they would have if the zero coefficients were known in advance. Thus, the adaptive LASSO has an oracle property in the sense of Fan and Li (2001) and Fan and Peng (2004). In addition, under a partial orthogonality condition in which the covariates with zero coefficients are weakly correlated with the covariates with nonzero coefficients, univariate regression can be used to obtain the initial estimator. With this initial estimator, adaptive LASSO has the oracle property even when the number of covariates is greater than the sample size.},
year = {2006},
date-added = {2010-06-12 09:46:04 +0200},
date-modified = {2010-06-12 09:46:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Huang-2006-_Adaptive%20lasso%20for%20s.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12327},
rating = {0}
}
@article{Bonkovsky:1999p4528,
author = {H L Bonkovsky and J M Woolley},
journal = {Hepatology},
title = {Reduction of health-related quality of life in chronic hepatitis C and improvement with interferon therapy. The Consensus Interferon Study Group},
abstract = {The natural history, prognosis, and clinical significance of chronic hepatitis C are highly variable and somewhat controversial. The purpose of this study was to evaluate the effect of chronic hepatitis C infection on patients' perceptions of health-related quality of life (HRQOL) and to evaluate whether treatment with interferon improves HRQOL. A total of 642 patients with compensated liver disease who were enrolled in a multicenter trial of interferon therapy for chronic hepatitis C had evaluation of HRQOL using the SF-36 and other instruments derived from the Medical Outcomes Study (MOS). These instruments were self-administered by patients at baseline and at the end of a 24-week post-treatment observation period after 24 weeks of interferon treatment. Patients with chronic hepatitis C were compared with healthy controls (n = 750) selected from a representative sample of adults in the United States. Unadjusted and age/gender-adjusted results were similar, as were analyses using parametric or nonparametric methods. Compared with healthy controls, patients with chronic hepatitis C at baseline had lower HRQOL on all eight scales of the SF-36 (P <.001 for all). Patients without cirrhosis (n = 284 ) showed similar although slightly smaller differences. The differences were highly significant, clinically and socially relevant, and greatest for those scales that were more reflective of physical than mental or emotional disease. Patients who had a sustained viral response to interferon therapy (n = 41) exhibited marked improvements in HRQOL, and these improvements exceeded those of nonresponders on 13 of 14 HRQOL scales (8 were statistically significant). Similar improvements were noted in patients with sustained biochemical responses. The authors concluded that patients with chronic hepatitis C with or without cirrhosis have markedly reduced HRQOL. Patients who had a sustained response (virological or biochemical) to interferon therapy experienced significant improvements in perceived wellness and functional status. Successful interferon therapy provides meaningful improvements in HRQOL in patients with chronic hepatitis C.},
affiliation = {Departments of Medicine, Biochemistry and Molecular Biology, UMass/Memorial Health Care and The University of Massachusetts Medical School, Worcester, MA, USA. Herbert.Bonkovsky@ummc.ummed.edu},
number = {1},
pages = {264--70},
volume = {29},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Male, Double-Blind Method, Adult, Humans, Antiviral Agents, Alanine Transaminase, Female, Hepatitis C: Chronic, Interferon Type I: Recombinant, Quality of Life},
date-added = {2010-01-29 22:15:45 +0100},
date-modified = {2010-07-29 20:00:05 +0200},
doi = {10.1002/hep.510290124},
pii = {S027091399900035X},
pmid = {9862876},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bonkovsky-1999-Hepatology_Reduction%20of%20health.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4528},
rating = {0}
}
@article{Pell:2010p9776,
author = {Gaby S Pell and Regula S Briellmann and Kate M Lawrence and Deborah Glencross and R Mark Wellard and Samuel F Berkovic and Graeme D Jackson},
journal = {Neuroimage},
title = {Reduced variance in monozygous twins for multiple MR parameters: implications for disease studies and the genetic basis of brain structure},
abstract = {Twin studies offer the opportunity to determine the relative contribution of genes versus environment in traits of interest. Here, we investigate the extent to which variance in brain structure is reduced in monozygous twins with identical genetic make-up. We investigate whether using twins as compared to a control population reduces variability in a number of common magnetic resonance (MR) structural measures, and we investigate the location of areas under major genetic influences. This is fundamental to understanding the benefit of using twins in studies where structure is the phenotype of interest. Twenty-three pairs of healthy MZ twins were compared to matched control pairs. Volume, T2 and diffusion MR imaging were performed as well as spectroscopy (MRS). Images were compared using (i) global measures of standard deviation and effect size, (ii) voxel-based analysis of similarity and (iii) intra-pair correlation. Global measures indicated a consistent increase in structural similarity in twins. The voxel-based and correlation analyses indicated a widespread pattern of increased similarity in twin pairs, particularly in frontal and temporal regions. The areas of increased similarity were most widespread for the diffusion trace and least widespread for T2. MRS showed consistent reduction in metabolite variation that was significant in the temporal lobe N-acetylaspartate (NAA). This study has shown the distribution and magnitude of reduced variability in brain volume, diffusion, T2 and metabolites in twins. The data suggest that evaluation of twins discordant for disease is indeed a valid way to attribute genetic or environmental influences to observed abnormalities in patients since evidence is provided for the underlying assumption of decreased variability in twins.},
affiliation = {Brain Research Institute, Neurosciences Building, Austin Health, Heidelberg West, Victoria 3081, Australia.},
number = {2},
pages = {1536--44},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Diffusion Magnetic Resonance Imaging, Australia, Twins: Monozygotic, Anisotropy, Brain, Female, Magnetic Resonance Spectroscopy, Male, Humans, Magnetic Resonance Imaging, Adult, Nerve Fibers: Unmyelinated, Nerve Fibers: Myelinated, Aspartic Acid, Organ Size},
date-added = {2010-03-26 19:20:13 +0100},
date-modified = {2010-03-26 19:20:13 +0100},
doi = {10.1016/j.neuroimage.2009.09.003},
pii = {S1053-8119(09)00979-3},
pmid = {19747554},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9776},
rating = {0}
}
@article{Foulkes:2005p6643,
author = {A S Foulkes and M Reilly and L Zhou and M Wolfe and D J Rader},
journal = {Stat Med},
title = {Mixed modelling to characterize genotype-phenotype associations},
abstract = {We propose using mixed effects models to characterize the association between multiple gene polymorphisms, environmental factors and measures of disease progression. Characterizing high-order gene-gene and gene-environment interactions presents an analytic challenge due to the large number of candidate genes and the complex, undescribed interactions among them. Several approaches have been proposed recently to reduce the number of candidate genes and post hoc approaches to identify gene-gene interactions are described. However, these approaches may be inadequate for identifying high-order interactions in the absence of main effects and generally do not permit us to control for potential confounders. We describe how mixed effects models and related testing procedures overcome these limitations and apply this approach to data from a cohort of subjects at risk for cardiovascular disease. Four (4) genetic polymorphisms in three genes of the same gene family are considered. The proposed modelling approach allows us first to test whether there is a significant genetic contribution to the variability observed in our disease outcome. This contribution may be through main effects of multi-locus genotypes or through an interaction between genotype and environmental factors. This approach also enables us to identify specific multi-locus genotypes that interact with environmental factors in predicting the outcome. Mixed effects models provide a flexible statistical framework for controlling for potential confounders and identifying interactions among multiple genes and environmental factors that explain the variability in measures of disease progression.},
affiliation = {Department of Biostatistics, University of Massachusetts, School of Public Health, 404 Arnold House, 715N. Pleasant Street, Amherst, MA 01003-9304, USA. foulkes@schoolph.umass.edu},
number = {5},
pages = {775--89},
volume = {24},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Lipase, Models: Statistical, Coronary Artery Disease, Female, Phenotype, Middle Aged, Genotype, Male, Aged, Humans, Genetic Predisposition to Disease, Adult, Polymorphism: Single Nucleotide, Obesity, Models: Genetic},
date-added = {2010-03-03 20:35:24 +0100},
date-modified = {2010-03-03 20:35:24 +0100},
doi = {10.1002/sim.1965},
pmid = {15696502},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6643},
rating = {0}
}
@article{Takeuchi:2009p2300,
author = {Fumihiko Takeuchi and Ralph McGinnis and Stephane Bourgeois and Chris Barnes and Niclas Eriksson and Nicole Soranzo and Pamela Whittaker and Venkatesh Ranganath and Vasudev Kumanduri and William McLaren and Lennart Holm and Jonatan Lindh and Anders Rane and Mia Wadelius and Panos Deloukas},
journal = {PLoS Genet},
title = {A genome-wide association study confirms VKORC1, CYP2C9, and CYP4F2 as principal genetic determinants of warfarin dose},
abstract = {We report the first genome-wide association study (GWAS) whose sample size (1,053 Swedish subjects) is sufficiently powered to detect genome-wide significance (p<1.5 x 10(-7)) for polymorphisms that modestly alter therapeutic warfarin dose. The anticoagulant drug warfarin is widely prescribed for reducing the risk of stroke, thrombosis, pulmonary embolism, and coronary malfunction. However, Caucasians vary widely (20-fold) in the dose needed for therapeutic anticoagulation, and hence prescribed doses may be too low (risking serious illness) or too high (risking severe bleeding). Prior work established that approximately 30% of the dose variance is explained by single nucleotide polymorphisms (SNPs) in the warfarin drug target VKORC1 and another approximately 12% by two non-synonymous SNPs (*2, *3) in the cytochrome P450 warfarin-metabolizing gene CYP2C9. We initially tested each of 325,997 GWAS SNPs for association with warfarin dose by univariate regression and found the strongest statistical signals (p<10(-78)) at SNPs clustering near VKORC1 and the second lowest p-values (p<10(-31)) emanating from CYP2C9. No other SNPs approached genome-wide significance. To enhance detection of weaker effects, we conducted multiple regression adjusting for known influences on warfarin dose (VKORC1, CYP2C9, age, gender) and identified a single SNP (rs2108622) with genome-wide significance (p = 8.3 x 10(-10)) that alters protein coding of the CYP4F2 gene. We confirmed this result in 588 additional Swedish patients (p<0.0029) and, during our investigation, a second group provided independent confirmation from a scan of warfarin-metabolizing genes. We also thoroughly investigated copy number variations, haplotypes, and imputed SNPs, but found no additional highly significant warfarin associations. We present power analysis of our GWAS that is generalizable to other studies, and conclude we had 80% power to detect genome-wide significance for common causative variants or markers explaining at least 1.5% of dose variance. These GWAS results provide further impetus for conducting large-scale trials assessing patient benefit from genotype-based forecasting of warfarin dose.},
affiliation = {Wellcome Trust Sanger Institute, Hinxton, UK.},
number = {3},
pages = {e1000433},
volume = {5},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Pharmacogenetics, Warfarin, Mixed Function Oxygenases, Metabolism, Humans, Cytochrome P-450 Enzyme System, Genome-Wide Association Study, Sweden, Aryl Hydrocarbon Hydroxylases, Polymorphism: Single Nucleotide},
date-added = {2010-01-10 12:12:58 +0100},
date-modified = {2010-01-10 12:12:58 +0100},
doi = {10.1371/journal.pgen.1000433},
pmid = {19300499},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takeuchi-2009-PLoS%20Genet_A%20genome-wide%20associ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2300},
rating = {0}
}
@article{Meyners:2000p12017,
author = {M Meyners and J Kunert and E M Qannari},
journal = {Food Qualify and Prefrence},
title = {Comparing generalized procrustes analysis and statis},
abstract = {We consider a model for sensory pro{\textregistered}ling data including translation, rotation and scaling. We compare two methods to calculate an overall consensus from several data matrices: Generalized Procrustes Analysis (GPA) and STATIS (Structuration des Tableaux a{\'A} Trois Indices de la Statistique). These methods are brie ̄y illustrated and explained under our model. A series of simulations to compare their performance has been carried out. We found signi{\textregistered}cant differences in performance depending on the variance of random errors and on the dimensionality of the true underlying consensus. Therefore, we investigated on the dimensionality of the calculated group averages. We found both methods gave too many dimensions compared to the true consensus. This {\textregistered}nding is supported by some theoretical considerations. Finally we propose a combined approach which takes advantage of both methods and which gave better results in the simulations.},
pages = {77--83},
volume = {11},
year = {2000},
date-added = {2010-05-23 22:40:35 +0200},
date-modified = {2010-07-29 19:26:49 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meyners-2000-Food%20Qualify%20and%20Prefrence_Comparing%20generalize.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12017},
rating = {4}
}
@article{Norman:2010p11002,
author = {Richard Norman and Madeleine T King and Dushyant Clarke and Rosalie Viney and Paula Cronin and Deborah Street},
journal = {Qual Life Res},
title = {Does mode of administration matter? Comparison of online and face-to-face administration of a time trade-off task},
abstract = {PURPOSE: Developments in electronic data collection methods have allowed researchers to generate larger datasets at lower costs, but relatively little is known about the comparative performance of the new methods. This paper considers the comparability of two modes of administration (face-to-face and remote electronic) for the time trade-off. METHOD: Data were collected from a convenience sample of adults (n = 135) randomised to either a face-to-face time trade-off or a remote electronic tool. Patterns of responses were considered. For each sample, standard regression analysis was undertaken to generate a valuation set, which were then contrasted. RESULTS: The pattern of responses differed by mode of administration, with the electronic tool yielding larger standard deviations and higher proportions of responses at -1, 0 and 1. The impact of this on the regression was difficult to disentangle from the high variability around individual scores of states, which is a common feature of responses to time trade-off tasks. Under the scoring algorithms generated by mode of administration, the difference between scores exceeded 0.1 for 100 of the 243 EQ-5D health states. CONCLUSIONS: This comparison demonstrates that variability arising from mode of administration needs to be considered in developing health state valuations. While electronic administration has considerable cost advantages, particular attention to the design of the task is required. This has wider implications, as all modes of administration may have mode-specific impacts on the distribution of valuation responses.},
affiliation = {Centre for Health Economics Research and Evaluation (CHERE), University of Technology Sydney, PO BOX 123, 2007, Broadway, Australia. richard.norman@chere.uts.edu.au},
number = {4},
pages = {499--508},
volume = {19},
year = {2010},
month = {May},
language = {eng},
date-added = {2010-04-14 06:39:09 +0200},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-010-9609-5},
pmid = {20174998},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Norman-2010-Qual%20Life%20Res_Does%20mode%20of%20adminis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11002},
rating = {0}
}
@phdthesis{Duval:2006,
author = {J Duval},
journal = {PhD Thesis},
title = {R{\'E}CUP{\'E}RATION DU QUOTIENT INTELLECTUEL SUITE {\`A} UNE L{\'E}SION C{\'E}R{\'E}BRALE UNILAT{\'E}RALE : EFFET DE L'{\^A}GE {\`A} LA L{\'E}SION, DES CARACT{\'E}RISTIQUES L{\'E}SIONNELLES ET DE LA M{\'E}THODOLOGIE},
affiliation = {Universit{\'e} du Qu{\'e}bec {\`a} Montr{\'e}al},
year = {2006},
month = {Nov},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Duval-2006-PhD%20Thesis_R%C3%89CUP%C3%89RATION%20DU%20QUOT.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2161},
rating = {0}
}
@article{Loehlin:2005p1854,
author = {J C Loehlin and S E Medland and G W Montgomery and N G Martin},
journal = {Personality and Individual Differences},
title = {Eysenck's Psychoticism and the X-linked androgen receptor gene CAG polymorphism in additional Australian samples},
abstract = {Data from existing Brisbane samples of adult women, and of adolescents of both sexes, were examined in an effort to replicate the Canberra finding of Turakulov, Jorm, Jacomb, Tan, and Easteal (2004); namely, an association between scores on Eysenck{\~O}s Psychoticism (P) scale and short CAG sequences on the andro- gen receptor gene. They found a significant association in this direction in males, and a similar (although nonsignificant) one in females. Some support was found for a relationship between P scores and short CAG sequences in the Brisbane female samples, but the adolescent boys showed differences which, although small, tended to lie in the opposite direction. Correlations of CAG sequence length with P suggested that the sequence length, at best, accounted for only a very small proportion of the variance of P.},
affiliation = {Department of Psychology, University of Texas, Austin, TX 78712, USA},
pages = {661--667},
volume = {39},
year = {2005},
keywords = {Testosterone, Psychoticism, Androgen receptor, Eysenck, CAG repeats},
date-added = {2010-01-10 11:29:42 +0100},
date-modified = {2010-01-10 11:31:37 +0100},
doi = {10.1016/j.paid.2005.02.016},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Loehlin-2005-Personality%20and%20Individual%20Differences_Eysenck's%20Psychotici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1854},
rating = {0}
}
@article{Plomin:2001p5763,
author = {R Plomin and S M Kosslyn},
journal = {Nat Neurosci},
title = {Genes, brain and cognition},
number = {12},
pages = {1153--4},
volume = {4},
year = {2001},
month = {Dec},
language = {eng},
keywords = {Genetic Variation, Cerebral Cortex, Brain Mapping, Body Patterning, Intelligence, Cognition, Twin Studies as Topic, Humans, Twins, Gene Expression Regulation: Developmental},
date-added = {2010-02-15 20:29:20 +0100},
date-modified = {2010-07-29 19:40:39 +0200},
doi = {10.1038/nn1201-1153},
pii = {nn1201-1153},
pmid = {11723454},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Plomin-2001-Nat%20Neurosci_Genes%20brain%20and%20cog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5763},
read = {Yes},
rating = {4}
}
@article{Ark:2001,
author = {L Andries van der Ark},
journal = {Applied Psychological Measurement},
title = {Relationships and properties of polytomous item response theory models},
number = {3},
pages = {273--282},
volume = {25},
year = {2001},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andries%20van%20der%20Ark-2001-Applied%20Psychological%20Measurement_Relationships%20and%20pr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2194},
rating = {0}
}
@article{Strauss:2000p7934,
author = {R S Strauss},
journal = {JAMA},
title = {Adult functional outcome of those born small for gestational age: twenty-six-year follow-up of the 1970 British Birth Cohort},
abstract = {CONTEXT: Although studies have documented cognitive impairment in children who were born small for gestational age (SGA), other studies have not demonstrated differences in IQ or other cognitive scores. The need exists for long-term studies of such children to assess functional outcomes not measurable with standardized testing. OBJECTIVE: To determine the long-term functional outcome of SGA infants. DESIGN: Prospective cohort study. SETTING AND PARTICIPANTS: A total of 14,189 full-term infants born in the United Kingdom on April 5 through 11, 1970, were studied as part of the 1970 British Birth Cohort; 1064 were SGA (birth weight less than the fifth percentile for age at term). Follow-up at 5, 10, 16, and 26 years was 93%, 80%, 72%, and 53%, respectively. MAIN OUTCOME MEASURES: School performance and achievement, assessed at 5, 10, and 16 years; and years of education, occupational status, income, marital status, life satisfaction, disability, and height, assessed at 26 years, comparing persons born SGA with those who were not. RESULTS: At 5, 10, and 16 years of age, those born SGA demonstrated small but significant deficits in academic achievement. In addition, teachers were less likely to rate those born SGA in the top 15th percentile of the class at 16 years (13% vs 20%; P<.01) and more likely to recommend special education (4.9% vs 2.3%; P<.01) compared with those born at normal birth weight (NBW). At age 26 years, adults who were SGA did not demonstrate any differences in years of education, employment, hours of work per week, marital status, or satisfaction with life. However, adults who were SGA were less likely to have professional or managerial jobs (8.7% vs 16.4%; P<.01) and reported significantly lower levels of weekly income (mean [SD], 185 [91] vs 206 [102] pound sterling; P<.01) than adults who were NBW. Adults who were SGA also reported significant height deficits compared with those who were NBW (mean [SD] z score, -0.55 [0.98] vs 0.08 [1.02]; P<.001). Similar results were also obtained after adjusting for social class, sex, region of birth, and the presence of fetal or neonatal distress. CONCLUSIONS: In this cohort, adults who were born SGA had significant differences in academic achievement and professional attainment compared with adults who were NBW. However, there were no long-term social or emotional consequences of being SGA: these adults were as likely to be employed, married, and satisfied with life.},
affiliation = {Department of Pediatrics, University of Medicine and Dentistry of New Jersey-Robert Wood Johnson School of Medicine, New Brunswick 08903-0019, USA. strausrs@rwja.umdnj.edu},
number = {5},
pages = {625--32},
volume = {283},
year = {2000},
month = {Feb},
language = {eng},
keywords = {Self Assessment (Psychology), Humans, Child Development, Follow-Up Studies, Infant: Small for Gestational Age, Female, Child: Preschool, Social Class, Great Britain, Infant: Newborn, Educational Status, Adult, Multivariate Analysis, Prospective Studies, Adolescent, Child, Socioeconomic Factors, Quality of Life, Body Height, Logistic Models, Male},
date-added = {2010-03-20 19:25:55 +0100},
date-modified = {2010-03-20 19:25:55 +0100},
pii = {joc90907},
pmid = {10665702},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7934},
rating = {0}
}
@article{Kriegeskorte:2010p12336,
author = {N Kriegeskorte and M A Lindquist and T E Nichols and R A Poldrack and E Vul},
title = {Everything you never wanted to know about circular analysis -- but were afraid to ask},
abstract = {Over the last year a heated discussion about "circular" or "non-independent" analyses in brain imaging has emerged in the literature. An analysis is circular (or non-independent) if it is based on data that was selected for showing the effect of interest, or a related effect. The authors of this paper are researchers that have contributed to the discussion and span a range of viewpoints. In order to clarify points of agreement and disagreement in the community, we have collaboratively assembled a series of questions on circularity here, to which we provide our individual current answers in 100 words or less per question. While divergent views remain on some of the questions, there is also a substantial convergence of opinion, which we have summarized in a consensus box. The box provides the best current answers the five authors could agree upon.},
date-added = {2010-06-12 10:15:06 +0200},
date-modified = {2010-06-12 10:16:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kriegeskorte--_Everything%20you%20never.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12336},
rating = {4}
}
@article{Baldwin:2006p1747,
author = {P Baldwin},
journal = {Annual meeting of the National Council on Measurement in Education},
title = {A Modified IRT Model Intended to Improve Parameter Estimates under Small Sample Conditions},
abstract = {This study examines the feasibility and effectiveness of grouping dichotomous test items into overlapping subsets with relatively homogeneous discriminating power and estimating subset-specific a-parameters for the purpose of improving item-specific parameter estimates when sample size is small. The current study only considers the 2-pl case, however, the use of Bayesian generic priors with the conventional 2-pl already provides sufficiently high-quality estimates for most small sample applications. Therefore, the purpose of this study was not to evaluate an alternate 2-pl model but rather to investigate whether the proposed strategy showed enough promise to extend to the more complicated 3-pl case. Under almost all conditions, the modified 2-pl method did as well or better than the conventional 1-pl and 2-pl IRT models. The results of this study suggest the extension to the 3-pl is warranted.},
year = {2006},
date-added = {2010-01-09 20:44:51 +0100},
date-modified = {2010-01-09 20:45:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baldwin-2006-Annual%20meeting%20of%20the%20National%20Council%20on%20Measurement%20in%20Education_A%20Modified%20IRT%20Model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1747},
rating = {0}
}
@article{Katigbak:2002p11624,
author = {Marcia S Katigbak and A Timothy Church and Ma Angeles Guanzon-Lape{\~n}a and Annadaisy J Carlota and PilarGregorioH del},
journal = {J Pers Soc Psychol},
title = {Are indigenous personality dimensions culture specific? Philippine inventories and the five-factor model},
abstract = {The authors addressed the culture specificity of indigenous personality constructs, the generalizability of the 5-factor model (FFM), and the incremental validity of indigenous measures in a collectivistic culture. Filipino college students (N = 508) completed 3 indigenous inventories and the Filipino version of the Revised NEO Personality Inventory (NEO-PI-R). On the basis of the factor and regression analyses, they concluded that (a) most Philippine dimensions are well encompassed by the FFM and thus may not be very culture specific: (b) a few indigenous constructs are less well accounted for by the FFM: these constructs are not unknown in Western cultures, but they may be particularly salient or composed somewhat differently in the Philippines; (c) the structure of the NEO-PI-R FFM replicates well in the Philippines: and (d) Philippine inventories add modest incremental validity beyond the FFM in predicting selected culture-relevant criteria.},
affiliation = {Department of Educational Leadership and Counseling Psychology, Washington State University, Pullman 99164-2136, USA.},
number = {1},
pages = {89--101},
volume = {82},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Adolescent, Ethnic Groups, Humans, Culture, Female, Male, Personality Development, Personality Inventory, Reproducibility of Results, Adult},
date-added = {2010-05-11 22:45:34 +0200},
date-modified = {2010-05-11 22:45:34 +0200},
pmid = {11811638},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11624},
rating = {4}
}
@article{Zupan:2000p1848,
author = {Blaz Zupan and J Demsar and D Smrke and K Bozikov and V Stankovski and I Bratko and J Robert Beck},
title = {Predicting patient's long term clinical status after hip arthroplasty using hierarchical decision modelling and data mining},
year = {2000},
date-added = {2010-01-10 11:15:54 +0100},
date-modified = {2010-07-29 20:46:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zupan-2000-_Predicting%20patient's.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1848},
rating = {0}
}
@article{Anonymous:2003p13996,
title = {The origins and development of the Edinburgh Postnatal Depression Scale},
year = {2003},
date-added = {2010-08-04 09:23:04 +0200},
date-modified = {2010-08-04 09:23:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2003-_The%20origins%20and%20deve.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13996},
rating = {0}
}
@article{Kalichman:2010p13255,
author = {Seth C Kalichman and Leickness C Simbayi and Demetria Cain},
journal = {Eur J Public Health},
title = {HIV transmission risk behaviours among HIV seropositive sexually transmitted infection clinic patients in Cape Town, South Africa},
abstract = {BACKGROUND: South Africa has one of the fastest growing HIV epidemics in the world and new infections may often result from people who have tested HIV positive. This study examined the sexual practices and risk behaviours of men and women living with HIV/AIDS being treated for a co-occurring sexually transmitted infection (STI). METHODS: A sample of men and women receiving services at three South African STI clinics completed a computer administered behavioural assessment. RESULTS: Among the 218 HIV positive STI clinic patients, 34 (16%) had engaged in unprotected vaginal or anal intercourse with uninfected or unknown HIV status sex partners in the previous month. A multivariate logistic regression indicated that unprotected sex with uninfected or unknown HIV status partners was independently associated with older age, female gender, alcohol use, and other drug use, and drug use in sexual contexts. CONCLUSIONS: People living with HIV/AIDS who contract co-occurring STI are at significant risk for transmitting HIV to uninfected partners. Positive prevention interventions are urgently needed for South Africa.},
affiliation = {Department of Psychology, University of Connecticut, Storrs, CT 06269, USA. seth.k@uconn.edu},
number = {2},
pages = {202--6},
volume = {20},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-07-01 18:18:01 +0200},
date-modified = {2010-07-01 18:18:01 +0200},
doi = {10.1093/eurpub/ckp127},
pii = {ckp127},
pmid = {19726591},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kalichman-2010-Eur%20J%20Public%20Health_HIV%20transmission%20ris.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13255},
rating = {0}
}
@article{Toplak:2010p4878,
author = {Marko Toplak and Tomaz Curk and Janez Demsar and Blaz Zupan},
journal = {BMC Genomics},
title = {Does replication groups scoring reduce false positive rate in SNP interaction discovery?},
abstract = {ABSTRACT: BACKGROUND: Computational methods that infer single nucleotide polymorphism (SNP) interactions from phenotype data may uncover new biological mechanisms in non-Mendelian diseases. However, practical aspects of such analysis face many problems. Present experimental studies typically use SNP arrays with hundreds of thousands of SNPs but record only hundreds of samples. Candidate SNP pairs inferred by interaction analysis may include a high proportion of false positives. Recently, Gayan et al. (2008) proposed to reduce the number of false positives by combining results of interaction analysis performed on subsets of data (replication groups), rather than analyzing the entire data set directly. If performing as hypothesized, replication groups scoring could improve interaction analysis and also any type of feature ranking and selection procedure in systems biology. Because Gayan et al. do not compare their approach to the standard interaction analysis techniques, we here investigate if replication groups indeed reduce the number of reported false positive interactions. RESULTS: A set of simulated and false interaction-imputed experimental SNP data sets were used to compare the inference of SNP-SNP interactions by means of replication groups to the standard approach where the entire data set was directly used to score all candidate SNP pairs. In all our experiments, the inference of interactions from the entire data set (e.g. without using the replication groups) reported fewer false positives. CONCLUSIONS: With respect to the direct scoring approach the utility of replication groups does not reduce false positive rates, and may, depending on the data set, often perform worse.},
number = {1},
pages = {58},
volume = {11},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-02 11:16:02 +0100},
date-modified = {2010-07-29 19:20:00 +0200},
doi = {10.1186/1471-2164-11-58},
pii = {1471-2164-11-58},
pmid = {20092660},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Toplak-2010-BMC%20Genomics_Does%20replication%20gro-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4878},
rating = {0}
}
@article{Gadaras:2009p808,
author = {Ioannis Gadaras and Ludmil Mikhailov},
journal = {Artif Intell Med},
title = {An interpretable fuzzy rule-based classification methodology for medical diagnosis},
abstract = {OBJECTIVE: The aim of this paper is to present a novel fuzzy classification framework for the automatic extraction of fuzzy rules from labeled numerical data, for the development of efficient medical diagnosis systems. METHODS AND MATERIALS: The proposed methodology focuses on the accuracy and interpretability of the generated knowledge that is produced by an iterative, flexible and meaningful input partitioning mechanism. The generated hierarchical fuzzy rule structure is composed by linguistic; multiple consequent fuzzy rules that considerably affect the model comprehensibility. RESULTS AND CONCLUSION: The performance of the proposed method is tested on three medical pattern classification problems and the obtained results are compared against other existing methods. It is shown that the proposed variable input partitioning leads to a flexible decision making framework and fairly accurate results with a small number of rules and a simple, fast and robust training process.},
affiliation = {University of Manchester, School of Computer Science, Manchester, United Kingdom. i.gadaras@student.manchester.ac.uk},
number = {1},
pages = {25--41},
volume = {47},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Reproducibility of Results, Artificial Intelligence, Breast Neoplasms, Young Adult, Pregnancy, Indians: North American, Female, Diagnosis: Computer-Assisted, Liver Function Tests, Diabetes Mellitus, Genetics, Algorithms, Humans, Hematologic Tests, Fuzzy Logic, Data Collection, Classification, Arizona},
date-added = {2010-01-03 17:15:03 +0100},
date-modified = {2010-01-03 17:15:03 +0100},
doi = {10.1016/j.artmed.2009.05.003},
pii = {S0933-3657(09)00081-5},
pmid = {19540096},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gadaras-2009-Artif%20Intell%20Med_An%20interpretable%20fuz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p808},
rating = {0}
}
@article{Scharinger:2010p8816,
author = {Christian Scharinger and Ulrich Rabl and Harald H Sitte and Lukas Pezawas},
journal = {Neuroimage},
title = {Imaging genetics of mood disorders},
abstract = {Mood disorders are highly heritable and have been linked to brain regions of emotion processing. Over the past few years, an enormous amount of imaging genetics studies has demonstrated the impact of risk genes on brain regions and systems of emotion processing in vivo in healthy subjects as well as in mood disorder patients. While sufficient evidence already exists for several monaminergic genes as well as for a few non-monoaminergic genes, such as brain-derived neurotrophic factor (BDNF) in healthy subjects, many others only have been investigated in single studies so far. Apart from these studies, the present review also covers imaging genetics studies applying more complex genetic disease models of mood disorders, such as epistasis and gene-environment interactions, and their impact on brain systems of emotion processing. This review attempts to provide a comprehensive overview of the rapidly growing field of imaging genetics studies in mood disorder research.},
affiliation = {Division of Biological Psychiatry, Department of Psychiatry and Psychotherapy, Medical University of Vienna, Waehringer Guertel 18-20, A-1090 Vienna, Austria.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-22 12:32:02 +0100},
date-modified = {2010-03-22 12:32:02 +0100},
doi = {10.1016/j.neuroimage.2010.02.019},
pii = {S1053-8119(10)00187-4},
pmid = {20156570},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharinger-2010-Neuroimage_Imaging%20genetics%20of-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8816},
rating = {0}
}
@article{Warnecke:7,
author = {RB Warnecke and TP Johnson and N Chavez and S Sudman and DP O'Rourke and L Lacey},
journal = {Annals of Epidemiology},
title = {Improving question wording in surveys of culturally diverse populations},
abstract = {PURPOSE: The purpose of this paper is to briefly describe a theoretical model articulating cognitive theory and sources of potential response bias resulting from racial or ethnic cultural experience to survey questions that deal with health behavior. The theory components are then evaluated using questions obtained from national health surveys conducted by the National Center for Health Statistics and Centers for Disease Control and Prevention. The analysis explores the effects of four cognitive tasks involved in responding to questions as specified by the model: question interpretation, information retrieval from memory, judgment formation, and response editing. Implications for epidemiological research are considered. METHODS: Data were collected from a purposive sample of 423 adults aged 18 through 50 who were recruited to ensure equal numbers of African American, Puerto Rican, Mexican American, and non-Hispanic white respondents, stratified by age, gender, and education. Individual questions were selected for evaluation to ensure variation by topic and question format. Probes related to each of the cognitive tasks were designed to obtain insight into the underlying cognitive processes used by respondents to answer survey questions. All statistical analyses used logistic regression or ordinary least squares multiple regression as appropriate. RESULTS: Variation by race/ethnicity was found in the way respondents defined physical activity in a series of questions used in the Centers for Disease Control and Prevention Behavioral Risk Factor Surveillance System (BRFSS). Gender and race/ethnicity appeared to influence interpretation in the absence of specific cues in the question format about how to respond. Strategies used to retrieve information from memory did not appear to be influenced by respondent culture; however, frequency of the event was associated with the recall strategy in that more frequent or regular events were more likely to result in estimates about frequency, whereas unusual or seldom occurring events were counted. Effects of race/ethnicity on judgment formation seem to be reflected in the propensity of respondents' willingness to use extreme response categories. Most effects due to race/ethnicity were found in respondent editing of answers. Race/ethnicity was found to be associated with a social desirability trait; with willingness to disclose socially undesirable behavior, particularly to interviews from racial or ethnic groups that differed from the respondent; and with the tendency to overreport socially desirable behavior. CONCLUSIONS: Overall, the results of this research suggest several ways in which the validity of questions about risk behavior can be improved. In designing such questions, the investigator should envision the interview as a structured conversation in which ordinary conversational norms apply. Thus, questions that might request redundant information or that are threatening to the respondent need to be asked in ways that minimize these effects. Using interviewers of the same racial or ethnic group is important. Attending to the order of questions to ensure that redundant information is not requested is important. Writing questions to ensure that where response cues occur they lead the respondent to answer in unbiased ways is also important. Testing questions for potential racial or ethnic bias before using them is also important, even if the questions have been used successfully with population groups other than that or those included in a study.},
number = {334-342},
volume = {5},
year = {7},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p934},
rating = {0}
}
@article{Gingnell:2010p12796,
author = {Malin Gingnell and Erika Comasco and Lars Oreland and Mats Fredrikson and Inger Sundstr{\"o}m-Poromaa},
journal = {Arch Womens Ment Health},
title = {Neuroticism-related personality traits are related to symptom severity in patients with premenstrual dysphoric disorder and to the serotonin transporter gene-linked polymorphism 5-HTTPLPR},
abstract = {Neuroticism has been linked to a functional polymorphism in the serotonin transporter gene (5-HTTLPR), with short-allele carriers being overrepresented among high-scorers on neuroticism. Studies evaluating neuroticism-related personality traits in relation to the 5-HTTLPR polymorphism among patients with premenstrual dysphoric disorder (PMDD) and are lacking. The primary aim of this study was to evaluate the relationship between PMDD and neuroticism-related personality traits, and secondly, to relate the personality trait scores of PMDD patients to experienced symptom severity and to the 5-HTTLPR short allele. Thirty PMDD patients and 55 asymptomatic healthy controls were included in the study. The Swedish Universities Scale of Personality was used to evaluate personality traits. Genotype analyses were available in 27 PMDD patients and 18 healthy controls. Women with PMDD displayed higher levels of neuroticism-related personality traits (psychic trait anxiety, somatic trait anxiety, embitterment, stress susceptibility and mistrust) than healthy controls, and these effects were most prominent in women with more severe luteal phase symptoms. Furthermore, PMDD patients with at least one copy of the short allele of the 5-HTTLPR polymorphism scored higher on psychic trait anxiety and lack of assertiveness than PMDD patients who were homozygous for the long allele. PMDD patients who suffer from more severe luteal phase symptoms also display increased scores of neuroticism-related personality traits in comparison with healthy controls. Within the group of PMDD patients, differences in certain personality trait scores are associated with the short allele of the 5-HTTLPR polymorphism.},
affiliation = {Department of Women's and Children's Health, Uppsala University, 751 85, Uppsala, Sweden, malin.gingnell@kbh.uu.se.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-06-18 21:18:50 +0200},
date-modified = {2010-07-29 19:17:21 +0200},
doi = {10.1007/s00737-010-0164-4},
pmid = {20440524},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gingnell-2010-Arch%20Womens%20Ment%20Health_Neuroticism-related.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12796},
rating = {0}
}
@article{Noftle:2006p13155,
author = {E Noftle and P R Shaver},
journal = {Journal of Research in Personality},
title = {Attachment dimensions and the big five personality traits: Associations and comparative ability to predict relationship quality},
abstract = {Several studies have explored associations between measures of adult attachment style and the Big Five personality traits or factors, but the studies have not included current dimensional measures of attachment style (Brennan, Clark, {\&} Shaver, 1998) or the most complete (NEO- PI-R; Costa {\&} McCrae, 1992) and frequently used (BFI; John, Donahue, {\&} Kentle, 1991) measures of the Big Five. Moreover, most studies after Shaver and Brennan's (1992) have not compared attachment style and Big Five measures as predictors of relationship quality. Here, we summarize past research and report two studies comparing Brennan et al.'s two-dimen- sional measure of attachment style with the BFI and NEO-PI-R measures of the Big Five. There are consistent and theoretically meaningful associations between the attachment-style and personality trait measures, but attachment-style dimensions still predict relationship qual- ity better than measures of the Big Five. Implications are discussed.},
pages = {179--208},
volume = {40},
year = {2006},
date-added = {2010-06-26 11:13:43 +0200},
date-modified = {2010-07-29 19:36:11 +0200},
doi = {10.1016/j.jrp.2004.11.003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Noftle-2006-Journal%20of%20Research%20in%20Personality_Attachment%20dimension.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13155},
rating = {0}
}
@article{Kopec:2008p7366,
author = {Jacek A Kopec and Eric C Sayre},
journal = {Journal of Clinical Epidemiology},
title = {ROC area discrimination (ROCAD) curve: a new method of evaluating the discriminating ability of ordinal scales},
abstract = {Objective: The area under the receiver operating characteristic (ROC) curve has been frequently used to assess the ability of diagnostic tests to discriminate between individuals with and without a disease. In this paper, we propose to use the ROC area to evaluate the discriminating power of ordinal measures, such as many subjective ratings or multioption questionnaire items. STUDY DESIGN AND SETTING: Applications of the method are illustrated with examples from a study designed to select multioption items for a quality-of-life questionnaire in persons with arthritis. Results: DISCRIMINATION was defined as the ability to discriminate between subjects above and below a given threshold value for the attribute being measured. The ROC curve for an ordinal scale was obtained for each observed value of the attribute and the areas under the ROC curves were estimated and plotted on a graph. The resultant curve is referred to as the ROC Area Discrimination (ROCAD) curve. In contrast to standard measures of validity for ordinal scales, such as a correlation coefficient, the ROCAD curve describes the performance of the scale for each point along the spectrum of the measured attribute. CONCLUSION: ROCAD curves can be useful in evaluating the discriminating power of ordinal scales.},
affiliation = {Department of Health Care and Epidemiology, University of British Columbia, Arthritis Research Centre of Canada, Vancouver, BC, Canada. jkopec@arthritisresearch.ca},
number = {10},
pages = {997--1003.e1},
volume = {61},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Reproducibility of Results, Activities of Daily Living, Arthritis, Humans, ROC Curve, Pain Measurement, Questionnaires, Data Interpretation: Statistical},
date-added = {2010-03-10 20:31:27 +0100},
date-modified = {2010-03-10 20:31:27 +0100},
doi = {10.1016/j.jclinepi.2007.11.016},
pii = {S0895-4356(07)00448-9},
pmid = {18539430},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kopec-2008-Journal%20of%20Clinical%20Epidemiology_ROC%20area%20discriminat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7366},
rating = {0}
}
@article{Helmchen:2000p5594,
author = {H Helmchen and M Linden},
journal = {Compr Psychiatry},
title = {Subthreshold disorders in psychiatry: clinical reality, methodological artifact, and the double-threshold problem},
abstract = {The introduction of modern operationalized classification systems for mental disorders has led to the issue of subthreshold disorders. Definitions for illness do not at the same time define health, e.g., in the sense of the World Health Organization (WHO) definition from 1947. The threshold not only to define disorders but also to define health is open to discussion. So-called subthreshold disorders require the definition of 2 thresholds. Empirical research has suggested that these "between-threshold disorders" are associated with increased disability and many other negative consequences. Part of the problem with subthreshold disorders is methodological in nature. Psychopathology and the Gestalt characteristic of psychopathological signs are ignored, and categorical instead of dimensional concepts are used. Thus, the distinction between syndromes and disorders, as well as the hierarchical structure of disorders, is not taken into account, and statistical problems with the prognostic power, which is dependent on the epidemiological distribution, are not solved. Variations in threshold definitions have important consequences for the individual and for society, be it because of the negative effects of "diagnostic labeling" or because of the costs to the health care system. Treatment options are presently rather insufficient, although modern sequential treatment algorithms and newer treatments (e.g., selective serotonin reuptake inhibitors [SSRIs] and Saint-John's-wort) promise interesting perspectives. Also in this context, self-help should become an important area of medical treatment research.},
affiliation = {Department of Psychiatry, Free University of Berlin, Germany.},
number = {2 Suppl 1},
pages = {1--7},
volume = {41},
year = {2000},
month = {Jan},
language = {eng},
keywords = {Depressive Disorder, Psychiatric Status Rating Scales, Anxiety Disorders, Mental Disorders, World Health Organization, Humans, Psychometrics, Prognosis},
date-added = {2010-02-12 15:38:54 +0100},
date-modified = {2010-02-12 15:38:54 +0100},
pmid = {10746897},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5594},
rating = {0}
}
@article{Pigeot:2010p5048,
author = {Iris Pigeot and Stefaan De Henauw and Ronja Foraita and Ingeborg Jahn and Wolfgang Ahrens},
journal = {BMC Med Res Methodol},
title = {Primary prevention from the epidemiology perspective: Three examples from the practice},
abstract = {ABSTRACT: BACKGROUND: Primary prevention programmes are of increasing importance to reduce the impact of chronic diseases on the individual, institutional and societal level. However, most initiatives that develop and implement primary prevention programmes are not evaluated with scientific rigor. On the basis of three different projects we discuss necessary steps on the road to evidence-based primary prevention. DISCUSSION: We first discuss how to identify suitable target groups exploiting sophisticated statistical methods. This is illustrated using data from a health survey conducted in a federal state of Germany. A literature review is the more typical approach to identify target groups that is demonstrated using a European project on the prevention of childhood obesity. In the next step, modifiable risk factors and realistic targets of the intervention have to be specified. These determine the outcome measures that in turn are used for effect evaluation. Both, the target groups and the outcome measures, lay the ground for the study design and the definition of comparison groups as can be seen in our European project. This project also illustrates the development and implementation of a prevention programme. These may require active involvement of participants which can be achieved by participatory approaches taking into account the socio-cultural and living environment. Evaluation is of utmost importance for any intervention to assess structure, process and outcome according to rigid scientific criteria. Different approaches used for this are discussed and illustrated by a methodological project developed within a health promotion programme in a deprived area. Eventually the challenge of transferring an evidence-based intervention into practice and to achieve its sustainability is addressed. SUMMARY: This article describes a general roadmap to primary prevention comprising (1) the identification of target groups and settings, (2) the identification of modifiable risk factors and endpoints, (3) the development and implementation of an intervention programme, (4) the evaluation of structure, process and outcome and (5) the transfer of an evidence-based intervention into practice.},
number = {1},
pages = {10},
volume = {10},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-05 20:00:47 +0100},
date-modified = {2010-02-05 20:00:48 +0100},
doi = {10.1186/1471-2288-10-10},
pii = {1471-2288-10-10},
pmid = {20128907},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pigeot-2010-BMC%20Med%20Res%20Methodol_Primary%20prevention%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5048},
rating = {0}
}
@article{DiStefano:2009p11574,
author = {C DiStefano and M Zhu and D Mindrila},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {Understanding and Using Factor Scores: Considerations for the Applied Researcher},
abstract = {Following an exploratory factor analysis, factor scores may be computed and used in subsequent analyses. Factor scores are composite variables which provide information about an individual's placement on the factor(s). This article discusses popular methods to create factor scores under two different classes: refined and non-refined. Strengths and considerations of the various methods, and for using factor scores in general, are discussed.},
number = {14},
volume = {20},
year = {2009},
date-added = {2010-05-09 18:17:54 +0200},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/DiStefano-2009-Practical%20Assessment%20Research%20%20&%20Evaluation_Understanding%20and%20Us.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11574},
rating = {0}
}
@article{Gagne:2009p7671,
author = {Jeffrey R Gagne and Kimberly J Saudino},
journal = {Behav Genet},
title = {Wait For It! A Twin Study of Inhibitory Control in Early Childhood},
abstract = {Inhibitory control (IC) is a dimension of child temperament that emerges in toddlerhood and involves the ability to regulate behavior in response to instructions or expectations. In general, children with low levels of IC have more cognitive and social difficulties, and higher levels of problem behaviors. Unfortunately, there is a paucity of research on the heritability of this important behavioral dimension. The present study used a twin design to examine the extent to which genetic and environmental factors contribute to individual differences in IC. Laboratory and parent assessments of IC were conducted on 294 same-sex twin pairs (133 MZ, 161 DZ) at 24 months of age. Model-fitting analyses showed that genetic factors accounted for 38 and 58% of the variance in laboratory- and parent-rated IC, respectively. Multivariate genetic analyses also revealed that the covariance between observed and parent-assessed IC could be predominantly explained by common genetic influences.},
affiliation = {Department of Psychology, University of Wisconsin-Madison, 1202 West Johnson Street, Madison, WI, 53706-1611, USA, jgagne@wisc.edu.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-03-15 23:45:27 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9316-6},
pmid = {19936910},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gagne-2009-Behav%20Genet_Wait%20For%20It!%20A%20Twin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7671},
rating = {0}
}
@article{Hagell:2010p10684,
author = {Peter Hagell and Per-Johan Hedin and David M Meads and Lennart Nyberg and Stephen P McKenna},
journal = {Value Health},
title = {Effects of Method of Translation of Patient-Reported Health Outcome Questionnaires: A Randomized Study of the Translation of the Rheumatoid Arthritis Quality of Life (RAQoL) Instrument for Sweden},
abstract = {ABSTRACT Aims: To compare two versions of a questionnaire translated using forward-backward (FB) translation and dual-panel (DP) methodologies regarding preference of wording and psychometric properties. Methods: The Rheumatoid Arthritis Quality of Life instrument was adapted into Swedish by two independent groups using FB and DP methodologies, respectively. Seven out of thirty resulting items were identical. Nonidentical items were evaluated regarding preference of wording by 23 bilingual Swedes, 50 people with rheumatoid arthritis (RA), and 2 lay panels (n = 11). Psychometric performance was assessed from a postal survey of 200 people with RA randomly assigned to complete one version first and the other 2 weeks later. Results: Preference did not differ among the 23 bilinguals (P = 0.196), whereas patients and lay people preferred DP over FB item versions (P < 0.0001). Postal survey response rates were 74% (FB) and 75% (DP). There were more missing item responses in the FB than the DP version (6.9% vs. 5.6%; P < 0.0001). Floor/ceiling effects were small (FB, 6.1/0%; DP, 4.4/0.7%) and reliability was 0.92 for both versions. Construct validity was similar for both versions. Differential item functioning by version was detected for five items but cancelled out and did not affect estimated person measures. Conclusions: The DP approach showed advantages over FB translation in terms of preference by the target population and by lay people, whereas there were no obvious psychometric differences. This suggests advantages of DP over FB translation from the patients' perspective, and does not support the commonly held view that FB translation is the "gold standard."},
affiliation = {Department of Health Sciences, Lund University, Lund, Sweden.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-04-07 11:58:54 +0200},
date-modified = {2010-04-07 11:58:54 +0200},
doi = {10.1111/j.1524-4733.2009.00677.x},
pii = {VHE677},
pmid = {20070642},
url = {http://www3.interscience.wiley.com/journal/123236508/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10684},
rating = {0}
}
@article{Unwin:2007p2436,
author = {A Unwin and C H Chen and W H{\"a}rdle},
title = {Computational Statistics and Data Visualization},
year = {2007},
date-added = {2010-01-11 23:45:46 +0100},
date-modified = {2010-01-11 23:46:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Unwin-2007-_Computational%20Statis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2436},
rating = {0}
}
@article{Fleishman:2004p4756,
author = {J A Fleishman},
title = {Using MIMIC Models to Assess the Influence of Differential Item Functioning},
year = {2004},
date-added = {2010-02-01 12:36:34 +0100},
date-modified = {2010-06-24 17:31:34 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fleishman-2004-_Using%20MIMIC%20Models%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4756},
rating = {5}
}
@article{Zwicker:2009p5138,
author = {Jill G Zwicker and Cheryl Missiuna and Lara A Boyd},
journal = {J Child Neurol},
title = {Neural correlates of developmental coordination disorder: a review of hypotheses},
abstract = {Affecting 5% to 6% of school-age children, developmental coordination disorder is characterized by a marked impairment of motor coordination that significantly interferes with activities of daily living and academic achievement. Little is known about the etiology of developmental coordination disorder, but the disorder often coexists with attention-deficit hyperactivity disorder (ADHD), speech/language impairment, and/or reading disability. This comprehensive review examines the literature supporting or refuting hypothesized neural correlates of developmental coordination disorder and suggests directions for future research. Potential sources of neuropathology include the cerebellum, parietal lobe, corpus callosum, and basal ganglia. Comorbidities and deficits associated with developmental coordination disorder are highly suggestive of cerebellar dysfunction; yet, given the heterogeneity of this disorder, it is likely that the cerebellum is not the only neural correlate. Neuroimaging studies and behavioral investigations of learning-related change in motor behavior are the next critical step in enhancing our understanding of developmental coordination disorder.},
affiliation = {Faculty of Medicine, Rehabilitation Sciences, University of British Columbia, Vancouver, British Columbia, Canada. jzwicker@interchange.ubc.ca},
number = {10},
pages = {1273--81},
volume = {24},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Motor Skills Disorders, Animals, Brain Diseases, Learning Disorders, Language Disorders, Brain, Humans, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-07-29 19:32:28 +0200},
doi = {10.1177/0883073809333537},
pii = {0883073809333537},
pmid = {19687388},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5138},
rating = {0}
}
@article{Waaijenborg:2007p1557,
author = {Sandra Waaijenborg and Aeilko H Zwinderman},
journal = {BMC Proc},
title = {Penalized canonical correlation analysis to quantify the association between gene expression and DNA markers},
abstract = {Inter-individual variation in gene expression levels can arise as an effect of variation in DNA markers. When associating multiple gene expression variables with multiple DNA marker variables, multivariate techniques, such as canonical correlation analysis, should be used to deal with the effect of co-regulating genes. We adapted the elastic net, a penalized approach proposed for variable selection in regression context, to canonical correlation analysis. The number of variables within each canonical component could be greatly reduced without too much loss of information, so the canonical components become easier to interpret. Another advantage is that it groups co-regulating genes, so that they end up in the same canonical components. Furthermore, our adaptation works well in situations where the number of variables greatly exceeds the number of subjects.},
affiliation = {Department of Clinical Epidemiology, Biostatistics and Bioinformatics, Academic Medical Center, P,O, Box 22700, 1100 DE Amsterdam, The Netherlands. s.waaijenborg@amc.uva.nl},
pages = {S122},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-01-07 16:43:35 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {18466464},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Waaijenborg-2007-BMC%20Proc_Penalized%20canonical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1557},
read = {Yes},
rating = {0}
}
@inproceedings{Bestgen:2002,
author = {Yves Bestgen and Anne-Fran{\c c}oise Cabiaux},
journal = {Proceedings},
title = {L'analyse s{\'e}mantique latente et l'identification des m{\'e}taphores},
year = {2002},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bestgen-2002-Proceedings_L'analyse%20s%C3%A9mantique.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2015},
rating = {0}
}
@article{Girardi:2009p6803,
author = {E Girardi and C Angeletti and V Puro and R Sorrentino and N Magnavita and D Vincenti and S Carrara and O Butera and A M Ciufoli and S Squarcione and G Ippolito and D Goletti},
journal = {Euro Surveill},
title = {Estimating diagnostic accuracy of tests for latent tuberculosis infection without a gold standard among healthcare workers},
abstract = {The evaluation of diagnostic accuracy of new in vitro diagnostic assays for tuberculosis infection has been hampered by the lack of a standard reference test. The aim of this study was to compare sensitivity and specificity of interferon gamma assays for latent tuberculosis infection by assessing the association of test results with tuberculosis occupational exposure and by using latent class analysis. We analysed data from 115 healthcare workers on whom tuberculin skin test (TST) and the following in vitro tests were performed: in-house ELISPOT for RD1 proteins, T.SPOT-TB and Quantiferon-TB Gold. Results of all tests were associated with increased occupational risk of exposure to Mycobacterium tuberculosis, but only TST was associated with Bacillus Calmette-Guerin (BCG) vaccination. Sensitivity/specificity (95% confidence intervals) estimated by a latent class model were: 99.9%/64.2% (53.0-74.1) for TST, 95.3% (61.8-99.6)/87.5% (78.0-93.2) for in-house ELISPOT, 96.7% (69.3-99.7)/85.6%(75.3-92.0) for T.SPOT-TB, and 76.3% (55.9-89.1)/93.6% (85.4-97.3) for Quantiferon. The estimated specificity of in vitro assays was higher than that of TST also among individuals who were not BCG-vaccinated. In conclusion, when used in healthcare workers, in vitro assays may provide a significant increase of specificity for tuberculosis infection compared to TST, even among non vaccinated individuals, at the cost of some sensitivity.},
affiliation = {Department of Epidemiology and Preclinical Research, Istituto Nazionale per le Malattie Infettive Lazzaro Spallanzani, IRCCS (National Institute for Infectious Diseases Lazzaro Spallanzani), Rome, Italy. girardi@inmi.it},
number = {43},
volume = {14},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Interferon-gamma, Male, Adult, Italy, Tuberculosis, Reproducibility of Results, Humans, Medical Staff, Female, Sensitivity and Specificity},
date-added = {2010-03-05 22:31:25 +0100},
date-modified = {2010-03-05 22:31:25 +0100},
pmid = {19883555},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6803},
rating = {0}
}
@article{Muthen:2006p1228,
author = {Bengt Muth{\'e}n and Tihomir Asparouhov and Irene Rebollo},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Advances in behavioral genetics modeling using Mplus: applications of factor mixture modeling to twin data},
abstract = {This article discusses new latent variable techniques developed by the authors. As an illustration, a new factor mixture model is applied to the monozygotic-dizygotic twin analysis of binary items measuring alcohol-use disorder. In this model, heritability is simultaneously studied with respect to latent class membership and within-class severity dimensions. Different latent classes of individuals are allowed to have different heritability for the severity dimensions. The factor mixture approach appears to have great potential for the genetic analyses of heterogeneous populations. Generalizations for longitudinal data are also outlined.},
affiliation = {Graduate School of Education {\&} Information Studies, University of California, Los Angeles, 90095, USA. bmuthen@ucla.edu},
number = {3},
pages = {313--24},
volume = {9},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Humans, Alcoholism, Adult, Twins: Monozygotic, Psychometrics, Male, Phenotype, Software, Diseases in Twins, Models: Genetic, Twins: Dizygotic, Models: Statistical, Biometry, Australia, Genetics: Behavioral},
date-added = {2010-01-03 19:51:14 +0100},
date-modified = {2010-01-03 19:51:14 +0100},
doi = {10.1375/183242706777591317},
pmid = {16790142},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-2006-Twin%20research%20and%20human%20genetics%20the%20official%20journal%20of%20the%20International%20Society%20for%20Twin%20Studies_Advances%20in%20behavior.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1228},
rating = {0}
}
@article{Anonymous:2005p11755,
title = {Misinterpretations of Significance: How Significance Tests Should be Presented to Students},
year = {2005},
date-added = {2010-05-23 09:55:10 +0200},
date-modified = {2010-05-23 09:56:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/2005-_Misinterpretations%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11755},
read = {Yes},
rating = {0}
}
@article{Cordell:2009p5279,
author = {Heather J Cordell},
journal = {Genomics},
title = {Estimation and testing of gene-environment interactions in family-based association studies},
abstract = {Gene-environment interactions are of interest in genetic association studies for several reasons. First, the power to detect genetic effects may be substantially decreased if those effects differ according to environmental exposure and if no account is taken of this interaction with environmental exposure in the analysis. Second, such interactions may indicate a phenomenon of genuine biological interest (whereby a particular genetic effect operates only in the presence of an environmental trigger, or vice versa), understanding of which can lead us to a greater understanding of possible mechanisms and pathways in disease progression. Here I discuss the testing and estimation of gene-environment interactions via the case/pseudocontrol and related approaches. As originally proposed, the case/pseudocontrol approach applies to case/parents trios with no missing genotype data. I discuss some recent extensions that allow larger pedigree structures with some missing genotype data and present computer simulations to compare the performance of several competing approaches.},
affiliation = {Institute of Human Genetics, Newcastle University, Newcastle upon Tyne NE1 3BZ, UK. heather.cordell@newcastle.ac.uk},
number = {1},
pages = {5--9},
volume = {93},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Genotype, Environment, Humans, Models: Genetic, Computer Simulation, Child, Case-Control Studies, Pedigree, Family, Research Design, Adult},
date-added = {2010-02-09 22:28:40 +0100},
date-modified = {2010-02-09 22:28:40 +0100},
doi = {10.1016/j.ygeno.2008.05.002},
pii = {S0888-7543(08)00095-5},
pmid = {18538979},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5279},
rating = {0}
}
@article{Distel:2009p7010,
author = {Marijn A Distel and Irene Rebollo-Mesa and Gonneke Willemsen and Catherine A Derom and Timothy J Trull and Nicholas G Martin and Dorret I Boomsma},
journal = {PLoS ONE},
title = {Familial resemblance of borderline personality disorder features: genetic or cultural transmission?},
abstract = {Borderline personality disorder is a severe personality disorder for which genetic research has been limited to family studies and classical twin studies. These studies indicate that genetic effects explain 35 to 45% of the variance in borderline personality disorder and borderline personality features. However, effects of non-additive (dominance) genetic factors, non-random mating and cultural transmission have generally not been explored. In the present study an extended twin-family design was applied to self-report data of twins (N = 5,017) and their siblings (N = 1,266), parents (N = 3,064) and spouses (N = 939) from 4,015 families, to estimate the effects of additive and non-additive genetic and environmental factors, cultural transmission and non-random mating on individual differences in borderline personality features. Results showed that resemblance among biological relatives could completely be attributed to genetic effects. Variation in borderline personality features was explained by additive genetic (21%; 95% CI 17-26%) and dominant genetic (24%; 95% CI 17-31%) factors. Environmental influences (55%; 95% CI 51-60%) explained the remaining variance. Significant resemblance between spouses was observed, which was best explained by phenotypic assortative mating, but it had only a small effect on the genetic variance (1% of the total variance). There was no effect of cultural transmission from parents to offspring.},
affiliation = {Department of Biological Psychology, VU University Amsterdam, Amsterdam, The Netherlands. ma.distel@psy.vu.nl},
number = {4},
pages = {e5334},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Borderline Personality Disorder, Models: Genetic, Male, Phenotype, Female, Twins, Humans, Social Environment, Cultural Characteristics, Genetic Variation},
date-added = {2010-03-06 19:46:35 +0100},
date-modified = {2010-03-06 19:46:35 +0100},
doi = {10.1371/journal.pone.0005334},
pmid = {19390632},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Distel-2009-PLoS%20ONE_Familial%20resemblance.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7010},
rating = {0}
}
@article{Wickham:2006p10901,
author = {H Wickham},
title = {Exploratory model analysis with R and GGobi},
year = {2006},
date-added = {2010-04-11 13:48:11 +0200},
date-modified = {2010-04-11 13:48:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham-2006-_Exploratory%20model%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10901},
rating = {0}
}
@article{Burns:2006p2322,
author = {P Burns},
journal = {Statistical Consulting Group: UCLA Academic Technology Services},
title = {R Relative to Statistical Packages: Comment 1 on Technical Report Number 1 (Version 1.0) Strategically using General Purpose Statistics Packages: A Look at Stata, SAS and SPSS},
year = {2006},
date-added = {2010-01-10 12:45:13 +0100},
date-modified = {2010-01-10 12:46:50 +0100},
url = {http://www.ats.ucla.edu/stat/technicalreports/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burns-2006-Statistical%20Consulting%20Group%20UCLA%20Academic%20Technology%20Services_R%20Relative%20to%20Statis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2322},
rating = {0}
}
@article{deLeeuw:1985p13753,
author = {Jan de Leeuw},
title = {The permutational limit distribution of generalized canonical correlations},
year = {1985},
date-added = {2010-07-24 12:44:54 +0200},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-1985-_The%20permutational%20li.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13753},
rating = {0}
}
@article{Casey:2004p4393,
author = {Patricia Casey and Gail Birbeck and Catherine McDonagh and Ann Horgan and Chris Dowrick and Odd Dalgard and Ville Lethinen and Jose Luis Ayuso-Mateos and Graham Dunn and Helen Page and Claire Wilkinson and Greg Wilkinson and Jose Luis Vazquez-Barquero and ODIN Group},
journal = {J Affect Disord},
title = {Personality disorder, depression and functioning: results from the ODIN study},
abstract = {BACKGROUND: There is little information of the prevalence of personality disorder (PD) in those with depressive disorder in community samples; neither is there any data on the impact of PD on service utilisation or outcome in this setting. METHODS: A two stage screening study to identify cases of depressive disorder using SCAN in five European countries. Personality assessed 6 months after the diagnostic interview. Follow-up for 1 year using symptom and social function measures. RESULTS: Personality disorder is present in 22% of a community sample with depressive disorders but the range varied from 13.7% to 33.3% across countries. Cluster C formed 43% of the total. Long-term psychotropic drug use was more common in the PD group even after depression was controlled. Those with PD had higher symptom scores at the outset and, although the PD group was more likely to be cases at follow-up, this disappeared when the depression score was co-varied. Only initial social function predicted outcome at 6 and 12 months. LIMITATIONS: The use of a non-treatment seeking population may limit the application of the findings to clinical populations. CONCLUSIONS: PD is common even in a non-treatment seeking population with depressive disorder. It impacts upon outcome at 6 and 12 months but this is related to the initial severity of depressed mood. Social function is the only independent predictor of outcome and should be assessed separately.},
affiliation = {Mater Misericordiae Hospital, Department of Psychiatry/University College Dublin, Eccles St., Dublin 7, Ireland. apsych@mater.ie},
number = {2},
pages = {277--83},
volume = {82},
year = {2004},
month = {Oct},
language = {eng},
keywords = {Bipolar Disorder, Depressive Disorder, Female, Adult, Male, Outcome Assessment (Health Care), Drug Utilization, Socioeconomic Factors, Primary Health Care, Middle Aged, Cross-Cultural Comparison, Personality Disorders, Activities of Daily Living, Adolescent, Adjustment Disorders, Psychotropic Drugs, Utilization Review, Humans, Mass Screening, Social Adjustment, Comorbidity, Personality Assessment},
date-added = {2010-01-28 16:31:55 +0100},
date-modified = {2010-01-28 16:31:55 +0100},
doi = {10.1016/j.jad.2003.11.009},
pii = {S0165032703003136},
pmid = {15488258},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4393},
rating = {0}
}
@article{Mislevy:2001p4259,
author = {R J Mislevy and L S Steinberg and R G Almond and F J Breyer and L Johnson},
title = {Making sense of data from complex assessments},
year = {2001},
date-added = {2010-01-23 21:07:26 +0100},
date-modified = {2010-01-23 21:08:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-2001-_Making%20sense%20of%20data.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4259},
rating = {0}
}
@article{Prasad:2008p13272,
author = {Konasale M Prasad and Matcheri S Keshavan},
journal = {Schizophr Bull},
title = {Structural cerebral variations as useful endophenotypes in schizophrenia: do they help construct "extended endophenotypes"?},
abstract = {Endophenotypes represent intermediate phenotypes on the putative causal pathway from the genotype to the phenotype. They offer a potentially valuable strategy to examine the molecular etiopathology of complex behavioral phenotypes such as schizophrenia. Neurocognitive and neurophysiological impairments that suggest functional impairments associated with schizophrenia have been proposed as endophenotypes. However, few studies have examined the structural variations in the brain that might underlie the functional impairments as useful endophenotypes for schizophrenia. Over the past three decades, there has been an impressive body of literature supporting brain structural alterations in schizophrenia. We critically reviewed the extant literature on the neuroanatomical variations in schizophrenia in this paper to evaluate their candidacy as endophenotypes and how useful they are in furthering the understanding of etiology and pathophysiology of schizophrenia. Brain morphometric measures meet many of the criteria set by different investigators, such as being robustly associated with schizophrenia, heritable, quantifiable, and present in unaffected family members more frequently than in the general population. We conclude that the brain morphometric alterations appear largely to meet the criteria for endophenotypes in psychotic disorders. Some caveats for the utility of endophenotypes are discussed. A proposal to combine more than one endophenotype ("extended endophenotype") is suggested. Further work is needed to examine how specific genes and their interactions with the environment may produce alterations in brain structure and function that accompany psychotic disorders.},
affiliation = {Western Psychiatric Institute and Clinic, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA.},
number = {4},
pages = {774--90},
volume = {34},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Family, Evoked Potentials: Auditory, Startle Reaction, Humans, Magnetic Resonance Imaging, Phenotype, Schizophrenia, Cognition Disorders, Brain, Bipolar Disorder, Genotype, Genetic Predisposition to Disease, Schizophrenic Psychology, Event-Related Potentials: P300, Diseases in Twins, Biological Markers, Genetic Variation},
date-added = {2010-07-01 18:23:03 +0200},
date-modified = {2010-07-29 19:50:01 +0200},
doi = {10.1093/schbul/sbn017},
pii = {sbn017},
pmid = {18408230},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prasad-2008-Schizophr%20Bull_Structural%20cerebral.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13272},
rating = {0}
}
@article{deGeus:2001p12625,
author = {E J de Geus and M J Wright and N G Martin and Dorret I Boomsma},
journal = {Behav Genet},
title = {Genetics of brain function and cognition},
abstract = {There is overwhelming evidence for the existence of substantial genetic influences on individual differences in general and specific cognitive abilities, especially in adults. The actual localization and identification of genes underlying variation in cognitive abilities and intelligence has only just started, however. Successes are currently limited to neurological mutations with rather severe cognitive effects. The current approaches to trace genes responsible for variation in the normal ranges of cognitive ability consist of large scale linkage and association studies. These are hampered by the usual problems of low statistical power to detect quantitative trait loci (QTLs) of small effect. One strategy to boost the power of genomic searches is to employ endophenotypes of cognition derived from the booming field of cognitive neuroscience. This special issue of Behavior Genetics reports on one of the first genome-wide association studies for general IQ. A second paper summarizes candidate genes for cognition, based on animal studies. A series of papers then introduces two additional levels of analysis in the "black box" between genes and cognitive ability: (1) behavioral measures of information-processing speed (inspection time, reaction time, rapid naming) and working memory capacity (performance on on single or dual tasks of verbal and spatio-visual working memory), and (2) electrophyiosological derived measures of brain function (e.g., event-related potentials). The obvious way to assess the reliability and validity of these endophenotypes and their usefulness in the search for cognitive ability genes is through the examination of their genetic architecture in twin family studies. Papers in this special issue show that much of the association between intelligence and speed-of-information processing/brain function is due to a common gene or set of genes, and thereby demonstrate the usefulness of considering these measures in gene-hunting studies for IQ.},
number = {6},
pages = {489--95},
volume = {31},
year = {2001},
month = {Nov},
language = {eng},
keywords = {Twin Studies as Topic, Humans, Quantitative Trait: Heritable, Phenotype, Brain, Twins, Intelligence},
date-added = {2010-06-15 22:37:58 +0200},
date-modified = {2010-07-29 20:25:51 +0200},
pmid = {11838528},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Geus-2001-Behav%20Genet_Genetics%20of%20brain%20fu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12625},
rating = {0}
}
@phdthesis{Komarek:2004,
author = {P Komarek},
journal = {PhD Thesis},
title = {Logistic Regression for Data Mining and High-Dimensional Classification},
affiliation = {Carnegie Mellon University},
year = {2004},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Komarek-2004-PhD%20Thesis_Logistic%20Regression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2143},
rating = {0}
}
@article{Stone:2004p2681,
author = {C A Stone},
journal = {Applied Psychological Measurement},
title = {IRTFIT-RESAMPLE: A Computer Program for Assessing Goodness of Fit of Item Response Theory Models Based on Posterior Expectations},
number = {2},
pages = {143--144},
volume = {28},
year = {2004},
date-added = {2010-01-13 09:58:03 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stone-2004-Applied%20Psychological%20Measurement_IRTFIT-RESAMPLE%20A%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2681},
rating = {0}
}
@article{Rosipal:2003p4755,
author = {R Rosipal},
title = {Kernel Partial Least Squares for Nonlinear Regression and Discrimination},
abstract = {This paper summarizes recent results on applying the method of par- tial least squares (PLS) in a reproducing kernel Hilbert space (RKHS). A previously proposed nonlinear kernel-based PLS regression model has proven to be competitive with other regularized regression methods in RKHS. In this paper the use of kernel PLS for discrimination is discussed. A new methodology for classification is then proposed. This is based on kernel PLS dimensionality reduction of the original data space followed by a support vector classifier. Good results using this method on a two-class classification problem are reported here.},
year = {2003},
date-added = {2010-02-01 12:09:31 +0100},
date-modified = {2010-02-01 12:09:59 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rosipal-2003-_Kernel%20Partial%20Least.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4755},
rating = {0}
}
@article{Hoefling:2009p12314,
author = {H Hoefling},
title = {Supplement to A path algorithm for the Fused Lasso Signal Approximator},
year = {2009},
date-added = {2010-06-12 09:33:39 +0200},
date-modified = {2010-06-12 09:34:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hoefling-2009-_Supplement%20to%20A%20path.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12314},
rating = {0}
}
@article{vanBuuren:2007p13982,
author = {Stef van Buuren},
journal = {Stat Methods Med Res},
title = {Multiple imputation of discrete and continuous data by fully conditional specification},
abstract = {The goal of multiple imputation is to provide valid inferences for statistical estimates from incomplete data. To achieve that goal, imputed values should preserve the structure in the data, as well as the uncertainty about this structure, and include any knowledge about the process that generated the missing data. Two approaches for imputing multivariate data exist: joint modeling (JM) and fully conditional specification (FCS). JM is based on parametric statistical theory, and leads to imputation procedures whose statistical properties are known. JM is theoretically sound, but the joint model may lack flexibility needed to represent typical data features, potentially leading to bias. FCS is a semi-parametric and flexible alternative that specifies the multivariate model by a series of conditional models, one for each incomplete variable. FCS provides tremendous flexibility and is easy to apply, but its statistical properties are difficult to establish. Simulation work shows that FCS behaves very well in the cases studied. The present paper reviews and compares the approaches. JM and FCS were applied to pubertal development data of 3801 Dutch girls that had missing data on menarche (two categories), breast development (five categories) and pubic hair development (six stages). Imputations for these data were created under two models: a multivariate normal model with rounding and a conditionally specified discrete model. The JM approach introduced biases in the reference curves, whereas FCS did not. The paper concludes that FCS is a useful and easily applied flexible alternative to JM when no convenient and realistic joint distribution can be specified.},
affiliation = {TNO Quality of Life, Leiden, The Netherlands and University of Utrecht, The Netherlands. stef.vanbuuren@tno.nl},
number = {3},
pages = {219--42},
volume = {16},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Netherlands, Data Interpretation: Statistical, Biomedical Research, Bias (Epidemiology), Child, Female, Humans, Adolescent, Adult, Models: Statistical, Male, Growth and Development},
date-added = {2010-07-30 21:33:05 +0200},
date-modified = {2010-07-30 21:33:05 +0200},
doi = {10.1177/0962280206074463},
pii = {16/3/219},
pmid = {17621469},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Buuren-2007-Stat%20Methods%20Med%20Res_Multiple%20imputation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13982},
rating = {0}
}
@article{Toores:2008p1850,
author = {G J Toores and R B Basnet and A H Sung and S Mukkamala and B M Ribeiro},
journal = {Proceedings of World Academy of Science, Engineering and Technology},
title = {A Similarity Measure for Clustering and its Applications},
abstract = {This paper introduces a measure of similarity between two clusterings of the same dataset produced by two different algorithms, or even the same algorithm (K-means, for instance, with different initializations usually produce different results in clustering the same dataset). We then apply the measure to calculate the similarity between pairs of clusterings, with special interest directed at comparing the similarity between various machine clusterings and human clustering of datasets. The similarity measure thus can be used to identify the best (in terms of most similar to human) clustering algorithm for a specific problem at hand. Experimental results pertaining to the text categorization problem of a Portuguese corpus (wherein a translation-into-English approach is used) are presented, as well as results on the well-known benchmark IRIS dataset. The significance and other potential applications of the proposed measure are discussed.},
pages = {490--496},
volume = {31},
year = {2008},
date-added = {2010-01-10 11:19:13 +0100},
date-modified = {2010-01-10 11:21:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Toores-2008-Proceedings%20of%20World%20Academy%20of%20Science%20Engineering%20and%20Technology_A%20Similarity%20Measure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1850},
rating = {0}
}
@article{Boomsma:2000p2923,
author = {A Boomsma},
journal = {Structural Equation Modeling},
title = {Reporting Analyses of Covariance Structures},
abstract = {This contribution is focused on how to write a research paper when structural equation models are being used in empirical work. The main question to be answered is what information should be reported and what results can be deleted without much loss of judgment about the quality of research and the validity of conclusions being made. The major conjecture is that all information should be reported, or referred to, that enables each member of the scientific community, at least in principle, to replicate the analysis as it is published. The recommendations are ordered in the framework of the empirical research cycle. They are meant for authors, in particular students employing structural equation models for their dissertation, as well as for editors and reviewers.},
affiliation = {Department of Statistics, Measurement Theory {\&} Information Technology University of Groningen},
number = {3},
pages = {461--483},
volume = {7},
year = {2000},
date-added = {2010-01-13 22:09:38 +0100},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boomsma-2000-Structural%20Equation%20Modeling_Reporting%20Analyses%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2923},
rating = {0}
}
@article{Gonen:2006p3698,
author = {M G{\"o}nen},
journal = {SUGI 31},
title = {Receiver Operating Characteristic (ROC) Curves},
abstract = {Assessment of predictive accuracy is a critical aspect of evaluating and comparing models, algorithms or technologies that produce the predictions. In the field of medical diagnosis, receiver operating characteristic (ROC) curves have become the standard tool for this purpose and its use is becoming increasingly common in other fields such as finance, atmospheric science and machine learning. There are surprisingly few built-in options in SAS for ROC curves, but several procedures in SAS/STAT can be tailored with little effort to produce a wide variety of ROC analyses. This talk will focus on the use of SAS/STAT procedures FREQ, LOGISTIC, MIXED and NLMIXED to perform ROC analyses, including estimation of sensitivity and specificity, estimation of an ROC curve and computing the area under the ROC curve. In addition, several macros will be introduced to facilitate graphical presentation and complement existing statistical capabilities of SAS with regard to ROC curves. Real data from clinical applications will be used to demonstrate the methods.},
year = {2006},
date-added = {2010-01-16 20:50:57 +0100},
date-modified = {2010-01-16 20:51:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/G%C3%B6nen-2006-SUGI%2031_Receiver%20Operating%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3698},
rating = {0}
}
@article{Morgan:2005p4745,
author = {S L Morgan and D J Harding},
title = {Matching Estimators of Causal Effects: From Stratification and Weighting to Practical Data Analysis Routines},
abstract = {As the counterfactual model of causality has increased in popularity, sociologists have returned to matching as a research methodology. In this paper, advances over the past two decadesinmatchingestimatorsareexplained. Afterpresentingthefundamentalconceptsofthe counterfactual model of causality, we introduce matching methods by focusing first on ideal scenarios in which stratification and reweighting procedures can warrant causal inference. Then, we discuss how matching is often undertaken in practice, offering an overview of various algorithms. Finally, we discuss how the assumptions behind matching estimators can break down in practice. In conclusion, we outline some practical advice on matching, and discuss the combination of matching with regression methods.},
year = {2005},
date-added = {2010-02-01 11:38:43 +0100},
date-modified = {2010-02-01 11:39:51 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Morgan-2005-_Matching%20Estimators.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4745},
rating = {0}
}
@article{CabreroGarcia:2008p10564,
author = {Julio Cabrero-Garc{\'\i}a and Jos{\'e} Antonio L{\'o}pez-Pina},
journal = {Qual Life Res},
title = {Aggregated measures of functional disability in a nationally representative sample of disabled people: analysis of dimensionality according to gender and severity of disability},
abstract = {OBJECTIVE: To determine (i) the dimensional invariance of instrumental and basic activities of daily living (IADL/ADL) by gender subgroups, and (ii) the extent to which ADL dimensionality varies with the inclusion or exclusion of nondisabled people. METHODS: Data were taken from the 1999 Spanish Survey on Disability, Impairment and State of Health. The analysis focussed on 6,522 people aged over 65 years who received help to perform or were unable to perform IADL/ADL items. Unidimensional and multidimensional item response theory (IRT) models were applied to this sample. RESULTS: In the female sample, IADL/ADL items formed a scale with sufficient unidimensionality to fit a two-parameter logistic IRT model. In the male sample, the structure was bidimensional: self-care and mobility, and household activities. When the sample was composed of IADL/ADL disabled people, ADL items formed a unidimensional scale; when it was composed only of ADL disabled people, they formed a bidimensional structure: self-care and mobility. CONCLUSIONS: IADL/ADL items can be combined in a single scale to measure severity of functional disability in females, but not in males. Separate aggregated scores must be considered for each subdomain, basic mobility and self-care, in order to measure the severity of ADL disability.},
affiliation = {Department of Nursing, University of Alicante, Campus de San Vicente del Raspeig, Ap. 99, 03080 Alicante, Spain. julio.cabrero@ua.es},
number = {3},
pages = {425--36},
volume = {17},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Aged: 80 and over, Health Surveys, Male, Spain, Aged, Sex Factors, Health Status Indicators, Activities of Daily Living, Logistic Models, Disabled Persons, Disability Evaluation, Female, Severity of Illness Index, Models: Statistical, Humans},
date-added = {2010-04-07 11:34:50 +0200},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-008-9313-x},
pmid = {18264797},
url = {http://www.springerlink.com/content/04n67475357t2115/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cabrero-Garc%C3%ADa-2008-Qual%20Life%20Res_Aggregated%20measures.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10564},
rating = {4}
}
@article{Myhren:2010p13056,
author = {Hilde Myhren and {\O}ivind Ekeberg and Olav Stokland},
journal = {Crit Care Med},
title = {Health-related quality of life and return to work after critical illness in general intensive care unit patients: a 1-year follow-up study},
abstract = {OBJECTIVE: To study how health-related quality of life of intensive care unit survivors compares with the general population, changes over time, and association with an optimistic personality trait and posttraumatic stress. Further, to explore differences in health-related quality of life between medical, trauma, and surgical patients and to assess return to work/school at 1 yr. DESIGN: Prospective 1-yr follow-up study. SETTING: University-affiliated trauma center hospital. PATIENTS: At 1-yr, 194 patients participated. Mean age was 49 yrs and 60% were males. MEASUREMENTS AND MAIN RESULTS: Health-related quality of life was assessed by the Short Form 36, which measures health-related quality of life in eight separate dimensions (0=worst health state, 100=best health state). At 1 yr, significantly lower scores compared to the general population were seen in all eight scales (p<.001). The decrease in Short Form 36 scores between before intensive care unit and 1-yr measurements was significant for all eight dimensions (p<.01). The multivariate regression analyses adjusted for gender, age (beta, -0.3), optimism (beta, 0.9), medical disease (beta, 12.2), length of stay in intensive care unit (beta, -0.4), being employed/student/retired before intensive care unit stay (beta, 12.5), and posttraumatic stress symptoms (beta, -9.1; all p<.05) were independent predictors of the dimension physical functioning (adjusted r=.22). For mental health, adjusted for age and gender, independent predictors were optimism (beta, 1.4), being employed/student/retired before intensive care unit stay (beta, 14.9), and posttraumatic stress symptoms (beta, -11.6; all p<.001; adjusted r=.35). Before intensive care unit admission, 122 (63%) patients were students/working, among these, 67 (55%) had returned to work/school at 1-yr follow-up. CONCLUSION: Intensive care unit survivors had significantly lower health-related quality of life at 1 yr compared to the general population and significantly reduced compared to their states before intensive care unit admission. Less posttraumatic stress and optimism were predictors of higher health-related quality of life and return to work/school. Trauma patients had the largest decrease in both physical and mental scores. Only half of the patients had returned to work/school.},
affiliation = {Intensive Care Unit, Department of Acute Medicine, Ullev{\aa}l, Oslo University Hospital and Department of Behavioural Sciences in Medicine, Institute of Basic Medical Sciences, Faculty of Medicine, University of Oslo, Norway. himy@uus.no},
number = {7},
pages = {1554--61},
volume = {38},
year = {2010},
month = {Jul},
language = {eng},
date-added = {2010-06-26 10:17:40 +0200},
date-modified = {2010-06-26 10:17:40 +0200},
doi = {10.1097/CCM.0b013e3181e2c8b1},
pmid = {20473149},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13056},
rating = {0}
}
@article{Demidenko:2008p6909,
author = {Eugene Demidenko},
journal = {Stat Med},
title = {Sample size and optimal design for logistic regression with binary interaction},
abstract = {There is no consensus on what test to use as the basis for sample size determination and power analysis. Some authors advocate the Wald test and some the likelihood-ratio test. We argue that the Wald test should be used because the Z-score is commonly applied for regression coefficient significance testing and therefore the same statistic should be used in the power function. We correct a widespread mistake on sample size determination when the variance of the maximum likelihood estimate (MLE) is estimated at null value. In our previous paper, we developed a correct sample size formula for logistic regression with single exposure (Statist. Med. 2007; 26(18):3385-3397). In the present paper, closed-form formulas are derived for interaction studies with binary exposure and covariate in logistic regression. The formula for the optimal control-case ratio is derived such that it maximizes the power function given other parameters. Our sample size and power calculations with interaction can be carried out online at www.dartmouth.edu/ approximately eugened.},
affiliation = {Dartmouth Medical School, Hanover, NH 03755, U.S.A. eugened@dartmouth.edu},
number = {1},
pages = {36--46},
volume = {27},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genetics, Logistic Models, Environment, Humans, Case-Control Studies, Sample Size, Research Design, Asthma, Likelihood Functions},
date-added = {2010-03-06 12:23:12 +0100},
date-modified = {2010-03-06 12:23:12 +0100},
doi = {10.1002/sim.2980},
pmid = {17634969},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Demidenko-2008-Stat%20Med_Sample%20size%20and%20opti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6909},
rating = {0}
}
@misc{Jansen:2007,
author = {I Jansen and G Molenberghs},
journal = {Miscellaneous},
title = {Modelling strategies for longitudinal data with missingness},
year = {2007},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:40:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jansen-2007-Miscellaneous_Modelling%20strategies.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1100},
rating = {0}
}
@article{Roberson:1995p14212,
author = {Paula K Roberson and Sarah J Shema and Daniel J Mundfrom and Talmage M Holmes},
journal = {Family Medicine},
title = {Analyse of paired Likert data: How to evaluate change and preference questions},
number = {10},
pages = {671--675},
volume = {27},
year = {1995},
date-added = {2010-08-22 20:27:02 +0200},
date-modified = {2010-08-22 20:28:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roberson-1995-Family%20Medicine_Analyse%20of%20paired%20Li.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14212},
rating = {0}
}
@article{Foddy:1998,
author = {W Foddy},
journal = {Sociological Methods {\&} Research},
title = {An empirical evaluation of in-depth probes used to pretest survey questions},
abstract = {A growing number of survey methodologists have advocated the use of in-depth probes for identifying comprehension problems, inadequate response categories, the perspectives adopted by respondents, and the strategies respondents employ when retrieving information from memory. This article reports the results of an empirical evaluation of the relative effectiveness of a number of the probes that have been used for the first three of these tasks. This work confirms that the traditional practice of field testing a questionnaire on a subsample drawn from the population of interest is not an effective way of detecting shortcomings in survey questions. It also indicates that the effectiveness of a probe is directly related to its specificity; the most effective comprehension probes are those directed at exploring the ways in which respondents interpret key concepts; probes designed to get at respondents' interpretations of key concepts are the most effective means of identifying perspectives respondents have adopted; and well-educated respondents are most likely to make substantive responses to in-depth probes.},
pages = {103--133},
volume = {27},
year = {1998},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:50:37 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p957},
rating = {0}
}
@article{Verkuilen:2005p6251,
author = {J Verkuilen},
journal = {Sociological Methods {\&} Research},
title = {Assigning Membership in a Fuzzy Set Analysis},
abstract = {This article provides a largely nontechnical discussion of the acquisition of membership values in fuzzy set analyses. First the basic properties of a membership are discussed. Then the three common strategies of membership assignment---direct subjective assign- ment, indirect subjective assignment, and transformation---are critically examined in turn. Examples are used to illustrate the techniques. The connection with existing psy- chometric and statistical methods is particularly emphasized, focusing on the notion of a membership value as a random variable as a means to assess uncertainty in assignment.},
number = {4},
pages = {462--496},
volume = {33},
year = {2005},
date-added = {2010-02-19 21:26:59 +0100},
date-modified = {2010-07-29 19:50:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verkuilen-2005-Sociological%20Methods%20&%20Research_Assigning%20Membership.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6251},
rating = {0}
}
@article{Bilder:2009p4074,
author = {Robert M Bilder and Fred W Sabb and D Stott Parker and Donald Kalar and Wesley W Chu and Jared Fox and Nelson B Freimer and Russell A Poldrack},
journal = {Cogn Neuropsychiatry},
title = {Cognitive ontologies for neuropsychiatric phenomics research},
abstract = {Now that genome-wide association studies (GWAS) are dominating the landscape of genetic research on neuropsychiatric syndromes, investigators are being faced with complexity on an unprecedented scale. It is now clear that phenomics, the systematic study of phenotypes on a genome-wide scale, comprises a rate-limiting step on the road to genomic discovery. To gain traction on the myriad paths leading from genomic variation to syndromal manifestations, informatics strategies must be deployed to navigate increasingly broad domains of knowledge and help researchers find the most important signals. The success of the Gene Ontology project suggests the potential benefits of developing schemata to represent higher levels of phenotypic expression. Challenges in cognitive ontology development include the lack of formal definitions of key concepts and relations among entities, the inconsistent use of terminology across investigators and time, and the fact that relations among cognitive concepts are not likely to be well represented by simple hierarchical "tree" structures. Because cognitive concept labels are labile, there is a need to represent empirical findings at the cognitive test indicator level. This level of description has greater consistency, and benefits from operational definitions of its concepts and relations to quantitative data. Considering cognitive test indicators as the foundation of cognitive ontologies carries several implications, including the likely utility of cognitive task taxonomies. The concept of cognitive "test speciation" is introduced to mark the evolution of paradigms sufficiently unique that their results cannot be "mated" productively with others in meta-analysis. Several projects have been initiated to develop cognitive ontologies at the Consortium for Neuropsychiatric Phenomics (www.phenomics.ucla.edu), in the hope that these ultimately will enable more effective collaboration, and facilitate connections of information about cognitive phenotypes to other levels of biological knowledge. Several free web applications are available already to support examination and visualisation of cognitive concepts in the literature (PubGraph, PubAtlas, PubBrain) and to aid collaborative development of cognitive ontologies (Phenowiki and the Cognitive Atlas). It is hoped that these tools will help formalise inference about cognitive concepts in behavioural and neuroimaging studies, and facilitate discovery of the genetic bases of both healthy cognition and cognitive disorders.},
affiliation = {Jane {\&} Terry Semel Institute for Neuroscience {\&} Human Behavior at UCLA, Los Angeles, CA 90095, USA. rbilder@mednet.ucla.edu},
number = {4-5},
pages = {419--50},
volume = {14},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Nervous System Diseases, Mental Disorders, Cognition Disorders, Humans, Phenotype, Terminology as Topic, Cognition},
date-added = {2010-01-19 15:51:38 +0100},
date-modified = {2010-01-19 15:51:38 +0100},
doi = {10.1080/13546800902787180},
pii = {913383678},
pmid = {19634038},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4074},
rating = {0}
}
@article{Winkler:2009p12280,
author = {Anderson M Winkler and Peter Kochunov and John Blangero and Laura Almasy and Karl Zilles and Peter T Fox and Ravindranath Duggirala and David C Glahn},
journal = {Neuroimage},
title = {Cortical thickness or grey matter volume? The importance of selecting the phenotype for imaging genetics studies},
abstract = {Choosing the appropriate neuroimaging phenotype is critical to successfully identify genes that influence brain structure or function. While neuroimaging methods provide numerous potential phenotypes, their role for imaging genetics studies is unclear. Here we examine the relationship between brain volume, grey matter volume, cortical thickness and surface area, from a genetic standpoint. Four hundred and eighty-six individuals from randomly ascertained extended pedigrees with high-quality T1-weighted neuroanatomic MRI images participated in the study. Surface-based and voxel-based representations of brain structure were derived, using automated methods, and these measurements were analysed using a variance-components method to identify the heritability of these traits and their genetic correlations. All neuroanatomic traits were significantly influenced by genetic factors. Cortical thickness and surface area measurements were found to be genetically and phenotypically independent. While both thickness and area influenced volume measurements of cortical grey matter, volume was more closely related to surface area than cortical thickness. This trend was observed for both the volume-based and surface-based techniques. The results suggest that surface area and cortical thickness measurements should be considered separately and preferred over gray matter volumes for imaging genetic studies.},
affiliation = {Department of Psychiatry, Yale University School of Medicine, New Haven, CT, USA; Olin Neuropsychiatry Research Center, The Institute of Living, Hartford, CT, USA.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-06-09 20:10:40 +0200},
date-modified = {2010-07-11 09:37:49 +0200},
doi = {10.1016/j.neuroimage.2009.12.028},
pii = {S1053-8119(09)01316-0},
pmid = {20006715},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Winkler-2009-Neuroimage_Cortical%20thickness%20o-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12280},
rating = {3}
}
@article{Jones:1994,
author = {P Jones and B Rodgers and R Murray and M Marmot},
journal = {Lancet},
title = {Child development risk factors for adult schizophrenia in the British 1946 birth cohort},
abstract = {Schizophrenia has been linked with childhood psychological abnormalities since it was first described, but studies of associations have not used population samples and so may be subject to bias. We have studied associations between adult-onset schizophrenia and childhood sociodemographic, neurodevelopmental, cognitive, and behavioural factors within a cohort of 5362 people born in the week March 3-9, 1946. Childhood data were gathered prospectively and case ascertainment was independent of routine follow-up of this cohort. 30 cases of schizophrenia arose between ages 16 and 43 years (cumulative risk 0.63% [95% CI 0.41-0.86%]). Milestones of motor development were reached later in cases than in controls, particularly walking (difference in means 1.2 months [0.1-2.3], p = 0.005), and up to age 15, cases had more speech problems than had controls (odds ratio 2.8 [0.9-7.8], p = 0.04). Low educational test scores at ages 8, 11, and 15 years were a risk factor, with significant linear trends across population distributions; risk was not confined to very low scores. Solitary play preference at ages 4 and 6 years predicted schizophrenia (odds ratios 2.1, 2.5, p = 0.05). At 13 years cases rated themselves as less socially confident (p for trend, 0.04). At 15 years, teachers rated cases as being more anxious in social situations (p for trend 0.003), independent of intelligence quotient. A health visitor's rating of the mother as having below average mothering skills and understanding of her child at age 4 years was a predictor of schizophrenia in that child (odds ratio 5.8 [0.8-31.8], p = 0.02). Differences between children destined to develop schizophrenia as adults and the general population were found across a range of developmental domains. As with some other adult illnesses, the origins of schizophrenia may be found in early life.},
number = {8934},
pages = {1398--1402},
volume = {344},
year = {1994},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1086},
rating = {0}
}
@article{Yacubian:2009p3075,
author = {J Yacubian and C B{\"u}chel},
journal = {Neuroscience},
title = {The genetic basis of individual differences in reward processing and the link to addictive behavior and social cognition},
abstract = {Dopaminergic neurotransmission is widely recognized to be critical to the neurobiology of reward, motivation and addiction. Interestingly, social interactions and related behavior also activate the same neuronal system. Consequently, genetic variations of dopamine neurotransmission are thought influence reward processing that in turn may affect distinctive social behavior and susceptibility to addiction. This review focuses on advances made to date in an effort to link genetic individual variations and reward processing as a possible basis for addictive behaviors.},
affiliation = {Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg, Germany. j.yacubian@uke.uni-hamburg.de},
number = {1},
pages = {55--71},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Catechol O-Methyltransferase, Dopamine Plasma Membrane Transport Proteins, Reward, Humans, Signal Transduction, Animals, Social Behavior, Behavior: Addictive, Dopamine},
date-added = {2010-01-14 19:54:35 +0100},
date-modified = {2010-07-29 19:41:38 +0200},
doi = {10.1016/j.neuroscience.2009.05.015},
pii = {S0306-4522(09)00797-0},
pmid = {19446009},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3075},
rating = {3}
}
@article{Veresciagina:2007p5424,
author = {Kotryna Veresciagina and Kazys Vytautas Ambrozaitis and Bronius Spakauskas},
journal = {Medicina (Kaunas)},
title = {Health-related quality-of-life assessment in patients with low back pain using SF-36 questionnaire},
abstract = {OBJECTIVE: For complete assessment of benefits of the surgical intervention, it is essential to provide evidence of the impact on patients in terms of health status and health-related quality of life. In the present study, the preoperative 36-item Short Form (SF-36) Health Survey scores were determined in patients before lumbar microdiscectomy due to better preoperative screening likewise in the control group--almost healthy population taken into account any habitual ailments experienced in an appropriate age. PATIENTS AND METHODS: In the present study, we investigated a cohort of 100 patients with disc herniation causing low back pain and another hundred of the control subjects, matched by age and gender. The short form 36 general health questionnaire (SF-36) was applied. RESULTS: Estimation of the SF-36 scores showed that (1) all of the domain values were considerably lower in the preoperative patient group than in the second one (P<0.01); (2) the bodily pain scores were closely correlated to the social function scores (R=0.7, P<0.01), whereas the physical function was less related to the bodily pain (R=0.6, P<0.01). The weakest correlation was observed between bodily pain and mental health and general health (R=0.4, P<0.01). CONCLUSION: The present study showed that the generic instrument, SF-36 Health Survey, was optimized paraclinical method for patients predisposed to surgical treatment of the lumbar disc herniation disease likewise for normal population individuals, matched by age and sex, in the assessment of health-related quality of life.},
affiliation = {Department of Neurosurgery, Kaunas University of Medicine, Kaunas, Lithuania. cotryna@gmail.com},
number = {8},
pages = {607--13},
volume = {43},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Pain Measurement, Adult, Low Back Pain, Quality of Life, Mental Health, Humans, Questionnaires, Tomography: X-Ray Computed, Data Interpretation: Statistical, Lumbar Vertebrae, Intervertebral Disk Displacement, Male, Cohort Studies, Aged, Health Status, Middle Aged, Female},
date-added = {2010-02-11 10:39:04 +0100},
date-modified = {2010-02-11 10:39:04 +0100},
pii = {0708-02e},
pmid = {17895635},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Veresciagina-2007-Medicina%20(Kaunas)_Health-related%20quali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5424},
read = {Yes},
rating = {0}
}
@article{Dong:2003p11906,
author = {F Dong and S Pilli and S Pivirotto and J Van Domelen},
journal = {SUGI 28},
title = {StARScope: A Web-based SAS{\textregistered} Prototype for Clinical Data Visualization},
abstract = {StARScope is a dynamic, clinical trial data visualization prototype. It was developed with SAS{\textregistered} version 8.2, including SAS/IntrNet, SAS Graphics and SAS ODS, and is a web-based application. The web server is on a Unix machine and the user interface is Internet Explorer (5.0 or above) running on any desktop machine. In developing the prototype, we took advantage of the SAS/IntrNet and SAS Output Delivery System to publish graphic reports with hyperlinks to relevant data. We also utilized the newly developed Pfizer corporate data standard- -Global Reporting and Data Exchange Standards (GRADES), which follows the proposed pharmaceutical industry standards defined by the Clinical Data Interchange Standards Consortium (CDISC) group. This way, the prototype can be used by any clinical trial studies that comply with the GRADES. StARScope provides interactive access to clinical trial data to non- programmer clients, including clinicians, statisticians, and medical writers. StARScope heavily utilizes graphic presentations to help clients quickly capture salient information from the database in a pictorial fashion. Programmers can also use StARScope for data checking on the research report tables.},
year = {2003},
date-added = {2010-05-23 11:53:09 +0200},
date-modified = {2010-05-23 11:54:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dong-2003-SUGI%2028_StARScope%20A%20Web-bas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11906},
rating = {0}
}
@inproceedings{Grim:2005,
author = {B J Grim and L M Semali},
journal = {Proceedings},
title = {Checking for Nonresponse Bias in Web-Only Surveys of Special Populations using a Mixed-Mode (Web-with-Mail) Design},
year = {2005},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grim-2005-Proceedings_Checking%20for%20Nonresp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2093},
rating = {0}
}
@article{Price:2008p1821,
author = {Alkes L Price and Nick Patterson and Dustin C Hancks and Simon Myers and David Reich and Vivian G Cheung and Richard S Spielman},
journal = {PLoS Genet},
title = {Effects of cis and trans genetic ancestry on gene expression in African Americans},
abstract = {Variation in gene expression is a fundamental aspect of human phenotypic variation. Several recent studies have analyzed gene expression levels in populations of different continental ancestry and reported population differences at a large number of genes. However, these differences could largely be due to non-genetic (e.g., environmental) effects. Here, we analyze gene expression levels in African American cell lines, which differ from previously analyzed cell lines in that individuals from this population inherit variable proportions of two continental ancestries. We first relate gene expression levels in individual African Americans to their genome-wide proportion of European ancestry. The results provide strong evidence of a genetic contribution to expression differences between European and African populations, validating previous findings. Second, we infer local ancestry (0, 1, or 2 European chromosomes) at each location in the genome and investigate the effects of ancestry proximal to the expressed gene (cis) versus ancestry elsewhere in the genome (trans). Both effects are highly significant, and we estimate that 12+/-3% of all heritable variation in human gene expression is due to cis variants.},
affiliation = {Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, United States of America. aprice@hsph.harvard.edu},
number = {12},
pages = {e1000294},
volume = {4},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Male, Female, European Continental Ancestry Group, African Continental Ancestry Group, Genome: Human, Humans, Genetics: Population, Evolution: Molecular, Gene Expression, Genetic Variation},
date-added = {2010-01-09 22:59:30 +0100},
date-modified = {2010-01-09 22:59:30 +0100},
doi = {10.1371/journal.pgen.1000294},
pmid = {19057673},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Price-2008-PLoS%20Genet_Effects%20of%20cis%20and%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1821},
rating = {0}
}
@article{Marsh:2003p882,
author = {A Marsh and L Smith and J Piek and B Saunders},
journal = {Educational and Psychological Measurement},
title = {The purpose in life scale: Psychometric properties for social drinkers and drinkers in alcohol treatment},
abstract = {The aim of the present research was to further investigate (a) the structure of the Purpose inLifetest(PIL)usingconfirmatoryfactoranalytictechniques,(b)thereliabilityofPIL scores,and(c)thevalidityofthePIL.Participantswere357socialdrinkers(notinalco- hol treatment) and 137 treatment drinkers (in alcohol treatment). With the exclusion of 3 items,aunidimensionalmeasurementmodelforthePILprovidedanadequatefitfor social and treatment drinkers. Model invariance analysis indicated that 6 of 17 PIL items had different pattern coefficients for the two groups of drinkers. The 17 items of the PIL demonstrated good measurement reliability for both groups of drinkers and good criterion- related validity.},
affiliation = {Curtin University of Technology, Australia},
number = {5},
pages = {859--871},
volume = {63},
year = {2003},
keywords = {psychometric properties, Purpose in Life, treatment drinkers, social drinkers, impaired control over drinking},
date-added = {2010-01-03 18:11:42 +0100},
date-modified = {2010-01-03 18:14:26 +0100},
doi = {10.1177/0013164402251040},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Marsh-2003-Educational%20and%20Psychological%20Measurement_The%20purpose%20in%20life.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p882},
rating = {0}
}
@article{Gorwood:2007p9134,
author = {Philip Gorwood and Mathias Wohl and Yann Le Strat and Fr{\'e}d{\'e}ric Rouillon},
journal = {C R Biol},
title = {Gene-environment interactions in addictive disorders: epidemiological and methodological aspects},
abstract = {The gene-environment interactions' approach could explain some epidemiological and clinical factors associated with addictive behaviours. Twin studies first help to disentangle the respective roles of environment and genetic effects, finding convincing evidence for common genetic vulnerability in several addictive behaviours, and helping to delimit what syndrome could belong to the addictive disorder spectrum. Assessing gene x environment interaction (G x E) needs specifically designed studies, using multiplicative or additive approaches. Focusing on this G x E interaction already showed its relevancy in many recent studies, using both epidemiological and molecular approaches. For example, in a non-human primate model of alcohol dependence assessing the respective role of genetic vulnerability (having the short allele located in the promoter region of the gene coding for the serotonin transporter) and severe fostering conditions (as locked up in a cage with other inmates for the first six months of life), the only group of monkeys that has a significant risk of using spontaneously alcohol is the one that gathers both risk factors, i.e. being peer-raised and having the short allele. Such approach could help to more accurately select specific candidate genes, to identify more homogenous subgroups of patients (as sharing the same genetic vulnerability), to understand how genetic factors mediate the risk of associated psychiatric disorders, and ultimately, may lead to more focused, i.e. more efficient, prevention strategies.},
affiliation = {Inserm U675, Institut f{\'e}d{\'e}ratif de recherche (IFR 02), facult{\'e} Xavier-Bichat, 16, rue Henri-Huchard, 75018 Paris, France. philip.gorwood@lmr.aphp.fr},
number = {4},
pages = {329--38},
volume = {330},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Prevalence, France, Age Distribution, Substance-Related Disorders, Socioeconomic Factors, Environment, Male, Ethnic Groups, Female, Humans},
date-added = {2010-03-22 13:28:40 +0100},
date-modified = {2010-03-22 13:28:40 +0100},
doi = {10.1016/j.crvi.2007.02.017},
pii = {S1631-0691(07)00115-1},
pmid = {17502289},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gorwood-2007-C%20R%20Biol_Gene-environment%20int.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9134},
rating = {0}
}
@article{Scollnik:1996p2315,
author = {D P M Scollnik},
title = {An introduction to Markov Chain Monte Carlo methods and their actuarial applications},
abstract = {This paper introduces the readers of the Proceed- ings to an important class of computer based simula- tion techniques known as Markov chain Monte Carlo (MCMC) methods. General properties characterizing these methods will be discussed, but the main empha- sis will be placed on one MCMC method known as the Gibbs sampler. The Gibbs sampler permits one to simu- late realizations from complicated stochastic models in high dimensions by making use of the model's associated full conditional distributions, which will generally have a much simpler and more manageable form. In its most extreme version, the Gibbs sampler reduces the analy- sis of a complicated multivariate stochastic model to the consideration of that model's associated univariate full conditional distributions.
In this paper, the Gibbs sampler will be illustrated with four examples. The first three of these examples serve as rather elementary yet instructive applications of the Gibbs sampler. The fourth example describes a reasonably sophisticated application of the Gibbs sam- pler in the important arena of credibility for classifica- tion ratemaking via hierarchical models, and involves the Bayesian prediction of frequency counts in workers compensation insurance.},
year = {1996},
date-added = {2010-01-10 12:30:19 +0100},
date-modified = {2010-01-10 12:31:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scollnik-1996-_An%20introduction%20to%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2315},
rating = {0}
}
@article{InternationalHapMapConsortium:2005p3264,
author = {International HapMap Consortium},
journal = {Nature},
title = {A haplotype map of the human genome},
abstract = {Inherited genetic variation has a critical but as yet largely uncharacterized role in human disease. Here we report a public database of common variation in the human genome: more than one million single nucleotide polymorphisms (SNPs) for which accurate and complete genotypes have been obtained in 269 DNA samples from four populations, including ten 500-kilobase regions in which essentially all information about common DNA variation has been extracted. These data document the generality of recombination hotspots, a block-like structure of linkage disequilibrium and low haplotype diversity, leading to substantial correlations of SNPs with many of their neighbours. We show how the HapMap resource can guide the design and analysis of genetic association studies, shed light on structural variation and recombination, and identify loci that may have been subject to natural selection during human evolution.},
number = {7063},
pages = {1299--320},
volume = {437},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Genome: Human, Chromosomes: Human: Y, Haplotypes, DNA: Mitochondrial, Humans, Polymorphism: Single Nucleotide, Recombination: Genetic, Linkage Disequilibrium, Selection: Genetic, Gene Frequency},
date-added = {2010-01-14 21:04:18 +0100},
date-modified = {2010-07-29 19:40:35 +0200},
doi = {10.1038/nature04226},
pmid = {16255080},
local-url = {file://localhost/Users/chl/Dropbox/Papers/International%20HapMap%20Consortium-2005-Nature_A%20haplotype%20map%20of%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3264},
rating = {0}
}
@article{Prowker:2007,
author = {A Prowker and G Camilli},
journal = {Journal of Educational Measurement},
title = {Looking Beyond the Overall Scores of NAEP Assessments: Applications of Generalized Linear Mixed Modeling for Exploring Value-Added Item Difficulty Effects},
number = {1},
pages = {69--87},
volume = {44},
year = {2007},
date-added = {2010-01-10 11:33:10 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prowker-2007-Journal%20of%20Educational%20Measurement_Looking%20Beyond%20the%20O.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2160},
rating = {0}
}
@article{Hampel:2004p8508,
author = {H Hampel and A Mitchell and K Blennow and R A Frank and S Brettschneider and L Weller and H-J M{\"o}ller},
journal = {J Neural Transm},
title = {Core biological marker candidates of Alzheimer's disease - perspectives for diagnosis, prediction of outcome and reflection of biological activity},
abstract = {Alzheimer's disease (AD) is a complex neurodegenerative dementing illness. Over the past few years, however, remarkable advances have taken place in understanding both the genetic and molecular biology with the intracellular processing of amyloid and tau and the changes leading to the pathologic formation of extracellular amyloid plaques and the intraneuronal aggregation of hyperphosphorylated tau into neurofibrillary tangles. This progress in our understanding of the molecular pathology has set the stage for clinically meaningful advances in the development of biomarkers. Emerging diagnostic methods that are based on biochemical and imaging biomarkers of disease specific pathology hold the potential to provide effective measures of natural history (marker of disease that is predictive of outcome), biological activity (such as magnitude and frequency of response correlating with drug potency) and markers of surrogate endpoints (single or composite marker that accounts for clinical benefit of the therapy). Markers of biological activity should be also evaluated regarding their value to reflect disease progression, heterogeneity of the clinical population, for early decision making and characterization of new treatments. We focussed on the current status of core analytes which provide reasonable evidence for association with key mechanisms of pathogenesis or neurodegeneration in AD. In addition, feasibility was important, such as availability of a validated assay for the biological measure in question, with properties that included high precision and reliability of measurement, reagents and standards well described. On this basis we reviewed the body of literature that has examined CSF total tau (t-tau) and beta-amyloid 1-42 (Abeta(1-42)), phosphorylated tau (p-tau) and beta-amyloid-antibodies as diagnostic tests for AD versus clinically representative comparison groups. Measurement of t-tau and Abeta(1-42) in the CSF seems useful to discriminate early and incipient AD from age-associated memory-impairment, depression, and some secondary dementias. First studies showed that measurement of p-tau proteins significantly improves early and differential diagnosis, as well as disease prediction in subjects at risk for AD and comes closest to fulfilling proposed criteria of a biological marker for AD. However, the nature of the majority of reported findings are still preliminary and retrospective. General issues for biomarkers have to be adequately addressed, such as sensitivity of the method, frequency of assessments, stability of the method, standardization of methods and dynamic range. There is still a partial lack of comparison patient populations that must be addressed in future studies. International dementia networks have been recently established to advance the establishment of core biomarker candidates of AD as potential surrogate endpoints for clinical trials and their clinical use for predictive and diagnostic purposes.},
affiliation = {Alzheimer Memorial Center and Geriatric Psychiatry Branch, Department of Psychiatry, Ludwig-Maximilian University, Munich, Germany. hampel@psy.med.uni-muenchen.de},
number = {3},
pages = {247--72},
volume = {111},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Humans, Prognosis, Alzheimer Disease, Phosphorylation, Biological Markers, tau Proteins, Antibodies, Amyloid beta-Protein},
date-added = {2010-03-21 19:38:15 +0100},
date-modified = {2010-03-21 19:38:16 +0100},
doi = {10.1007/s00702-003-0065-z},
pmid = {14991453},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8508},
rating = {0}
}
@article{Vermunt:2008p6247,
author = {Jeroen K Vermunt},
journal = {Stat Methods Med Res},
title = {Latent class and finite mixture models for multilevel data sets},
abstract = {An extension of latent class (LC) and finite mixture models is described for the analysis of hierarchical data sets. As is typical in multilevel analysis, the dependence between lower-level units within higher-level units is dealt with by assuming that certain model parameters differ randomly across higher-level observations. One of the special cases is an LC model in which group-level differences in the logit of belonging to a particular LC are captured with continuous random effects. Other variants are obtained by including random effects in the model for the response variables rather than for the LCs. The variant that receives most attention in this article is an LC model with discrete random effects: higher-level units are clustered based on the likelihood of their members belonging to the various LCs. This yields a model with mixture distributions at two levels, namely at the group and the subject level. This model is illustrated with three rather different empirical examples. The appendix describes an adapted version of the expectation-maximization algorithm that can be used for maximum likelihood estimation, as well as providing setups for estimating the multilevel LC model with generally available software.},
affiliation = {Department of Methodology and Statistics, Tilburg University, Tilburg, The Netherlands. j.k.vermunt@uvt.nl},
number = {1},
pages = {33--51},
volume = {17},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Intelligence Tests, Anti-Bacterial Agents, Bayes Theorem, Models: Statistical, Algorithms, Epilepsy, Poisson Distribution, Humans, Finite Element Analysis},
date-added = {2010-02-19 21:24:00 +0100},
date-modified = {2010-02-19 21:24:00 +0100},
doi = {10.1177/0962280207081238},
pii = {0962280207081238},
pmid = {17855746},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2008-Stat%20Methods%20Med%20Res_Latent%20class%20and%20fin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6247},
read = {Yes},
rating = {0}
}
@article{Altman:1999,
author = {Douglas G Altman and JM Bland},
journal = {British Medical Journal},
title = {Treatment allocation in controlled trials: why randomise?},
abstract = {Since 1991 the BMJ has had a policy of not publishing trials that have not been properly randomised, except in rare cases where this can be justified.1 Why? The simplest approach to evaluating a new treatment is to compare a single group of patients given the new treatment with a group previously treated with an alternative treatment. Usually such studies compare two consecutive series of patients in the same hospital(s). This approach is seriously flawed. Problems will arise from the mixture of retrospective and prospective studies, and we can never satisfactorily eliminate possible biases due to other factors (apart from treatment) that may have changed over time. Sacks et al compared trials of the same treatments in which randomised or historical controls were used and found a consistent tendency for historically controlled trials to yield more optimistic results than randomised trials.2 The use of historical controls can be justified only in tightly controlled situations of relatively rare conditions, such as in evaluating treatments for advanced cancer.},
pages = {1209},
volume = {318},
year = {1999},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1078},
rating = {0}
}
@article{Gilbert:2009p3286,
author = {H N Gilbert and K S Pollard and M J van der Laan and S Dudoit},
journal = {U.C. Berkeley Division of Biostatistics Working Paper Series},
title = {Resampling-Based Multiple Hypothesis Testing with Applications to Genomics: New Developments in the R/Bioconductor Package multtest},
abstract = {The multtest package is a standard Bioconductor package containing a suite of functions useful for executing, summarizing, and displaying the results from a wide variety of multiple testing procedures (MTPs). In addition to many popular MTPs, the central methodological focus of the multtest package is the imple- mentation of powerful joint multiple testing procedures. Joint MTPs are able to account for the dependencies between test statistics by effectively making use of (estimates of) the test statistics joint null distribution. To this end, two additional bootstrap-based estimates of the test statistics joint null distribution have been developed for use in the package. For asymptotically linear estimators involv- ing single-parameter hypotheses (such as tests of means, regression parameters, and correlation parameters using t-statistics), a computationally efficient joint null distribution estimate based on influence curves is now also available. New MTPs implemented in multtest include marginal adaptive procedures for control of the false discovery rate (FDR) as well as empirical Bayes joint MTPs which can con- trol any Type I error rate defined as a function of the numbers of false positives and true positives. Examples of such error rates include, among others, the family- wise error rate and the FDR. S4 methods are available for objects of the new class EBMTP, and particular attention has been given to reducing the need for repeated resampling between function calls.},
number = {249},
year = {2009},
date-added = {2010-01-14 21:17:21 +0100},
date-modified = {2010-07-29 19:55:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gilbert-2009-U.C.%20Berkeley%20Division%20of%20Biostatistics%20Working%20Paper%20Series_Resampling-Based%20Mul.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3286},
rating = {0}
}
@misc{Lunz:2007,
author = {M E Lunz},
journal = {Miscellaneous},
title = {Examination Development Guidelines},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lunz-2007-Miscellaneous_Examination%20Developm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2103},
rating = {0}
}
@article{Mullen:2009p3098,
author = {S A Mullen and D E Crompton and P W Carney and I Helbig and S F Berkovic},
journal = {Neurology},
title = {A neurologist's guide to genome-wide association studies},
abstract = {Genome-wide association studies are utilized for gene discovery in common diseases. Genotypes of large groups of unrelated patients are compared to controls. This has become feasible due to the recent technical advances in genomics and convincing positive results are now regularly being published. This review is an accessible introduction to the genetic and technical knowledge needed to interpret such studies. Genome-wide association studies are being applied to many neurologic diseases. Here we use idiopathic generalized epilepsy as an example to highlight the phenotyping, sample size, and statistical issues that must be addressed in such studies. These studies are likely to transform our understanding of complex neurologic diseases in the next few years.},
affiliation = {Epilepsy Research Centre and Department of Medicine (Neurology), University of Melbourne, Austin Health, 145 Studley Rd., Heidelberg, Victoria 3084, Australia.},
number = {6},
pages = {558--65},
volume = {72},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Clinical Trials as Topic, Humans, Polymorphism: Single Nucleotide, Chromosome Mapping, Genome-Wide Association Study, Genetic Predisposition to Disease, Nervous System Diseases},
date-added = {2010-01-14 20:18:35 +0100},
date-modified = {2010-01-14 20:18:35 +0100},
doi = {10.1212/01.wnl.0000341942.29513.bd},
pii = {72/6/558},
pmid = {19204266},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3098},
rating = {0}
}
@article{Robinson:2010p4882,
author = {R Robinson},
journal = {PLoS Biol},
title = {Common Disease, Multiple Rare (and Distant) Variants},
number = {1},
volume = {8},
year = {2010},
date-added = {2010-02-02 11:21:51 +0100},
date-modified = {2010-07-29 19:43:53 +0200},
doi = {10.1371/journal.pbio.1000293.g001},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robinson-2010-PLoS%20Biol_Common%20Disease%20Mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4882},
rating = {0}
}
@article{Falissard:2006p1665,
author = {B Falissard},
journal = {International Journal of Methods in Psychiatric Research},
title = {The unidimensionality of a psychiatric scale: a statistical point of view},
abstract = {In quantitative psychopathology, one of the most crucial questions is whether a set of items measure just one thing in common. This property may be defined as unidimensionality. After a formal definition of unidimensionality, this paper discusses the use of the different tools traditionally related to this area. For quantitative measurements, factor analysis remains a good approach, goodness-of-fit tests, however, are of questionable value. Cronbach's alpha coefficient is more related to reliability than unidimensionality. The scree plot and the proportion of variance accounted for by the first principal component are, in practice, interesting tools. Item response theory leads to models that require unidimensionality to obtain efficient estimates of latent attributes; these methods, however, are not really adapted for assessing the unidimensionality of a set of items. Finally, even if unidimensionality is a fundamental psychometric property, there is a need for general multidimensional instruments that reflect the heterogeneity of psychiatric disorders.},
number = {3},
pages = {162--167},
volume = {8},
year = {2006},
keywords = {validity, measurement, psychometric},
date-added = {2010-01-08 21:59:07 +0100},
date-modified = {2010-07-29 19:29:50 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Falissard-2006-International%20Journal%20of%20Methods%20in%20Psychiatric%20Research_The%20unidimensionalit.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1665},
rating = {0}
}
@article{Mellenbergh:1996p12888,
author = {Gideon J Mellenbergh},
journal = {Psychological Methods},
title = {Measurement Precision in Test Score and Item Response Models},
abstract = {The population-dependent concept of reliability is used in test score models such as classical test theory and the binomial error model, whereas in item response mod- els, the population-independent concept of information is used. Reliability and information apply to both test score and item response models. Information is a conditional definition of precision, that is, the precision for a given subject; reli- ability is an unconditional definition, that is, the precision for a population of subjects. Information and reliability do not distinguish test score and item response models. The main distinction is that the parameters are specific for the test and the subject in test score models, whereas in item response models, the item parameters are separated from the subject parameters.},
number = {3},
pages = {293--299},
volume = {1},
year = {1996},
date-added = {2010-06-24 13:17:42 +0200},
date-modified = {2010-06-24 13:18:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mellenbergh-1996-Psychological%20Methods_Measurement%20Precisio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12888},
rating = {4}
}
@article{Wu:2008,
author = {Shu-Fang Vivienne Wu and Mary Courtney and Helen Edwards and Jan McDowell and Lillie M Shortridge-Baggett and Pei-Jen Chang},
journal = {J Formos Med Assoc},
title = {Psychometric properties of the Chinese version of the Perceived Therapeutic Efficacy Scale for type 2 diabetes.},
abstract = {BACKGROUND/PURPOSE: The purpose of this study was to test the psychometric properties of the Perceived Therapeutic Efficacy Scale (PTES) for type 2 diabetes with a Taiwanese sample. The mortality rate and health care cost of diabetes have dramatically increased in Taiwan, with many people with diabetes lacking the ability to control their disease appropriately. Addressing this problem requires enhancing self-efficacy towards self-management. Thus, there is a particular need for research into developing a diabetes-specific self-efficacy measurement instrument in Taiwan. METHODS: This study was undertaken in two stages. Stage 1 consisted of forward and back translation of the PTES into Chinese and examination of content validity. Stage 2 established the validity and reliability of the Chinese version of PTES (C-PTES). A total of 230 people with type 2 diabetes aged 30 years or more from a diabetes outpatient clinic and taking oral medicine were recruited for psychometric testing. RESULTS: Significant criterion-related validity was demonstrated between the C-PTES and the Summary of Diabetes Self-Care Activities scores (r=0.32; p<0.01). Convergent validity was confirmed as the C-PTES converged well with the General Self-Efficacy Scale in measuring self-efficacy (r=0.42; p<0.01); construct validity using factor analysis composed a single subscale. Internal consistency showed Cronbach's alpha was 0.95 and the test-retest reliability (Pearson's correction) was 0.79 (p<0.01) and a Bland-Altman plot showed that 97% of the subjects were within two standard deviations of the mean. CONCLUSION: The results of reliability and validity strengthen confidence in using the C-PTES. The C-PTES requires future studies to confirm the psychometric properties.},
affiliation = {Faculty of Nursing, National Taipei College of Nursing, Taipei, Taiwan. shufang@ntcn.edu.tw},
number = {3},
pages = {232--238},
volume = {107},
year = {2008},
month = {Mar},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
pmid = {18400608},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1138},
rating = {0}
}
@article{Quaye:2009p4954,
author = {Lydia Quaye and Jonathan Tyrer and Susan J Ramus and Honglin Song and Eva Wozniak and Richard A DiCioccio and Valerie McGuire and Estrid H{\o}gdall and Claus H{\o}gdall and Jan Blaakaer and Ellen L Goode and Joellen M Schildkraut and Douglas F Easton and Susanne Kr{\"u}ger-Kjaer and Alice S Whittemore and Simon A Gayther and Paul D P Pharoah},
journal = {PLoS ONE},
title = {Association between common germline genetic variation in 94 candidate genes or regions and risks of invasive epithelial ovarian cancer},
abstract = {BACKGROUND: Recent studies have identified several single nucleotide polymorphisms (SNPs) in the population that are associated with variations in the risks of many different diseases including cancers such as breast, prostate and colorectal. For ovarian cancer, the known highly penetrant susceptibility genes (BRCA1 and BRCA2) are probably responsible for only 40% of the excess familial ovarian cancer risks, suggesting that other susceptibility genes of lower penetrance exist. METHODS: We have taken a candidate approach to identifying moderate risk susceptibility alleles for ovarian cancer. To date, we have genotyped 340 SNPs from 94 candidate genes or regions, in up to 1,491 invasive epithelial ovarian cancer cases and 3,145 unaffected controls from three different population based studies from the UK, Denmark and USA. RESULTS: After adjusting for population stratification by genomic control, 18 SNPs (5.3%) were significant at the 5% level, and 5 SNPs (1.5%) were significant at the 1% level. The most significant association was for the SNP rs2107425, located on chromosome 11p15.5, which has previously been identified as a susceptibility allele for breast cancer from a genome wide association study (P-trend = 0.0012). When SNPs/genes were stratified into 7 different pathways or groups of validation SNPs, the breast cancer associated SNPs were the only group of SNPs that were significantly associated with ovarian cancer risk (P-heterogeneity = 0.0003; P-trend = 0.0028; adjusted (for population stratification) P-trend = 0.006). We did not find statistically significant associations when the combined data for all SNPs were analysed using an admixture maximum likelihood (AML) experiment-wise test for association (P-heterogeneity = 0.051; P-trend = 0.068). CONCLUSION: These data suggest that a proportion of the SNPs we evaluated were associated with ovarian cancer risk, but that the effect sizes were too small to detect associations with individual SNPs.},
affiliation = {Gynaecological Cancer Research Laboratories, UCL EGA Institute for Women's Health, University College London, London, United Kingdom.},
number = {6},
pages = {e5983},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Genetic Variation, Humans, Polymorphism: Single Nucleotide, Ovarian Neoplasms, Aged: 80 and over, Aged, Case-Control Studies, Family Health, Neoplasm Invasiveness, Genetic Predisposition to Disease, Adult, Risk, Female, Genotype, Middle Aged},
date-added = {2010-02-03 21:01:02 +0100},
date-modified = {2010-02-03 21:01:02 +0100},
doi = {10.1371/journal.pone.0005983},
pmid = {19543528},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Quaye-2009-PLoS%20ONE_Association%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4954},
rating = {0}
}
@book{CJE:2000,
author = {S Robinson},
journal = {Book},
title = {Canadian Journal of Education},
number = {4},
volume = {25},
year = {2000},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robinson-2000-Book_Canadian%20Journal%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1983},
rating = {0}
}
@techreport{Verstralen:2000,
author = {H H F M Verstralen and N D Verhelst},
journal = {Techreport},
title = {IRT models for subjective weights of options of multiple choice questions},
affiliation = {Cito},
year = {2000},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-2000-Techreport_IRT%20models%20for%20subje.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2120},
rating = {0}
}
@article{Valdano:2007p11910,
author = {S G Valdano and J A Di Rienzo},
title = {Discovering meaningful groups in hierarchical cluster analysis. An extension to the multivariate case of a multiple comparison method based on cluster analysis},
abstract = {In the framework of univariate pairwise comparison procedures, Di Rienzo et al.[1] developed a hybrid technique joining a hierarchical clustering method with the principles of hypothesis testing. This paper presents an extension to the multivariate case. The new method gives an answer, on the bases of inferencial statistics, to the problem of determining the number of groups in hierarchical cluster analysis when there are replicates. Although, the method was developed as a test for the general hypothesis of equality of population centroids, it performs very well, considering size and power, as a pairwise comparison algorithm. Moreover it avoids the lack of transitivity of classical pairwise comparisons methods that yields to logical inconsistencies. The method is evaluated and compared, by Monte Carlo simulation, with a partitioning multivariate procedure proposed by Bozdogan and with a multiple comparison algorithm based on the Hotelling's T2 statistic. An example of grouping provenances of a native South American tree is presented.},
year = {2007},
date-added = {2010-05-23 11:59:08 +0200},
date-modified = {2010-05-23 12:00:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Valdano-2007-_Discovering%20meaningf.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11910},
rating = {4}
}
@article{Miettunen:2006p12156,
author = {J Miettunen and L Kantoj{\"a}rvi and J Veijola and M R J{\"a}rvelin and M Joukamaa},
journal = {Personality and Individual Differences},
title = {International comparison of Cloninger's temperament dimensions},
abstract = {Cloninger's Tridimensional Personality Questionnaire (TPQ) and Temperament and Character Inven- tory (TCI) have been developed to measure the following temperament dimensions: novelty seeking (NS), harm avoidance (HA), reward dependence (RD) and persistence (P). We used our previous Finnish normative study of the TPQ and TCI (Miettunen et al., 2004) to estimate correction coefficients to convert TPQ scales to comparable TCI scales. Our aim was to compare these corrected temperament dimension scores across 20 countries adjusting for study sample differences in age and gender. In all, some variations were found in these temperament scores between countries. Differences were especially apparent between the Asian and the Western countries. By far the lowest mean score of the RD was in Japan (11.2 vs. 15.4 for other countries; effect size Cohen's d = 5.74; z-test p < 0.001) and the highest mean score in P was in USA (5.5 vs. 4.4; d = 4.24, p = 0.001). Some of the findings could be explained by sample differences (e.g. age and education); while some may reflect real differences in the ways which personality is related to cultural factors, such as individualism/collectivism. These differences should be considered when interpret- ing studies with data on TPQ/TCI from different countries.},
pages = {1515--1526},
volume = {41},
year = {2006},
date-added = {2010-05-30 10:37:09 +0200},
date-modified = {2010-05-30 10:39:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miettunen-2006-Personality%20and%20Individual%20Differences_International%20compar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12156},
rating = {0}
}
@article{Haberman:2010p12921,
author = {S J Haberman and S Sinharay},
journal = {Psychometrika},
title = {Reporting of subscores using multidimensional item response theory},
abstract = {Recently, there has been increasing interest in reporting subscores. This paper examines reporting of subscores using multidimensional item response theory (MIRT) models (e.g., Reckase in Appl. Psychol. Meas. 21:25--36, 1997; C.R. Rao and S. Sinharay (Eds), Handbook of Statistics, vol. 26, pp. 607--642, North-Holland, Amsterdam, 2007; Beguin {\&} Glas in Psychometrika, 66:471--488, 2001). A MIRT model is fitted using a stabilized Newton--Raphson algorithm (Haberman in The Analysis of Frequency Data, University of Chicago Press, Chicago, 1974; Sociol. Methodol. 18:193--211, 1988) with adaptive Gauss-- Hermite quadrature (Haberman, von Davier, {\&} Lee in ETS Research Rep. No. RR-08-45, ETS, Princeton, 2008). A new statistical approach is proposed to assess when subscores using the MIRT model have any added value over (i) the total score or (ii) subscores based on classical test theory (Haberman in J. Educ. Behav. Stat. 33:204--229, 2008; Haberman, Sinharay, {\&} Puhan in Br. J. Math. Stat. Psychol. 62:79--95, 2008). The MIRT-based methods are applied to several operational data sets. The results show that the subscores based on MIRT are slightly more accurate than subscore estimates derived by classical test theory.},
number = {2},
pages = {209--227},
volume = {75},
year = {2010},
date-added = {2010-06-24 18:04:17 +0200},
date-modified = {2010-06-24 18:05:26 +0200},
doi = {10.1007/S11336-010-9158-4},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haberman-2010-Psychometrika_Reporting%20of%20subscor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12921},
rating = {4}
}
@article{Friend:2009p7645,
author = {Angela Friend and John C DeFries and Richard K Olson and Bruce Pennington and Nicole Harlaar and Brian Byrne and Stefan Samuelsson and Erik G Willcutt and Sally J Wadsworth and Robin Corley and Janice M Keenan},
journal = {Behav Genet},
title = {Heritability of high reading ability and its interaction with parental education},
abstract = {Moderation of the level of genetic influence on children's high reading ability by environmental influences associated with parental education was explored in two independent samples of identical and fraternal twins from the United States and Great Britain. For both samples, the heritability of high reading performance increased significantly with lower levels of parental education. Thus, resilience (high reading ability despite lower environmental support) is more strongly influenced by genotype than is high reading ability with higher environmental support. This result provides a coherent account when considered alongside results of previous research showing that heritability for low reading ability decreased with lower levels of parental education.},
affiliation = {Department of Psychology, University of Colorado At Boulder, Boulder, CO 80309, USA. angela.friend@colorado.edu},
number = {4},
pages = {427--36},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Twins: Dizygotic, United States, Reading, Educational Status, Models: Genetic, Male, Epistasis: Genetic, Longitudinal Studies, Parents, Genotype, Aptitude, Twins: Monozygotic, Cross-Cultural Comparison, Child: Gifted, Female, Child, Verbal Learning, Regression Analysis, Phenotype, Social Environment, Great Britain, Humans},
date-added = {2010-03-15 23:16:22 +0100},
date-modified = {2010-07-29 20:09:07 +0200},
doi = {10.1007/s10519-009-9263-2},
pmid = {19296213},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Friend-2009-Behav%20Genet_Heritability%20of%20high.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7645},
rating = {0}
}
@article{Collins:2006p9562,
author = {Pamela Y Collins and Alea R Holman and Melvyn C Freeman and Vikram Patel},
journal = {AIDS},
title = {What is the relevance of mental health to HIV/AIDS care and treatment programs in developing countries? A systematic review},
abstract = {The expansion of AIDS treatment initiatives in resource-poor settings provides an opportunity for integrating mental health care into these programs. This systematic review of the literature on HIV and mental illness in developing countries examines the mental health risk factors for HIV, mental health consequences of HIV, psychosocial interventions of relevance for HIV-infected and affected populations, and highlights the relevance of these data for HIV care and treatment programs. We reviewed seven studies that measured the prevalence of HIV infection among clinic and hospital-based populations of people with mental illness or assessed sexual risk behavior in these populations; 30 studies that described the mental health consequences of HIV infection; and two reports of psychosocial interventions. The review demonstrates the need for methodologically sound studies of mental health throughout the course of HIV, including factors that support good mental health, and interventions that employ identified variables (e.g. coping, family support) for efficacy in reducing symptoms of mental illness. Promising intervention findings should encourage investigators to begin to study the implementation of these interventions in HIV service settings.},
number = {12},
pages = {1571--82},
volume = {20},
year = {2006},
month = {Aug},
language = {eng},
keywords = {HIV Infections, Anti-Retroviral Agents, Acquired Immunodeficiency Syndrome, Quality of Life, Interpersonal Relations, Cognition Disorders, Mental Disorders, Humans, Stress: Psychological, Prevalence, Family, Risk Factors},
date-added = {2010-03-23 20:54:47 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
doi = {10.1097/01.aids.0000238402.70379.d4},
pii = {00002030-200608010-00001},
pmid = {16868437},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Collins-2006-AIDS_What%20is%20the%20relevanc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9562},
rating = {0}
}
@article{Royston:2005p4068,
author = {P Royston and W Sauerbrei},
journal = {Methods Inf Med},
title = {Building multivariable regression models with continuous covariates in clinical epidemiology--with an emphasis on fractional polynomials},
abstract = {OBJECTIVES: In fitting regression models, data analysts must often choose a model based on several candidate predictor variables which may influence the outcome. Most analysts either assume a linear relationship for continuous predictors, or categorize them and postulate step functions. By contrast, we propose to model possible non-linearity in the relationship between the outcome and several continuous predictors by estimating smooth functions of the predictors. We aim to demonstrate that a structured approach based on fractional polynomials can give a broadly satisfactory practical solution to the problem of simultaneously identifying a subset of 'important' predictors and determining the functional relationship for continuous predictors. METHODS: We discuss the background, and motivate and describe the multivariable fractional polynomial (MFP) approach to model selection from data which include continuous and categorical predictors. We compare our results with those from other approaches in examples. We present a small simulation study to compare the functional form of the relationship obtained by fitting fractional polynomials and splines to a single predictor variable. RESULTS: We illustrate the advantages of the MFP approach over standard techniques of model construction in two real example datasets analyzed with logistic and Cox regression models, respectively. In the simulation study, fractional polynomial models had lower mean square error and more realistic behaviour than comparable spline models. CONCLUSIONS: In many practical situations, the MFP approach can satisfy the aim of finding models that fit the data well and also are simple, interpretable and potentially transportable to other settings.},
affiliation = {Cancer Division, MRC Clinical Trials Unit, London, UK. patrick.royston@ctu.mrc.ac.uk},
number = {4},
pages = {561--71},
volume = {44},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Epidemiologic Research Design, Regression Analysis, Models: Statistical, Humans, Risk Factors, Proportional Hazards Models, Computer Simulation, Prognosis, Algorithms},
date-added = {2010-01-19 15:49:45 +0100},
date-modified = {2010-01-19 15:49:45 +0100},
pmid = {16342923},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4068},
rating = {0}
}
@article{Valentini:2006p2929,
author = {Giorgio Valentini},
journal = {Bioinformatics},
title = {Clusterv: a tool for assessing the reliability of clusters discovered in DNA microarray data},
abstract = {We present a new R package for the assessment of the reliability of clusters discovered in high-dimensional DNA microarray data. The package implements methods based on random projections that approximately preserve distances between examples in the projected subspaces.},
affiliation = {DSI, Dipartimento di Scienze dell'Informazione, Universit{\`a} degli Studi di Milano, Via Comelico 39, Italy. valentini@dsi.unimi.it},
number = {3},
pages = {369--70},
volume = {22},
year = {2006},
month = {Feb},
language = {eng},
keywords = {Models: Genetic, Online Systems, Sensitivity and Specificity, Computer Simulation, Reproducibility of Results, Genetic Variation, Software, Models: Statistical, Pattern Recognition: Automated, Gene Expression Profiling, Artificial Intelligence, Cluster Analysis, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-13 22:17:23 +0100},
date-modified = {2010-01-13 22:17:23 +0100},
doi = {10.1093/bioinformatics/bti817},
pii = {bti817},
pmid = {16332708},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Valentini-2006-Bioinformatics_Clusterv%20a%20tool%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2929},
rating = {0}
}
@article{Wu:2009p1511,
author = {Michael C Wu and Xihong Lin},
journal = {Stat Methods Med Res},
title = {Prior biological knowledge-based approaches for the analysis of genome-wide expression profiles using gene sets and pathways},
abstract = {An increasing challenge in analysis of microarray data is how to interpret and gain biological insight of profiles of thousands of genes. This article provides a review of statistical methods for analysis of microarray data by incorporating prior biological knowledge using gene sets and biological pathways, which consist of groups of biologically similar genes. We first discuss issues of individual gene analysis. We compare several methods for analysis of gene sets including over-representation anlaysis, gene set enrichment analysis, principal component analysis, global test and kernel machine. We discuss the assumptions of these methods and their pros and cons. We illustrate these methods by application to a type II diabetes data set.},
affiliation = {Department of Biostatistics, Harvard School of Public Health, Boston, MA 02115, USA. mwu@hsph.harvard.edu},
number = {6},
pages = {577--93},
volume = {18},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:26:48 +0100},
date-modified = {2010-01-07 12:26:48 +0100},
doi = {10.1177/0962280209351925},
pii = {18/6/577},
pmid = {20048386},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wu-2009-Stat%20Methods%20Med%20Res_Prior%20biological%20kno.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1511},
rating = {0}
}
@article{Jylha:2010p7293,
author = {Marja Jylh{\"a}},
journal = {Soc Sci Med},
title = {Self-rated health between psychology and biology. A response to Huisman and Deeg},
abstract = {In their commentary on my article "What is self-rated health and why does it predict mortality? Towards a unified conceptual model", Martin Huisman and Dorly Deeg argue, first, that the model I suggest may exaggerate the rational elements in the process of assessment and ignore the irrational and illogical influences; and, second, that self-rated health should be best understood not as a measure of "true health", but as a measure of people's perceptions about their health. My response to these comments attempts to clarify the nature of the model as a tool for describing the conceptual and logical structure of the evaluation, not the empirical process itself. Psychological and external influences, including "irrational" elements, can be understood as belonging to the contextual framework of evaluation. There is no question that self-rated health represents individual self-perceptions, but to explain its association with mortality it is crucial to understand its relationship to the biological and physiological states of the organism.},
affiliation = {School of Public Health, University of Tampere, Finland. marja.jylha@uta.fi},
number = {5},
pages = {655--7},
volume = {70},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-10 20:19:25 +0100},
date-modified = {2010-03-10 20:19:25 +0100},
doi = {10.1016/j.socscimed.2009.11.004},
pii = {S0277-9536(09)00757-6},
pmid = {19959269},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7293},
rating = {0}
}
@article{Cleveland:1984p9532,
author = {W S Cleveland and R McGill},
journal = {JAMA},
title = {Graphical Perception: Theory, Experimentation, and Application to the Development of Graphical Methods},
number = {387},
pages = {531--554},
volume = {79},
year = {1984},
date-added = {2010-03-23 20:26:10 +0100},
date-modified = {2010-07-29 20:01:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cleveland-1984-JAMA_Graphical%20Perception.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9532},
rating = {0}
}
@article{McCormick:1997p13847,
author = {C C McCormick and L R Goldberg},
title = {Two at a time is better than one at a time: Exploiting the horizontal aspects of factor representations},
year = {1997},
date-added = {2010-07-29 17:23:07 +0200},
date-modified = {2010-07-29 17:24:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCormick-1997-_Two%20at%20a%20time%20is%20bet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13847},
rating = {0}
}
@article{Revicki:2006p8515,
author = {Dennis A Revicki and David Cella and Ron D Hays and Jeff A Sloan and William R Lenderking and Neil K Aaronson},
journal = {Health Qual Life Outcomes},
title = {Responsiveness and minimal important differences for patient reported outcomes},
abstract = {Patient reported outcomes provide the patient's perspective on the effectiveness of treatment. The draft Food and Drug Administration guidance on patient reported outcomes for labeling and promotional claims raises a number of method and measurement issues that require further clarification, including methods of determining responsiveness and minimal important differences. For clinical trials, instruments need to be based on a clear conceptual framework, have evidence supporting content validity and acceptable psychometric qualities. The measures must also have evidence documenting responsiveness and interpretation guidelines (i.e., minimal important difference) to be most useful as effectiveness endpoints in clinical trials. The recommended approach is to estimate the minimal important difference based on several anchor-based methods, with relevant clinical or patient-based indicators, and to examine various distribution-based estimates (i.e., effect size, standardized response mean, standard error of measurement) as supportive information, and then to triangulate on a single value or small range of values for the MID. Confidence in a specific MID value evolves over time and is confirmed by additional research evidence, including clinical trial experience. The MID may vary by population and context, and no one MID will be valid for all study applications involving a PRO instrument. Responsiveness and MID must be demonstrated and documented for the particular study population, and these measurement characteristics are needed for PRO labeling and promotional claims.},
affiliation = {Center for Health Outcomes Research, United Biosource Corporation, 7101 Wisconsin Ave., Suite 600, Bethesda, MD 20814, USA. dennis.revicki@unitedbiosource.com},
pages = {70},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Reproducibility of Results, Evidence-Based Medicine, Treatment Outcome, Psychometrics, Product Labeling, Humans, Endpoint Determination, United States Food and Drug Administration, Questionnaires, Drug Labeling, Patient Satisfaction, Clinical Trials as Topic, United States},
date-added = {2010-03-21 20:39:24 +0100},
date-modified = {2010-07-29 20:13:56 +0200},
doi = {10.1186/1477-7525-4-70},
pii = {1477-7525-4-70},
pmid = {17005038},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revicki-2006-Health%20Qual%20Life%20Outcomes_Responsiveness%20and%20m.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8515},
rating = {0}
}
@article{Patterson:2006p5066,
author = {Nick Patterson and Alkes L Price and David Reich},
journal = {PLoS Genet},
title = {Population structure and eigenanalysis},
abstract = {Current methods for inferring population structure from genetic data do not provide formal significance tests for population differentiation. We discuss an approach to studying population structure (principal components analysis) that was first applied to genetic data by Cavalli-Sforza and colleagues. We place the method on a solid statistical footing, using results from modern statistics to develop formal significance tests. We also uncover a general "phase change" phenomenon about the ability to detect structure in genetic data, which emerges from the statistical theory we use, and has an important implication for the ability to discover structure in genetic data: for a fixed but large dataset size, divergence between two populations (as measured, for example, by a statistic like FST) below a threshold is essentially undetectable, but a little above threshold, detection will be easy. This means that we can predict the dataset size needed to detect structure.},
affiliation = {Broad Institute of Harvard and MIT, Cambridge, Massachusetts, United States of America.},
number = {12},
pages = {e190},
volume = {2},
year = {2006},
month = {Dec},
language = {eng},
keywords = {Genetic Variation, Principal Component Analysis, Genetics: Medical, Genetic Markers, Models: Statistical, Genetics: Population, Computer Simulation, Humans, Models: Genetic},
date-added = {2010-02-05 20:09:29 +0100},
date-modified = {2010-02-05 20:09:29 +0100},
doi = {10.1371/journal.pgen.0020190},
pii = {06-PLGE-RA-0101R3},
pmid = {17194218},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Patterson-2006-PLoS%20Genet_Population%20structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5066},
rating = {0}
}
@article{Reiter:2004p3548,
author = {M Reiter and T Melzer},
title = {Ridge-Penalty Regularization for Kernel-CCA},
abstract = {CCA and Kernel-CCA are powerful statistical tools that have been successfully employed for feature extraction. However, when working in high-dimensional signal spaces, care has to be taken to avoid overfitting. This paper discusses the influence of ridge penalty regulariza- tion on kernel-CCA by relating it to multivariate linear regression(MLR) and partial least squares(PLS). Experimental results of a pose estimation task will be given.},
year = {2004},
date-added = {2010-01-15 21:00:30 +0100},
date-modified = {2010-01-15 21:01:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reiter-2004-_Ridge-Penalty%20Regula.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3548},
rating = {0}
}
@article{Zietsch:2010p12572,
author = {B P Zietsch and K J H Verweij and J M Bailey and M J Wright and N G Martin},
journal = {Behav Genet},
title = {Genetic and environmental influences on risky sexual behaviour and its relationship with personality},
abstract = {Risky sexual behaviour is a major health issue in society, and it is therefore important to understand factors that may predispose individuals to such behaviour. Research suggests a link between risky sexual behaviour and personality, but the basis of this link remains unknown. Hans Eysenck proposed that personality is related to sexual behaviour via biological underpinnings of both. Here we test the viability of this perspective by analysing data from identical and non-identical twins (N = 4,904) who completed a questionnaire assessing sexual attitudes and behaviour as well as personality. Using genetic modelling of the twin data, we found that risky sexual behaviour was significantly positively correlated with Impulsivity (r = .27), Extraversion (r = .24), Psychoticism (r = .20), and Neuroticism (r = .09), and that in each case the correlation was due primarily to overlapping genetic influences. These findings suggest that the genetic influences that shape our personality may also predispose us to risky sexual behaviour.},
affiliation = {Genetic Epidemiology Unit, Queensland Institute of Medical Research, 300 Herston Rd, Brisbane, QLD 4029, Australia. Brendan.Zietsch@qimr.edu.au},
number = {1},
pages = {12--21},
volume = {40},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Adolescent, Female, Likelihood Functions, Adult, Male, Middle Aged, Twins: Dizygotic, Risk-Taking, Models: Genetic, Humans, Impulsive Behavior, Sexual Behavior, Twins: Monozygotic, Extraversion (Psychology), Unsafe Sex},
date-added = {2010-06-15 22:23:31 +0200},
date-modified = {2010-07-29 20:09:07 +0200},
doi = {10.1007/s10519-009-9300-1},
pmid = {19813084},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zietsch-2010-Behav%20Genet_Genetic%20and%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12572},
rating = {4}
}
@article{Christensen:2007p2689,
author = {K B Christensen and S Kreiner},
journal = {Applied Psychological Measurement},
title = {A Monte Carlo Approach to Unidimensionality Testing in Polytomous Rasch Models},
abstract = {Many statistical tests are designed to test the different assumptions of the Rasch model, but only few are directed at detecting multidimensionality. The Martin-Lo ̈ f test is an attractive approach, the disadvantage being that its null distribution deviates strongly from the asymptotic chi-square distribution for most realistic sample sizes. A Monte Carlo test approach to p value computation is proposed and is shown to yield a powerful test. Repeated and sequential Monte Carlo tests that can greatly reduce computing time are discussed.},
number = {1},
pages = {20--30},
volume = {31},
year = {2007},
date-added = {2010-01-13 10:09:41 +0100},
date-modified = {2010-07-29 19:16:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Christensen-2007-Applied%20Psychological%20Measurement_A%20Monte%20Carlo%20Approa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2689},
rating = {0}
}
@article{Pelckmans:2006p3277,
author = {K Pelckmans and S Van Vooren and B Coessens and J A K Suykens and B De Moor},
title = {Mutual Spectral Clustering: Microarray Experiments Versus Text Corpus},
abstract = {This work studies a machine learning technique designed for exploring relations between microarray experiment data and the corpus of gene-related liter- ature available via PubMed. The use of this task is found in that it provides better clusters of genes by fusing both information sources together, while it can also be used to guide the expert through the large corpus of gene-related literature based on insights into microarray experiments and vice versa. The learning technique addresses the unsupervised learning problem of finding meaningful clusters co-occurring in both knowledge-bases. Here, one is typically interested in whether the membership of an instance to one cluster in the former knowledge-base transduces to membership of the same instance to the corresponding cluster in the latter representation. This idea is de- scribed as an extended MINCUT problem and implemented using a spectral clustering technique possessing a well-defined out-of-sample extension.},
year = {2006},
date-added = {2010-01-14 21:09:53 +0100},
date-modified = {2010-01-14 21:10:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pelckmans-2006-_Mutual%20Spectral%20Clus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3277},
rating = {0}
}
@article{BartvanderWorp:2010p11306,
author = {H Bart van der Worp and D W Howells and E S Sena and M J Porritt and S Rewell and V O'Collins and M R Macleod},
journal = {PLoS Med},
title = {Can Animal Models of Disease Reliably Inform Human Studies?},
number = {3},
pages = {e1000245},
volume = {7},
year = {2010},
date-added = {2010-04-26 23:01:46 +0200},
date-modified = {2010-04-26 23:03:42 +0200},
doi = {10.1371/journal.pmed.1000245},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bart%20van%20der%20Worp-2010-PLoS%20Med_Can%20Animal%20Models%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11306},
rating = {0}
}
@article{vanStrien:2010p11509,
author = {Tatjana van Strien and Carmen S van der Zwaluw and Rutger C M E Engels},
journal = {J Psychiatr Res},
title = {Emotional eating in adolescents: A gene (SLC6A4/5-HTT) - Depressive feelings interaction analysis},
abstract = {Eating in response to distress - i.e. emotional eating - is highly prevalent in (female) adults with binge eating, but has only a very low prevalence in young children. The present study addresses the emergence of emotional eating in adolescence in relation to depressive feelings. Because a reduction of food intake is considered the biologically natural response to distress, we tested whether the a-typical stress-response of emotional eating develops in interaction with genetic vulnerability. We hypothesized that the short allele of the 5-HTTLPR polymorphism in the serotonin transporter gene, which is associated with lower serotonin activity, would moderate the relation between depressive feelings and the increase in emotional eating, particularly in females. A sample of Dutch families with two adolescents was included in a longitudinal study with a four-year follow-up. A moderator effect of 5-HTTLPR genotype on the relation between depressive feelings and the increase in emotional eating was found in both sexes in the youngest siblings (n = 286). In the older siblings (n = 298), this specific moderator effect was only found in the girls. Younger adolescents and older adolescent girls showed a higher increase in emotional eating if they carried the 5-HTTLPR short allele. This is the first study that found support for a gene x depressive feelings interaction on emergence of emotional eating in (female) adolescents.},
affiliation = {Behavioural Science Institute, Radboud University Nijmegen, P.O. Box 9104, 6500 HE Nijmegen, The Netherlands; Institute for Gender Studies, Radboud University Nijmegen, The Netherlands.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:31:58 +0200},
date-modified = {2010-05-01 17:31:58 +0200},
doi = {10.1016/j.jpsychires.2010.03.012},
pii = {S0022-3956(10)00087-7},
pmid = {20416884},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Strien-2010-J%20Psychiatr%20Res_Emotional%20eating%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11509},
rating = {0}
}
@article{Flynn:2008p5931,
author = {Kathryn E Flynn and Carrie B Dombeck and Esi Morgan DeWitt and Kevin A Schulman and Kevin P Weinfurt},
journal = {Clin Trials},
title = {Using item banks to construct measures of patient reported outcomes in clinical trials: investigator perceptions},
abstract = {BACKGROUND: Item response theory (IRT) promises more sensitive and efficient measurement of patient-reported outcomes (PROs) than traditional approaches; however, the selection and use of PRO measures from IRT-based item banks differ from current methods of using PRO measures. PURPOSE: To anticipate barriers to the adoption of IRT item banks into clinical trials. METHODS: We conducted semistructured telephone or in-person interviews with 42 clinical researchers who published results from clinical trials in the Journal of the American Medical Association, the New England Journal of Medicine, or other leading clinical journals from July 2005 through May 2006. Interviews included a brief tutorial on IRT item banks. RESULTS: After the tutorial, 39 of 42 participants understood the novel products available from an IRT item bank, namely customized short forms and computerized adaptive testing. Most participants (38/42) thought that item banks could be useful in their clinical trials, but they mentioned several potential barriers to adoption, including economic and logistical constraints, concerns about whether item banks are better than current PRO measures, concerns about how to convince study personnel or statisticians to use item banks, concerns about FDA or sponsor acceptance, and the lack of availability of item banks validated in specific disease populations. LIMITATIONS: Selection bias might have led to more positive responses to the concept of item banks in clinical trials. CONCLUSIONS: Clinical investigators are open to a new method of PRO measurement offered in IRT item banks, but bank developers must address investigator and stakeholder concerns before widespread adoption can be expected.},
affiliation = {Center for Clinical and Genetic Economics, Duke Clinical Research Institute, Duke University School of Medicine, Durham, NC 27715, USA. kathryn.flynn@duke.edu},
number = {6},
pages = {575--86},
volume = {5},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Feasibility Studies, Research Design, Reproducibility of Results, Sensitivity and Specificity, Male, Outcome Assessment (Health Care), Diffusion of Innovation, Self Assessment (Psychology), Databases as Topic, Research Personnel, Clinical Trials as Topic, Attitude of Health Personnel, Humans, Female},
date-added = {2010-02-18 23:14:52 +0100},
date-modified = {2010-03-21 20:27:31 +0100},
doi = {10.1177/1740774508098414},
pii = {5/6/575},
pmid = {19029206},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5931},
rating = {4}
}
@article{Johansson:2006p8602,
author = {Maria Johansson and Maria R{\aa}stam and Eva Billstedt and Susanna Danielsson and Kerstin Str{\"o}mland and Marilyn Miller and Christopher Gillberg},
journal = {Dev Med Child Neurol},
title = {Autism spectrum disorders and underlying brain pathology in CHARGE association},
abstract = {The rate of autism spectrum disorders (ASDs) and brain abnormalities was analyzed in 31 individuals (15 males, 16 females; age range 1mo to 31y, mean age 8y 11mo) with CHARGE association, as part of a multidisciplinary study. A meticulous neuropsychiatric examination was performed, including standardized autism diagnostic interviews. Judgement regarding ASDs was impossible in three infants and three patients who were deaf and blind. Five individuals met diagnostic criteria for autism, five for an autistic-like condition, and seven for autistic traits. Brain abnormalities were indicated in almost three-quarters of examined individuals, and midline abnormalities of the forebrain in one-third. Awareness of the coexistence of CHARGE and ASDs is important in habilitation care in CHARGE. Moreover, the results indicate that a subgroup of ASDs may be associated with errors in early embryonic brain development.},
affiliation = {Department of Child and Adolescent Psychiatry, G{\"o}teborg University, Sweden. maria.johansson@pediat.gu.se},
number = {1},
pages = {40--50},
volume = {48},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Craniofacial Abnormalities, Hearing Loss, Infant: Newborn, Brain, Neuropsychological Tests, Autistic Disorder, Pregnancy, Child, Pregnancy Complications, Male, Magnetic Resonance Imaging, Autonomic Nervous System Diseases, Child Behavior Disorders, Adolescent, Adult, Heart Defects: Congenital, Humans, Tomography: X-Ray Computed, Coloboma, Child: Preschool, Female, Cognition, Abnormalities: Multiple, Infant},
date-added = {2010-03-22 00:25:21 +0100},
date-modified = {2010-03-22 00:25:21 +0100},
doi = {10.1017/S0012162206000090},
pii = {S0012162206000090},
pmid = {16359593},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johansson-2006-Developmental%20medicine%20and%20child%20neurology_Autism%20spectrum%20diso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8602},
rating = {0}
}
@article{Nicodemus:2005p3526,
author = {Kristin K Nicodemus and Wenlei Liu and Gary A Chase and Ya-Yu Tsai and M Daniele Fallin},
journal = {BMC Genet},
title = {Comparison of type I error for multiple test corrections in large single-nucleotide polymorphism studies using principal components versus haplotype blocking algorithms},
abstract = {ABSTRACT : Although permutation testing has been the gold standard for assessing significance levels in studies using multiple markers, it is time-consuming. A Bonferroni correction to the nominal p-value that uses the underlying pair-wise linkage disequilibrium (LD) structure among the markers to determine the number of effectively independent tests has recently been proposed. We propose using the number of independent LD blocks plus the number of independent single-nucleotide polymorphisms for correction. Using the Collaborative Study on the Genetics of Alcoholism LD data for chromosome 21, we simulated 1,000 replicates of parent-child trio data under the null hypothesis with two levels of LD: moderate and high. Assuming haplotype blocks were independent, we calculated the number of independent statistical tests using 3 haplotype blocking algorithms. We then compared the type I error rates using a principal components-based method, the three blocking methods, a traditional Bonferroni correction, and the unadjusted p-values obtained from FBAT. Under high LD conditions, the PC method and one of the blocking methods were slightly conservative, whereas the 2 other blocking methods exceeded the target type I error rate. Under conditions of moderate LD, we show that the blocking algorithm corrections are closest to the desired type I error, although still slightly conservative, with the principal components-based method being almost as conservative as the traditional Bonferroni correction.},
affiliation = {Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA. knicodem@jhsph.edu.},
pages = {S78},
volume = {6 Suppl 1},
year = {2005},
month = {Dec},
language = {ENG},
date-added = {2010-01-15 15:48:51 +0100},
date-modified = {2010-01-15 15:48:52 +0100},
doi = {10.1186/1471-2156-6-S1-S78},
pii = {1471-2156-6-S1-S78},
pmid = {16451692},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicodemus-2005-BMC%20Genet_Comparison%20of%20type%20I.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3526},
rating = {0}
}
@article{Zhang:2010p11534,
author = {Wensheng Zhang and Kelly Robbins and Yupeng Wang and Keith Bertrand and Romdhane Rekaya},
journal = {BMC Genomics},
title = {A jackknife-like method for classification and uncertainty assessment of multi-category tumor samples using gene expression information},
abstract = {ABSTRACT: BACKGROUND: The use of gene expression profiling for the classification of human cancer tumors has been widely investigated. Previous studies were successful in distinguishing several tumor types in binary problems. As there are over a hundred types of cancers, and potentially even more subtypes, it is essential to develop multi-category methodologies for molecular classification for any meaningful practical application. RESULTS: A jackknife-based supervised learning method called paired-samples test algorithm (PST), coupled with a binary classification model based on linear regression, was proposed and applied to two well known and challenging datasets consisting of 14 (GCM dataset) and 9 (NC160 dataset) tumor types. The results showed that the proposed method improved the prediction accuracy of the test samples for the GCM dataset, especially when t-statistic was used in the primary feature selection. For the NCI60 dataset, the application of PST improved prediction accuracy when the numbers of used genes were relatively small (100 or 200). These improvements made the binary classification method more robust to the gene selection mechanism and the size of genes to be used. The overall prediction accuracies were competitive in comparison to the most accurate results obtained by several previous studies on the same datasets and with other methods. Furthermore, the relative confidence R(T) provided a unique insight into the sources of the uncertainty shown in the statistical classification and the potential variants within the same tumor type. CONCLUSION: We proposed a novel bagging method for the classification and uncertainty assessment of multi-category tumor samples using gene expression information. The strengths were demonstrated in the application to two bench datasets.},
number = {1},
pages = {273},
volume = {11},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:36:15 +0200},
date-modified = {2010-07-29 19:20:00 +0200},
doi = {10.1186/1471-2164-11-273},
pii = {1471-2164-11-273},
pmid = {20429942},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2010-BMC%20Genomics_A%20jackknife-like%20met-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11534},
rating = {0}
}
@article{Moya:2005p14101,
author = {Tatiana Moya and Bacy Fleitlich-Bilyk and Robert Goodman and Fabiana Chamelet Nogueira and Patr{\'\i}cia Souza Focchi and Manoela Nicoletti and Vanessa Pinzon and T{\'a}ki Athan{\'a}ssios Cord{\'a}s and Francisco Lotufo Neto},
journal = {Rev Bras Psiquiatr},
title = {The Eating Disorders Section of the Development and Well-Being Assessment (DAWBA): development and validation},
abstract = {OBJECTIVE: Development and validation of the Eating Disorders Section of the Development and Well-Being Assessment (DAWBA). It is a package of questionnaires, interviews and evaluation techniques, designed to generate DSM-IV and ICD-10 based diagnoses of anorexia, bulimia nervosa and the respective partial syndromes in epidemiological studies, in subjects who are 7 to 17 years old. The parents are interviewed in all cases, as are young people aged 11 or more. METHODS: 174 girls, divided into three groups, were assessed with the Eating Disorders Section of the Development and Well-Being Assessment: 48 with eating disorders, 55 clinical controls (with depression, obsessive-compulsive disorder or gastrointestinal disease) and 71 community controls. The sensitivity, specificity and predictive values of the assessment were investigated by comparing the Development and Well-Being Assessment diagnoses with independent psychiatric diagnoses. The test-retest reliability was investigated by reapplying the measure on 55 subjects after 2 or 3 weeks. RESULTS: For the detection of any DSM-IV and ICD-10 eating disorder, the final Development and Well-Being Assessment diagnosis had a sensitivity of 100%, specificity of 94%, positive predictive value of 88%, and a negative predictive value of 100%; there was 95% agreement between the initial and repeat diagnoses (a kappa of 0.81). CONCLUSION: The Eating Disorders Section of the Development and Well-Being Assessment has suitable psychometric properties for use in clinical and epidemiological studies.},
affiliation = {Institute of Psychiatry, University of S{\~a}o Paulo, Brazil. tatimoya@uol.com.br},
number = {1},
pages = {25--31},
volume = {27},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Female, Eating Disorders, Sensitivity and Specificity, Adolescent, Bulimia Nervosa, Interview: Psychological, Humans, Child, Psychiatric Status Rating Scales, Questionnaires, Anorexia Nervosa},
date-added = {2010-08-18 11:16:51 +0200},
date-modified = {2010-08-18 11:16:52 +0200},
doi = {/S1516-44462005000100008},
pii = {S1516-44462005000100008},
pmid = {15867980},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moya-2005-Rev%20Bras%20Psiquiatr_The%20Eating%20Disorders.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14101},
rating = {0}
}
@article{Cochran:1995p4017,
author = {S D Cochran and Jan de Leeuw and V M Mays},
journal = {Journal of Consulting and Clinical Psychology},
title = {Optimal scaling of HIV-related sexual risk behaviors in ethnically diverse homosexually active men},
abstract = {As HIV-related behavioral research moves increasingly in the direction of seeking to determine predictors of high-risk sexual behavior, more efficient methods of specifying patterns are needed. Two statistical techniques, homogeneity analysis and latent class analysis, useful in scaling binary multivariate data profiles are presented. Both were used to analyze reported sexual behavior patterns in two samples of homosexually active men, one sample of 343 primarily White gay men attending an HIV workshop and one sample of 837 African American gay men recruited nationally. Results support the existence of a single, nonlinear, latent dimension underlying male homosexual behaviors consistent with HIV-related risk taking. Both statistical methods provide an efficient means to optimally scale sexual behavior patterns, a critical outcome variable in HIV-related research.},
affiliation = {Department of Psychology, California State University, Northridge 91330, USA.},
number = {2},
pages = {270--9},
volume = {63},
year = {1995},
month = {Apr},
language = {eng},
keywords = {European Continental Ancestry Group, HIV Infections, Homosexuality: Male, Adult, Aged, Cross-Cultural Comparison, African Americans, Adolescent, Middle Aged, Sexual Behavior, Health Knowledge: Attitudes: Practice, Humans, Male, Risk-Taking},
date-added = {2010-01-18 15:22:23 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
pmid = {7751488},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4017},
rating = {0}
}
@article{Sullivan:2008p3822,
author = {P F Sullivan and D Lin and J-Y Tzeng and E van den Oord and D Perkins and T S Stroup and M Wagner and S Lee and F A Wright and F Zou and W Liu and A M Downing and J Lieberman and S L Close},
journal = {Mol Psychiatry},
title = {Genomewide association for schizophrenia in the CATIE study: results of stage 1},
abstract = {Little is known for certain about the genetics of schizophrenia. The advent of genomewide association has been widely anticipated as a promising means to identify reproducible DNA sequence variation associated with this important and debilitating disorder. A total of 738 cases with DSM-IV schizophrenia (all participants in the CATIE study) and 733 group-matched controls were genotyped for 492,900 single-nucleotide polymorphisms (SNPs) using the Affymetrix 500K two-chip genotyping platform plus a custom 164K fill-in chip. Following multiple quality control steps for both subjects and SNPs, logistic regression analyses were used to assess the evidence for association of all SNPs with schizophrenia. We identified a number of promising SNPs for follow-up studies, although no SNP or multimarker combination of SNPs achieved genomewide statistical significance. Although a few signals coincided with genomic regions previously implicated in schizophrenia, chance could not be excluded. These data do not provide evidence for the involvement of any genomic region with schizophrenia detectable with moderate sample size. However, a planned genomewide association study for response phenotypes and inclusion of individual phenotype and genotype data from this study in meta-analyses hold promise for eventual identification of susceptibility and protective variants.},
affiliation = {Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599-7264, USA. pfsulliv@med.unc.edu},
number = {6},
pages = {570--84},
volume = {13},
year = {2008},
month = {Jun},
language = {eng},
keywords = {Genetic Variation, Case-Control Studies, Genome: Human, Schizophrenia, DNA, Computational Biology, Antipsychotic Agents, Polymorphism: Single Nucleotide, Humans, Genetic Markers, National Institute of Mental Health (U.S.), Genotype, United States},
date-added = {2010-01-16 21:01:38 +0100},
date-modified = {2010-01-16 21:01:38 +0100},
doi = {10.1038/mp.2008.25},
pii = {mp200825},
pmid = {18347602},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3822},
rating = {0}
}
@article{Mislevy:1996p4260,
author = {R J Mislevy and D H Gitomer},
title = {The role of probability-based inference in an intelligent tutoring system},
year = {1996},
date-added = {2010-01-23 21:08:35 +0100},
date-modified = {2010-01-23 21:09:15 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mislevy-1996-_The%20role%20of%20probabil.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4260},
rating = {0}
}
@article{Erlodi:2006p1662,
author = {L A Erlodi},
title = {Conditonal error variance in the WISC-IV},
abstract = {Measurement error at different ability levels in the WISC-IV was studied to
empirically test the conditional error variance hypothesis. Graduate students in clinical psychology at a Midwestern university scored fictitious WISC-IV Vocabulary subtests constructed to yield actual scaled scores of 4, 10, and 16. Classical measurement theory assumes error rate will be constant across the three conditions. Modern test theories (Item Response Theory), however, predict that the precision of a measurement instrument will change as a function of the examinee's ability level. Data supported the conditional error variance hypothesis. Scorers made significantly more errors in the low- and high-ability- level conditions than they did in the average ability condition. Implications of these findings for intelligence testing are discussed.},
year = {2006},
date-added = {2010-01-08 21:55:50 +0100},
date-modified = {2010-01-08 21:57:16 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Erlodi-2006-_Conditonal%20error%20var.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1662},
rating = {0}
}
@article{Choudhury:2006p4832,
author = {Suparna Choudhury and Sarah-Jayne Blakemore and Tony Charman},
journal = {Soc Cogn Affect Neurosci},
title = {Social cognitive development during adolescence},
abstract = {Social relationships are particularly important during adolescence. In recent years, histological and MRI studies have shown that the brain is subject to considerable structural development during adolescence. Brain regions that are implicated in social cognition, including parts of prefrontal, parietal and superior temporal cortex, undergo the most pronounced and prolonged change. However, the development of social cognition during adolescence and its neural underpinnings remains poorly understood. Here, we begin by outlining how the brain changes between childhood and adulthood. We then describe findings that have emerged from behavioural and neuroimaging studies of the recognition of facial expression during adolescence. Finally, we present new data that demonstrate development of emotional perspective taking during adolescence. In this study, 112 participants, aged 8-36 years, performed a computerised task that involved taking an emotional perspective either from the participant's own point of view or from that of another person. The results showed that average difference in reaction time (RT) to answer questions in the first person perspective (1PP) and third person perspective (3PP) significantly decreased with age. The RT difference of adults tended to cluster close to the zero line (3PP = 1PP), while a greater proportion of pre-adolescents had higher difference values in both the positive (3PP > 1PP) and negative direction (1PP > 3PP) of the scale. The data suggest that the efficiency, and possibly strategy, of perspective taking develop in parallel with brain maturation and psychosocial development during adolescence.},
affiliation = {Behavioural {\&} Brain Sciences, Institute of Child Health, University College London, 30 Guilford Street, London WC1N 1EH and Institute of Cognitive Neuroscience, University College London, 17 Queen Square, London WC1N 3AR, UK.},
number = {3},
pages = {165--174},
volume = {1},
year = {2006},
month = {Dec},
language = {ENG},
date-added = {2010-02-01 20:21:57 +0100},
date-modified = {2010-02-01 20:21:57 +0100},
doi = {10.1093/scan/nsl024},
pmid = {18985103},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4832},
rating = {0}
}
@article{Bullock:2010p12804,
author = {W Bullock and K Imai and J N Shapiro},
title = {Measuring Political Support and Issue Ownership Using Endorsement Experiments, with Application to Militant Groups in Pakistan},
abstract = {To measure the levels of support for political actors (e.g., candidates and parties) and the strength of their issue ownership, survey experiments are often conducted in which respondents are asked to express their opinion about a particular policy endorsed by a randomly selected po- litical actor. These responses are contrasted with those from a control group that receives no endorsement. This survey methodology is particularly useful for studying sensitive political atti- tudes. We develop a Bayesian hierarchical measurement model for such endorsement experiments, demonstrate its statistical properties through simulations, and use it to measure support for Is- lamist militant groups in Pakistan. Our model uses item response theory to estimate support levels on the same scale as the ideal points of respondents. The model also estimates the strength of political actors' issue ownership for specific policies as well as the relationship between respon- dents' characteristics and support levels. Our analysis of a recent survey experiment in Pakistan reveals three key patterns. First, citizens' attitudes towards militant groups are geographically clustered. Second, once these regional differences are taken into account, respondents' character- istics have little predictive power for their support levels. Finally, militant groups tend to receive less support in the areas where they operate.},
year = {2010},
date-added = {2010-06-18 22:48:47 +0200},
date-modified = {2010-06-18 22:49:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bullock-2010-_Measuring%20Political.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12804},
rating = {0}
}
@article{Draney:2008p2590,
author = {K Draney and M Wilson},
journal = {Psychology Science Quarterly},
title = {A LLTM approach to the examination of teachers' ratings of classroom assessment tasks},
abstract = {This paper investigates the use of a specific case of the Linear Logistic Test Model, known as the rating scale rater model, in which the item parameter is conceptualized to include an item difficulty parameter, plus a rating severity parameter. Using this model, the severity of groups of teachers is investigated when they scored sets of 321 pretests and posttests designed to be congruent with an em- bedded assessment system. The items were included in a linked design involving multiple booklets randomly allocated to students. Individual teachers were found to differ in overall severity, but also showed a reasonable amount of consistency within two of the three district moderation groups. Teach- ers also showed some mean differences between districts. There is also evidence that the model may be too tightly constrained, and further exploration using a less constrained model is indicated.},
number = {3},
pages = {417--432},
volume = {50},
year = {2008},
keywords = {teacher effects, IRT, rater effects, LLTM},
date-added = {2010-01-12 22:34:41 +0100},
date-modified = {2010-01-12 22:35:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Draney-2008-Psychology%20Science%20Quarterly_A%20LLTM%20approach%20to%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2590},
rating = {0}
}
@article{EspositoSmythers:2009p9645,
author = {Christianne Esposito-Smythers and Anthony Spirito and Christie Rizzo and John E McGeary and Valerie S Knopik},
journal = {Pharmacol Biochem Behav},
title = {Associations of the DRD2 TaqIA polymorphism with impulsivity and substance use: preliminary results from a clinical sample of adolescents},
abstract = {BACKGROUND: The A1 allele of the TaqIA polymorphism (rs1800497) in the dopamine D2 receptor gene (DRD2) has been associated with substance use. It is unclear whether this allele is a marker for an underlying propensity for specifically developing a substance use disorder, or more generally to developing an externalizing psychiatric disorder highly correlated with substance use. It is also possible that DRD2 is related to a behavioral phenotype common to externalizing disorders and substance use. METHOD: Data was obtained from 104 psychiatrically hospitalized adolescents in a larger assessment study. Adolescents were genotyped for the DRD2 TaqIA site, grouped as carriers of the A1 allele (A1+) or homozygous for the A2 allelle (A1-). Associations of the presence of the A1 allele with externalizing disorders, the intermediate phenotype of impulsivity, and measures of alcohol and drug use were examined. RESULTS: A diagnosis of conduct disorder and impulsive behavior were both associated with severity of problem drinking and/or drug use. Further, interaction effects were found between the DRD2 TaqIA polymorphism and conduct disorder (trend level) as well as A1+ status and impulsivity, such that adolescents who were carriers of the A1 allele, and had conduct disorder or impulsive behavior, reported higher levels of problematic alcohol use than those who were non-carriers (A2/A2 or A1-). The same interaction effect between this polymorphism and impulsivity was found for severity of problem drug use. In contrast, no interaction effects were found between the DRD2 allele status and ADHD on severity of problem drinking or drug use. DISCUSSION: These results suggest that the well documented relationship between conduct disorder, the behavioral phenotype of impulsivity, and problematic alcohol/drug use among adolescents may be moderated by A1 carrier status of the DRD2 gene.},
affiliation = {Center for Alcohol and Addiction Studies, Brown University, United States.},
note = {genim},
number = {3},
pages = {306--12},
volume = {93},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Heterozygote, Alleles, Psychiatric Status Rating Scales, DNA, Genotype, Inpatients, Male, Adolescent, Polymorphism: Genetic, Regression Analysis, Gene Frequency, Alcoholism, Female, Conduct Disorder, Humans, Impulsive Behavior, Neuropsychological Tests, Receptors: Dopamine D2, Substance-Related Disorders},
date-added = {2010-03-25 14:53:18 +0100},
date-modified = {2010-07-29 19:43:17 +0200},
doi = {10.1016/j.pbb.2009.03.012},
pii = {S0091-3057(09)00101-4},
pmid = {19344737},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T0N-4VYXMG3-1&_user=2432700&_coverDate=09%252F30%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=b3462538af4c71f9a51144315b32242d},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Esposito-Smythers-2009-Pharmacol%20Biochem%20Behav_Associations%20of%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9645},
rating = {0}
}
@article{Cho:2009p10273,
author = {Seung Bin Cho and Phillip K Wood and Andrew C Heath},
journal = {Behav Genet},
title = {Decomposing group differences of latent means of ordered categorical variables within a genetic factor model},
abstract = {A genetic factor model is introduced for decomposition of group differences of the means of phenotypic behavior as well as individual differences when the research variables under consideration are ordered categorical. The model employs the general Genetic Factor Model proposed by Neale and Cardon (Methodology for genetic studies of twins and families, 1992) and, more specifically, the extension proposed by Dolan et al. (Behav Genet 22: 319-335, 1992) which enables decomposition of group differences of the means associated with genetic and environmental factors. Using a latent response variable (LRV) formulation (Muth{\'e}n and Asparouhov, Latent variable analysis with categorical outcomes: multiple-group and growth modeling in Mplus. Mplus web notes: No. 4, Version 5, 2002), proportional differences of response categories between groups are modeled within the genetic factor model in terms of the distributional differences of latent response variables assumed to underlie the observed ordered categorical variables. Use of the proposed model is illustrated using a measure of conservatism in the data collected from the Australian Twin Registry.},
affiliation = {Psychological Sciences, University of Missouri, 200 South 7th Street, Psychology Building, Columbia, MO 65211, USA. sbcht3@mizzou.edu},
number = {1},
pages = {101--22},
volume = {39},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Environment, Population Groups, Models: Genetic, Phenotype, Twins, Genetics: Behavioral, Analysis of Variance, Normal Distribution, Genetic Variation, Registries, Humans, Reproducibility of Results},
date-added = {2010-04-02 15:42:00 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-008-9237-9},
pmid = {19009342},
url = {http://www.springerlink.com/content/823885j2135170l3/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cho-2009-Behav%20Genet_Decomposing%20group%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10273},
rating = {0}
}
@article{Mazor:1995,
author = {Kathleen M Mazor and Anil Kanjee and Brian E Clauser},
journal = {Journal of Educational Measurement},
title = {Using logistic regression and the Mantel-Haenszel with multiple ability estimates to detect Differential Item Functioning},
number = {2},
pages = {131--144},
volume = {32},
year = {1995},
date-added = {2010-01-10 11:33:24 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1981},
rating = {0}
}
@article{Knuth:1984p10909,
author = {D E Knuth},
journal = {The Computer Journal},
title = {Literate Programming},
number = {2},
pages = {97--111},
volume = {27},
year = {1984},
date-added = {2010-04-11 21:28:01 +0200},
date-modified = {2010-04-11 21:36:09 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Knuth-1984-The%20Computer%20Journal_Literate%20Programming.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10909},
rating = {0}
}
@article{Hutz:2008p3785,
author = {Janna E Hutz and Aldi T Kraja and Howard L McLeod and Michael A Province},
journal = {Genet Epidemiol},
title = {CANDID: a flexible method for prioritizing candidate genes for complex human traits},
abstract = {Genomewide studies and localized candidate gene approaches have become everyday study designs for identifying polymorphisms in genes that influence complex human traits. Yet, in general, the number of significant findings and the need to focus on smaller regions require a prioritization of genes for further study. Some candidate gene identification algorithms have been proposed in recent years to attempt to streamline this prioritization, but many suffer from limitations imposed by the source data or are difficult to use and understand. CANDID is a prioritization algorithm designed to produce impartial, accurate rankings of candidate genes that influence complex human traits. CANDID can use information from publications, protein domain descriptions, cross-species conservation measures, gene expression profiles and protein-protein interactions in its analysis. Additionally, users may supplement these data sources with results from linkage, association and other studies. CANDID was tested on well-known complex trait genes using data from the Online Mendelian Inheritance in Man database. Additionally, CANDID was evaluated in a modeled gene discovery environment, where it ranked genes whose trait associations were published after CANDID's databases were compiled. In all settings, CANDID exhibited high sensitivity and specificity, indicating an improvement upon previously published algorithms. Its accuracy and ease of use make CANDID a highly useful tool in study design and analysis for complex human traits.},
affiliation = {Division of Statistical Genomics, Washington University School of Medicine, Saint Louis, Missouri, USA. jehutz@artsci.wustl.edu},
number = {8},
pages = {779--90},
volume = {32},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Databases: Genetic, Algorithms, Genome: Human, Genetic Techniques, Genetic Diseases: Inborn, Gene Expression Profiling, Models: Genetic, Computational Biology, Models: Statistical, Protein Structure: Tertiary, Humans, Male, ROC Curve, Linkage (Genetics), Female},
date-added = {2010-01-16 21:00:41 +0100},
date-modified = {2010-01-16 21:00:42 +0100},
doi = {10.1002/gepi.20346},
pmid = {18613097},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3785},
rating = {0}
}
@article{Knodel:2001p7749,
author = {J Knodel and M VanLandingham and C Saengtienchai and W Im-em},
journal = {Soc Sci Med},
title = {Older people and AIDS: quantitative evidence of the impact in Thailand},
abstract = {Discussions of the AIDS epidemic rarely consider the impact on older people except as infected persons. Virtually no systematic quantitative assessments exist of the involvement of parents or other older generation relatives in the living and caretaking arrangements of persons with AIDS in either the West or the developing world. We assess the extent of such types of involvement in Thailand, a country where substantial proportions of elderly parents depend on adult children for support and where co-residence with an adult child is common. Interviews with local key informants in the public health system in rural and urban communities provided quantitative information on a total of 963 adult cases who either had died of AIDS or were currently symptomatic. The results indicate that a substantial proportion of persons with AIDS move back to their communities of origin at some stage of the illness. Two-thirds of the adults who died of an AIDS-related disease either lived with or adjacent to a parent by the terminal stage of illness and a parent, usually the mother, acted as a main caregiver for about half. For 70%, either a parent or other older generation relative provided at least some care. The vast majority of the parents were aged 50 or more and many were aged 60 or older. This extent of older generation involvement appears to be far greater than in Western countries such as the US. We interpret the difference as reflecting the contrasting epidemiological and socio-cultural situations in Thailand and the West. The fact that older people in Thailand, and probably many other developing countries, are extensively impacted by the AIDS epidemic through their involvement with their infected adult children has important implications for public health programs that address caretaker education and social and economic support.},
affiliation = {Population Studies Center and Department of Sociology, Institute for Social Research, University of Michigan, Ann Arbor 48106-1248, USA. jknodel@umich.edu},
number = {9},
pages = {1313--27},
volume = {52},
year = {2001},
month = {May},
language = {eng},
keywords = {Family Characteristics, Thailand, Adolescent, Aged, Developing Countries, Middle Aged, Risk Factors, Aged: 80 and over, Acquired Immunodeficiency Syndrome, Female, Interviews as Topic, Caregivers, Adult, Parents, Social Support, Humans, HIV Infections, Male, Home Nursing, Intergenerational Relations},
date-added = {2010-03-17 20:50:46 +0100},
date-modified = {2010-03-17 20:50:46 +0100},
pii = {S0277953600002331},
pmid = {11286358},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7749},
rating = {0}
}
@article{Laudadio:2005p1573,
author = {Teresa Laudadio and Pieter Pels and Lieven De Lathauwer and Paul Van Hecke and Sabine Van Huffel},
journal = {Magn Reson Med},
title = {Tissue segmentation and classification of MRSI data using canonical correlation analysis},
abstract = {In this article an accurate and efficient technique for tissue typing is presented. The proposed technique is based on Canonical Correlation Analysis, a statistical method able to simultaneously exploit the spectral and spatial information characterizing the Magnetic Resonance Spectroscopic Imaging (MRSI) data. Recently, Canonical Correlation Analysis has been successfully applied to other types of biomedical data, such as functional MRI data. Here, Canonical Correlation Analysis is adapted for MRSI data processing in order to retrieve in an accurate and efficient way the possible tissue types that characterize the organ under investigation. The potential and limitations of the new technique have been investigated by using simulated as well as in vivo prostate MRSI data, and extensive studies demonstrate a high accuracy, robustness, and efficiency. Moreover, the performance of Canonical Correlation Analysis has been compared to that of ordinary correlation analysis. The test results show that Canonical Correlation Analysis performs best in terms of accuracy and robustness.},
affiliation = {Department of Electrical Engineering, Division ESAT-SCD, Katholieke Universiteit Leuven, Leuven-Heverlee, Belgium. laudadio@esat.kuleuven.ac.be},
number = {6},
pages = {1519--29},
volume = {54},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Phantoms: Imaging, Pattern Recognition: Automated, Image Interpretation: Computer-Assisted, Magnetic Resonance Spectroscopy, Algorithms, Prostatic Neoplasms, Artificial Intelligence, Information Storage and Retrieval, Male, Humans, Image Enhancement, Imaging: Three-Dimensional, Magnetic Resonance Imaging, Reproducibility of Results, Sensitivity and Specificity, Statistics as Topic},
date-added = {2010-01-07 16:59:26 +0100},
date-modified = {2010-01-07 16:59:26 +0100},
doi = {10.1002/mrm.20710},
pmid = {16276498},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Laudadio-2005-Magn%20Reson%20Med_Tissue%20segmentation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1573},
rating = {0}
}
@article{Harvey:2003p1810,
author = {R J Harvey},
journal = {Annual Conference of the Society for Industrial and Organizational Psychology},
title = {Applicability of Binary IRT Models to Job Analysis Data},
abstract = {Item response theory (IRT) is increasingly being used in applied assessment, offering many benefits in comparison to classical test theory techniques. However, the question of whether IRT will prove useful with respect to assessing general work activity (GWA) constructs in job and occupational analysis (JOA) has received little attention. This study reviewed several potential concerns and benefits regarding the use of IRT in JOA, and examined the performance of binary IRT models using moderate-specificity data from the Common-Metric Questionnaire (CMQ; Harvey, 1991b), abstract ratings from the Occupational Information Network (O*NET) GWA survey, and Monte Carlo tests of the effectiveness of IRT appropriateness indices for detecting aberrant profiles Results indicated that IRT may be highly useful in JOA, especially in view of the importance of detecting careless or distorted JOA ratings.},
year = {2003},
date-added = {2010-01-09 21:52:55 +0100},
date-modified = {2010-01-09 21:53:33 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harvey-2003-Annual%20Conference%20of%20the%20Society%20for%20Industrial%20and%20Organizational%20Psychology_Applicability%20of%20Bin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1810},
rating = {0}
}
@article{Baumeister:2002p3414,
author = {J Baumeister and D Seipel},
journal = {Proceedings of the 13th. International Workshop on Principles of Diagnosis},
title = {Diagnostic Reasoning with Multilevel Set-Covering Models},
abstract = {We consider multilevel set-covering models for diagnos- tic reasoning: though a lot of work has been done in this field, knowl- edge acquisition efforts have been investigated only insufficiently. We will show how set-covering models can be build incrementally and how they can be refined by knowledge enhancements or repre- sentational extensions. All these extensions have a primary charac- teristic: they can be applied without changing the basic semantics of the model.},
year = {2002},
date-added = {2010-01-15 14:49:37 +0100},
date-modified = {2010-01-15 14:51:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baumeister-2002-Proceedings%20of%20the%2013th.%20International%20Workshop%20on%20Principles%20of%20Diagnosis_Diagnostic%20Reasoning.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3414},
rating = {0}
}
@article{Orlando:2004p2728,
author = {M Orlando},
title = {Critical Issues to Address when Applying Item Response Theory (IRT) Models},
year = {2004},
date-added = {2010-01-13 14:18:22 +0100},
date-modified = {2010-01-13 14:19:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orlando-2004-_Critical%20Issues%20to%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2728},
rating = {0}
}
@article{Boschen:2006p4876,
author = {Mark J Boschen and Tian P S Oei},
journal = {Aust N Z J Psychiatry},
title = {Factor structure of the Mood and Anxiety Symptom Questionnaire does not generalize to an anxious/depressed sample},
abstract = {OBJECTIVE: The tripartite model of anxiety and depression has been proposed as a representation of the structure of anxiety and depression symptoms. The Mood and Anxiety Symptom Questionnaire (MASQ) has been put forwards as a valid measure of the tripartite model of anxiety and depression symptoms. This research set out to examine the factor structure of anxiety and depression symptoms in a clinical sample to assess the MASQ's validity for use in this population. METHOD: The present study uses confirmatory factor analytic methods to examine the psychometric properties of the MASQ in 470 outpatients with anxiety and mood disorder. RESULTS: The results showed that none of the previously reported two-factor, three-factor or five-factor models adequately fit the data, irrespective of whether items or subscales were used as the unit of analysis. CONCLUSION: It was concluded that the factor structure of the MASQ in a mixed anxiety/depression clinical sample does not support a structure consistent with the tripartite model. This suggests that researchers using the MASQ with anxious/depressed individuals should be mindful of the instrument's psychometric limitations.},
affiliation = {School of Psychology, Griffith University, Gold Coast, Queensland, Australia. m.boschen@griffith.edu.au},
number = {11-12},
pages = {1016--24},
volume = {40},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Comorbidity, Personality Inventory, Adolescent, Depressive Disorder, Anxiety Disorders, Models: Statistical, Aged, Female, Middle Aged, Reproducibility of Results, Adult, Humans, Factor Analysis: Statistical, Male, Psychometrics, Questionnaires},
date-added = {2010-02-01 20:30:47 +0100},
date-modified = {2010-02-01 20:30:47 +0100},
doi = {10.1111/j.1440-1614.2006.01926.x},
pii = {ANP1926},
pmid = {17054571},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boschen-2006-Aust%20N%20Z%20J%20Psychiatry_Factor%20structure%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4876},
rating = {0}
}
@article{Katerberg:2010p12575,
author = {Hilga Katerberg and Kevin L Delucchi and S Evelyn Stewart and Christine Lochner and Damiaan A J P Denys and Denise E Stack and J Michael Andresen and J E Grant and Suck W Kim and Kyle A Williams and Johan A den Boer and Anton J L M van Balkom and Johannes H Smit and Patricia van Oppen and Annemiek Polman and Michael A Jenike and Dan J Stein and Carol A Mathews and Danielle C Cath},
journal = {Behav Genet},
title = {Symptom Dimensions in OCD: Item-Level Factor Analysis and Heritability Estimates},
abstract = {To reduce the phenotypic heterogeneity of obsessive-compulsive disorder (OCD) for genetic, clinical and translational studies, numerous factor analyses of the Yale-Brown Obsessive Compulsive Scale checklist (YBOCS-CL) have been conducted. Results of these analyses have been inconsistent, likely as a consequence of small sample sizes and variable methodologies. Furthermore, data concerning the heritability of the factors are limited. Item and category-level factor analyses of YBOCS-CL items from 1224 OCD subjects were followed by heritability analyses in 52 OCD-affected multigenerational families. Item-level analyses indicated that a five factor model: (1) taboo, (2) contamination/cleaning, (3) doubts, (4) superstitions/rituals, and (5) symmetry/hoarding provided the best fit, followed by a one-factor solution. All 5 factors as well as the one-factor solution were found to be heritable. Bivariate analyses indicated that the taboo and doubts factor, and the contamination and symmetry/hoarding factor share genetic influences. Contamination and symmetry/hoarding show shared genetic variance with symptom severity. Nearly all factors showed shared environmental variance with each other and with symptom severity. These results support the utility of both OCD diagnosis and symptom dimensions in genetic research and clinical contexts. Both shared and unique genetic influences underlie susceptibility to OCD and its symptom dimensions.},
affiliation = {Department of Psychiatry, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-06-15 22:25:57 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9339-z},
pmid = {20361247},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Katerberg-2010-Behav%20Genet_Symptom%20Dimensions%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12575},
rating = {5}
}
@article{Wicherts:2010p13784,
author = {J M Wicherts and C V Dolan},
journal = {Educational Measurement: Issues {\&} Practice},
title = {Measurement invariance in confirmatory factor analysis; An illustration using IQ test performance of minorities},
abstract = {Measurement invariance with respect to groups is an essential aspect of the fair use of scores
of intelligence tests and other psychological measurements. It widely believed that equal factor loadings are sufficient to establish measurement invariance in confirmatory factor analysis. Here, it is shown why establishing measurement invariance with confirmatory factor analysis requires a statistical test of the equality over groups of measurement intercepts. Without this essential test, measurement bias may be overlooked. A re-analysis of a study by J. Te Nijenhuis, E. Tolboom, W. Resing, and N. Bleichrodt (2004) on ethnic differences on the RAKIT IQ test illustrates that ignoring intercept differences may lead to the conclusion that bias of IQ tests with respect to minorities is small, while in reality bias is quite severe.},
year = {2010},
date-added = {2010-07-29 12:14:51 +0200},
date-modified = {2010-07-29 12:15:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wicherts-2010-Educational%20Measurement%20Issues%20&%20Practice_Measurement%20invarian.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13784},
rating = {0}
}
@article{Murray:2008p6409,
author = {David M Murray and Sherri L Pals and Jonathan L Blitstein and Catherine M Alfano and Jennifer Lehman},
journal = {Journal of The National Cancer Institute},
title = {Design and analysis of group-randomized trials in cancer: a review of current practices},
abstract = {BACKGROUND: Previous reviews have identified problems in the design and analysis of group-randomized trials in a number of areas. Similar problems may exist in cancer research, but there have been no comprehensive reviews. METHODS: We searched Medline and PubMed for group-randomized trials focused on cancer prevention and control that were published between 2002 and 2006. We located and reviewed 75 articles to determine whether articles included evidence of taking group randomization into account in establishing the size of the trial, such as reporting the expected intraclass correlation, the group component of variance, or the variance inflation factor. We also examined the analytical approaches to determine their appropriateness. RESULTS: Only 18 (24%) of the 75 articles documented appropriate methods for sample size calculations. Only 34 (45%) limited their reports to analyses judged to be appropriate. Fully 26 (34%) failed to report any analyses that were judged to be appropriate. The most commonly used inappropriate analysis was an analysis at the individual level that ignored the groups altogether. Nine articles (12%) did not provide sufficient information. CONCLUSIONS: Many investigators who use group-randomized trials in cancer research do not adequately attend to the special design and analytic challenges associated with these trials. Failure to do so can lead to reporting type I errors as real effects, mislead investigators and policy-makers, and slow progress toward control and prevention of cancer. A collaborative effort by investigators, statisticians, and others will be required to ensure that group-randomized trials are planned and analyzed using appropriate methods so that the scientific community can have confidence in the published results.},
affiliation = {Division of Epidemiology, College of Public Health, The Ohio State University, Columbus, OH, USA. dmurray@cph.osu.edu},
number = {7},
pages = {483--91},
volume = {100},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Research Design, Randomized Controlled Trials as Topic, Humans, Neoplasms},
date-added = {2010-02-23 08:26:38 +0100},
date-modified = {2010-02-23 08:26:39 +0100},
doi = {10.1093/jnci/djn066},
pii = {djn066},
pmid = {18364501},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6409},
rating = {0}
}
@article{Boulesteix:2008p2566,
author = {A-L Boulesteix and C Strobl and T Augustin and M Daumer},
journal = {Cancer informatics},
title = {Evaluating Microarray-based Classifiers: An Overview},
abstract = {For the last eight years, microarray-based class prediction has been the subject of numerous publications in medicine, bioinformatics and statistics journals. However, in many articles, the assessment of classification accuracy is carried out using suboptimal procedures and is not paid much attention. In this paper, we carefully review various statistical aspects of classifier evaluation and validation from a practical point of view. The main topics addressed are accuracy measures, error rate estimation procedures, variable selection, choice of classifiers and validation strategy.},
affiliation = {Sylvia Lawry Centre for MS Research (SLC), Hohenlindenerstr. 1, 81677 Munich, Germany.},
pages = {77--97},
volume = {6},
year = {2008},
month = {Jan},
language = {eng},
date-added = {2010-01-12 22:21:51 +0100},
date-modified = {2010-01-12 22:21:51 +0100},
pmid = {19259405},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boulesteix-2008-Cancer%20informatics_Evaluating%20Microarra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2566},
rating = {0}
}
@book{Aday:2006,
author = {LA Aday and LJ Cornelius},
journal = {Book},
title = {Designing and Conducting Health Surveys: A Comprehensive Guide},
abstract = {Designing and Conducting Health Surveys is written for students, teachers, researchers, and anyone who conducts health surveys. This third edition of the standard reference in the field draws heavily on the most recent methodological research on survey design and the rich storehouse of insights and implications provided by cognitive research on question and questionnaire design in particular. This important resource presents a total survey error framework that is a useful compass for charting the dangerous waters between systematic and random errors that inevitably accompany the survey design enterprise. In addition, three new studies based on national, international, and state and local surveys---the UNICEF Multiple Indicator Cluster Surveys, California Health Interview Survey, and National Dental Malpractice Survey---are detailed that illustrate the range of design alternatives available at each stage of developing a survey and provide a sound basis for choosing among them.},
year = {2006},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-07-29 20:16:50 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p976},
rating = {0}
}
@misc{Diaz-Uriarte:2009,
author = {R D\'iaz-Uriarte},
journal = {Miscellaneous},
title = {The Analysis of Cross-Over Trials in Animal Behavior},
abstract = {Cross-over trials are frequently used in animal behavior experiments but are often analyzed incorrectly. In this report I review methods of analysis of cross-over trials in the context of animal behavior experiments. I group methods of analysis according to the type of response variable: non-parametric and robust methods for metric responses, parametric methods for metric responses ---linear mixed-e{\#}ects models---, models for categorical responses both non-parametric and parametric --- extensions of generalized linear models---, censored observations ---survival analysis--, and multivariate responses. Within-individual contrasts are explained in detail early on, as they are the basis of many di{\#}erent methods, from non-parametric to multivariate and survival-based models, and they o{\#}er a useful framework for extending the analysis of data from cross-over trials to situations where robust methods might be needed (e.g., permutation tests of censored multivariate responses). In this paper I also discuss some types of plots that are specific and particularly useful for crossover trials. Before conducting a study, it is of paramount importance to consider both the design and analysis, since the type of response can a{\#}ect the choice of design. Moreover, some types of responses can be very di{\#}cult to analyze, specially with small sample sizes, and can result in very low statistical power (in particular categorical and survival data), and might prompt us to redesign the experiment or consider measuring other responses.},
year = {2009},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:40:14 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1133},
read = {Yes},
rating = {0}
}
@article{Schober:1997,
author = {MF Schober and FG Conrad},
journal = {Public Opinion Quarterly},
title = {Does conversational interviewing reduce survey measurement error?},
pages = {576--602},
volume = {61},
year = {1997},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:47:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p952},
rating = {0}
}
@article{RabeHesketh:2003p6856,
author = {S Rabe-Hesketh and A Pickles and A Skrondal},
journal = {Statistical Modelling},
title = {Correcting for covariate measurement error in logistic regression using nonparametric maximum likelihood estimation},
abstract = {When covariates are measured with error, inference based on conventional generalized linear modelscanyieldbiasedestimatesofregressionparameters.Thisproblemcanpotentiallyberectiedbyusing generalizedlinearlatentandmixedmodels(GLLAMM),includinga measurementmodelfortherelationship between observed and true covariates. However, the models are typically estimated under the assumption that both the true covariates and the measurement errors are normally distributed, although skewed covariate distributions are often observed in practice. In this article we relax the normality assumption for the true covariates by developing nonparametric maximum likelihood estimation (NPMLE) for GLLAMMs. Themethodologyisappliedtoestimatingtheeffectofdietarybreintakeoncoronaryheartdisease.Wealso assess the performance of estimation of regression parameters and empirical Bayes prediction of the true covariate. Normal as well as skewed covariate distributions are simulated and inference is performed based on both maximum likelihood assuming normality and NPMLE. Both estimators are unbiased and have similar root mean square errors when the true covariate is normal. With a skewed covariate, the conventional estimator is biased but has a smaller mean square error than the NPMLE. NPMLE produces substantially improved empirical Bayes predictions of the true covariate when its distribution is skewed.},
pages = {215--232},
volume = {3},
year = {2003},
date-added = {2010-03-06 10:32:38 +0100},
date-modified = {2010-03-06 10:54:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rabe-Hesketh-2003-Statistical%20Modelling_Correcting%20for%20covar.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6856},
rating = {0}
}
@article{MotsingerReif:2008p7512,
author = {Alison A Motsinger-Reif},
journal = {BMC Res Notes},
title = {The effect of alternative permutation testing strategies on the performance of multifactor dimensionality reduction},
abstract = {ABSTRACT: BACKGROUND: Multifactor Dimensionality Reduction (MDR) is a novel method developed to detect gene-gene interactions in case-control association analysis by exhaustively searching multi-locus combinations. While the end-goal of analysis is hypothesis generation, significance testing is employed to indicate statistical interest in a resulting model. Because the underlying distribution for the null hypothesis of no association is unknown, non-parametric permutation testing is used. Lately, there has been more emphasis on selecting all statistically significant models at the end of MDR analysis in order to avoid missing a true signal. This approach opens up questions about the permutation testing procedure. Traditionally omnibus permutation testing is used, where one permutation distribution is generated for all models. An alternative is n-locus permutation testing, where a separate distribution is created for each n-level of interaction tested. FINDINGS: In this study, we show that the false positive rate for the MDR method is at or below a selected alpha level, and demonstrate the conservative nature of omnibus testing. We compare the power and false positive rates of both permutation approaches and find omnibus permutation testing optimal for preserving power while protecting against false positives. CONCLUSION: Omnibus permutation testing should be used with the MDR method.},
affiliation = {Department of Statistics, Bioinformatics Research Center, North Carolina State University, Raleigh, North Carolina, USA. alison.motsinger@gmail.com.},
pages = {139},
volume = {1},
year = {2008},
month = {Jan},
language = {eng},
date-added = {2010-03-10 20:53:07 +0100},
date-modified = {2010-03-10 20:53:12 +0100},
doi = {10.1186/1756-0500-1-139},
pii = {1756-0500-1-139},
pmid = {19116021},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Motsinger-Reif-2008-BMC%20Res%20Notes_The%20effect%20of%20altern.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7512},
rating = {3}
}
@article{Aulchenko:2010p10907,
author = {Yurii S Aulchenko and Maksim V Struchalin and Cornelia M van Duijn},
journal = {BMC Bioinformatics},
title = {ProbABEL package for genome-wide association analysis of imputed data},
abstract = {BACKGROUND: Over the last few years, genome-wide association (GWA) studies became a tool of choice for the identification of loci associated with complex traits. Currently, imputed single nucleotide polymorphisms (SNP) data are frequently used in GWA analyzes. Correct analysis of imputed data calls for the implementation of specific methods which take genotype imputation uncertainty into account. RESULTS: We developed the ProbABEL software package for the analysis of genome-wide imputed SNP data and quantitative, binary, and time-till-event outcomes under linear, logistic, and Cox proportional hazards models, respectively. For quantitative traits, the package also implements a fast two-step mixed model-based score test for association in samples with differential relationships, facilitating analysis in family-based studies, studies performed in human genetically isolated populations and outbred animal populations. CONCLUSIONS: ProbABEL package provides fast efficient way to analyze imputed data in genome-wide context and will facilitate future identification of complex trait loci.},
affiliation = {Department of Epidemiology, Erasmus MC, Postbus 2040, 3000 CA Rotterdam, The Netherlands. i.aoultchenko@erasmusmc.nl},
pages = {134},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-11 13:52:55 +0200},
date-modified = {2010-04-11 13:52:56 +0200},
doi = {10.1186/1471-2105-11-134},
pii = {1471-2105-11-134},
pmid = {20233392},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aulchenko-2010-BMC%20Bioinformatics_ProbABEL%20package%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10907},
rating = {0}
}
@article{Burge:2005p12317,
author = {J Burge and T Lane},
journal = {Proceedings of the 22nd International Conference on Machine Learning},
title = {Learning Class-Discriminative Dynamic Bayesian Networks},
abstract = {In many domains, a Bayesian network' s topological structure is not known a priori and must be inferred from data. This requires a scoring function to measure how well a proposed network topology describes a set of data. Many commonly used scores such as BD, BDE, BDEU, etc., are not well suited for class discrimination. Instead, scores such as the class- conditional likelihood (CCL) should be employed. Unfortunately, CCL does not decompose and its application to large domains is not feasible. We introduce a decomposable score, approximate conditional likelihood (ACL) that is capable of identifying class discriminative structures. We show that dynamic Bayesian networks (DBNs) trained with ACL have classification efficacies competitive to those trained with CCL on a set of simulated data experiments. We also show that ACL-trained DBNs outperform BDE-trained DBNs, Gaussian na{\"\i}ve Bayes networks and support vector machines within a neuroscience domain too large for CCL.},
year = {2005},
date-added = {2010-06-12 09:36:00 +0200},
date-modified = {2010-06-12 09:36:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Burge-2005-Proceedings%20of%20the%2022nd%20International%20Conference%20on%20Machine%20Learning_Learning%20Class-Discr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12317},
rating = {0}
}
@article{Reese:2002,
author = {R J Reese and K M Kieffer and B K Briggs},
journal = {Educational and Psychological Measurement},
title = {A Reliability Generalization study of select measures of adult attachment style},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1931},
rating = {0}
}
@article{Sarpal:2008p8953,
author = {Deepak Sarpal and Bradley R Buchsbaum and Philip D Kohn and J Shane Kippenhan and Carolyn B Mervis and Colleen A Morris and Andreas Meyer-Lindenberg and Karen Faith Berman},
journal = {Cereb Cortex},
title = {A genetic model for understanding higher order visual processing: functional interactions of the ventral visual stream in Williams syndrome},
abstract = {Williams syndrome (WS) is a rare neurodevelopmental disorder caused by a 1.6 Mb microdeletion on chromosome 7q11.23 and characterized by hypersocial personality and prominent visuospatial construction impairments. Previous WS studies have identified functional and structural abnormalities in the hippocampal formation, prefrontal regions crucial for amygdala regulation and social cognition, and the dorsal visual stream, notably the intraparietal sulcus (IPS). Although aberrant ventral stream activation has not been found in WS, object-related visual information that is processed in the ventral stream is a critical source of input into these abnormal regions. The present study, therefore, examined neural interactions of ventral stream areas in WS. Using a passive face- and house-viewing paradigm, activation and functional connectivity of stimulus-selective regions in fusiform and parahippocampal gyri, respectively, were investigated. During house viewing, significant activation differences were observed between participants with WS and a matched control group in IPS. Abnormal functional connectivity was found between parahippocampal gyrus and parietal cortex and between fusiform gyrus and a network of brain regions including amygdala and portions of prefrontal cortex. These results indicate that abnormal upstream visual object processing may contribute to the complex cognitive/behavioral phenotype in WS and provide a systems-level characterization of genetically mediated abnormalities of neural interactions.},
affiliation = {Section on Integrative Neuroimaging, Clinical Brain Disorders Branch, Genes, Cognition and Psychosis Program, National Institute of Mental Health, NIH, DHHS, Bethesda, MD 20892, USA.},
number = {10},
pages = {2402--9},
volume = {18},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Intelligence, Phenotype, Visual Perception, Social Behavior, Adult, Male, Models: Genetic, Magnetic Resonance Imaging, Parietal Lobe, Parahippocampal Gyrus, Visual Cortex, Amygdala, Williams Syndrome, Photic Stimulation, Female, Visual Pathways, Humans},
date-added = {2010-03-22 13:06:54 +0100},
date-modified = {2010-07-29 19:22:58 +0200},
doi = {10.1093/cercor/bhn004},
pii = {bhn004},
pmid = {18308711},
url = {http://cercor.oxfordjournals.org/cgi/content/full/18/10/2402},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sarpal-2008-Cereb%20Cortex_A%20genetic%20model%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8953},
rating = {0}
}
@article{Biemer:1992,
author = {PP Biemer and G Forsman},
journal = {JAMA},
title = {On the quality of reinterview data with application to the current population survey},
abstract = {"The [U.S.] Current Population Survey (CPS) reinterview sample consists of two subsamples: (a) a sample of CPS households is reinterviewed and the discrepancies between the reinterview responses and the original interview responses are reconciled for the purpose of obtaining more accurate responses..., and (b) a sample of CPS households, nonoverlapping with sample (a), is reinterviewed 'independently' of the original interview for the purpose of estimating simple response variance (SRV). In this article a model and estimation procedure are proposed for obtaining estimates of SRV from subsample (a) as well as the customary estimates of SRV from subsample (b)....Data from the CPS reinterview program for both subsamples (a) and (b) are analyzed both (1) to illustrate the methodology and (2) to check the validity of the CPS reinterview data. Our results indicate that data from subsample (a) are not consistent with the data from subsample (b) and provide convincing evidence that errors in subsample (a) are the source of the inconsistency." [PubMed excerpt]},
number = {420},
pages = {915--923},
volume = {87},
year = {1992},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-07-29 20:01:34 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1004},
rating = {0}
}
@article{McCarroll:2007p4250,
author = {Steven A McCarroll and David M Altshuler},
journal = {Nat Genet},
title = {Copy-number variation and association studies of human disease},
abstract = {The central goal of human genetics is to understand the inherited basis of human variation in phenotypes, elucidating human physiology, evolution and disease. Rare mutations have been found underlying two thousand mendelian diseases; more recently, it has become possible to assess systematically the contribution of common SNPs to complex disease. The known role of copy-number alterations in sporadic genomic disorders, combined with emerging information about inherited copy-number variation, indicate the importance of systematically assessing copy-number variants (CNVs), including common copy-number polymorphisms (CNPs), in disease. Here we discuss evidence that CNVs affect phenotypes, directions for basic knowledge to support clinical study of CNVs, the challenge of genotyping CNPs in clinical cohorts, the use of SNPs as markers for CNPs and statistical challenges in testing CNVs for association with disease. Critical needs are high-resolution maps of common CNPs and techniques that accurately determine the allelic state of affected individuals.},
affiliation = {Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA. smccarro@broad.mit.edu},
number = {7 Suppl},
pages = {S37--42},
volume = {39},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Genetics: Medical, Genetic Variation, Genetic Diseases: Inborn, Gene Dosage, Humans, Linkage Disequilibrium, Phenotype, Bias (Epidemiology), Genotype},
date-added = {2010-01-21 10:59:34 +0100},
date-modified = {2010-07-29 20:21:03 +0200},
doi = {10.1038/ng2080},
pii = {ng2080},
pmid = {17597780},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCarroll-2007-Nat%20Genet_Copy-number%20variatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4250},
rating = {0}
}
@article{Ulrich:1994p10819,
author = {R Ulrich and J Miller},
journal = {J Exp Psychol Gen},
title = {Effects of truncation on reaction time analysis},
abstract = {Many reaction time (RT) researchers truncate their data sets, excluding as spurious all RTs falling outside a prespecified range. Such truncation can introduce bias because extreme but valid RTs may be excluded. This article examines biasing effects of truncation under various assumptions about the underlying distributions of valid and spurious RTs. For the mean, median, standard deviation, and skewness of RT, truncation bias is larger than some often-studied experimental effects. Truncation can also seriously distort linear relations between RT and an independent variable, additive RT patterns in factorial designs, and hazard functions, but it has little effect on statistical power. The authors report a promising maximum likelihood procedure for estimating properties of an untruncated distribution from a truncated sample and present in an appendix a set of procedures to control for truncation biases when testing hypotheses.},
affiliation = {University of Konstanz, Germany.},
number = {1},
pages = {34--80},
volume = {123},
year = {1994},
month = {Mar},
language = {eng},
keywords = {Humans, Proportional Hazards Models, Reaction Time, Statistics as Topic, Bias (Epidemiology), Mathematics, Research Design},
date-added = {2010-04-10 03:29:37 +0200},
date-modified = {2010-07-29 19:34:06 +0200},
pmid = {8138779},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ulrich-1994-J%20Exp%20Psychol%20Gen_Effects%20of%20truncatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10819},
rating = {0}
}
@article{Kendler:2008p13512,
author = {Kenneth S Kendler and Steven H Aggen and Nikolai Czajkowski and Espen R{\o}ysamb and Kristian Tambs and Svenn Torgersen and Michael C Neale and Ted Reichborn-Kjennerud},
journal = {Arch Gen Psychiatry},
title = {The structure of genetic and environmental risk factors for DSM-IV personality disorders: a multivariate twin study},
abstract = {CONTEXT: Although both genetic and environmental factors affect risk of individual personality disorders (PDs), we know little of how they contribute to the pattern of comorbidity between the PDs in the Diagnostic and Statistical Manual of Mental Disorders (Fourth Edition) (DSM-IV). OBJECTIVE: To clarify the structure of the genetic and environmental risk factors for the 10 DSM-IV PDs. DESIGN: Assessment of PDs at personal interview and multivariate twin modeling with the Mx program. SETTING: General community. PARTICIPANTS: A total of 2794 young adult members of the Norwegian Institute of Public Health Twin Panel. Main Outcome Measure Number of endorsed criteria for the 10 DSM-IV PDs. RESULTS: The best-fit multivariate twin model required 3 genetic and 3 individual-specific environmental factors and genetic and individual-specific factors unique to each PD. The first genetic factor had high loadings on PDs from all 3 clusters including paranoid, histrionic, borderline, narcissistic, dependent, and obsessive-compulsive. The second genetic factor had substantial loadings only on borderline and antisocial PD. The third genetic factor had high loadings only on schizoid and avoidant PD. Several PDs had substantial disorder-specific genetic risk factors. The first, second, and third individual-specific environmental factors had high loadings on the cluster B, A, and C PDs, respectively, with 1 exception: obsessive-compulsive PD loaded with cluster B and not cluster C PDs. CONCLUSIONS: Genetic risk factors for DSM-IV PDs do not reflect the cluster A, B, and C typology. Rather, 1 genetic factor reflects a broad vulnerability to PD pathology and/or negative emotionality. The 2 other genetic factors are more specific and reflect high impulsivity/low agreeableness and introversion. Unexpectedly, the cluster A, B, and C typology is well reflected in the structure of environmental risk factors, suggesting that environmental experiences may be responsible for the tendency of cluster A, B, and C PDs to co-occur.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University, PO Box 980126, Richmond, VA 23298-0126, USA. kendler@vcu.edu},
number = {12},
pages = {1438--46},
volume = {65},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Interview: Psychological, Social Environment, Prevalence, Risk Factors, Female, Humans, Twins, Norway, Diagnostic and Statistical Manual of Mental Disorders, Adult, Personality Disorders, Male, Catchment Area (Health)},
date-added = {2010-07-07 21:05:44 +0200},
date-modified = {2010-07-07 21:05:44 +0200},
doi = {10.1001/archpsyc.65.12.1438},
pii = {65/12/1438},
pmid = {19047531},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kendler-2008-Arch%20Gen%20Psychiatry_The%20structure%20of%20gen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13512},
rating = {0}
}
@article{Goeman:2010p2302,
author = {J J Goeman},
title = {L1 penalized estimation in the Cox proportional hazards model},
abstract = {This paper presents a novel algorithm that efficiently computes L1 penalized (lasso) estimates of parameters in high dimensional models. The lasso has the property that it simultaneously performs variable selection and shrinkage, which makes it very useful for finding interpretable prediction rules in high-dimensional data. The new algorithm is based on a combination of gradient ascent optimiza- tion with the Newton-Raphson algorithm. It is described for a general likelihood function and can be applied in generalized linear models and other models with an L1 penalty. The algorithm is demonstrated in the Cox proportional hazards model, predicting survival of breast cancer patients using gene expression data, and its performance is compared with competing approaches. An R package, penalized, that implements the method, is available on CRAN.},
affiliation = {Department of Medical Statistics and Bioinformatics, Leiden University Medical Center, Postzone S5-P, P.O. Box 9604, 2300 RC Leiden, The Netherlands},
keywords = {lasso, Survival, gradient ascent, penalty},
date-added = {2010-01-10 12:14:14 +0100},
date-modified = {2010-01-10 12:15:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goeman--_L1%20penalized%20estimat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2302},
rating = {0}
}
@article{Pollak:2002p8233,
author = {Seth D Pollak and Doris J Kistler},
journal = {Proc Natl Acad Sci USA},
title = {Early experience is associated with the development of categorical representations for facial expressions of emotion},
abstract = {A fundamental issue in human development concerns how the young infant's ability to recognize emotional signals is acquired through both biological programming and learning factors. This issue is extremely difficult to investigate because of the variety of sensory experiences to which humans are exposed immediately after birth. We examined the effects of emotional experience on emotion recognition by studying abused children, whose experiences violated cultural standards of care. We found that the aberrant social experience of abuse was associated with a change in children's perceptual preferences and also altered the discriminative abilities that influence how children categorize angry facial expressions. This study suggests that affective experiences can influence perceptual representations of basic emotions.},
affiliation = {Department of Psychology and Waisman Center, University of Wisconsin, Madison, WI 53706, USA. spollak@wisc.edu},
note = {psytools},
number = {13},
pages = {9072--6},
volume = {99},
year = {2002},
month = {Jun},
language = {eng},
keywords = {Male, Facial Expression, Humans, Case-Control Studies, Child Abuse, Child, Female, Emotions},
date-added = {2010-03-20 19:59:46 +0100},
date-modified = {2010-03-20 20:00:03 +0100},
doi = {10.1073/pnas.142165999},
pii = {142165999},
pmid = {12072570},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pollak-2002-Proc%20Natl%20Acad%20Sci%20USA_Early%20experience%20is.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8233},
read = {Yes},
rating = {0}
}
@article{Asmussen:1983p6270,
author = {S Asmussen and D Edwards},
journal = {Biometrika},
title = {Collapsibility and response variables in contingency tables},
number = {3},
pages = {567--578},
volume = {70},
year = {1983},
date-added = {2010-02-19 22:09:59 +0100},
date-modified = {2010-02-19 22:10:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Asmussen-1983-Biometrika_Collapsibility%20and%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6270},
rating = {0}
}
@article{Kononenko:2010p1843,
author = {I Kononenko},
title = {Inductive and bayesian learning in medical diagnosis},
date-added = {2010-01-10 10:41:59 +0100},
date-modified = {2010-01-10 10:42:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kononenko--_Inductive%20and%20bayesi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1843},
rating = {0}
}
@article{Hanson:2002,
author = {W E Hanson and K T Curry and D L Bandalos},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization of Working Alliance Inventory scale scores},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2159},
rating = {0}
}
@article{Lam:2009p4538,
author = {Elegance Ting Pui Lam and Cindy Lo Kuen Lam and Ching Lung Lai and Man Fung Yuen and Daniel Yee Tak Fong},
journal = {World J Gastroenterol},
title = {Psychometrics of the chronic liver disease questionnaire for Southern Chinese patients with chronic hepatitis B virus infection},
abstract = {AIM: To test the psychometric properties of a Chinese [(Hong Kong) HK] translation of the chronic liver disease questionnaire (CLDQ). METHODS: A Chinese (HK) translation of the CLDQ was developed by iterative translation and cognitive debriefing. It was then administered to 72 uncomplicated and 78 complicated chronic hepatitis B (CHB) patients in Hong Kong together with a structured questionnaire on service utilization, and the Chinese (HK) SF-36 Health Survey Version 2 (SF-36v2). RESULTS: Scaling success was > or = 80% for all but three items. A new factor assessing sleep was found and items of two (Fatigue and Systemic Symptoms) subscales tended to load on the same factor. Internal consistency and test-retest reliabilities ranged from 0.58-0.90 for different subscales. Construct validity was confirmed by the expected correlations between the SF-36v2 Health Survey and CLDQ scores. Mean scores of CLDQ were significantly lower in complicated compared with uncomplicated CHB, supporting sensitivity in detecting differences between groups. CONCLUSION: The Chinese (HK) CLDQ is valid, reliable and sensitive for patients with CHB. Some modifications to the scaling structure might further improve its psychometric properties.},
affiliation = {Department of Medicine, The University of Hong Kong, Hong Kong, China. etplam@gmail.com},
number = {26},
pages = {3288--97},
volume = {15},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Hepatitis B: Chronic, Male, Female, Sensitivity and Specificity, Asian Continental Ancestry Group, Psychometrics, Health Surveys, Cross-Cultural Comparison, Questionnaires, Aged, Language, Humans, Reproducibility of Results, Middle Aged, Quality of Life, Adult},
date-added = {2010-01-29 22:27:04 +0100},
date-modified = {2010-07-29 19:55:16 +0200},
pmid = {19598306},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lam-2009-World%20J%20Gastroenterol_Psychometrics%20of%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4538},
rating = {0}
}
@article{Bolton:2010p4923,
author = {J M Bolton and J Pagura and M W Enns and B Grant and J Sareen},
journal = {J Psychiatr Res},
title = {A population-based longitudinal study of risk factors for suicide attempts in major depressive disorder},
abstract = {No longitudinal study has examined risk factors for future suicide attempts in major depressive disorder in a nationally representative sample. The objective of this study was to investigate baseline sociodemo- graphic characteristics, comorbid mental disorders, specific depressive symptoms, and previous suicidal behavior as potential risk factors for suicide attempts at 3 years follow-up. Data came from the national epidemiologic survey on alcohol and related conditions (NESARC), a large nationally representative lon- gitudinal survey of mental illness in adults [Wave 1 (2001--2002); Wave 2 (2004--2005) n = 34,653]. Logistic regression examined associations between risk factors present at Wave 1 and suicide attempts at Wave 2 (n=169) among individuals with major depressive disorder at baseline assessment (n = 6004). Risk factors for incident suicide attempts at Wave 2 (n = 63) were identified among those with major depressive disorder at Wave 1 and no lifetime history of suicide attempts (n = 5170). Results revealed specific comorbid anxiety, personality, and substance use disorders to be associated with inci- dent suicide attempts at Wave 2. Comorbid borderline personality disorder was strongly associated with suicide attempts in all models. Several comorbid disorders were strongly associated with suicide attempts at Wave 2 even after adjusting for previous suicidal behavior, notably posttraumatic stress dis- order (adjusted odds ratio (AOR) = 2.20; 95% confidence interval (95% CI) 1.27--3.83) and dependent per- sonality disorder (AOR = 4.43; 95% CI 1.93--10.18). These findings suggest that mental illness comorbidity confers an increased risk of future suicide attempts in major depressive disorder that is not solely accounted for by past suicidal behavior.},
year = {2010},
date-added = {2010-02-02 11:27:42 +0100},
date-modified = {2010-07-29 19:35:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bolton-2010-J%20Psychiatr%20Res_A%20population-based%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4923},
rating = {0}
}
@article{Reichenheim:2007p5349,
author = {Michael Eduardo Reichenheim and Claudia Leite Moraes},
journal = {Rev Saude Publica},
title = {[Operationalizing the cross-cultural adaptation of epidemiological measurement instruments]},
abstract = {The objective of the article was to offer an operational framework to assess cross cultural adaptation processes of instruments developed in other linguistic, social and cultural contexts. It covers the need for using robust measurement tools; the importance of 'universal' instruments that permit cross cultural fine-tuning; and stresses the need for adapting existent instruments rather than developing new ones. Existing controversies and proposals for different procedures in current literature are reviewed and a model for adapting instruments is presented. This synthesis covers the operational steps involved in evaluating concepts, semantic and operational items, and presents psychometric analysis guidelines that underlay an evaluation of measurement equivalence. Finally, the need for adequately controlling the quality of information presented in epidemiological studies, including a meticulous cross-cultural adaptation of research agendas, is reinforced.},
affiliation = {Departamento de Epidemiologia, Instituto de Medicina Social, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil. michael@ims.uerj.br},
number = {4},
pages = {665--73},
volume = {41},
year = {2007},
month = {Aug},
language = {por},
keywords = {Questionnaires, Translating, Cross-Cultural Comparison, Epidemiologic Studies, Humans},
date-added = {2010-02-11 09:10:19 +0100},
date-modified = {2010-02-11 09:10:19 +0100},
pii = {S0034-89102007000400024},
pmid = {17589768},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5349},
rating = {0}
}
@article{Cheng:2010p12918,
author = {Y Cheng and K H Yuan},
journal = {Psychometrika},
title = {The impact of fallible item parameter estimates on latent trait recovery},
abstract = {In this paper we propose an upward correction to the standard error (SE) estimation of θˆML, the maximum likelihood (ML) estimate of the latent trait in item response theory (IRT). More specifically, the upward correction is provided for the SE of θˆML when item parameter estimates obtained from an independent pretest sample are used in IRT scoring. When item parameter estimates are employed, the resulting latent trait estimate is called pseudo maximum likelihood (PML) estimate. Traditionally, the SE of θˆML is obtained on the basis of test information only, as if the item parameters are known. The upward correction takes into account the error that is carried over from the estimation of item parameters, in addition to the error in latent trait recovery itself. Our simulation study shows that both types of SE estimates are very good when θ is in the middle range of the latent trait distribution, but the upward- corrected SEs are more accurate than the traditional ones when θ takes more extreme values.},
number = {2},
pages = {280--291},
volume = {75},
year = {2010},
date-added = {2010-06-24 18:01:03 +0200},
date-modified = {2010-06-24 18:02:11 +0200},
doi = {10.1007/S11336-009-9144-X},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cheng-2010-Psychometrika_The%20impact%20of%20fallib.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12918},
rating = {0}
}
@article{Gelhorn:2009,
author = {Heather Gelhorn and Christie Hartman and Joseph Sakai and Susan Mikulich-Gilbertson and Michael Stallings and Susan Young and Soo Rhee and Robin Corley and John Hewitt and Christian Hopfer and Thomas Crowley},
journal = {J Am Acad Child Adolesc Psychiatry},
title = {An item response theory analysis of DSM-IV conduct disorder.},
abstract = {OBJECTIVE: We examined DSM-IV conduct disorder (CD) symptom criteria in a community sample of male and female adolescents to evaluate the extent to which DSM-IV criteria characterize the range of severity of adolescent antisocial behavior within and across sex. METHOD: Interviews were conducted with 3,208 adolescents between the ages of 11 and 18 years using the Diagnostic Interview Schedule for Children. Item response theory analyses were performed to obtain severity and discrimination parameters for each of the lifetime DSM-IV CD symptom criteria. In addition, item response theory-based differential item functioning analyses were conducted to examine the extent to which the symptom criteria function similarly across sex. RESULTS: The DSM-IV CD symptom criteria are useful and meaningful indicators of severe adolescent antisocial behavior. A single item ("Steal without Confrontation") was a poor indicator of severe antisocial behavior. The CD symptom criteria function similarly across sex; however, three items had significantly different severity parameters. CONCLUSIONS: The DSM-IV CD criteria are informative as categorical and continuous measures of severe adolescent antisocial behavior; however, some CD criteria display sex bias.},
affiliation = {School of Medicine at the University of Colorado, Denver, CO, USA. Heather.Gelhorn@UCHSC.edu},
number = {1},
pages = {42--50},
volume = {48},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1097/CHI.0b013e31818b1c4e},
pmid = {19034046},
url = {http://dx.doi.org/10.1097/CHI.0b013e31818b1c4e},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1165},
rating = {0}
}
@article{Wallace:2006p9135,
author = {Helen M Wallace},
journal = {Theoretical biology {\&} medical modelling},
title = {A model of gene-gene and gene-environment interactions and its implications for targeting environmental interventions by genotype},
abstract = {BACKGROUND: The potential public health benefits of targeting environmental interventions by genotype depend on the environmental and genetic contributions to the variance of common diseases, and the magnitude of any gene-environment interaction. In the absence of prior knowledge of all risk factors, twin, family and environmental data may help to define the potential limits of these benefits in a given population. However, a general methodology to analyze twin data is required because of the potential importance of gene-gene interactions (epistasis), gene-environment interactions, and conditions that break the 'equal environments' assumption for monozygotic and dizygotic twins. METHOD: A new model for gene-gene and gene-environment interactions is developed that abandons the assumptions of the classical twin study, including Fisher's (1918) assumption that genes act as risk factors for common traits in a manner necessarily dominated by an additive polygenic term. Provided there are no confounders, the model can be used to implement a top-down approach to quantifying the potential utility of genetic prediction and prevention, using twin, family and environmental data. The results describe a solution space for each disease or trait, which may or may not include the classical twin study result. Each point in the solution space corresponds to a different model of genotypic risk and gene-environment interaction. CONCLUSION: The results show that the potential for reducing the incidence of common diseases using environmental interventions targeted by genotype may be limited, except in special cases. The model also confirms that the importance of an individual's genotype in determining their risk of complex diseases tends to be exaggerated by the classical twin studies method, owing to the 'equal environments' assumption and the assumption of no gene-environment interaction. In addition, if phenotypes are genetically robust, because of epistasis, a largely environmental explanation for shared sibling risk is plausible, even if the classical heritability is high. The results therefore highlight the possibility--previously rejected on the basis of twin study results--that inherited genetic variants are important in determining risk only for the relatively rare familial forms of diseases such as breast cancer. If so, genetic models of familial aggregation may be incorrect and the hunt for additional susceptibility genes could be largely fruitless.},
affiliation = {GeneWatch UK, The Mill House, Tideswell, Buxton, Derbyshire, SK17 8LN, UK. helen.wallace@genewatch.org},
pages = {35},
volume = {3},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Genes, Risk Assessment, Models: Genetic, Genotype, Environment, Primary Prevention, Humans, Twin Studies as Topic},
date-added = {2010-03-22 13:28:59 +0100},
date-modified = {2010-03-22 13:28:59 +0100},
doi = {10.1186/1742-4682-3-35},
pii = {1742-4682-3-35},
pmid = {17029623},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wallace-2006-Theoretical%20biology%20&%20medical%20modelling_A%20model%20of%20gene-gene.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9135},
rating = {0}
}
@article{Grabmeier:2002p3496,
author = {J Grabmeier and A Rudolph},
journal = {Data Mining and Knowledge Discovery},
title = {Techniques of Cluster Algorithms in Data Mining},
abstract = {An overview of cluster analysis techniques from a data mining point of view is given. This is done by a strict separation of the questions of various similarity and distance measures and related optimization criteria for clusterings from the methods to create and modify clusterings themselves. In addition to this general setting and overview, the second focus is used on discussions of the essential ingredients of the demographic cluster algorithm of IBM's Intelligent Miner, based Condorcet's criterion.},
pages = {303--360},
volume = {6},
year = {2002},
date-added = {2010-01-15 15:27:16 +0100},
date-modified = {2010-01-15 15:28:16 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grabmeier-2002-Data%20Mining%20and%20Knowledge%20Discovery_Techniques%20of%20Cluste.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3496},
rating = {0}
}
@article{Robert:2010p13336,
author = {Christian P Robert and Jean-Michel Marin},
journal = {arXiv},
title = {On computational tools for Bayesian data analysis},
abstract = { While Robert and Rousseau (2010) addressed the foundational aspects of Bayesian analysis, the current chapter details its practical aspects through a review of the computational methods available for approximating Bayesian procedures. Recent innovations like Monte Carlo Markov chain, sequential Monte Carlo methods and more recently Approximate Bayesian Computation techniques have considerably increased the potential for Bayesian applications and they have also opened new avenues for Bayesian inference, first and foremost Bayesian model choice. },
annote = {This is a chapter for the book "Bayesian Methods and Expert
Elicitation" edited by Klaus Bocker, 23 pages, 9 figures},
eprint = {1002.2684v2},
volume = {stat.CO},
year = {2010},
month = {Feb},
keywords = {stat.ME, stat.CO},
date-added = {2010-07-01 19:10:15 +0200},
date-modified = {2010-07-01 19:10:15 +0200},
pmid = {1002.2684v2},
url = {http://arxiv.org/abs/1002.2684v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robert-2010-arXiv_On%20computational%20too.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13336},
rating = {0}
}
@article{Blais:2003p4093,
author = {J G Blais and N Loye},
title = {Une {\'e}tude de l'accord et de la fid{\'e}lit{\'e} inter juges comparant un mod{\`e}le de la th{\'e}orie de la g{\'e}n{\'e}ralisabilit{\'e} et un mod{\`e}le de la famille de Rasch},
year = {2003},
date-added = {2010-01-19 23:23:34 +0100},
date-modified = {2010-01-19 23:24:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blais-2003-_Une%20e%CC%81tude%20de%20l%E2%80%99acco.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4093},
rating = {0}
}
@article{Goldberg:1982p13830,
author = {L R Goldberg},
title = {From ace to zombie: Some explorations in the language of personality},
year = {1982},
date-added = {2010-07-29 17:11:05 +0200},
date-modified = {2010-07-29 17:11:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldberg-1982-_From%20ace%20to%20zombie.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13830},
rating = {0}
}
@article{Straus:1996p8309,
author = {M A Straus and S L Hamby and S Boney-McCoy and D B Sugarman},
journal = {Journal of Family Issues},
title = {The Revised Conflict Tactics Scales (CTS2). Develoyment and Preliminary Psychometric Data},
note = {psytools},
number = {3},
pages = {283--316},
volume = {17},
year = {1996},
date-added = {2010-03-20 20:06:00 +0100},
date-modified = {2010-03-20 20:07:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Straus-1996-Journal%20of%20Family%20Issues_The%20Revised%20Conflict.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8309},
rating = {0}
}
@article{Agresti:1999,
author = {Alan Agresti},
journal = {Stat Med},
title = {Modeling ordered categorical data: Recent advances and futur challenges},
abstract = {This article summarizes recent advances in the modelling of ordered categorical (ordinal) response variables. We begin by reviewing some models for ordinal data introduced in the literature in the past 25 years. We then survey recent extensions of these models and related methodology for special types of applications, such as for repeated measurement and other forms of clustering. We also survey other aspects of ordinal modelling, such as small-sample analyses, power and sample size considerations, and availability of software. Throughout, we suggest problem areas for future research and we highlight challenges for statisticians who deal with ordinal data.},
pages = {2191--2207},
volume = {18},
year = {1999},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:17:57 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1882},
rating = {0}
}
@article{Rigozzi:2004p12137,
author = {C Rigozzi and J Rossier},
journal = {Annales M{\'e}dico Psychologiques},
title = {Validation of a short form of the TCI (TCI-56) on a sample of young smokers and non-smokers},
abstract = {The psychobiological seven-factor model proposed by Cloninger et al. (1993) takes into account temperament and character dimensions to describe personality. Four of the dimensions are linked with biological, genetic and neuroanatomic structures, whereas the three other dimensions are related to the degree of individual, social and spiritual development. A study conducted by Wills et al. (1994) with adolescents showed that substance abuse was associated with high scores on Novelty Seeking and low scores on Harm Avoidance and Reward Dependence. The aim of the present study was, firstly, to create a short form of Cloninger's temperament and character inventory (TCI) and, secondly, to study the impact of nicotine dependence as well as demographic variables on a sample of young adults. We created a short form of the TCI containing 56 items (TCI-56), eight for each scale. Responses are made on a five-point Likert type scale. A Swiss sample (n = 211), of 116 women and 95 men, aged from 15 to 30 years, participated in this study. Our population was divided into a group of 81 smokers and another of 130 non-smokers, according to their scores on the Fagerst{\"o}rm test for nicotine dependence (1999). The structural validation consisted of two separate factor analysis with varimax rotations, one for the temperamental items, and the other, for the character ones. The first factor analysis conducted on the items of the temperament scales allowed to extract four factors explaining 40.7% of the variance. The correlations between factors and scales are the following: r = 0.71 for Novelty Seeking, r = 0.69 for Persistence, r = 0.95 for Harm Avoidance, r = 0.94 for Reward Dependence. The second factor analysis conducted on the items of the character scales allowed to extract three factors explaining 41.5% of the variance. The correlations between factors and scales are the following: r = 0.94 for Self-Directedness, r = 0.91 for Cooperativeness and r = 0.99 for Self-Transcendence. The internal consistencies range from = 0.65 to = 0.75 for the temperament scales, and from = 0.71 to = 0.83 for the three character scales. Concerning, the impact of the nicotine dependence, we observed that smokers have significantly higher scores for Novelty seeking, than non-smokers (P = 0.01). We found no difference for Harm Avoidance and Reward Dependence. Nevertheless, smokers seem to have the tendency to score higher on Transcendence (P = 0.06). Moreover, people having smoked more than 100 cigarettes in their life have significantly higher scores on this scale (P = 0.04) and the correlation between Transcendence and the Fagerst{\"o}rm test is significant (r = 0.19). We also found gender differences: the women (N = 116) obtain significantly higher scores for Harm Avoidance (P < 0.001), for Reward Dependence (P < 0.001) and for Cooperation (P = 0.01). We further found a significant correlation between age and Self-Directedness, r = 0.34. We observed no interaction between gender and smoking or age and smoking on the dimensions of the TCI-56. The TCI short form (TCI-56) seems to be a valid and useful inventory to assess personality differences. Confirming the results of others about the relation between addiction and personality, we found that smokers have significantly higher scores for Novelty seeking, than non-smokers. But we were not able to find any significant differences for Harm Avoidance and Reward Dependence. This might be due to our sample that was made of young adults. This study also shows that Transcendence could be an interesting dimension for studies on tobacco smoking to consider. Concerning the impact of demographic variables, we observed that age and gender have specific and coherent influence on personality.},
pages = {541--548},
volume = {162},
year = {2004},
date-added = {2010-05-30 10:33:03 +0200},
date-modified = {2010-05-30 10:34:31 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rigozzi-2004-Annales%20Me%CC%81dico%20Psychologiques_Validation%20of%20a%20shor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12137},
rating = {0}
}
@article{Muthen:1981p11750,
author = {B Muth{\'e}n and A Christoffersson},
journal = {Psychometrika},
title = {Simultaneous factor analysis of dichotomous variables in several groups},
number = {4},
pages = {407--419},
volume = {46},
year = {1981},
date-added = {2010-05-14 21:56:46 +0200},
date-modified = {2010-05-14 21:58:03 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1981-Psychometrika_Simultaneous%20factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11750},
rating = {0}
}
@article{Whitehead:2005p14032,
author = {Andrew Whitehead and Douglas L Crawford},
journal = {Genome Biol},
title = {Variation in tissue-specific gene expression among natural populations},
abstract = {BACKGROUND: Variation in gene expression is extensive among tissues, individuals, strains, populations and species. The interactions among these sources of variation are relevant for physiological studies such as disease or toxic stress; for example, it is common for pathologies such as cancer, heart failure and metabolic disease to be associated with changes in tissue-specific gene expression or changes in metabolic gene expression. But how conserved these differences are among outbred individuals and among populations has not been well documented. To address this we examined the expression of a selected suite of 192 metabolic genes in brain, heart and liver in three populations of the teleost fish Fundulus heteroclitus using a highly replicated experimental design. RESULTS: Half of the genes (48%) were differentially expressed among individuals within a population-tissue group and 76% were differentially expressed among tissues. Differences among tissues reflected well established tissue-specific metabolic requirements, suggesting that these measures of gene expression accurately reflect changes in proteins and their phenotypic effects. Remarkably, only a small subset (31%) of tissue-specific differences was consistent in all three populations. CONCLUSIONS: These data indicate that many tissue-specific differences in gene expression are unique to one population and thus are unlikely to contribute to fundamental differences between tissue types. We suggest that those subsets of treatment-specific gene expression patterns that are conserved between taxa are most likely to be functionally related to the physiological state in question.},
affiliation = {Rosenstiel School of Marine and Atmospheric Science, University of Miami, 4600 Rickenbacker Causeway, Miami, FL 33149, USA. awhitehead@rsmas.miami.edu},
number = {2},
pages = {R13},
volume = {6},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Genetic Variation, Gene Expression, Fundulidae, Liver, Brain, Gene Expression Regulation, Organ Specificity, Male, Animals, Myocardium, Gene Expression Profiling, Reproducibility of Results},
date-added = {2010-08-09 10:04:42 +0200},
date-modified = {2010-08-09 10:04:42 +0200},
doi = {10.1186/gb-2005-6-2-r13},
pii = {gb-2005-6-2-r13},
pmid = {15693942},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Whitehead-2005-Genome%20Biol_Variation%20in%20tissue.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14032},
rating = {0}
}
@article{Altman:2001,
author = {Douglas G Altman},
journal = {British Medical Journal},
title = {Systematic reviews of evaluations of prognostic variables},
abstract = {Prognostic studies include clinical studies of variables predictive of future events as well as epidemiological studies of aetiological risk factors. As multiple similar studies accumulate it becomes increasingly important to identify and evaluate all of the relevant studies to develop a more reliable overall assessment. For prognostic studies this is not straightforward. Box 1 summarises the clinical importance of information on prognostic factors. Many of the issues discussed are also relevant to aetiological studies, especially cohort ones. Some features of prognostic studies lead to particular difficulties for the systematic reviewer. Firstly, in most clinical prognostic studies the outcome of primary interest is the time to an event, often death. Meta-analysis of such studies is rather more difficult than that for binary data or continuous measurements. Secondly, in many contexts the prognostic variable of interest is often one of several prognostic variables. When examining a variable of interest researchers should consider other prognostic variables with which it might be correlated. Thirdly, many prognostic factors are continuous variables, for which researchers use a wide variety of methods of analysis.},
pages = {224--228},
volume = {323},
year = {2001},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-07-29 20:20:56 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1098},
rating = {0}
}
@article{vanAsselt:2009p6659,
author = {A D I van Asselt and C D Dirksen and A Arntz and J H Giesen-Bloo and J L Severens},
journal = {Eur Psychiatry},
title = {The EQ-5D: A useful quality of life measure in borderline personality disorder?},
abstract = {INTRODUCTION: Borderline Personality Disorder (BPD) is a severe psychiatric disorder and is associated with significant impairment in quality of life. The aim of the present study is to assess the internal and external responsiveness of the EuroQoL-5D (EQ-5D) in BPD patients. PATIENTS AND METHODS: Data from 49 patients included in a multi-center Dutch randomized trial were used. We used both the EQ-5D utility score and the Visual Analogue Scale of the EuroQoL, and the Borderline Personality Disorder Severity Index-IV (BPDSI-IV). To determine internal responsiveness, we calculated the standardized response mean (SRM). To determine external responsiveness, we calculated Spearman correlations for the change scores, and compared EQ-5D scores for clinically improved vs. non-clinically improved patients as measured with the BPDSI-IV. RESULTS: Patient scores improved on all instruments during the three years. SRMs for BPDSI-IV were significantly higher than EQ-5D utility. Three-year Spearman correlation between change scores of BPDSI-IV and EQ-5D utility was 0.487, between BPDSI-IV and EQ-VAS it was 0.404, both statistically significant. EQ-5D utility scores for patients who clinically improved were significantly higher than for patients who did not. DISCUSSION: We conclude that the EQ-5D is fairly responsive in BPD, and, therefore, especially because of its brevity and user-friendliness, can serve as a useful tool in economic evaluations in patients with BPD.},
affiliation = {Department Of Clinical Epidemiology and Medical Technology Assessment, Maastricht University Medical Center, P.O. Box 5800, 6202 AZ Maastricht, The Netherlands. thea.van.asselt@mumc.nl},
number = {2},
pages = {79--85},
volume = {24},
year = {2009},
month = {Mar},
language = {eng},
keywords = {Questionnaires, Female, Pain Measurement, Self Disclosure, Severity of Illness Index, Borderline Personality Disorder, Netherlands, Male, Interview: Psychological, Psychometrics, Reproducibility of Results, Humans, Quality of Life, Adult},
date-added = {2010-03-03 20:41:25 +0100},
date-modified = {2010-03-03 20:41:25 +0100},
doi = {10.1016/j.eurpsy.2008.11.001},
pii = {S0924-9338(08)01654-4},
pmid = {19095421},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Asselt-2009-Eur%20Psychiatry_The%20EQ-5D%20A%20useful.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6659},
rating = {0}
}
@article{Zubicaray:2007,
author = {G de Zubicaray and K McMahon and M Eastburn and A J Pringle and L Lorenz and M S Humphreys},
journal = {Neuropsychologia},
title = {Support for an auto-associative model of spoken cued recall: Evidence from fMRI},
pages = {824--835},
volume = {45},
year = {2007},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zubicaray-2007-Neuropsychologia_Support%20for%20an%20auto.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2092},
rating = {0}
}
@article{Petersen:2003p12459,
author = {Morten Aa Petersen and Mogens Groenvold and Jakob B Bjorner and Neil K Aaronson and Thierry Conroy and Ann Cull and Peter Fayers and Marianne Hjermstad and Mirjam Sprangers and Marianne Sullivan and European Organisation for Research and Treatment of Cancer Quality of Life Group},
journal = {Qual Life Res},
title = {Use of differential item functioning analysis to assess the equivalence of translations of a questionnaire},
abstract = {In cross-national comparisons based on questionnaires, accurate translations are necessary to obtain valid results. Differential item functioning (DIF) analysis can be used to test whether translations of items in multi-item scales are equivalent to the original. In data from 10,815 respondents representing 10 European languages we tested for DIF in the nine translations of the EORTC QLQ-C30 emotional function scale when compared to the original English version. We tested for DIF using two different methods in parallel, a contingency table method and logistic regression. The DIF results obtained with the two methods were similar. We found indications of DIF in seven of the nine translations. At least two of the DIF findings seem to reflect linguistic problems in the translation. 'Imperfect' translations can affect conclusions drawn from cross-national comparisons. Given that translations can never be identical to the original we discuss how findings of DIF can be interpreted and discuss the difference between linguistic DIF and DIF caused by confounding, cross-cultural differences, or DIF in other items in the scale. We conclude that testing for DIF is a useful way to validate questionnaire translations.},
affiliation = {Department of Palliative Medicine, Bispebjerg Hospital, Copenhagen, Denmark. map01@bbh.hosp.dk},
number = {4},
pages = {373--85},
volume = {12},
year = {2003},
month = {Jun},
language = {eng},
keywords = {Female, Health Status Indicators, Translating, Adult, Male, Logistic Models, Middle Aged, Questionnaires, Reproducibility of Results, Aged, Humans, Culture},
date-added = {2010-06-15 17:35:57 +0200},
date-modified = {2010-07-29 20:13:56 +0200},
pmid = {12797710},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Petersen-2003-Qual%20Life%20Res_Use%20of%20differential.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12459},
rating = {0}
}
@article{Gilmore:2010p7652,
author = {Casey S Gilmore and Stephen M Malone and William G Iacono},
journal = {Behav Genet},
title = {Brain electrophysiological endophenotypes for externalizing psychopathology: a multivariate approach},
abstract = {Abnormalities in electrophysiological measures of stimulus-evoked brain activity (including the P3 event-related potential (ERP) and its associated delta and theta time-frequency (TF) components), and intrinsic, resting state brain activity (including EEG in the beta frequency band) have each been associated with biological vulnerability to a variety of externalizing (EXT) spectrum disorders, such as substance use disorders, conduct disorder, and antisocial behavior. While each of these individual measures has shown promise as an endophenotype for one or more aspects of EXT, we proposed that the power to identify EXT-related genes may be enhanced by using these measures collectively. Thus, we sought to explore a multivariate approach to identifying electrophysiological endophenotypes related to EXT, using measures identified in the literature as promising individual endophenotypes for EXT. Using data from our large twin sample (634 MZ and 335 DZ, male and female same-sex pairs), and fitting multivariate biometric Cholesky models, we found that these measures (1) were heritable, (2) showed significant phenotypic and genetic correlation with a general vulnerability to EXT (which is itself highly heritable), (3) showed modest phenotypic and genetic correlation with each other, and (4) were sensitive to genetic effects that differed as a function of gender. These relationships suggest that these endophenotypes are likely tapping into neurophysiological processes and genes that are both common across them and unique to each-all of which are relevant to a biological vulnerability to EXT psychopathology.},
affiliation = {Department of Psychology, University of Minnesota, Elliott Hall, 75 East River Road, Minneapolis, MN, 55455, USA. gilmo077@umn.edu},
number = {2},
pages = {186--200},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:20:58 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9343-3},
pmid = {20155392},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gilmore-2010-Behav%20Genet_Brain%20electrophysiol.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7652},
rating = {4}
}
@misc{Garcia-Zattera:2005,
author = {M J Garcia-Zattera and A Jara and E Lesaffre and D Declerck},
journal = {Miscellaneous},
title = {Conditional independence of multivariate binary data with an application in caries research},
note = {check publication date},
year = {2005},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Garcia-Zattera-2005-Miscellaneous_Conditional%20independ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2123},
rating = {0}
}
@article{deLeeuw:2005p4266,
author = {Jan de Leeuw},
title = {Mixed linear models},
year = {2005},
date-added = {2010-01-23 21:30:58 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2005-_Mixed%20linear%20models.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4266},
read = {Yes},
rating = {0}
}
@article{Kumar:2009p3751,
author = {Ravinesh A Kumar and Susan L Christian},
journal = {Curr Neurol Neurosci Rep},
title = {Genetics of autism spectrum disorders},
abstract = {Autism spectrum disorders (ASDs) are a clinically complex group of childhood disorders that have firm evidence of an underlying genetic etiology. Many techniques have been used to characterize the genetic bases of ASDs. Linkage studies have identified several replicated susceptibility loci, including 2q24-2q31, 7q, and 17q11-17q21. Association studies and mutation analysis of candidate genes have implicated the synaptic genes NRXN1, NLGN3, NLGN4, SHANK3, and CNTNAP2 in ASDs. Traditional cytogenetic approaches highlight the high frequency of large chromosomal abnormalities (3%-7% of patients), including the most frequently observed maternal 15q11-13 duplications (1%-3% of patients). Newly developed techniques include high-resolution DNA microarray technologies, which have discovered formerly undetectable submicroscopic copy number variants, and genomewide association studies, which allow simultaneous detection of multiple genes associated with ASDs. Although great progress has been made in autism genetics, the molecular bases of most ASDs remains enigmatic.},
affiliation = {Department of Human Genetics, University of Chicago, 920 East 58th Street, MC0077, Chicago, IL 60637, USA. schrist@bsd.uchicago.edu},
number = {3},
pages = {188--97},
volume = {9},
year = {2009},
month = {May},
language = {eng},
keywords = {Chromosome Mapping, Autistic Disorder, Humans, DNA Mutational Analysis, Genetic Predisposition to Disease, Genome-Wide Association Study},
date-added = {2010-01-16 20:58:51 +0100},
date-modified = {2010-01-16 20:58:51 +0100},
pmid = {19348707},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3751},
rating = {0}
}
@proceedings{Keller:2002,
author = {J Keller},
journal = {Proceedings},
title = {Annual College of Education Educational Research Exchange},
number = {2},
year = {2002},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1867},
rating = {0}
}
@article{Stacey:2006,
author = {K Stacey and V Steinle},
journal = {Mathematics Education Research Journal},
title = {A Case of the Inapplicability of the Rasch Model: Mapping Conceptual Learning},
number = {2},
pages = {77--92},
volume = {18},
year = {2006},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 19:39:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stacey-2006-Mathematics%20Education%20Research%20Journal_A%20Case%20of%20the%20Inappl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2227},
rating = {0}
}
@article{Tishkoff:2000p9854,
author = {S A Tishkoff and A J Pakstis and G Ruano and K K Kidd},
journal = {Am J Hum Genet},
title = {The accuracy of statistical methods for estimation of haplotype frequencies: an example from the CD4 locus},
abstract = {Haplotype analysis has become increasingly important for the study of human disease as well as for reconstruction of human population histories. Computer programs have been developed to estimate haplotype frequencies statistically from marker phenotypes in unrelated individuals. However, there currently are few empirical reports on the accuracy of statistical estimates that must infer linkage phase. We have analyzed haplotypes at the CD4 locus on chromosome 12 that consist of a short tandem-repeat polymorphism and an Alu insertion/deletion polymorphism located 9.8 kb apart, in 398 individuals from 10 geographically diverse sub-Saharan African populations. Haplotype frequency estimates obtained using gene counting based on molecularly haplotyped (phase-known) data were compared with haplotype frequency estimates obtained using the expectation-maximization algorithm. We show that the estimated frequencies of common haplotypes do not differ significantly with the use of phase-known versus phase-unknown data. However, rare haplotypes are occasionally miscalled when their presence/absence must be inferred. Thus, for those research questions for which the common haplotypes are most important, frequency estimates based on the phase-unknown marker-typing results from unrelated individuals will be sufficient. However, in cases where knowledge of rare haplotypes is critical, molecular haplotyping will be necessary to determine linkage phase unambiguously.},
affiliation = {Department of Genetics, Yale University School of Medicine, New Haven, CT 06520, USA.},
number = {2},
pages = {518--22},
volume = {67},
year = {2000},
month = {Aug},
language = {eng},
keywords = {Statistics as Topic, Linkage Disequilibrium, Software, Genetic Markers, Chromosomes: Human: Pair 12, Sensitivity and Specificity, Antigens: CD4, Humans, Alu Elements, Algorithms, Haplotypes, Tandem Repeat Sequences, Heterozygote, Research Design, Africa South of the Sahara, Gene Frequency, Polymorphism: Genetic, Mutation},
date-added = {2010-03-26 19:30:10 +0100},
date-modified = {2010-03-26 19:30:10 +0100},
doi = {10.1086/303000},
pii = {S0002-9297(07)62664-0},
pmid = {10859209},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tishkoff-2000-Am%20J%20Hum%20Genet_The%20accuracy%20of%20stat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9854},
rating = {0}
}
@article{Harrell:1999p12857,
author = {F E Harrell},
title = {Some Sample Size and Power Considerations for Clinical Studies},
year = {1999},
date-added = {2010-06-22 08:17:29 +0200},
date-modified = {2010-06-22 08:18:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harrell-1999-_Some%20Sample%20Size%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12857},
rating = {5}
}
@article{Haertel:1990p12889,
author = {E H Haertel},
journal = {Psychometrika},
title = {Continuous and discrete latent structure models for item response data},
abstract = {Relations are examined between latent trait and latent class models for item response data. Conditions are given for the two-latent class and two-parameter normal ogive models to agree, and relations between their item parameters are presented. Generalizations are then made to continuous models with more than one latent trait and discrete models with more than two latent classes, and methods are presented for relating latent class models to factor models for dichotomized variables. Results are illustrated usingdata from the Law School Admission Test, previously analyzed by several authors.},
number = {3},
pages = {477--494},
volume = {55},
year = {1990},
date-added = {2010-06-24 13:18:55 +0200},
date-modified = {2010-06-24 13:19:48 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Haertel-1990-Psychometrika_Continuous%20and%20discr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12889},
rating = {0}
}
@article{Wang:2007p13429,
author = {Jinliang Wang},
journal = {Genet Res},
title = {Triadic IBD coefficients and applications to estimating pairwise relatedness},
abstract = {Knowledge of the genetic relatedness among individuals is essential in diverse research areas such as behavioural ecology, conservation biology, quantitative genetics and forensics. How to estimate relatedness accurately from genetic marker information has been explored recently by many methodological studies. In this investigation I propose a new likelihood method that uses the genotypes of a triad of individuals in estimating pairwise relatedness (r). The idea is to use a third individual as a control (reference) in estimating the r between two other individuals, thus reducing the chance of genes identical in state being mistakenly inferred as identical by descent. The new method allows for inbreeding and accounts for genotype errors in data. Analyses of both simulated and human microsatellite and SNP datasets show that the quality of r estimates (measured by the root mean squared error, RMSE) is generally improved substantially by the new triadic likelihood method (TL) over the dyadic likelihood method and five moment estimators. Simulations also show that genotyping errors/mutations, when ignored, result in underestimates of r for related dyads, and that incorporating a model of typing errors in the TL method improves r estimates for highly related dyads but impairs those for loosely related or unrelated dyads. The effects of inbreeding were also investigated through simulations. It is concluded that, because most dyads in a natural population are unrelated or only loosely related, the overall performance of the new triadic likelihood method is the best, offering r estimates with a RMSE that is substantially smaller than the five commonly used moment estimators and the dyadic likelihood method.},
affiliation = {Institute of Zoology, Zoological Society of London, Regent's Park, London NW1 4RY, UK. jinliang.wang@ioz.ac.uk},
number = {3},
pages = {135--53},
volume = {89},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Likelihood Functions, Genotype, Humans, Genetic Markers, Computer Simulation, Genetics: Population, Pedigree, Models: Genetic, Inheritance Patterns, Research Design},
date-added = {2010-07-01 19:42:13 +0200},
date-modified = {2010-07-01 19:42:13 +0200},
doi = {10.1017/S0016672307008798},
pii = {S0016672307008798},
pmid = {17894908},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2007-Genet%20Res_Triadic%20IBD%20coeffici.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13429},
rating = {0}
}
@article{Young:2009p5884,
author = {Deidra J Young and Florence Levy and Neilson C Martin and David A Hay},
journal = {Child Psychiatry Hum Dev},
title = {Attention deficit hyperactivity disorder: a Rasch analysis of the SWAN Rating Scale},
abstract = {The prevalence of attention-deficit/hyperactivity disorder (ADHD) has been estimated at 3-7% in the population. Children with this disorder are often characterized by symptoms of inattention and/or impulsivity and hyperactivity, which can significantly impact on many aspects of their behaviour and performance. This study investigated the characteristics of the SWAN Rating Scale and its discrimination of ADHD subtypes. This instrument was developed by Swanson and his colleagues and measures attentiveness and hyperactivity on a continuum, from attention problems to positive attention skills, using a seven-point scale of behaviour: "far below average" to "far above average". The Australian Twin Attention-Deficit/Hyperactivity Disorder Study consists of questionnaire data collected from families in 1990/2007. The Rasch model was used to measure the characteristics of items from the SWAN Rating Scale; how well these items discriminated between those with and without ADHD. The prevalence of each subtype was found to be 5.3% for inattentive ADHD, 4.3% for hyperactive ADHD and 4.6% for combined ADHD. A total of 14.2% of the cohort appeared to have ADHD. While the inattentive items appeared to be consistent with each other in their measurement behaviour and response patterns, the hyperactive items were less consistent. Further, the combined subtype appeared to be an entirely different type, with unique features unlike the other two subtypes. Further work is needed to distinguish the diagnostic features of each subtype of ADHD.},
affiliation = {School of Psychology, Curtin University of Technology, WA, Australia. D.Young@curtin.edu.au},
number = {4},
pages = {543--59},
volume = {40},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Child, Female, Prevalence, Psychiatric Status Rating Scales, Models: Psychological, Analysis of Variance, Adolescent, Severity of Illness Index, Twins, Australia, Humans, Questionnaires, Male, Attention Deficit Disorder with Hyperactivity},
date-added = {2010-02-17 15:14:02 +0100},
date-modified = {2010-02-17 15:14:02 +0100},
doi = {10.1007/s10578-009-0143-z},
pmid = {19455417},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Young-2009-Child%20Psychiatry%20Hum%20Dev_Attention%20deficit%20hy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5884},
rating = {0}
}
@article{ChronisTuscano:2009p1234,
author = {Andrea Chronis-Tuscano and Kathryn Amey Degnan and Daniel S Pine and Koraly Perez-Edgar and Heather A Henderson and Yamalis Diaz and Veronica L Raggi and Nathan A Fox},
journal = {J Am Acad Child Adolesc Psychiatry},
title = {Stable early maternal report of behavioral inhibition predicts lifetime social anxiety disorder in adolescence},
abstract = {OBJECTIVE: Behavioral inhibition (BI), a temperamental style identifiable in early childhood, is considered a risk factor for the development of anxiety disorders, particularly social anxiety disorder (SAD). However, few studies examining this question have evaluated the stability of BI across multiple developmental time points and followed participants into adolescence-the developmental period during which risk for SAD onset is at its peak. The current study used a prospective longitudinal design to determine whether stable early BI predicted the presence of psychiatric disorders and continuous levels of social anxiety in adolescents. It was hypothesized that stable BI would predict the presence of adolescent psychiatric diagnoses, specifically SAD. METHOD: Participants included 126 adolescents aged 14 to 16 years who were first recruited at 4 months of age from hospital birth records. Temperament was measured at multiple time points between the ages of 14 months and 7 years. In adolescence, diagnostic interviews were conducted with parents and adolescents, and continuous measures of adolescent- and parent-reported social anxiety were collected. RESULTS: Stable maternal-reported early BI was associated with 3.79 times increased odds of a lifetime SAD diagnosis, but not other diagnoses, during adolescence (95% confidence interval 1.18-12.12). Stable maternal-reported early BI also predicted independent adolescent and parent ratings of ongoing social anxiety symptoms. CONCLUSIONS: Findings suggesting that stable maternal-reported early BI predicts lifetime SAD have important implications for the early identification and prevention of SAD.},
affiliation = {Department of Psychology, University of Maryland, College Park, MD 20742, USA. achronis@psyc.umd.edu},
number = {9},
pages = {928--35},
volume = {48},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Humans, Male, Female, Adolescent, Longitudinal Studies, Infant, Early Diagnosis, Child: Preschool, Inhibition (Psychology), Personality Assessment, Risk Factors, Temperament, Child, Phobic Disorders},
date-added = {2010-01-07 11:23:29 +0100},
date-modified = {2010-01-07 11:23:29 +0100},
doi = {10.1097/CHI.0b013e3181ae09df},
pmid = {19625982},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1234},
rating = {0}
}
@article{Hines:2003p8307,
author = {Denise A Hines and Kimberly J Saudino},
journal = {Violence Vict},
title = {Gender differences in psychological, physical, and sexual aggression among college students using the revised conflict tactics scales},
abstract = {In response to criticisms of the Conflict Tactics Scales, Straus revised the original scale to include sexual aggression and injury. The purpose of the present study was to use this new scale to replicate and expand existing knowledge of psychological, physical, and sexual aggression in dating relationships. Four-hundred-eighty-one college students completed the Revised Conflict Tactics Scales. As expected, females reported perpetrating more psychological aggression than males; there were no gender differences in reported physical aggression; and psychological and physical aggression tended to co-occur. Contrary to previous research, there were no gender differences in injuries. As expected, males reported perpetrating more sexual coercion than females; however, females also reported perpetrating sexual aggression, and there were no gender differences in reported victimization. For males, sexual coercion perpetration (not victimization) was related to the perpetration and victimization of physical and psychological aggression. For females, both sexual coercion perpetration and victimization were related to the perpetration and victimization of psychological aggression and victimization from physical aggression, but not to physical aggression perpetration.},
affiliation = {Department of Psychology, Boston University, MA 02215, USA. dahines@bu.edu},
number = {2},
pages = {197--217},
volume = {18},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Sex Factors, Aggression, Coercion, Adult, Sexual Behavior, United States, Students, Self Assessment (Psychology), Humans, Male, Universities, Female, Conflict (Psychology), Adolescent, Crime Victims},
date-added = {2010-03-20 20:05:41 +0100},
date-modified = {2010-03-20 20:05:42 +0100},
pmid = {12816404},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8307},
rating = {0}
}
@article{Mackay:2009p11228,
author = {Trudy F C Mackay},
journal = {Genetica},
title = {The genetic architecture of complex behaviors: lessons from Drosophila},
abstract = {Complex behaviors are affected by multiple interacting loci with individually small and environmentally sensitive effects. Understanding the genetic architecture of behavioral traits begins with identifying the genes regulating these traits, mapping the subset of genetically varying quantitative trait loci (QTLs) in natural populations, and pinpointing the molecular polymorphisms defining QTL alleles. Drosophila brings an impressive toolkit to the challenge of genetically dissecting complex traits: P transposable element mutagenesis to identify genes regulating these traits; artificial selection from natural populations to create extreme trait phenotypes; high resolution mapping to identify positional candidate genes corresponding to QTLs; linkage disequilibrium mapping to identify molecular polymorphism(s) that functionally define QTL alleles; and whole genome transcriptional profiling to postulate networks of interacting genes affecting complex traits. Studies in Drosophila have revealed large numbers of pleiotropic genes that interact epistatically to regulate behavioral traits, and that can have sex- and environment-specific effects. These observations offer valuable lessons for understanding the genetic basis of variation for complex behaviors in other organisms, including humans.},
affiliation = {Department of Genetics and The Keck Center for Behavioral Biology, North Carolina State University, Campus Box 7614, Raleigh, NC 27695, USA. trudy_mackay@ncsu.edu},
number = {2},
pages = {295--302},
volume = {136},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Gene Expression Profiling, Drosophila, Epistasis: Genetic, Humans, Genome, Male, Quantitative Trait Loci, Female, Mutagenesis, Gene Regulatory Networks, Animals, Chromosome Mapping, Behavior: Animal},
date-added = {2010-04-25 21:30:30 +0200},
date-modified = {2010-04-25 21:30:30 +0200},
doi = {10.1007/s10709-008-9310-6},
pmid = {18758968},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11228},
rating = {0}
}
@article{Vehkalahti:2007p1540,
author = {K Vehkalahti and S Puntanen and L Tarkkonen},
journal = {Computational Statistics},
title = {Effects of measurement errors in predictor selection of linear regression model},
abstract = {Measurement errors may affect the predictor selection of the linear regression model. These effects are studied using a measurement framework, where the variances of the measurement errors can be estimated without setting too restrictive assumptions about the measurement model. In this approach, the problem of measurement is solved in a reduced true score space, where the latent true score is multidimensional, but its dimension is smaller than the number of the measurable variables. Various measurement scales are then created to be used as predictors in the regression model. The stability of the predictor selection as well as the estimated predicted validity and the reliability of the prediction scales is examined by Monte Carlo simulations. Varying the magnitude of the measurement error variance four sets of predictors are compared: all variables, a stepwise selection, factor sums, and factor scores. The results indicate that the factor scores offer a stable method for predictor selection, whereas the other alternatives tend to give biased results leading more or less to capitalizing on chance.},
affiliation = {Department of Mathematics and Statistics, University of Helsinki, P.O. Box 54, FI-00014 Helsinki, Finland},
pages = {1183--1195},
volume = {52},
year = {2007},
keywords = {Factor analysis, Reliability, Regression, Validity, Measurement error},
date-added = {2010-01-07 16:25:01 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
doi = {10.1016/j.csda.2007.05.005},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vehkalahti-2007-Computational%20Statistics_Effects%20of%20measureme.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1540},
rating = {0}
}
@article{Fairclough:1998p5978,
author = {D L Fairclough and H F Peterson and D Cella and P Bonomi},
journal = {Stat Med},
title = {Comparison of several model-based methods for analysing incomplete quality of life data in cancer clinical trials},
abstract = {This paper considers five methods of analysis of longitudinal assessment of health related quality of life (QOL) in two clinical trials of cancer therapy. The primary difference in the two trials is the proportion of participants who experience disease progression or death during the period of QOL assessments. The sensitivity of estimation of parameters and hypothesis tests to the potential bias as a consequence of the assumptions of missing completely at random (MCAR), missing at random (MAR) and non-ignorable mechanisms are examined. The methods include complete case analysis (MCAR), mixed-effects models (MAR), a joint mixed-effects and survival model and a pattern-mixture model. Complete case analysis overestimated QOL in both trials. In the adjuvant breast cancer trial, with 15 per cent disease progression, estimates were consistent across the remaining four methods. In the advanced non-small-cell lung cancer trial, with 35 per cent mortality, estimates were sensitive to the missing data assumptions and methods of analysis.},
affiliation = {Center for Research Methodology and Biometry, AMC Cancer Research Center, Denver, CO 80214, USA. fairclough@amc.org},
number = {5-7},
pages = {781--96},
volume = {17},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Regression Analysis, Neoplasms, Lung Neoplasms, Research Design, Longitudinal Studies, Models: Statistical, Breast Neoplasms, Carcinoma: Non-Small-Cell Lung, Clinical Trials as Topic, Humans, Female},
date-added = {2010-02-18 23:30:33 +0100},
date-modified = {2010-02-18 23:30:33 +0100},
pii = {10.1002/(SICI)1097-0258(19980315/15)17:5/7<781::AID-SIM821>3.0.CO;2-O},
pmid = {9549823},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5978},
rating = {0}
}
@article{Samson:2006p2310,
author = {A Samson},
title = {Estimation dans les mod{\`e}les non-lin{\'e}aires {\`a} effets mixtes : extensions de l'algorithme SAEM pour l'analyse de la dynamique virale sous traitement anti-VIH},
year = {2006},
date-added = {2010-01-10 12:25:54 +0100},
date-modified = {2010-01-10 12:26:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Samson-2006-_Estimation%20dans%20les.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2310},
rating = {0}
}
@article{Witten:2009p2589,
author = {Daniela M Witten and Robert Tibshirani and Trevor Hastie},
journal = {Biostatistics},
title = {A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis},
abstract = {We present a penalized matrix decomposition (PMD), a new framework for computing a rank-K approximation for a matrix. We approximate the matrix X as circumflexX = sigma(k=1)(K) d(k)u(k)v(k)(T), where d(k), u(k), and v(k) minimize the squared Frobenius norm of X - circumflexX, subject to penalties on u(k) and v(k). This results in a regularized version of the singular value decomposition. Of particular interest is the use of L(1)-penalties on u(k) and v(k), which yields a decomposition of X using sparse vectors. We show that when the PMD is applied using an L(1)-penalty on v(k) but not on u(k), a method for sparse principal components results. In fact, this yields an efficient algorithm for the "SCoTLASS" proposal (Jolliffe and others 2003) for obtaining sparse principal components. This method is demonstrated on a publicly available gene expression data set. We also establish connections between the SCoTLASS method for sparse principal component analysis and the method of Zou and others (2006). In addition, we show that when the PMD is applied to a cross-products matrix, it results in a method for penalized canonical correlation analysis (CCA). We apply this penalized CCA method to simulated data and to a genomic data set consisting of gene expression and DNA copy number measurements on the same set of samples.},
affiliation = {Department of Statistics, Stanford University, Stanford, CA 94305, USA. dwitten@stanford.edu},
number = {3},
pages = {515--34},
volume = {10},
year = {2009},
month = {Jul},
language = {eng},
keywords = {DNA: Neoplasm, Breast Neoplasms, Algorithms, Chromosomes: Human: Pair 1, Biometry, Genomics, Gene Dosage, Models: Statistical, Data Interpretation: Statistical, Principal Component Analysis, Female, Humans},
date-added = {2010-01-12 22:29:31 +0100},
date-modified = {2010-03-16 23:24:09 +0100},
doi = {10.1093/biostatistics/kxp008},
pii = {kxp008},
pmid = {19377034},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Witten-2009-Biostatistics_A%20penalized%20matrix%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2589},
read = {Yes},
rating = {3}
}
@article{FaisalCury:2008p8077,
author = {Alexandre Faisal-Cury and Paulo Rossi Menezes and Jose J{\'u}lio A Tedesco and Soubhi Kahalle and Marcelo Zugaib},
journal = {Span J Psychol},
title = {Maternity "blues": prevalence and risk factors},
abstract = {OBJECTIVES: estimate the prevalence and track the risk factors associated with, Maternity blues (MB). METHODS: a transversal study was performed with 113 women, on the tenth day of puerperium. The following instruments were used: Pitt Scale (1968), Stein (1980), Inventory for stressful life events by Holmes {\&} Rahe (1967), and a questionnaire with sociodemographic and obstetric data. RESULTS: the prevalence of MB was 32.7% according to the Stein scale. In the univariated analysis, civil status and tobacco use were associated with MB. Legally married women and nonsmokers showed a risk approximately 4 times lower of experiencing the problem. CONCLUSIONS: MB was very prevalent in this sample. Obstetricians must be aware of this condition which may be associated with postpartum depression.},
affiliation = {Hospital Universit{\'a}rio de S{\~a}o Paulo, Brazil. faisal@hu.usp.br},
number = {2},
pages = {593--9},
volume = {11},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Depression: Postpartum, Young Adult, Socioeconomic Factors, Brazil, Adult, Health Surveys, Life Change Events, Marital Status, Personality Inventory, Cross-Sectional Studies, Humans, Adolescent, Female, Risk Factors, Smoking},
date-added = {2010-03-20 19:47:37 +0100},
date-modified = {2010-07-29 19:53:35 +0200},
pmid = {18988444},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Faisal-Cury-2008-Span%20J%20Psychol_Maternity%20%22blues%22%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8077},
rating = {0}
}
@article{Sue:1987p11643,
author = {D Sue and S Sue},
journal = {Journal of Consulting and Clinical Psychology},
title = {Cultural factors in the clinical assessment of Asian Americans},
number = {4},
pages = {479--87},
volume = {55},
year = {1987},
month = {Aug},
language = {eng},
keywords = {Cross-Cultural Comparison, Humans, Asian Americans, Mental Disorders},
date-added = {2010-05-11 22:47:02 +0200},
date-modified = {2010-05-11 22:47:03 +0200},
pmid = {3624604},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sue-1987-Journal%20of%20Consulting%20and%20Clinical%20Psychology_Cultural%20factors%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11643},
rating = {0}
}
@article{Brennan:2010p5473,
author = {R L Brennan},
journal = {Instructional Topics in Educational Measurement},
title = {Generalizability theory},
date-added = {2010-02-12 14:14:19 +0100},
date-modified = {2010-02-12 14:17:04 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brennan--Instructional%20Topics%20in%20Educational%20Measurement_Generalizability%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5473},
rating = {0}
}
@article{Airola:2010p12808,
author = {A Airola and T Pahikkala and W Waegeman and B De Baets and T Salakoski},
journal = {JMLR: Workshop and Conference Proceedings},
title = {A comparison of AUC estimators in small-sample studies},
abstract = {Reliable estimation of the classification performance of learned predictive models is difficult, when working in the small sample setting. When dealing with biological data it is often the case that separate test data cannot be afforded. Cross-validation is in this case a typical strategy for estimating the performance. Recent results, further supported by experimental evidence presented in this article, show that many standard approaches to cross-validation suffer from extensive bias or variance when the area under ROC curve (AUC) is used as performance measure. We advocate the use of leave-pair-out cross-validation (LPOCV) for performance estimation, as it avoids many of these problems. A method previously proposed by us can be used to efficiently calculate this estimate for regularized least-squares (RLS) based learners.},
pages = {3--13},
volume = {8},
year = {2010},
date-added = {2010-06-18 22:55:30 +0200},
date-modified = {2010-06-18 22:57:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Airola-2010-JMLR%20Workshop%20and%20Conference%20Proceedings_A%20comparison%20of%20AUC.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12808},
rating = {0}
}
@article{Dan:2006p4548,
author = {Amy A Dan and Lisa M Martin and Cathy Crone and Janus P Ong and Denise W Farmer and Thomas Wise and Sean C Robbins and Zobair M Younossi},
journal = {J Hepatol},
title = {Depression, anemia and health-related quality of life in chronic hepatitis C},
abstract = {BACKGROUND/AIMS: Hepatitis C (HCV) infected patients have significant health-related quality of life (HRQL) impairment which worsens during anti-viral therapy. Our aim was to examine the association of HRQL with treatment-induced depression and anemia. METHODS: Two hundred and seventy-one HCV patients who received pegylated interferon alfa 2b and ribavirin were included. Data on HRQL, depressive symptoms, laboratory values and socio-demographic characteristics were collected. RESULTS: Mean age was 47.1+/-6.5, 69% were male, and 73% were White. HCV patients' HRQL declined during anti-viral therapy but returned to or exceeded baseline levels within 24 weeks of completion. Anemia and depression were both associated with HRQL impairment. The effects of depression on HRQL were strong; once depression scores were included other factors were no longer significant. Patients' depressive symptoms tended to increase during the initial half of treatment regimen. Those with higher body mass index (BMI), cirrhosis, and women reported more HRQL impairments. HRQL scales were generally not associated with alcohol abuse, age, race, ALT and HCV RNA levels. CONCLUSIONS: Anti-viral therapy for HCV is associated with diminished HRQL. Although anemia and depression were associated with this impairment, depression was the most consistent predictor. Future studies are needed to see whether proactive management of these side effects can improve patients' HRQL and the efficacy of antiviral therapy for hepatitis C.},
affiliation = {Center for Liver Diseases, Inova Fairfax Hospital, Falls Church, 3289 Woodburn Road, Suite 375, Annandale, VA 22003-6800, USA.},
number = {3},
pages = {491--8},
volume = {44},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Depression, Polyethylene Glycols, Hemoglobins, Middle Aged, Quality of Life, Questionnaires, Anemia, Adult, Antiviral Agents, Follow-Up Studies, Aged, Hepatitis C: Chronic, Male, Humans, Interferon Alfa-2b, Prognosis, Ribavirin, Risk Factors, Prospective Studies, Female},
date-added = {2010-01-29 22:29:39 +0100},
date-modified = {2010-01-29 22:29:39 +0100},
doi = {10.1016/j.jhep.2005.11.046},
pii = {S0168-8278(05)00819-6},
pmid = {16427157},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4548},
rating = {0}
}
@article{vanKeulen:2010p6524,
author = {Hilde M van Keulen and Ilse Mesters and Willem van Mechelen and Hein de Vries},
journal = {Journal of Clinical Epidemiology},
title = {Single-item and multiple-item measures of adherence to public health behavior guidelines were incongruent},
abstract = {OBJECTIVE: Physical activity (PA) and fruit and vegetable consumption may prevent or delay the development of hypertension and cardiovascular diseases. We examined adherence rates to single and combinations of Dutch public health guidelines for these behaviors by comparing and combining two self-report measurements. STUDY DESIGN AND SETTING: The behaviors of 2,568 Dutch participants aged 45-70 years were measured using one item and multiple items. Patients were classified as meeting or not meeting a guideline using both measurements separately and combined. RESULTS: Substantially more participants met guidelines when measured with multiple items than when measured with one item, with differences of 21-39%. Combined measurements resulted in fewer participants meeting guidelines than multiple-item measurements used alone. Combined measurements showed that 17%, 12%, and 34% of participants met the guidelines for fruit and vegetable consumption and PA, respectively; only 3% met all three guidelines. Sociodemographic variables explained less than 4% of the variance of congruency between single- and multiple-item measurements. CONCLUSION: When assessing adherence rates, the level appears dependent on the method of self-report chosen. Hence, more research must analyze which adherence measurement will result in valid responses and which variables are associated with congruency between single- and multiple-item measurements.},
affiliation = {Department of Health Promotion, School for Public Health and Primary Care (Caphri), Maastricht University, P.O. Box 616, 6200 MD Maastricht, The Netherlands. h.vankeulen@gvo.unimaas.nl},
number = {1},
pages = {75--84},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:33:23 +0100},
date-modified = {2010-02-24 20:33:24 +0100},
doi = {10.1016/j.jclinepi.2009.03.003},
pii = {S0895-4356(09)00066-3},
pmid = {19447006},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Keulen-2010-Journal%20of%20Clinical%20Epidemiology_Single-item%20and%20mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6524},
rating = {0}
}
@article{LaskySu:2007p12580,
author = {J Lasky-Su and Stephen V Faraone and C Lange and M T Tsuang and A E Doyle and J W Smoller and N M Laird and J Biederman},
journal = {Behav Genet},
title = {A study of how socioeconomic status moderates the relationship between SNPs encompassing BDNF and ADHD symptom counts in ADHD families},
abstract = {Recent animal research suggests that brain-derived neurotrophic factor (BDNF), may mediate response to different environmental stimuli. In this paper, we evaluated the possible role of BDNF as a moderator of attention deficit hyperactivity disorder (ADHD) in the context of different socioeconomic classes. We genotyped ten single nucleotide polymorphisms (SNPs) in and around BDNF in 229 families and evaluate whether there are SNP-by-socioeconomic status (SES) interactions for attention deficit hyperactivity. We developed three quantitative phenotypes for ADHD from nine inattentive and nine hyperactive-impulsive symptoms that were used in SNP-by-SES interaction analyses using a new methodology implemented in the computer program PBAT. Findings were adjusted for multiple comparisons using the false discovery rate. We found multiple significant SNP-by-SES interactions using the inattentive symptom count. This study suggests that different SES classes may modify the effect of the functional variant(s) in and around BDNF to have an impact on the number of ADHD symptom counts that are observed. The two exons within BDNF represent potential functional variants that may be causing the observed associations.},
affiliation = {Medical Genetics Research Program, Department of Psychiatry and Behavioral Sciences, SUNY Upstate Medical University, 750 East Adams Street, Syracuse, NY 13210, USA.},
number = {3},
pages = {487--97},
volume = {37},
year = {2007},
month = {May},
language = {eng},
keywords = {Child, Female, Male, Genetic Variation, Exons, Attention Deficit Disorder with Hyperactivity, Boston, Polymorphism: Single Nucleotide, Genotype, Family, Humans, Brain-Derived Neurotrophic Factor, Socioeconomic Factors},
date-added = {2010-06-15 22:34:48 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9136-x},
pmid = {17216343},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lasky-Su-2007-Behav%20Genet_A%20study%20of%20how%20socio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12580},
rating = {0}
}
@article{Eaves:2010p7662,
author = {Lindon J Eaves and Elizabeth C Prom and Judy L Silberg},
journal = {Behav Genet},
title = {The Mediating Effect of Parental Neglect on Adolescent and Young Adult Anti-Sociality: A Longitudinal Study of Twins and Their Parents},
abstract = {The causes of correlation between parental treatment and offspring behavior are ambiguous since genetic and social factors are correlated in typical family studies. The problem is complicated by the need to characterize the effects of genes and environment on both juvenile and adult behavioral outcomes. A model is developed for the resemblance between juvenile and adult twins and their parents that allows some of these effects to be resolved. Data on childhood adversity, parental anti-social behavior, and longitudinal adult and juvenile anti-social behavior were obtained from 1,412 families of adolescent and young adult twins. A structural model is fitted that allows for the effects of genetic and social transmission of information from parents to children. Environmental effects of parents may be mediated through measured features of the home environment. Parameters were estimated by diagonal weighted least squares applied to the 33 distinct polychoric correlations between relatives and between variables within and between ages. Sub-hypotheses were tested. Results confirmed that effects of genes and environment were both highly significant. Genetic effects were large in juveniles and largely age and sex-specific. Approximately 30% of the variation due to the shared environment was due to the effect of childhood adversity. The remaining shared environmental effects are unexplained. Adversity is affected significantly by maternal anti-social behavior. The correlation between paternal ASP and adversity may be explained by antisocial fathers selecting (or creating) antisocial mothers. All significant environmental effects of parental ASP are mediated through the measure of adversity. Though transmission of ASP is both genetic and social, passive genotype-environment correlation is very small. Assortative mating for ASP has barely detectable consequence for the genetic correlation between siblings. The longitudinal study of twins and their parents makes it possible to demonstrate there is a direct causal effect of childhood adversity on child conduct disorder over and above any indirect genetic correlation.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University School of Medicine, Richmond, VA, USA, eaves@vcu.edu.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-15 23:40:55 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9336-2},
pmid = {20182912},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eaves-2010-Behav%20Genet_The%20Mediating%20Effect.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7662},
rating = {3}
}
@article{Abourazzak:2009p4,
author = {Fatima E Abourazzak and Fadoua Allali and Samira Rostom and Ihsane Hmamouchi and Linda Ichchou and Laila El Mansouri and Loubna Bennani and Hamza Khazzani and Redouane Abouqal and Najia Hajjaj-Hassouni},
journal = {Health Qual Life Outcomes},
title = {Factors influencing quality of life in Moroccan postmenopausal women with osteoporotic vertebral fracture assessed by ECOS 16 questionnaire},
abstract = {OBJECTIVE: The aim of the study was to evaluate factors influencing quality of life (QOL) in Moroccan postmenopausal women with osteoporotic vertebral fracture assessed by the Arabic version of ECOS 16 questionnaire. METHODS: 357 postmenopausal women were included in this study. The participants underwent bone mineral density (BMD) measurements by DXA of the lumbar spine and the total hip as well as X-ray examination of the thoraco-lumbar spine to identify subclinical vertebral fractures. Patients were asked to complete a questionnaire on clinical and sociodemographic parameters, and osteoporosis risk factors. The Arabic version of the ECOS16 (Assessment of health related quality of life in osteoporosis questionnaire) was used to assess quality of life. RESULTS: The mean age was 58 +/- 7.8 years, and the mean BMI was 28.3 +/- 4.8 kg/m2. One hundred and eight women (30.1%) were osteoporotic and 46.7% had vertebral fractures. Most were categorized as Grade1 (75%). Three independent factors were associated with a poor quality of life: low educational level (p = 0,01), vertebral fracture (p = 0,03), and history of peripheral fracture (p = 0,006). Worse QOL was observed in the group with vertebral fracture in all domains except "pain": Physical functioning (p = 0,002); Fear of illness (p = 0,001); and Psychosocial functioning (p = 0,007). The number of fractures was a determinant of a low QOL, as indicated by an increased score in physical functioning (p = 0,01), fear of illness (p = 0,007), and total score (p = 0,01) after adjusting on age and educational level. Patients with higher Genant score had low QOL in these two domains too (p = 0,002; p = 0,001 respectively), and in the total score (p = 0,01) after adjusting on age and educational level. CONCLUSION: Our current data showed that the quality of life assessed by the Arabic version of the ECOS 16 questionnaire is decreased in post menopausal women with prevalent vertebral fractures, with the increasing number and the severity of vertebral fractures.},
affiliation = {Department of Rheumatology, El Ayachi hospital, University Hospital of Rabat-Sale, Rabat, Morocco. fadouaallali@yahoo.fr},
pages = {23},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Quality of Life, Psychometrics, Aged, Osteoporosis: Postmenopausal, Middle Aged, Spinal Fractures, Morocco, Humans, Reproducibility of Results, Postmenopause, Questionnaires, Female},
date-added = {2009-12-28 20:19:22 +0100},
date-modified = {2009-12-29 10:27:46 +0100},
doi = {10.1186/1477-7525-7-23},
pii = {1477-7525-7-23},
pmid = {19284667},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abourazzak-2009-Health%20and%20Quality%20of%20Life%20Outcomes_Factors%20influencing.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4},
rating = {0}
}
@article{Dunlop:2010p12760,
author = {Boadie W Dunlop and Thomas Li and Susan G Kornstein and Edward S Friedman and Anthony J Rothschild and Ron Pedersen and Philip Ninan and Martin Keller and Madhukar H Trivedi},
journal = {J Psychiatr Res},
title = {Concordance between clinician and patient ratings as predictors of response, remission, and recurrence in major depressive disorder},
abstract = {We conducted a secondary analysis of data from the Prevention of Recurrent Episodes of Depression With Venlafaxine Extended Release (ER) for Two Years (PREVENT) trial to evaluate whether discrepancies between clinician and patient ratings of depression severity were predictive of response, remission, and recurrence during treatment for a depressive episode. Patients who self-rated depression severity in concordance with the clinician ("concordant patients") were defined as having a standardized patient-rated Inventory of Depressive Symptoms-Self Report (IDS-SR(30)) score minus standardized clinician-rated Hamilton Rating Scale for Depression (HAM-D(17)) score <1 SD from mean. Non-concordant patients ("underrating patients" [-1 SD], "overrating patients" [+1 SD]) were identified. Cohorts were compared for remission and response on the HAM-D(17), Clinician Global Impression--Severity (CGI-S), and IDS-SR(30) during acute and continuation therapy and time to recurrence during maintenance therapy. During acute treatment female patients were more likely to overrate their depression severity compared to the clinician; older age predicted overrating during continuation treatment. Overrating patients had a slower onset of response on the HAM-D(17) during acute treatment (P=0.004). There were no differences between cohorts for remission or response on the HAM-D(17) or CGI-S. Overrating patients at week 10 had lower remission and response rates on the IDS-SR(30) during continuation therapy (32% and 50%, respectively; P
@article{Smith:2007,
author = {Adam B Smith and Penny Wright and Peter J Selby and Galina Velikova},
journal = {Health Qual Life Outcomes},
title = {A Rasch and factor analysis of the Functional Assessment of Cancer Therapy-General (FACT-G).},
abstract = {BACKGROUND: Although the Functional Assessment of Cancer Therapy--General questionnaire (FACT-G) has been validated few studies have explored the factor structure of the instrument, in particular using non-sample dependent measurement techniques, such as Rasch Models. Furthermore, few studies have explored the relationship between item fit to the Rasch Model and clinical utility. The aim of this study was to investigate the dimensionality and measurement properties of the FACT-G with Rasch Models and Factor analysis. METHODS: A factor analysis and Rasch analysis (Partial Credit Model) was carried out on the FACT-G completed by a heterogeneous sample of cancer patients (n = 465). For the Rasch analysis item fit (infit mean squares > or = 1.30), dimensionality and item invariance were assessed. The impact of removing misfitting items on the clinical utility of the subscales and FACT-G total scale was also assessed. RESULTS: The factor analysis demonstrated a four factor structure of the FACT-G which broadly corresponded to the four subscales of the instrument. Internal consistency for these four scales was very good (Cronbach's alpha 0.72 - 0.85). The Rasch analysis demonstrated that each of the subscales and the FACT-G total scale had misfitting items (infit means square > or = 1.30). All these scales with the exception of the Social {\&} Family Well-being Scale (SFWB) were unidimensional. When misfitting items were removed, the effect sizes and the clinical utility of the instrument were maintained for the subscales and the total FACT-G scores. CONCLUSION: The results of the traditional factor analysis and Rasch analysis of the FACT-G broadly agreed. Caution should be exercised when utilising the Social {\&} Family Well-being scale and further work is required to determine whether this scale is best represented by two factors. Additionally, removing misfitting items from scales should be performed alongside an assessment of the impact on clinical utility.},
affiliation = {Psychosocial \{\&} Clinical Practice Research Group, Cancer Research UK Clinical Centre, St. James's University Hospital, Leeds, UK. a.b.smith@leeds.ac.uk},
pages = {19},
volume = {5},
year = {2007},
language = {eng},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 19:58:39 +0200},
doi = {10.1186/1477-7525-5-19},
pii = {1477-7525-5-19},
pmid = {17448239},
url = {http://dx.doi.org/10.1186/1477-7525-5-19},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-2007-Health%20Qual%20Life%20Outcomes_A%20Rasch%20and%20factor%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1175},
rating = {0}
}
@article{Blakemore:2008p4827,
author = {Sarah-Jayne Blakemore},
journal = {Nat Rev Neurosci},
title = {The social brain in adolescence},
abstract = {The term 'social brain' refers to the network of brain regions that are involved in understanding others. Behaviour that is related to social cognition changes dramatically during human adolescence. This is paralleled by functional changes that occur in the social brain during this time, in particular in the medial prefrontal cortex and the superior temporal sulcus, which show altered activity during the performance of social cognitive tasks, such as face recognition and mental-state attribution. Research also indicates that, in humans, these parts of the social brain undergo structural development, including synaptic reorganization, during adolescence. Bringing together two relatively new and rapidly expanding areas of neuroscience--social neuroscience and the study of brain development during adolescence--will increase our understanding of how the social brain develops during adolescence.},
affiliation = {Institute of Cognitive Neuroscience, University College London, 17 Queen Square, London, WC1N 3AR, UK. s.blakemore@ucl.ac.uk},
number = {4},
pages = {267--77},
volume = {9},
year = {2008},
month = {Apr},
language = {eng},
keywords = {Brain Mapping, Adolescent, Social Behavior, Adolescent Behavior, Humans, Recognition (Psychology), Psychophysiology, Brain, Neural Pathways},
date-added = {2010-02-01 20:21:37 +0100},
date-modified = {2010-02-01 20:21:37 +0100},
doi = {10.1038/nrn2353},
pii = {nrn2353},
pmid = {18354399},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blakemore-2008-Nat%20Rev%20Neurosci_The%20social%20brain%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4827},
rating = {0}
}
@article{Zwicker:2008p12036,
author = {Jill Glennis Zwicker and Susan Richardson Harris},
journal = {Pediatrics},
title = {Quality of life of formerly preterm and very low birth weight infants from preschool age to adulthood: a systematic review},
abstract = {OBJECTIVE: The goal of this systematic review was to synthesize studies that examined the health-related quality of life of preschool- and school-aged children, adolescents, and young adults who were born preterm and/or at very low birth weight. METHODS: We searched 7 databases up to September 2006 (Medline, PubMed, Embase, EBM Reviews, Cumulative Index of Nursing and Allied Health Literature, PsycINFO, and the Educational Resource Information Center) as well as gray literature sources. We independently screened studies and included them only if a quality-of-life outcome measure was used and findings compared preterm, very low birth weight, or extremely low birth weight infants with term or normal birth weight peers. We independently assessed the methodologic quality of each study by using criteria adapted from the Centre for Reviews and Dissemination. RESULTS: Fifteen cohort or cross-sectional studies met the review criteria. In 6 studies of preschool-aged children, differences were found between study and control groups, suggesting that many preschool children born preterm or at very low birth weight perform more poorly than their peers in physical, emotional, and/or social functioning. Extremely low birth weight school-aged children had lower health utility scores compared with their peers, and similar results were found for adolescents. Parents of preterm and very low birth weight teens noted significantly poorer performance in their child's global health, behavior, and physical functioning, whereas the teenagers themselves did not. In young adulthood, differences in physical functioning remained, but subjective quality of life was similar to normal birth weight peers. CONCLUSIONS: The effects of preterm birth/very low birth weight on health-related quality of life seem to diminish over time, which possibly reflects issues related to a child's report versus a parent-proxy report, differing definitions of health-related quality of life, and adaptation of individuals over time, versus true change in health-related quality of life.},
affiliation = {School of Rehabilitation Sciences, University of British Columbia, T325-2211, Wesbrook Mall, Vancouver, British Columbia, Canada V6T 2B5. jzwicker@interchange.ubc.ca},
number = {2},
pages = {e366--76},
volume = {121},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Child, Infant: Extremely Low Birth Weight, Infant: Very Low Birth Weight, Quality of Life, Adult, Health Status, Infant: Newborn, Adolescent, Child: Preschool, Follow-Up Studies, Humans, Infant: Premature},
date-added = {2010-05-24 10:31:07 +0200},
date-modified = {2010-05-24 10:31:07 +0200},
doi = {10.1542/peds.2007-0169},
pii = {121/2/e366},
pmid = {18245409},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12036},
rating = {0}
}
@article{Meilijson:2009p2979,
author = {Isaac Meilijson and Sara Meilijson},
journal = {Stat Med},
title = {Coping with participant heterogeneity in dichotomous responses},
abstract = {Participant heterogeneity induces spurious dependence that may obscure dependence patterns displayed by a covariance matrix. A parsimonious method is proposed for the reduction of this confounding effect. The method is applied to dichotomous behavioral response data of participants diagnosed with schizophrenia, as assessed by the Pragmatic Protocol (J. Speech Hear. Disord. 1987; 52:105-119).},
affiliation = {School of Mathematical Sciences, Tel-Aviv University, Tel-Aviv 69978, Israel.},
number = {15},
pages = {2042--53},
volume = {28},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Humans, Severity of Illness Index, Schizophrenia, Language, Data Interpretation: Statistical, Confounding Factors (Epidemiology)},
date-added = {2010-01-13 23:12:52 +0100},
date-modified = {2010-03-07 11:07:56 +0100},
doi = {10.1002/sim.3597},
pmid = {19455574},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meilijson-2009-Stat%20Med_Coping%20with%20particip.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2979},
rating = {3}
}
@article{Staples:2010p5072,
author = {Kerri L Staples and Greg Reid},
journal = {J Autism Dev Disord},
title = {Fundamental movement skills and autism spectrum disorders},
abstract = {Delays and deficits may both contribute to atypical development of movement skills by children with ASD. Fundamental movement skills of 25 children with autism spectrum disorders (ASD) (ages 9-12 years) were compared to three typically developing groups using the Test of Gross Motor Development (TGMD-2). The group matched on chronological age performed significantly better on the TGMD-2. Another comparison group matched on movement skill demonstrated children with ASD perform similarly to children approximately half their age. Comparisons to a third group matched on mental age equivalence revealed the movement skills of children with ASD are more impaired than would be expected given their cognitive level. Collectively, these results suggest the movement skills of children with ASD reflect deficits in addition to delays.},
affiliation = {Department of Kinesiology and Physical Education, McGill University, Montreal, QC, Canada. kerri.staples@uregina.ca},
number = {2},
pages = {209--17},
volume = {40},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-05 20:14:17 +0100},
date-modified = {2010-07-29 19:32:09 +0200},
doi = {10.1007/s10803-009-0854-9},
pmid = {19685284},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5072},
rating = {0}
}
@article{Kipman:2002p1331,
author = {A Kipman and L Bruins-Slot and C Boni and N Hanoun and J Ad{\`e}s and P Blot and M Hamon and M Mouren-Sim{\'e}oni and P Gorwood},
journal = {Eur Psychiatry},
title = {5-HT(2A) gene promoter polymorphism as a modifying rather than a vulnerability factor in anorexia nervosa},
abstract = {The A allele of the 5-HT(2A) gene (-1438A/G polymorphism) has been associated with anorexia nervosa in four studies, but not in three others. One possibility to explain such a discrepancy is that the A allele acts as a modifying rather than a vulnerability allele. To test this hypothesis, we increased our initial sample of 102 trios left open bracket Mol. Psychiatry 7 (2002) 90 right open bracket with 43 new patients with anorexia nervosa and 98 healthy controls. In addition to confirming the absence of association on the global sample of 145 patients, we found that patients with the A allele had a significantly later age at onset of the disease (P = 0.032). Furthermore, the A allele was also transmitted with an older age at onset (P = 0.023) using a quantitative-trait TDT approach. The A allele may thus act as a modifying factor (delaying onset), potentially explaining variations of allele frequency across samples, in which differences in average age at onset are not only possible, but also expected. Taking into account vulnerability genes, but also genes modifying the expression of the disorder, will help to disentangle the complexity of the etiological factors involved in anorexia nervosa.},
affiliation = {H{\^o}pital Louis Mourier (AP-HP), Service de Psychiatrie, 178, rue des Renouillers, 92700 Colombes, France.},
number = {4},
pages = {227--9},
volume = {17},
year = {2002},
month = {Jul},
language = {eng},
keywords = {Promoter Regions: Genetic, Receptors: Serotonin, Pedigree, Alleles, Adult, Genetic Predisposition to Disease, Female, Body Mass Index, Age of Onset, Polymorphism: Single Nucleotide, Humans, Gene Expression, Anorexia Nervosa},
date-added = {2010-01-07 11:37:19 +0100},
date-modified = {2010-01-07 11:37:19 +0100},
pii = {S0924933802006570},
pmid = {12231269},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1331},
rating = {0}
}
@article{Kuracsky:2004p10336,
author = {L S Kuracsky and S B Malykh},
journal = {Australian Journal of Educational {\&} Developmental Psychology},
title = {Application of Markov models for analysis of development of psychological characteristics},
abstract = {A technique to study combined influence of environmental and genetic factors on the base of changes in phenotype distributions is presented. Histograms are exploited as base analyzed characteristics. A continuous time, discrete state Markov process with piece- wise constant interstate transition rates is associated with evolution of each histogram. The technique was applied to IQ longitudinal data (6- and 14-year children) and made it possible to draw conclusions concerning development of Russian children before school and during the first stage of school education as well as dependence of environmental and genetic influence on IQ level.},
pages = {29--40},
volume = {4},
year = {2004},
date-added = {2010-04-02 18:15:54 +0200},
date-modified = {2010-04-02 18:16:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kuracsky-2004-Australian%20Journal%20of%20Educational%20&%20Developmental%20Psychology_Application%20of%20Marko.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10336},
rating = {0}
}
@article{Kahn:1997p2840,
author = {C E Kahn and T A Michalski and S J Erickson and W D Foley and A Z Krasnow and R P Lofgren and F A Quiroz and S D Rand},
journal = {AJR Am J Roentgenol},
title = {Appropriateness of imaging procedure requests: do radiologists agree?},
abstract = {OBJECTIVE: We explored the agreement among radiologists in their evaluation of the appropriateness of individual requests for imaging procedures. MATERIALS AND METHODS: We reviewed 318 noninterventional CT, sonographic, MR imaging, and nuclear medicine procedures ordered at a general internal medicine clinic during 8 months in 1995. Five subspecialty radiologists used data from the radiology request from and clinic notes to independently rate the appropriateness of each requested imaging procedure on a four-point scale. The radiologists were unaware of the results achieved by each procedure. Each case was reviewed by at least three radiologists, of whom at least one had relevant subspecialty expertise. Agreement among radiologists was analyzed using Cohen's kappa statistic and weighted kappa statistics and Cronbach's alpha statistic. RESULTS: Nonchance agreement (kappa) was .19 +/- .05; weighted kappa was .24 +/- .05. Interrater agreement was significantly greater than that expected from chance alone (p < .01). The composite score, defined as the average of the radiologists' scores for each case, showed moderate reliability, as evidenced by a value for Cronbach's alpha of 70. CONCLUSION: In the absence of explicit criteria, we found modest but statistically significant agreement among radiologists about the appropriateness of individual requests for imaging procedures. The disagreement among radiologists highlights the importance of developing well-reasoned, explicit criteria by which to judge the appropriateness of diagnostic radiology procedures. Further study is needed to elucidate the relationship between appropriateness and actual patient outcomes.},
affiliation = {Department of Radiology, Medical College of Wisconsin, Milwaukee 53226, USA.},
number = {1},
pages = {11--4},
volume = {169},
year = {1997},
month = {Jul},
language = {eng},
keywords = {Referral and Consultation, Middle Aged, Aged, Observer Variation, Female, Health Services Misuse, Humans, Radiology, Male, Diagnostic Imaging, Internal Medicine, Adult, Aged: 80 and over},
date-added = {2010-01-13 14:56:47 +0100},
date-modified = {2010-01-13 14:56:47 +0100},
pmid = {9207492},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2840},
rating = {0}
}
@article{Kraja:2007p11678,
author = {Aldi T Kraja and Jon Corbett and An Ping and Rosa S Lin and Petra A Jacobsen and Michael Crosswhite and Ingrid B Borecki and Michael A Province},
journal = {BMC Proc},
title = {Rheumatoid arthritis, item response theory, Blom transformation, and mixed models},
abstract = {We studied rheumatoid arthritis (RA) in the North American Rheumatoid Arthritis Consortium (NARAC) data (1499 subjects; 757 families). Identical methods were applied for studying RA in the Genetic Analysis Workshop 15 (GAW15) simulated data (with a prior knowledge of the simulation answers). Fifty replications of GAW15 simulated data had 3497 +/- 20 subjects in 1500 nuclear families. Two new statistical methods were applied to transform the original phenotypes on these data, the item response theory (IRT) to create a latent variable from nine classifying predictors and a Blom transformation of the anti-CCP (anti-cyclic citrinullated protein) variable. We performed linear mixed-effects (LME) models to study the additive associations of 404 Illumina-genotyped single-nucleotide polymorphisms (SNPs) on the NARAC data, and of 17,820 SNPs of the GAW15 simulated data. In the GAW15 simulated data, the association with anti-CCP Blom transformation showed a 100% sensitivity for SNP1 located in the major histocompatibility complex gene. In contrast, the association of SNP1 with the IRT latent variable showed only 24% sensitivity. From the simulated data, we conclude that the Blom transformation of the anti-CCP variable produced more reliable results than the latent variable from the qualitative combination of a group of RA risk factors. In the NARAC data, the significant RA-SNPs associations found with both phenotype-transformation methods provided a trend that may point toward dynein and energy control genes. Finer genotyping in the NARAC data would grant more exact evidence for the contributions of chromosome 6 to RA.},
affiliation = {Division of Statistical Genomics, Washington University School of Medicine, Division of Statistical Genomics, 4444 Forest Park Boulevard, Campus Box 8506, St, Louis, Missouri 63110, USA. aldi@wustl.edu},
pages = {S116},
volume = {1 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
date-added = {2010-05-14 21:21:52 +0200},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {18466457},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kraja-2007-BMC%20Proc_Rheumatoid%20arthritis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11678},
rating = {5}
}
@article{Sterne:2001,
author = {JAC Sterne and M Egger and GD Smith},
journal = {British Medical Journal},
title = {Investigating and dealing with publication and other biases in meta-analysis},
abstract = {Studies that show a significant effect of treatment are more likely to be published, be published in English, be cited by other authors, and produce multiple publications than other studies.1-8 Such studies are therefore also more likely to be identified and included in systematic reviews, which may introduce bias.9 Low methodological quality of studies included in a systematic review is another important source of bias.10 All these biases are more likely to affect small studies than large ones. The smaller a study the larger the treatment effect necessary for the results to be significant. The greater investment of time and money in larger studies means that they are more likely to be of high methodological quality and published even if their results are negative. Bias in a systematic review may therefore become evident through an association between the size of the treatment effect and study sizesuch associations may be examined both graphically and statistically.},
pages = {101--105},
volume = {323},
year = {2001},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1095},
rating = {0}
}
@article{Harden:2007p907,
author = {K Paige Harden and Eric Turkheimer and John C Loehlin},
journal = {Behav Genet},
title = {Genotype by environment interaction in adolescents' cognitive aptitude},
abstract = {In a replication of Turkheimer, Haley, Waldron, D'Onofrio, Gottesman II (2003, Socioeconomic status modifies heritability of IQ in young children. Psychological Science, 14:623-628), we investigate genotype-environment (G x E) interaction in the cognitive aptitude of 839 twin pairs who completed the National Merit Scholastic Qualifying Test in 1962. Shared environmental influences were stronger for adolescents from poorer homes, while genetic influences were stronger for adolescents from more affluent homes. No significant differences were found between parental income and parental education interaction effects. Results suggest that environmental differences between middle- to upper-class families influence the expression of genetic potential for intelligence, as has previously been suggested by Bronfenbrenner and Ceci's (1994, Nature-nurture reconceptualized in developmental perspective: a bioecological model Psychological Review, 101:568-586) bioecological model.},
affiliation = {Department of Psychology, University of Virginia, P.O. Box 400400, Charlottesville, VA 22904, USA. kph3k@virginia.edu},
number = {2},
pages = {273--83},
volume = {37},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Genotype, Adolescent Psychology, Environment, Child, Humans, Cognition, Adolescent},
date-added = {2010-01-03 18:41:45 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-006-9113-4},
pmid = {16977503},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Harden-2007-Behav%20Genet_Genotype%20by%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p907},
rating = {3}
}
@article{Long2001,
author = {A Long and H Mangalam and B Chan and L Tolleri and G Hatfield and P Baldi},
journal = {Journal of Biological Chemistry},
title = {Improved statistical inference from DNA microarray data using analysis of variance and a Bayesian statistical framework},
pages = {19937--19944},
volume = {276},
year = {2001},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2515},
rating = {0}
}
@article{Wickham:2010p3618,
author = {H A Wickham},
title = {Practical tools for exploring data and models},
date-added = {2010-01-16 18:37:10 +0100},
date-modified = {2010-01-16 18:40:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham--_Practical%20tools%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3618},
rating = {0}
}
@misc{Keerthi:2002,
author = {S S Keerthi and K Duan and S K Shevade and A N Poo},
journal = {Miscellaneous},
title = {A fast dual algorithm for kernel logistic regression},
year = {2002},
month = {Jul},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keerthi-2002-Miscellaneous_A%20fast%20dual%20algorith.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2089},
rating = {0}
}
@article{Levy:2008p3193,
author = {R Levy},
journal = {NCME},
title = {Factors Affecting the Dimension of Best Measurement and Connections with Unidimensional Modeling of Multidimensional Data},
abstract = {When items exhibit multidimensionality, the dimension along which the collection of items
maximally discriminates is the dimension of best measurement. Foundational theoretical results regarding compensatory multidimensionality and the dimension of best measurement are reviewed and served to motivate the current investigations. Key factors of multidimensional data and their influences on the dimension of best measurement are presented and discussed. A theoretical study and a simulation study illustrates these results and investigates the relationship between the dimension of best measurement and the dimension that is estimated when a unidimensional model is fit to the data. The results provide evidence in support of hypotheses regarding (a) factors influencing the dimension of best measurement and (b) the relationship between the dimension of best measurement and the dimension resulting from fitting a unidimensional model. Discussions of implications for practice and future development conclude the paper.},
year = {2008},
date-added = {2010-01-14 20:51:27 +0100},
date-modified = {2010-01-14 20:52:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2008-NCME_Factors%20Affecting%20th.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3193},
rating = {0}
}
@article{Buuren:1989p4018,
author = {S van Buuren and W J Heiser},
journal = {Psychometrika},
title = {Clustering N objects into K groups under optimal scaling of variables},
abstract = {We propose a methodto reduce manycategorical variables to one variable with k catego- ries, or stated otherwise, to classify n objects into k groups. Objects are measured on a set of nominal, ordinal or numerical variables or any mix of these, and they are represented as n points in p-dimensional Euclidean space. Starting from homogeneity analysis, also called mul- tiple correspondence analysis, the essential feature of our approach is that these object points are restricted to lie at only one of k locations. It follows that these k locations must be equal to the centroids of all objects belonging to the same group, which corresponds to a sum of squared distances clustering criterion. The problemis not only to estimate the group allocation, but also to obtain an optimal transformation of the data matrix. Analternating least squares algorithm and an example are given.},
number = {4},
pages = {699--706},
volume = {54},
year = {1989},
keywords = {variable importance, homogeneity analysis, cluster analysis, GROUPALS},
date-added = {2010-01-18 15:34:15 +0100},
date-modified = {2010-01-18 15:39:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Buuren-1989-Psychometrika_Clustering%20N%20objects.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4018},
rating = {0}
}
@article{Prince:1996,
author = {M Prince and G Lewis and A Bird and R Blizard and A Mann},
journal = {Psychol Med},
title = {A longitudinal study of factors predicting change in cognitive test scores over time, in an older hypertensive population},
abstract = {This study aims to describe factors associated with cognitive decline among 2584 subjects, aged 65-74, who were followed up for 54 months in the Medical Research Council Elderly Hypertension Trial (1982-1989). The subjects completed a cognitive test, the Paired Associate Learning Test (PALT), five times over this period. Decline on the PALT was associated with advanced age, male sex, rural residence, depression and low intelligence. These effects were modified by gender and level of pre-morbid intelligence. Advanced age, rural residence and number of cigarettes smoked daily were only associated with PALT decline among women of below median intelligence. The association between depression and PALT decline was only apparent in women of below median intelligence and men of above median intelligence. While these findings are consistent with other research into cognitive decline, they differ in some ways from reported risk factors for dementia, suggesting aetiological separateness. That women were more vulnerable than men to the effects of age and smoking raises the question of the impact on cognition of accelerated atherosclerosis after the menopause.},
pages = {555--568},
volume = {26},
year = {1996},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1066},
rating = {0}
}
@article{Eggen:2004aa,
author = {Theo J H M Eggen and Norman D Verhelst},
title = {Loss of Information in Estimating Item Parameters in Incomplete Designs},
abstract = {In this paper, the efficiency of conditional maximum likelihood (CML) and marginal maximum likelihood (MML) estimation of the item parameters of the Rasch model in incomplete designs is studied. The use of the concept of F-information (Eggen, 2000) is generalized to incomplete testing designs. The standardized determinant of the F-information matrix is used for a scalar measure of information in a set of item parameters. In this paper, the relation between the normalization of the Rasch model and this determinant is clarified. It is shown that comparing estimation methods with the defined information efficiency is independent of the chosen normalization. In examples, information comparisons are conducted. It is found that for both CML and MML some information is lost in all incomplete designs compared to complete designs. A general trend is that with increasing test booklet length the efficiency of an incomplete to a complete design and also the efficiency of CML compared to MML is increasing. The main differences between CML and MML is seen in relation to the length of the test booklet. It will be demonstrated that with very small booklets, there is a substantial loss in information (about 35%) with CML estimation, while this loss is only about 10% in MML estimation. However, with increasing test length, the differences between CML and MML quickly disappear.},
year = {2004},
month = {Jun},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eggen-2004-_Loss%20of%20Information.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1204},
rating = {0}
}
@article{Pattaro:2008p1725,
author = {Cristian Pattaro and Ingo Ruczinski and Dani{\`e}le M Fallin and Giovanni Parmigiani},
journal = {BMC Genomics},
title = {Haplotype block partitioning as a tool for dimensionality reduction in SNP association studies},
abstract = {BACKGROUND: Identification of disease-related genes in association studies is challenged by the large number of SNPs typed. To address the dilution of power caused by high dimensionality, and to generate results that are biologically interpretable, it is critical to take into consideration spatial correlation of SNPs along the genome. With the goal of identifying true genetic associations, partitioning the genome according to spatial correlation can be a powerful and meaningful way to address this dimensionality problem. RESULTS: We developed and validated an MCMC Algorithm To Identify blocks of Linkage DisEquilibrium (MATILDE) for clustering contiguous SNPs, and a statistical testing framework to detect association using partitions as units of analysis. We compared its ability to detect true SNP associations to that of the most commonly used algorithm for block partitioning, as implemented in the Haploview and HapBlock software. Simulations were based on artificially assigning phenotypes to individuals with SNPs corresponding to region 14q11 of the HapMap database. When block partitioning is performed using MATILDE, the ability to correctly identify a disease SNP is higher, especially for small effects, than it is with the alternatives considered. Advantages can be both in terms of true positive findings and limiting the number of false discoveries. Finer partitions provided by LD-based methods or by marker-by-marker analysis are efficient only for detecting big effects, or in presence of large sample sizes. The probabilistic approach we propose offers several additional advantages, including: a) adapting the estimation of blocks to the population, technology, and sample size of the study; b) probabilistic assessment of uncertainty about block boundaries and about whether any two SNPs are in the same block; c) user selection of the probability threshold for assigning SNPs to the same block. CONCLUSION: We demonstrate that, in realistic scenarios, our adaptive, study-specific block partitioning approach is as or more efficient than currently available LD-based approaches in guiding the search for disease loci.},
affiliation = {Unit of Genetic Epidemiology and Biostatistics, Institute of Genetic Medicine, European Academy, Viale Druso 1, I-39100, Bolzano, Italy. cristian.pattaro@eurac.edu},
pages = {405},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {linkage disequilibrium, Genetic Predisposition to Disease, Genome: Human, Software, Humans, Algorithms, Polymorphism: Single Nucleotide, Computer Simulation, Haplotypes},
date-added = {2010-01-09 20:31:57 +0100},
date-modified = {2010-01-09 20:31:57 +0100},
doi = {10.1186/1471-2164-9-405},
pii = {1471-2164-9-405},
pmid = {18759977},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pattaro-2008-BMC%20Genomics_Haplotype%20block%20part.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1725},
rating = {0}
}
@article{Melnykov:2010p11424,
author = {V Melnykov and R Maitra},
journal = {Statistics Surveys},
title = {Finite mixture models and model-based clustering},
abstract = {Finite mixture models have a long history in statistics, hav- ing been used to model population heterogeneity, generalize distributional assumptions, and lately, for providing a convenient yet formal framework for clustering and classification. This paper provides a detailed review into mixture models and model-based clustering. Recent trends as well as open problems in the area are also discussed.},
pages = {80--116},
volume = {4},
year = {2010},
date-added = {2010-05-01 16:58:48 +0200},
date-modified = {2010-05-23 10:12:52 +0200},
doi = {10.1214/09-SS053},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Melnykov-2010-Statistics%20Surveys_Finite%20mixture%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11424},
read = {Yes},
rating = {5}
}
@article{McKay:1995p6853,
author = {D McKay and S Danyko and F Neziroglu and J A Yaryura-Tobias},
journal = {Behaviour Research and Therapy},
title = {Factor structure of the Yale-Brown Obsessive-Compulsive Scale: a two dimensional measure},
abstract = {The Yale-Brown Obsessive-Compulsive Scale (Y-BOCS: Goodman, Price, Rasmussen, Mazure, Fleischman, Hill, Heninger {\&} Charney, 1989a, b, Archives of General Psychiatry, 46, 1006-1016), a widely used measure of obsessions and compulsions, is typically used by summing the items to yield a global measure of symptom severity. However obsessive-compulsive disorder (OCD) is characterized by two distinct groups of symptoms (i.e. obsessions and compulsions), and so it was hypothesized that OCD, as assessed by the Y-BOCS, may be two dimensional. In other words, the items assessing obsessions may be factorially distinct from the items assessing compulsions. A confirmatory factor analysis (CFA) was conducted using responses from 83 OCD patients to determine whether OCD as assessed with the Y-BOCS is unidimensional or forms two distinct dimensions. Results supported a two-factor solution, and suggest that items assessing obsessions should be scored as one subscale, and items assessing compulsions scored as a separate subscale. Depression, as assessed by the Beck Depression Inventory, (Beck, Ward, Mendelsohn, Mock {\&} Erbaugh, 1961, Archives of General Psychiatry, 4, 561-571), was correlated with both subscales. Trait anxiety, as assessed by the State-Trait Anxiety Inventory (Speilberger, 1983, Manual for the State-Trait Anxiety Inventory (Form Y). Palo-Alto, CA: Consulting Psychologists Press), was correlated with the obsessions subscale but not with the compulsions subscale.},
affiliation = {Institute for Bio-Behavioral Therapy and Research, Great Neck, NY, USA.},
number = {7},
pages = {865--9},
volume = {33},
year = {1995},
month = {Sep},
language = {eng},
keywords = {Male, Female, Adult, Adolescent, Humans, Obsessive-Compulsive Disorder, Middle Aged, Psychological Tests},
date-added = {2010-03-06 10:31:32 +0100},
date-modified = {2010-07-29 19:18:50 +0200},
pii = {0005-7967(95)00014-O},
pmid = {7677726},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McKay-1995-Behaviour%20Research%20and%20Therapy_Factor%20structure%20of-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6853},
rating = {0}
}
@article{Henson:2006,
author = {RK Henson},
journal = {The Counseling Psychologist},
title = {Effect-Size Measures and Meta-Analytic Thinking in Counseling Psychology Research},
abstract = {Effect sizes are critical to result interpretation and synthesis across studies. Although statistical significance testing has historically dominated the determination of result importance, modern views emphasize the role of effect sizes and confidence intervals. This article accessibly discusses how to calculate and interpret the effect sizes that counseling psychologists use most frequently. To provide context, the author presents a brief history of statistical significance tests. Second, the author discusses the difference between statistical, practical, and clinical significance. Third, the author reviews and graphically demonstrates two common types of effect sizes, commenting on multivariate and corrected effect sizes. Fourth, the author emphasizes meta-analytic thinking and the potential role of confidence intervals around effect sizes. Finally, the author gives a hypothetical example of how to report and potentially interpret some effect sizes.},
number = {5},
pages = {601--629},
volume = {34},
year = {2006},
date-added = {2010-01-03 19:35:29 +0100},
date-modified = {2010-01-03 19:35:29 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1021},
rating = {0}
}
@misc{Yoon:2004,
author = {T-J Yoon and S Chavarria and J Cole and M Hasegawa-Johnson},
journal = {Miscellaneous},
title = {Intertranscriber Reliability of Prosodic Labeling on Telephone Conversation Using ToBI},
year = {2004},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yoon-2004-Miscellaneous_Intertranscriber%20Rel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1958},
rating = {0}
}
@article{Pallant:2006p8371,
author = {Julie F Pallant and Ren{\'e}e L Miller and Alan Tennant},
journal = {BMC Psychiatry},
title = {Evaluation of the Edinburgh Post Natal Depression Scale using Rasch analysis},
abstract = {BACKGROUND: The Edinburgh Postnatal Depression Scale (EPDS) is a 10 item self-rating post-natal depression scale which has seen widespread use in epidemiological and clinical studies. Concern has been raised over the validity of the EPDS as a single summed scale, with suggestions that it measures two separate aspects, one of depressive feelings, the other of anxiety. METHODS: As part of a larger cross-sectional study conducted in Melbourne, Australia, a community sample (324 women, ranging in age from 18 to 44 years: mean = 32 yrs, SD = 4.6), was obtained by inviting primiparous women to participate voluntarily in this study. Data from the EPDS were fitted to the Rasch measurement model and tested for appropriate category ordering, for item bias through Differential Item Functioning (DIF) analysis, and for unidimensionality through tests of the assumption of local independence. RESULTS: Rasch analysis of the data from the ten item scale initially demonstrated a lack of fit to the model with a significant Item-Trait Interaction total chi-square (chi Square = 82.8, df = 40; p < .001). Removal of two items (items 7 and 8) resulted in a non-significant Item-Trait Interaction total chi-square with a residual mean value for items of -0.467 with a standard deviation of 0.850, showing fit to the model. No DIF existed in the final 8-item scale (EPDS-8) and all items showed fit to model expectations. Principal Components Analysis of the residuals supported the local independence assumption, and unidimensionality of the revised EPDS-8 scale. Revised cut points were identified for EPDS-8 to maintain the case identification of the original scale. CONCLUSION: The results of this study suggest that EPDS, in its original 10 item form, is not a viable scale for the unidimensional measurement of depression. Rasch analysis suggests that a revised eight item version (EPDS-8) would provide a more psychometrically robust scale. The revised cut points of 7/8 and 9/10 for the EPDS-8 show high levels of agreement with the original case identification for the EPDS-10.},
affiliation = {Faculty of Life and Social Sciences, Swinburne University of Technology, P,O, Box 218, Hawthorn, Victoria 3122, Australia. jpallant@swin.edu.au},
pages = {28},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Depression: Postpartum, Australia, Pregnancy, Personality Inventory, Chi-Square Distribution, Psychometrics, Female, Questionnaires, Reproducibility of Results, Humans, Adolescent, Models: Statistical, Parity, Adult, Principal Component Analysis, Factor Analysis: Statistical},
date-added = {2010-03-21 13:03:49 +0100},
date-modified = {2010-03-21 13:03:53 +0100},
doi = {10.1186/1471-244X-6-28},
pii = {1471-244X-6-28},
pmid = {16768803},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pallant-2006-BMC%20Psychiatry_Evaluation%20of%20the%20Ed.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8371},
rating = {4}
}
@article{Conrad:2007p2764,
author = {Donald F Conrad and Matthew E Hurles},
journal = {Nat Genet},
title = {The population genetics of structural variation},
abstract = {Population genetics is central to our understanding of human variation, and by linking medical and evolutionary themes, it enables us to understand the origins and impacts of our genomic differences. Despite current limitations in our knowledge of the locations, sizes and mutational origins of structural variants, our characterization of their population genetics is developing apace, bringing new insights into recent human adaptation, genome biology and disease. We summarize recent dramatic advances, describe the diverse mutational origins of chromosomal rearrangements and argue that their complexity necessitates a re-evaluation of existing population genetic methods.},
affiliation = {Department of Human Genetics, University of Chicago, Chicago, Illinois 60637, USA.},
number = {7 Suppl},
pages = {S30--6},
volume = {39},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Selection: Genetic, Linkage Disequilibrium, Genetics: Population, Mutation, Humans, Gene Rearrangement, Genome: Human, Gene Dosage, Genetic Variation},
date-added = {2010-01-13 14:21:57 +0100},
date-modified = {2010-01-13 14:21:57 +0100},
doi = {10.1038/ng2042},
pii = {ng2042},
pmid = {17597779},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Conrad-2007-Nat%20Genet_The%20population%20genet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2764},
rating = {0}
}
@article{Brookes:2006p9133,
author = {Keeley-Joanne Brookes and Jon Mill and Camilla Guindalini and Sarah Curran and Xiaohui Xu and Jo Knight and Chih-Ken Chen and Yu-Shu Huang and Vaheshta Sethna and Eric Taylor and Wai Chen and Gerome Breen and Philip Asherson},
journal = {Arch Gen Psychiatry},
title = {A common haplotype of the dopamine transporter gene associated with attention-deficit/hyperactivity disorder and interacting with maternal use of alcohol during pregnancy},
abstract = {CONTEXT: Attention-deficit/hyperactivity disorder (ADHD) is a common heritable childhood behavioral disorder. Identifying risk factors for ADHD may lead to improved intervention and prevention. The dopamine transporter gene (DAT1) is associated with ADHD in several studies, with an average 1.2 odds ratio and evidence of heterogeneity across data sets. OBJECTIVE: To investigate sources of heterogeneity by refining the DAT1 association using additional markers and investigating gene-environment interaction between DAT1 and maternal use of alcohol and tobacco during pregnancy. DESIGN: Prospective study. SETTING AND PATIENTS: Children with ADHD from child behavior clinics in the southeast of England and in the Taipei area of Taiwan. INTERVENTIONS: Within-family tests of association using 2 repeat polymorphisms in the 3' untranslated region and intron 8 plus additional markers in the English sample. MAIN OUTCOME MEASURES: Transmission ratios of risk alleles from heterozygote parents to affected offspring and comparison of the transmission ratios in high- and low-exposure groups for the environmental variables. RESULTS: A novel association was identified between ADHD, the intron 8 polymorphism, and a specific risk haplotype in both English and Taiwanese samples. The risk haplotype showed significant interactions with maternal use of alcohol during pregnancy. CONCLUSIONS: The identification of a common haplotype in 2 independent populations is an important step toward identifying functionally significant regions of DAT1. Interaction between DAT1 genotypes and maternal use of alcohol during pregnancy suggests that DAT1 moderates the environmental risk and has implications for the prevention of ADHD. Further studies are required to delineate the precise causal risk factor involved in this interaction.},
affiliation = {Medical Research Council Social Genetic Developmental Psychiatry Centre, Institute of Psychiatry, London, England.},
number = {1},
pages = {74--81},
volume = {63},
year = {2006},
month = {Jan},
language = {eng},
keywords = {European Continental Ancestry Group, Smoking, Genetic Markers, Dopamine Plasma Membrane Transport Proteins, Asian Continental Ancestry Group, Risk Factors, Ethanol, Pregnancy, England, Maternal-Fetal Exchange, Linkage Disequilibrium, Taiwan, Chromosome Mapping, Humans, Alcohol Drinking, Genetic Predisposition to Disease, Female, Prospective Studies, Haplotypes, Attention Deficit Disorder with Hyperactivity, Pregnancy Complications, Maternal Exposure},
date-added = {2010-03-22 13:28:19 +0100},
date-modified = {2010-03-22 13:28:19 +0100},
doi = {10.1001/archpsyc.63.1.74},
pii = {63/1/74},
pmid = {16389200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Brookes-2006-Arch%20Gen%20Psychiatry_A%20common%20haplotype%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9133},
rating = {0}
}
@article{Yang:2008p5057,
author = {Seungmi Yang and John Lynch and Ezra S Susser and Debbie A Lawlor},
journal = {Pediatrics},
title = {Birth weight and cognitive ability in childhood among siblings and nonsiblings},
abstract = {OBJECTIVES: The purpose of this work was to examine whether the positive association between birth weight and childhood cognitive ability is seen within siblings from the same family, as well as between nonsiblings, and to determine whether these associations vary with age. METHODS: We compared the association of birth weight with cognitive ability measured at ages 5 to 6, 7 to 9, and 11 to 12 years among a total of 5402 children from different families with that among 2236 to 3083 sibships from the National Longitudinal Study of Youth 1979-Children. RESULTS: In the whole cohort, there were positive associations between birth weight and cognitive ability at all ages, with the association increasing with age from a 0.81-point increase at ages 5 to 6 years to 1.30 and 1.44 points at ages 7 to 9 and 11 to 12 years, respectively, per 1 SD of gestational age- and gender-adjusted birth weight z score. With adjustment for covariates, there was marked attenuation of these associations. Mean differences were 0.28 points in children aged 5 to 6 years, 0.67 points in those aged 7 to 9 years, and 0.52 points in those aged 11 to 12 years after adjusting for child's gender, race or ethnicity, year of birth, and age at test; maternal age, height, parity, education, smoking during pregnancy, and cognitive ability; and household income. Our family-based analyses that separated within- and between-family effects found that the between-family associations were much stronger than the within-family associations. However, adjustment for potential confounders attenuated the between-family associations, and there was no evidence for a difference in association comparing the between- and within-family associations. CONCLUSIONS: In these data, the positive association between birth weight and childhood cognitive ability at ages 5 to 12 years is explained largely by family characteristics rather than a specific intrauterine effect.},
affiliation = {Department of Epidemiology, Biostatistics, and Occupational Health, McGill University, Montreal, Quebec, Canada. seungmi.yang@mcgill.ca},
number = {2},
pages = {e350--8},
volume = {122},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Child Development, Female, Male, Child, Family Characteristics, Infant: Newborn, Family Health, Probability, Confidence Intervals, Birth Weight, Cognition, Humans, Risk Assessment, Child: Preschool, Gestational Age, Sex Factors, Siblings, Age Factors, Cohort Studies, Cognition Disorders},
date-added = {2010-02-05 20:04:24 +0100},
date-modified = {2010-02-05 20:04:24 +0100},
doi = {10.1542/peds.2007-3851},
pii = {122/2/e350},
pmid = {18676521},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yang-2008-Pediatrics_Birth%20weight%20and%20cog.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5057},
rating = {0}
}
@article{Boccardi:2010p8818,
author = {Marina Boccardi and Monica Almici and Lorena Bresciani and Anna Caroli and Matteo Bonetti and Sergio Monchieri and Massimo Gennarelli and Giovanni B Frisoni},
journal = {Neurosci Lett},
title = {Clinical and medial temporal features in a family with mood disorders},
abstract = {It is debated whether non-affected relatives of patients with affective disorders share a specific brain structure endophenotype. Aim of this work is to explore the medial temporal morphology in affected and non-affected members of a family with mood disorders. Hippocampi and amygdalae were manually traced from the 3D magnetic resonance imaging of five affected family members, 10 non-affected relatives, and 15 unrelated matched controls. Affected and non-affected relatives were characterized by larger left amygdalae (18%, p=0.030), smaller right hippocampus (up to 18%, p<0.0005), and reduced hippocampal asymmetry (p<0.001) than controls. Abnormal, albeit non significant, positive correlations of MTL volumes with age were observed, with the exception of smaller volume of the left hippocampus with advancing age (r=-0.76) in the affected relatives. These data add to the evidence that abnormal medial temporal structures may constitute an endophenotype for affective disorders.},
affiliation = {LENITEM Laboratory of Epidemiology, Neuroimaging, {\&} Telemedicine - IRCCS San Giovanni di Dio-FBF, Brescia, Italy.},
number = {2},
pages = {93--7},
volume = {468},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Pedigree, Aged: 80 and over, Depressive Disorder, Depressive Disorder: Major, Adult, Male, Temporal Lobe, Aged, Magnetic Resonance Imaging, Hippocampus, Amygdala, Middle Aged, Bipolar Disorder, Female, Humans},
date-added = {2010-03-22 12:32:24 +0100},
date-modified = {2010-07-29 19:41:43 +0200},
doi = {10.1016/j.neulet.2009.10.067},
pii = {S0304-3940(09)01412-8},
pmid = {19874870},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T0G-4XJG5RG-4&_user=2432700&_coverDate=01%252F04%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=b22144eb4644e4d3829cd4a78364c9aa},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boccardi-2010-Neurosci%20Lett_Clinical%20and%20medial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8818},
rating = {0}
}
@article{Tamhane:2010p7759,
author = {A C Tamhane and C R Mehta and L Liu},
journal = {Biometrics},
title = {Testing a Primary and a Secondary Endpoint in a Group Sequential Design},
abstract = {We consider a clinical trial with a primary and a secondary endpoint where the secondary endpoint is tested only if the primary endpoint is significant. The trial uses a group sequential procedure with two stages. The familywise error rate (FWER) of falsely concluding significance on either endpoint is to be controlled at a nominal level α. The type I error rate for the primary endpoint is controlled by choosing any α-level stopping boundary, e.g., the standard O'Brien--Fleming or the Pocock boundary. Given any particular α-level boundary for the primary endpoint, we study the problem of determining the boundary for the secondary endpoint to control the FWER. We study this FWER analytically and numerically and find that it is maximized when the correlation coefficient ρ between the two endpoints equals 1. For the four combinations consisting of O'Brien--Fleming and Pocock boundaries for the primary and secondary endpoints, the critical constants required to control the FWER are computed for different values of ρ. An ad hoc boundary is proposed for the secondary endpoint to address a practical concern that may be at issue in some applications. Numerical studies indicate that the O'Brien--Fleming boundary for the primary endpoint and the Pocock boundary for the secondary endpoint generally gives the best primary as well as secondary power performance. The Pocock boundary may be replaced by the ad hoc boundary for the secondary endpoint with a very little loss of secondary power if the practical concern is at issue. A clinical trial example is given to illustrate the methods.},
year = {2010},
date-added = {2010-03-17 20:53:38 +0100},
date-modified = {2010-03-17 20:54:43 +0100},
doi = {10.1111/j.1541-0420.2010.01402.x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tamhane-2010-Biometrics_Testing%20a%20Primary%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7759},
rating = {0}
}
@article{Menzies:2008p9702,
author = {Lara Menzies and Samuel R Chamberlain and Angela R Laird and Sarah M Thelen and Barbara J Sahakian and Ed T Bullmore},
journal = {Neurosci Biobehav Rev},
title = {Integrating evidence from neuroimaging and neuropsychological studies of obsessive-compulsive disorder: the orbitofronto-striatal model revisited},
abstract = {Obsessive-compulsive disorder (OCD) is a common, heritable and disabling neuropsychiatric disorder. Theoretical models suggest that OCD is underpinned by functional and structural abnormalities in orbitofronto-striatal circuits. Evidence from cognitive and neuroimaging studies (functional and structural magnetic resonance imaging (MRI) and positron emission tomography (PET)) have generally been taken to be supportive of these theoretical models; however, results from these studies have not been entirely congruent with each other. With the advent of whole brain-based structural imaging techniques, such as voxel-based morphometry and multivoxel analyses, we consider it timely to assess neuroimaging findings to date, and to examine their compatibility with cognitive studies and orbitofronto-striatal models. As part of this assessment, we performed a quantitative, voxel-level meta-analysis of functional MRI findings, which revealed consistent abnormalities in orbitofronto-striatal and other additional areas in OCD. This review also considers the evidence for involvement of other brain areas outside orbitofronto-striatal regions in OCD, the limitations of current imaging techniques, and how future developments in imaging may aid our understanding of OCD.},
affiliation = {Department of Psychiatry, University of Cambridge, Addenbrooke's Hospital, Cambridge CB2 2QQ, UK. lacm2@cam.ac.uk},
number = {3},
pages = {525--49},
volume = {32},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Models: Neurological, Magnetic Resonance Imaging, Neostriatum, Humans, Neural Inhibition, Frontal Lobe, Obsessive-Compulsive Disorder, Animals, Neuropsychological Tests, Neural Pathways, Brain Mapping},
date-added = {2010-03-25 15:12:46 +0100},
date-modified = {2010-03-25 15:12:46 +0100},
doi = {10.1016/j.neubiorev.2007.09.005},
pii = {S0149-7634(07)00114-5},
pmid = {18061263},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Menzies-2008-Neurosci%20Biobehav%20Rev_Integrating%20evidence.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9702},
rating = {0}
}
@article{Yi:2008p9837,
author = {Qilong Yi and P Peter Wang and Yaohua He},
journal = {Stat Med},
title = {Reliability analysis for continuous measurements: equivalence test for agreement},
abstract = {In tandem with the rapid development of medical technology, methods for assessing intrarater and interrater reliability or agreement across tools for continuous measurements have become an increasingly important research topic. Thus far, a number of reliability assessment methods have been proposed. Among them, the limits of agreement and repeatability coefficients were found to be the most useful tools for assessing reliability when measurements are on a continuous scale. However, both are considered as descriptive methods. The concepts of consistency or conformity require an equivalence test without which judgment would be subjective. In this paper we will extend the repeatability coefficient approach and propose an equivalence test that can be used to confirm the agreement between two or more measurement tools or assess interrater and intrarater reliability. Using this approach, a formula to calculate sample size will also be suggested and examples will be provided to illustrate the method.},
affiliation = {National Epidemiology and Surveillance, Canadian Blood Services, Ottawa, Ontario, Canada. qi-long.yi@bloodservices.ca},
number = {15},
pages = {2816--25},
volume = {27},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Humans, Reproducibility of Results, Observer Variation, Research Design, Models: Statistical},
date-added = {2010-03-26 19:27:23 +0100},
date-modified = {2010-03-26 19:27:23 +0100},
doi = {10.1002/sim.3110},
pmid = {17985364},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yi-2008-Stat%20Med_Reliability%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9837},
rating = {0}
}
@article{Tata:1996p10208,
author = {P R Tata and J A Leibowitz and M J Prunty and M Cameron and A D Pickering},
journal = {Behaviour Research and Therapy},
title = {Attentional bias in obsessional compulsive disorder},
abstract = {To date, studies of information processing in anxiety disorders have suggested that the latter are characterised by vigilance for threatening stimuli, possibly specific to personally relevant threat content. The present study represents an attempt to establish whether patients suffering from Obsessional Compulsive Disorder (OCD), generally classified as an anxiety disorder, show a similar cognitive bias. Thus, a replication of MacLeod, Mathews and Tata's (1986) study [Journal of Abnormal Psychology, 95, 15-20] is reported, employing modified materials of direct concern to the OCD subjects i.e. Contamination-related words. The results did indeed reveal content specific vigilance, whereby the OCD group were more vigilant for contamination content than mood-matched High Trait Anxious (HTA) controls, but the reverse was true for Social Anxiety words. Additionally, while a general threat interference effect was identified for both OCD and HTA subjects this was not content specific. A second experiment employing Low Trait Anxious subjects revealed no vigilance for threat nor any threat interference in this sample. The clinical implications and possible mechanism underlying these results are discussed.},
affiliation = {Department of Psychology, St George's Hospital Medical School, London, England.},
number = {1},
pages = {53--60},
volume = {34},
year = {1996},
month = {Jan},
language = {eng},
keywords = {Humans, Vocabulary, Mental Processes, Adult, Arousal, Middle Aged, Psychiatric Status Rating Scales, Questionnaires, Obsessive-Compulsive Disorder, Attention},
date-added = {2010-04-01 18:20:36 +0200},
date-modified = {2010-07-29 19:18:50 +0200},
pii = {000579679500041U},
pmid = {8561765},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tata-1996-Behaviour%20Research%20and%20Therapy_Attentional%20bias%20in-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10208},
rating = {0}
}
@article{Rao:2008p5995,
author = {Deepa Rao and Scott Debb and David Blitz and Seung W Choi and David Cella},
journal = {J Pain Symptom Manage},
title = {Racial/Ethnic differences in the health-related quality of life of cancer patients},
abstract = {Previous research has suggested that, when compared to European Americans (EAs), African Americans (AAs) are at higher risk of metastatic disease at time of cancer diagnosis, and a higher risk of shorter survival. Although AA patients have reported worse physical health than EA patients, studies have rarely addressed whether racial/ethnic disparities exist on the social, emotional, and functional aspects of health-related quality of life. Five hundred and two AA and 396 EA patients with AIDS-related malignancies or breast, colon, head/neck, and lung cancers seeking treatment within the contiguous United States and Puerto Rico participated in the present study. Responses on the Functional Assessment of Cancer Therapy-General were analyzed for possible racial/ethnic disparities using multivariable regression models and item response theory modeling to detect differential item functioning. Differential item functioning was found in six items of the Functional Assessment of Cancer Therapy-General, indicating that AA and EA participants had different probabilities of responding to these items. Compared to EAs at the same level of health-related quality of life, AAs reported more severe symptomatology on items that reflected malaise and ability to work, and less severe symptomatology on items that reflected fatigue, treatment side effects, and outlook on life. At the subscale level, AAs reported poorer physical and social well-being, but better emotional well-being, than EAs. Similar to previous studies, AA patients reported poorer physical functioning than a comparable group of EA patients. Some items appear to be responded to differently by AAs and EAs, suggesting it is important to consider race/ethnicity when evaluating responses to questions about health-related quality of life.},
affiliation = {Institute for Healthcare Studies, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611, USA. deepa-rao@northwestern.edu},
number = {5},
pages = {488--96},
volume = {36},
year = {2008},
month = {Nov},
language = {eng},
keywords = {Humans, Health Services Accessibility, United States, Neoplasms, Quality of Life, Ethnic Groups, Female, Middle Aged, Prejudice, Socioeconomic Factors},
date-added = {2010-02-18 23:33:38 +0100},
date-modified = {2010-02-18 23:33:38 +0100},
doi = {10.1016/j.jpainsymman.2007.11.012},
pii = {S0885-3924(08)00206-6},
pmid = {18504096},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rao-2008-J%20Pain%20Symptom%20Manage_RacialEthnic%20differ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5995},
rating = {0}
}
@article{Reynolds:2006p10252,
author = {Chandra A Reynolds},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {Advances in statistical models and methods},
number = {3},
pages = {311--2},
volume = {9},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Models: Genetic, Biometry, Humans, Models: Statistical, Software},
date-added = {2010-04-02 10:58:04 +0200},
date-modified = {2010-04-02 10:58:04 +0200},
doi = {10.1375/183242706777591362},
pmid = {16790141},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reynolds-2006-Twin%20research%20and%20human%20genetics%20the%20official%20journal%20of%20the%20International%20Society%20for%20Twin%20Studies_Advances%20in%20statisti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10252},
rating = {0}
}
@article{Middendorf:2004p4418,
author = {Manuel Middendorf and Anshul Kundaje and Chris Wiggins and Yoav Freund and Christina Leslie},
journal = {Bioinformatics},
title = {Predicting genetic regulatory response using classification},
abstract = {MOTIVATION: Studying gene regulatory mechanisms in simple model organisms through analysis of high-throughput genomic data has emerged as a central problem in computational biology. Most approaches in the literature have focused either on finding a few strong regulatory patterns or on learning descriptive models from training data. However, these approaches are not yet adequate for making accurate predictions about which genes will be up- or down-regulated in new or held-out experiments. By introducing a predictive methodology for this problem, we can use powerful tools from machine learning and assess the statistical significance of our predictions. RESULTS: We present a novel classification-based method for learning to predict gene regulatory response. Our approach is motivated by the hypothesis that in simple organisms such as Saccharomyces cerevisiae, we can learn a decision rule for predicting whether a gene is up- or down-regulated in a particular experiment based on (1) the presence of binding site subsequences ('motifs') in the gene's regulatory region and (2) the expression levels of regulators such as transcription factors in the experiment ('parents'). Thus, our learning task integrates two qualitatively different data sources: genome-wide cDNA microarray data across multiple perturbation and mutant experiments along with motif profile data from regulatory sequences. We convert the regression task of predicting real-valued gene expression measurements to a classification task of predicting +1 and -1 labels, corresponding to up- and down-regulation beyond the levels of biological and measurement noise in microarray measurements. The learning algorithm employed is boosting with a margin-based generalization of decision trees, alternating decision trees. This large-margin classifier is sufficiently flexible to allow complex logical functions, yet sufficiently simple to give insight into the combinatorial mechanisms of gene regulation. We observe encouraging prediction accuracy on experiments based on the Gasch S.cerevisiae dataset, and we show that we can accurately predict up- and down-regulation on held-out experiments. We also show how to extract significant regulators, motifs and motif-regulator pairs from the learned models for various stress responses. Our method thus provides predictive hypotheses, suggests biological experiments, and provides interpretable insight into the structure of genetic regulatory networks. AVAILABILITY: The MLJava package is available upon request to the authors. Supplementary: Additional results are available from http://www.cs.columbia.edu/compbio/geneclass},
affiliation = {Department of Physics, Columbia University, NY, NY 10027, USA.},
pages = {i232--40},
volume = {20 Suppl 1},
year = {2004},
month = {Aug},
language = {eng},
keywords = {Saccharomyces cerevisiae Proteins, Gene Expression Regulation, Signal Transduction, Proteome, Transcriptional Activation, Binding Sites, Transcription Factors, Regulatory Elements: Transcriptional, Models: Genetic, Sequence Analysis: DNA, Computer Simulation, Chromosome Mapping, Protein Binding},
date-added = {2010-01-29 10:26:37 +0100},
date-modified = {2010-01-29 10:26:37 +0100},
doi = {10.1093/bioinformatics/bth923},
pii = {20/suppl_1/i232},
pmid = {15262804},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4418},
rating = {0}
}
@article{Hays:2007p5957,
author = {Ron D Hays and Joseph Lipscomb},
journal = {Qual Life Res},
title = {Next steps for use of item response theory in the assessment of health outcomes},
abstract = {OBJECTIVES: We review the NCI/DIA conference, "Improving health outcomes assessment based on modern measurement theory and computerized adaptive testing," and suggest next steps in use of item response theory (IRT) to assess health outcomes. BACKGROUND: In recent years the level of interest and use of IRT methods has increased dramatically among health outcomes researchers. The NCI/DIA conference on June 24-25, 2004, was one of the first systematic opportunities to examine many challenging issues in applying IRT to the health outcomes field. METHOD: Based on the conference presentations, we identified five issues important to future applications of IRT to health outcomes. RESULTS: The five key issues are as follows: (1) collaboration between academia, government and industry; (2) common versus unique item banks; (3) educating and establishing standards for use and reporting of IRT; (4) demonstrating the value of IRT; and (5) continuing efforts to improve the user friendliness of IRT software. CONCLUSIONS: Moving forward will require a collaborative effort between academia, government agencies, and industry to design and conduct IRT research. A common item bank developed with collaboration from investigators from multiple institutions could be very valuable to the field. The establishment of consensus standards for use and reporting of IRT results would help users and consumers of the methodology. Clear documentation of how IRT can lead to better patient-reported outcome measures and more accurate understanding of substantive issues is essential. Academia, government and industry should continue current work to enhance the user-friendliness of the IRT software.},
affiliation = {David Geffen School of Medicine, UCLA/RAND Health Program, Santa Monica, CA 90407, USA. drhays@ucla.edu},
pages = {195--9},
volume = {16 Suppl 1},
year = {2007},
month = {Jan},
language = {eng},
keywords = {United States, Outcome Assessment (Health Care), Software, Cooperative Behavior, Quality of Life, Health Status, Congresses as Topic, Questionnaires, Humans},
date-added = {2010-02-18 23:25:23 +0100},
date-modified = {2010-07-29 19:48:30 +0200},
doi = {10.1007/s11136-007-9175-7},
pmid = {17351825},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5957},
rating = {0}
}
@article{Ramsay:1996p6295,
author = {J O Ramsay},
journal = {Behaviormetrika},
title = {A geometrical approach to Item Response Theory},
abstract = {How critical is the concept of the latent trait to modern test theory ? The appeal to some unobservable characteristic modulating response probability can lead to some confusion and misunderstanding among users of psychometric technology. This paper looks at a geometric formulation of item response theory that avoids the need to appeal to unobservables. It draws on concepts in differential geometry to represent the trait being measured as a differentiable manifold within the space of possible joint item response probabilities given conditional independence. The result is a manifest and in principle observable representation of the trait that is invariant under one-to-one transformations of trait scores. These concepts are illustrated by analyses of an actual test.},
number = {1},
pages = {3--16},
volume = {23},
year = {1996},
date-added = {2010-02-20 20:07:04 +0100},
date-modified = {2010-02-20 20:08:01 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ramsay-1996-Behaviormetrika_A%20geometrical%20approa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6295},
rating = {0}
}
@article{Zumbo:2003p11932,
author = {Bruno D Zumbo and S G Sireci and R K Hambleton},
journal = {National Council on Measurement in Education},
title = {Re-Visiting Exploratory Methods for Construct Comparability: Is There Something to be Gained From the Ways of Old?},
abstract = {This paper reviews methodological issues that arise in the investigation of construct comparability across key comparison groups such as ethnic and gender groups, or adapted/translated versions of tests in the same or different cultures. The authors advocate a multi-method approach to investigating construct comparability. In particular, multi-group exploratory factor analysis is described, in the context of an example, as a complement to the standard multi-group confirmatory factor analysis. We also describe a graphical method of investigating if the congruence coefficients in multi-group exploratory factor analysis may be spuriously inflated, hence strengthening the exploratory methodology. The example, from the Canadian School Achievement Indicators Program 1996 Science Assessment, shows how the confirmatory approach may not support construct comparability when the exploratory does. Reasons for why this may happen, and why the exploratory approach is a good complement, are discussed.},
year = {2003},
date-added = {2010-05-23 16:47:20 +0200},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zumbo-2003-National%20Council%20on%20Measurement%20in%20Education_Re-Visiting%20Explorat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11932},
rating = {0}
}
@article{Jenatton:2009p2938,
author = {Rodolphe Jenatton and Jean-Yves Audibert and Francis Bach},
journal = {arXiv},
title = {Structured Variable Selection with Sparsity-Inducing Norms},
abstract = { We consider the empirical risk minimization problem for linear supervised learning, with regularization by structured sparsity-inducing norms. These are defined as sums of Euclidean norms on certain subsets of variables, extending the usual {\$}\ell_1{\$}-norm and the group {\$}\ell_1{\$}-norm by allowing the subsets to overlap. This leads to a specific set of allowed nonzero patterns for the solutions of such problems. We first explore the relationship between the groups defining the norm and the resulting nonzero patterns, providing both forward and backward algorithms to go back and forth from groups to patterns. This allows the design of norms adapted to specific prior knowledge expressed in terms of nonzero patterns. We also present an efficient active set algorithm, and analyze the consistency of variable selection for least-squares linear regression in low and high-dimensional settings. },
affiliation = {INRIA Rocquencourt},
eprint = {0904.3523v2},
volume = {stat.ML},
year = {2009},
month = {Jan},
keywords = {stat.ML},
date-added = {2010-01-13 22:59:40 +0100},
date-modified = {2010-01-13 22:59:40 +0100},
pmid = {0904.3523v2},
url = {http://arxiv.org/abs/0904.3523v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jenatton-2009-arXiv_Structured%20Variable.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2938},
rating = {0}
}
@article{Cho:2009p5611,
author = {Yoon Shin Cho and Min Jin Go and Young Jin Kim and Jee Yeon Heo and Ji Hee Oh and Hyo-Jeong Ban and Dankyu Yoon and Mi Hee Lee and Dong-Joon Kim and Miey Park and Seung-Hun Cha and Jun-Woo Kim and Bok-Ghee Han and Haesook Min and Younjhin Ahn and Man Suk Park and Hye Ree Han and Hye-Yoon Jang and Eun Young Cho and Jong-Eun Lee and Nam H Cho and Chol Shin and Taesung Park and Ji Wan Park and Jong-Keuk Lee and Lon Cardon and Geraldine Clarke and Mark I McCarthy and Jong-Young Lee and Jong-Koo Lee and Bermseok Oh and Hyung-Lae Kim},
journal = {Nat Genet},
title = {A large-scale genome-wide association study of Asian populations uncovers genetic factors influencing eight quantitative traits},
abstract = {To identify genetic factors influencing quantitative traits of biomedical importance, we conducted a genome-wide association study in 8,842 samples from population-based cohorts recruited in Korea. For height and body mass index, most variants detected overlapped those reported in European samples. For the other traits examined, replication of promising GWAS signals in 7,861 independent Korean samples identified six previously unknown loci. For pulse rate, signals reaching genome-wide significance mapped to chromosomes 1q32 (rs12731740, P = 2.9 x 10(-9)) and 6q22 (rs12110693, P = 1.6 x 10(-9)), with the latter approximately 400 kb from the coding sequence of GJA1. For systolic blood pressure, the most compelling association involved chromosome 12q21 and variants near the ATP2B1 gene (rs17249754, P = 1.3 x 10(-7)). For waist-hip ratio, variants on chromosome 12q24 (rs2074356, P = 7.8 x 10(-12)) showed convincing associations, although no regional transcript has strong biological candidacy. Finally, we identified two loci influencing bone mineral density at multiple sites. On chromosome 7q31, rs7776725 (within the FAM3C gene) was associated with bone density at the radius (P = 1.0 x 10(-11)), tibia (P = 1.6 x 10(-6)) and heel (P = 1.9 x 10(-10)). On chromosome 7p14, rs1721400 (mapping close to SFRP4, a frizzled protein gene) showed consistent associations at the same three sites (P = 2.2 x 10(-3), P = 1.4 x 10(-7) and P = 6.0 x 10(-4), respectively). This large-scale GWA analysis of well-characterized Korean population-based samples highlights previously unknown biological pathways.},
affiliation = {Center for Genome Science, National Institute of Health, Seoul, Korea.},
number = {5},
pages = {527--34},
volume = {41},
year = {2009},
month = {May},
language = {eng},
keywords = {Cohort Studies, Polymorphism: Single Nucleotide, Genome: Human, Middle Aged, Adult, Aged, Waist-Hip Ratio, Body Mass Index, Humans, Genome-Wide Association Study, Genotype, Bone Density, Genetic Predisposition to Disease, Quantitative Trait Loci, Asian Continental Ancestry Group},
date-added = {2010-02-12 15:48:10 +0100},
date-modified = {2010-02-12 15:48:10 +0100},
doi = {10.1038/ng.357},
pii = {ng.357},
pmid = {19396169},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cho-2009-Nat%20Genet_A%20large-scale%20genome.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5611},
rating = {0}
}
@article{Tomaskovic-Devey:1994,
author = {D Tomaskovic-Devey and J Leiter and S Thompson},
journal = {Administrative Science Quarterly},
title = {Organizational survey nonresponse},
abstract = {Organizational surveys often have fairly low response rates. Sample surveys with low response rates can produce biased samples, particularly if key organizational characteristics affect the pattern of survey response. In this paper we develop an organizational theory of survey response that details why well-known organizational characteristics should be expected to influence the probability that an organization will respond to a survey request. We then test the empirical predictions of this theory on a survey of private, for-profit employment organizations.},
pages = {439--457},
volume = {39},
year = {1994},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p984},
rating = {0}
}
@article{Eiser:1997p8500,
author = {C Eiser},
journal = {Arch Dis Child},
title = {Children's quality of life measures},
affiliation = {Department of Psychology, University of Exeter, Devon.},
number = {4},
pages = {350--4},
volume = {77},
year = {1997},
month = {Oct},
language = {eng},
keywords = {Quality-Adjusted Life Years, Neoplasms, Diabetes Mellitus: Type 1, Adolescent, Quality of Life, Forecasting, Child: Preschool, Health Status Indicators, Attitude to Health, Child, Humans, Infant, Asthma},
date-added = {2010-03-21 18:00:36 +0100},
date-modified = {2010-07-29 19:17:10 +0200},
pmid = {9389244},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Eiser-1997-Arch%20Dis%20Child_Children's%20quality%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8500},
rating = {0}
}
@article{Kuss:2003p2365,
author = {M Kuss and T Graepel},
title = {The Geometry Of Kernel Canonical Correlation Analysis},
abstract = {Canonical correlation analysis (CCA) is a classical multivariate method concerned with describing linear dependencies between sets of variables. After a short exposition of the linear sample CCA problem and its analytical solution, the article proceeds with a detailed characterization of its geometry. Projection operators are used to illustrate the relations between canonical vectors and variates. The article then addresses the problem of CCA between spaces spanned by objects mapped into kernel feature spaces. An exact solution for this kernel canonical correlation (KCCA) problem is derived from a geometric point of view. It shows that the expansion coefficients of the canonical vectors in their respective feature space can be found by linear CCA in the basis induced by kernel principal component analysis. The effect of mappings into higher dimensional feature spaces is considered critically since it simplifies the CCA problem in general. Then two regularized variants of KCCA are discussed. Relations to other methods are illustrated, e.g., multicategory kernel Fisher discriminant analysis, kernel principal component regression and possible applications thereof in blind source separation.},
year = {2003},
date-added = {2010-01-10 13:40:53 +0100},
date-modified = {2010-01-10 13:41:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kuss-2003-_The%20Geometry%20Of%20Kern.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2365},
rating = {0}
}
@article{vanderValk:2001p1262,
author = {J C van der Valk and E J van den Oord and F C Verhulst and D Boomsma},
journal = {J Child Psychol Psychiatry},
title = {Using parental ratings to study the etiology of 3-year-old twins' problem behaviors: different views or rater bias?},
abstract = {Child Behavior Checklist questionnaires (Achenbach, 1992), filled in separately by mothers and fathers, were collected for an effective sample of 3,501 Dutch 3-year-old twin pairs. To disentangle the child's phenotype from that of the rater, two contrasting models were fitted to the data. One model, called a Rater Bias model, is based on the assumption that both parents assess exactly the same behaviors in the child. A weaker alternative of this model, called a Psychometric model, assumes that apart from these common behavioral views, each parent also assesses a unique aspect of the child's behavior. A Psychometric model fitted the data of both Internalizing and Externalizing scales significantly better than a Rater Bias model. This implied that each parent provided unique information from his or her own perspective, apart from the common behavioral view. Using this best fitting model, the etiology of both the Internalizing and Externalizing scales was studied. Common factors (influencing behaviors similarly assessed by both parents) were more important than unique factors (influencing behaviors uniquely assessed by one parent). Common genetic factors explained about 50% of the variance of both scales, indicating a possible inborn vulnerability to childhood psychopathology. Common environmental factors not shared between twins (free of unreliability and error) explained around 14% of both scales, suggesting the importance of pure idiosyncratic experiences even for children as young as 3 years. Common environmental factors shared between twins (unconfounded by rater bias) were only found for the Externalizing scale, explaining 18% of the variance. Rater bias and unreliability, if present in the data, were included in the estimates of the unique factors. Unique genetic, shared, and nonshared environmental factors each explained around 8% of the variance for both scales. These small effects could be detected because of the large sample of twin pairs used.},
affiliation = {Department of Biological Psychology,Vrije Universiteit, Amsterdam, The Netherlands. Jolande@bhp.be},
number = {7},
pages = {921--31},
volume = {42},
year = {2001},
month = {Oct},
language = {eng},
keywords = {Male, Child Behavior Disorders, Adult, Genetic Predisposition to Disease, Female, Parents, Observer Variation, Twins, Netherlands, Child: Preschool, Models: Statistical, Child Behavior, Humans, Internal-External Control},
date-added = {2010-01-07 11:24:45 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
pmid = {11693587},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20der%20Valk-2001-J%20Child%20Psychol%20Psychiatry_Using%20parental%20ratin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1262},
rating = {0}
}
@article{Schellenberg:2006p2437,
author = {G D Schellenberg and G Dawson and Y J Sung and A Estes and J Munson and E Rosenthal and J Rothstein and P Flodman and M Smith and H Coon and L Leong and C-E Yu and C Stodgell and P M Rodier and M A Spence and N Minshew and W M McMahon and E M Wijsman},
journal = {Mol Psychiatry},
title = {Evidence for multiple loci from a genome scan of autism kindreds},
abstract = {We performed a genome-wide linkage scan using highly polymorphic microsatellite markers. To minimize genetic heterogeneity, we focused on sibpairs meeting the strict diagnosis of autism. In our primary analyses, we observed a strong linkage signal (P=0.0006, 133.16 cM) on chromosome 7q at a location coincident with other linkage studies. When a more relaxed diagnostic criteria was used, linkage evidence at this location was weaker (P=0.01). The sample was stratified into families with only male affected subjects (MO) and families with at least one female affected subject (FC). The strongest signal unique to the MO group was on chromosome 11 (P=0.0009, 83.82 cM), and for the FC group on chromosome 4 (P=0.002, 111.41 cM). We also divided the sample into regression positive and regression negative families. The regression-positive group showed modest linkage signals on chromosomes 10 (P=0.003, 0 cM) and 14 (P=0.005, 104.2 cM). More significant peaks were seen in the regression negative group on chromosomes 3 (P=0.0002, 140.06 cM) and 4 (P=0.0005, 111.41 cM). Finally, we used language acquisition data as a quantitative trait in our linkage analysis and observed a chromosome 9 signal (149.01 cM) of P=0.00006 and an empirical P-value of 0.0008 at the same location. Our work provides strong conformation for an autism locus on 7q and suggestive evidence for several other chromosomal locations. Diagnostic specificity and detailed analysis of the autism phenotype is critical for identifying autism loci.},
affiliation = {Geriatrics Research Education and Clinical Center, Puget Sound Veterans Affairs Medical Center, Seattle, WA 98108, USA. zachdad@u.washington.edu},
number = {11},
pages = {1049--60, 979},
volume = {11},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Microsatellite Repeats, Chromosome Mapping, Female, Child: Preschool, Autistic Disorder, Adult, Phenotype, Chromosomes: Human: Pair 7, Pedigree, Genome, Adolescent, Child, Linkage (Genetics), Male, Humans, Siblings, Genetic Predisposition to Disease},
date-added = {2010-01-11 23:47:30 +0100},
date-modified = {2010-01-11 23:47:30 +0100},
doi = {10.1038/sj.mp.4001874},
pii = {4001874},
pmid = {16880825},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schellenberg-2006-Mol%20Psychiatry_Evidence%20for%20multipl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2437},
rating = {0}
}
@article{Chung:2010p1617,
author = {D Chung and S Keles},
title = {Sparse Partial Least Squares Classification for High Dimensional Data},
abstract = {Partial least squares (PLS) is a well known dimension reduction method which has been recently adapted for high dimensional classification problems. We develop sparse versions of the recently proposed two PLS-based classification methods using sparse partial least squares (SPLS). These sparse versions aim to achieve variable selection and dimension reduction simultaneously. We consider both binary and multicategory classification. We provide analytical and simulation-based insights about the variable selection properties of these approaches and benchmark them on well known publicly available datasets that involve tumor classification with high dimensional gene expres- sion data. We show that incorporation of SPLS into a generalized linear model (GLM) framework provides higher sensitivity in variable selection for multicategory classifica- tion with unbalanced sample sizes between classes. As the sample size increases, the two-stage approach provides comparable sensitivity with better specificity in variable selection. In binary classification and multicategory classification with balanced sam- ple sizes, the two-stage approach provides comparable variable selection and prediction accuracy as the GLM version and is computationally more efficient.
R package, datasets and results of computational experiments on additional pub- licly available gene expression datasets are available in the online supplements.},
date-added = {2010-01-07 17:17:43 +0100},
date-modified = {2010-01-07 17:18:26 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chung--_Sparse%20Partial%20Least.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1617},
rating = {0}
}
@article{Parkhomenko2009,
author = {E Parkhomenko and D Tritchler and J Beyene},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {Sparse Canonical Correlation Analysis with Application to Genomic Data Integration},
note = {Article 1},
number = {1},
volume = {8},
year = {2009},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2560},
rating = {0}
}
@article{McCarroll:2008p4249,
author = {Steven A McCarroll},
journal = {Hum Mol Genet},
title = {Extending genome-wide association studies to copy-number variation},
abstract = {Appreciating the contribution of human genome copy-number variation (CNV) to clinical phenotypes is one of the compelling genetics challenges of the coming years. It is increasingly possible to pursue such investigations as an extension of genome-wide association studies (GWAS), enabled by innovations in the design and analysis of SNP (single nucleotide polymorphism) arrays and by progress in determining the genomic locations and population-genetic properties of the CNVs that segregate in the human population. Extensions of GWAS to CNV have already resulted in discoveries of both de novo and inherited CNV that are associated with risk of common disease. This review will discuss new approaches, recent findings and the analytical challenges involved in expanding GWAS to appreciate the contribution of CNV to human phenotypes.},
affiliation = {Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA. smccarro@broad.mit.edu},
number = {R2},
pages = {R135--42},
volume = {17},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Disease, Gene Dosage, Genome-Wide Association Study, Humans, Heredity, Genotype, Genetic Predisposition to Disease, Genetics: Population},
date-added = {2010-01-21 10:59:28 +0100},
date-modified = {2010-07-29 19:28:52 +0200},
doi = {10.1093/hmg/ddn282},
pii = {ddn282},
pmid = {18852202},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4249},
rating = {0}
}
@article{vanOppen:1992p5514,
author = {P van Oppen},
journal = {Behaviour Research and Therapy},
title = {Obsessions and compulsions: dimensional structure, reliability, convergent and divergent validity of the Padua Inventory},
abstract = {This study presents data on dimensional structure, reliability, convergent and divergent validity of the Padua Inventory (PI). In a sample (n = 430) of normal Dutch subjects. The dimensional structure and the strength of the factors were comparable to those found in the Italian sample. The reliability of the PI was found to be satisfactory. As hypothesized substantial correlations were found between the PI and related scales of the Maudsley Obsessive-Compulsive Inventory (MOCI) and between the PI and the subscales Sensitivity, Hostility and Depression of the revised version of the Symptom Checklist. Low correlations were found between the PI on the one side and the Eysenck Personality Questionnaire revised Extraversion, Psychoticism and Social Desirability scale on the other side. Finally, the mean score of the PI differs across the Italian, American and Dutch samples. This is of theoretical interest and deserves further study.},
affiliation = {Free University, Faculty of Medicine, Department of Psychiatry, Amsterdam Psychiatric Centre, The Netherlands.},
number = {6},
pages = {631--7},
volume = {30},
year = {1992},
month = {Nov},
language = {eng},
keywords = {Female, Obsessive-Compulsive Disorder, Cross-Cultural Comparison, Middle Aged, Adult, Adolescent, Reproducibility of Results, Aged, Reference Values, Humans, Personality Inventory, Male, Psychometrics, Netherlands},
date-added = {2010-02-12 14:59:36 +0100},
date-modified = {2010-07-29 19:18:50 +0200},
pii = {0005-7967(92)90008-5},
pmid = {1417688},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5514},
rating = {0}
}
@article{Zhang:2002p13230,
author = {N L Zhang},
title = {Hierarchical Latent Class Models for Cluster Analysis},
abstract = {Latent class models are used for cluster analysis of cat- egorical data. Underlying such a model is the assump- tion that the observed variables are mutually indepen- dent given the class variable. A serious problem with the use of latent class models, known as local depen- dence, is that this assumption is often untrue. In this paper we propose hierarchical latent class models as a framework where the local dependence problem can be addressed in a principled manner. We develop a search-based algorithm for learning hierarchical latent class models from data. The algorithm is evaluated us- ing both synthetic and real-world data.},
year = {2002},
date-added = {2010-07-01 17:25:49 +0200},
date-modified = {2010-07-01 17:26:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhang-2002-_Hierarchical%20Latent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13230},
rating = {5}
}
@article{Richards:2008p11914,
author = {Alexander L Richards and Peter Holmans and Michael C O'donovan and Michael J Owen and Lesley Jones},
journal = {BMC Bioinformatics},
title = {A comparison of four clustering methods for brain expression microarray data},
abstract = {BACKGROUND: DNA microarrays, which determine the expression levels of tens of thousands of genes from a sample, are an important research tool. However, the volume of data they produce can be an obstacle to interpretation of the results. Clustering the genes on the basis of similarity of their expression profiles can simplify the data, and potentially provides an important source of biological inference, but these methods have not been tested systematically on datasets from complex human tissues. In this paper, four clustering methods, CRC, k-means, ISA and memISA, are used upon three brain expression datasets. The results are compared on speed, gene coverage and GO enrichment. The effects of combining the clusters produced by each method are also assessed. RESULTS: k-means outperforms the other methods, with 100% gene coverage and GO enrichments only slightly exceeded by memISA and ISA. Those two methods produce greater GO enrichments on the datasets used, but at the cost of much lower gene coverage, fewer clusters produced, and speed. The clusters they find are largely different to those produced by k-means. Combining clusters produced by k-means and memISA or ISA leads to increased GO enrichment and number of clusters produced (compared to k-means alone), without negatively impacting gene coverage. memISA can also find potentially disease-related clusters. In two independent dorsolateral prefrontal cortex datasets, it finds three overlapping clusters that are either enriched for genes associated with schizophrenia, genes differentially expressed in schizophrenia, or both. Two of these clusters are enriched for genes of the MAP kinase pathway, suggesting a possible role for this pathway in the aetiology of schizophrenia. CONCLUSION: Considered alone, k-means clustering is the most effective of the four methods on typical microarray brain expression datasets. However, memISA and ISA can add extra high-quality clusters to the set produced by k-means, so combining these three methods is the method of choice.},
affiliation = {Department of Psychological Medicine, School of Medicine, University Hospital Wales, Heath Park, Cardiff, Wales, UK. richardsal1@cardiff.ac.uk},
pages = {490},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Schizophrenia, Gene Expression, Internet, Computational Biology, Gene Expression Profiling, Cluster Analysis, Oligonucleotide Array Sequence Analysis, Humans, Algorithms, Brain, Databases: Genetic, Data Interpretation: Statistical},
date-added = {2010-05-23 16:38:21 +0200},
date-modified = {2010-05-23 16:38:25 +0200},
doi = {10.1186/1471-2105-9-490},
pii = {1471-2105-9-490},
pmid = {19032745},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Richards-2008-BMC%20Bioinformatics_A%20comparison%20of%20four.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11914},
rating = {4}
}
@article{Vansteelandt:1999p2668,
author = {K Vansteelandt},
journal = {European Journal of Personality},
title = {A Formal Model for the Competency-Demand Hypothesis},
abstract = {The goal of contextualized approaches to personality is twofold: (a) to describe individual differences in situation$\pm$response pro{\textregistered}les in a parsimonious way and (b) to grasp the psychological mechanisms at the basis of these individual differences. In this paper, it is argued that formal models can be useful to reach this goal. In particular, an item response theory (IRT) model is proposed that formalizes the competency$\pm$demand hypothesis, a possible psychological mechanism at the basis of failure behaviour (Wright and Mischel, 1987). The latter hypothesis implies that a person will display a failure response (e.g. aggression) in a situation whenever the demands of the situation are larger than the competency of the person to such an extent that the threshold of the failure response is exceeded. In an empirical study on self-reported hostility in frustrating situations, it is illustrated how the proposed model can be estimated and tested.},
pages = {429--442},
volume = {13},
year = {1999},
date-added = {2010-01-13 09:32:19 +0100},
date-modified = {2010-01-13 09:33:24 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vansteelandt-1999-European%20Journal%20of%20Personality_A%20Formal%20Model%20for%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2668},
rating = {0}
}
@article{Fossati:2007p13548,
author = {Andrea Fossati and Ernest S Barratt and Serena Borroni and Daniele Villa and Federica Grazioli and Cesare Maffei},
journal = {Psychiatry Res},
title = {Impulsivity, aggressiveness, and DSM-IV personality disorders},
abstract = {The aim of this study is to assess whether impulsive and aggressive traits can be placed on a continuum with DSM-IV Cluster B Personality Disorders (PDs) and to determine if different aspects of these personality traits are specifically associated with individual Cluster B PDs. The study group comprised 461 outpatients admitted consecutively to a clinic that specializes in the diagnosis and treatment of PDs. Principal component analyses clearly suggested a five-factor structure of both normal and psychopathological personality traits. Importantly, measures of impulsivity, aggressiveness and novelty seeking formed a part of the principal component that clustered all Cluster B PDs. Regression analyses indicated that impulsive traits were selectively associated with Borderline PD whereas different aspects of aggressiveness were useful in discriminating Narcissistic PD from Antisocial PD. Sensation seeking traits formed a part of Histrionic PD. These results indicate that impulsive/aggressive traits may be useful in explaining both why Cluster B PDs tend to covary, and why they frequently differ in clinical pictures and courses.},
affiliation = {Faculty of Psychology, Vita-Salute San Raffaele University, Milan, Italy. fossati.andrea@hsr.it},
number = {1-3},
pages = {157--67},
volume = {149},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Character, Factor Analysis: Statistical, Impulse Control Disorders, Object Attachment, Female, Severity of Illness Index, Humans, Exploratory Behavior, Personality Disorders, Temperament, Adult, Male, Diagnostic and Statistical Manual of Mental Disorders, Aggression},
date-added = {2010-07-07 21:06:49 +0200},
date-modified = {2010-07-07 21:06:50 +0200},
doi = {10.1016/j.psychres.2006.03.011},
pii = {S0165-1781(06)00084-9},
pmid = {17157921},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fossati-2007-Psychiatry%20Res_Impulsivity%20aggress.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13548},
rating = {0}
}
@techreport{Presnell:1994,
author = {B Presnell and J G Booth},
journal = {Techreport},
title = {Resampling methods for sample survey},
affiliation = {Department of Statistics, University of Florida},
number = {470},
year = {1994},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Presnell-1994-Techreport_Resampling%20methods%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2099},
rating = {0}
}
@article{Kupek:2002p8399,
author = {Emil Kupek},
journal = {BMC Med Res Methodol},
title = {Bias and heteroscedastic memory error in self-reported health behavior: an investigation using covariance structure analysis},
abstract = {BACKGROUND: Frequent use of self-reports for investigating recent and past behavior in medical research requires statistical techniques capable of analyzing complex sources of bias associated with this methodology. In particular, although decreasing accuracy of recalling more distant past events is commonplace, the bias due to differential in memory errors resulting from it has rarely been modeled statistically. METHODS: Covariance structure analysis was used to estimate the recall error of self-reported number of sexual partners for past periods of varying duration and its implication for the bias. RESULTS: Results indicated increasing levels of inaccuracy for reports about more distant past. Considerable positive bias was found for a small fraction of respondents who reported ten or more partners in the last year, last two years and last five years. This is consistent with the effect of heteroscedastic random error where the majority of partners had been acquired in the more distant past and therefore were recalled less accurately than the partners acquired more recently to the time of interviewing. CONCLUSIONS: Memory errors of this type depend on the salience of the events recalled and are likely to be present in many areas of health research based on self-reported behavior.},
affiliation = {Universidade Federal de Santa Catarina, Departamento de Sa{\'u}de P{\'u}blica-CCS, Campus Universitario, Trindade, 88,040-900 Florian{\'o}polis-SC, Brazil. kupek@repensul.ufsc.br},
pages = {14},
volume = {2},
year = {2002},
month = {Nov},
language = {eng},
keywords = {Male, Bias (Epidemiology), Adult, Questionnaires, Data Interpretation: Statistical, Age Factors, Great Britain, Models: Statistical, Reproducibility of Results, Health Surveys, Memory, Life Style, Sexual Partners, Time, Humans, Sexual Behavior, Health Behavior, Self Disclosure},
date-added = {2010-03-21 13:36:52 +0100},
date-modified = {2010-03-21 13:36:54 +0100},
pmid = {12435276},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kupek-2002-BMC%20Med%20Res%20Methodol_Bias%20and%20heterosceda.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8399},
rating = {4}
}
@article{Slawski:2008p523,
author = {M Slawski and M Daumer and A-L Boulesteix},
journal = {BMC Bioinformatics},
title = {CMA: a comprehensive Bioconductor package for supervised classification with high dimensional data},
abstract = {BACKGROUND: For the last eight years, microarray-based classification has been a major topic in statistics, bioinformatics and biomedicine research. Traditional methods often yield unsatisfactory results or may even be inapplicable in the so-called "p >> n" setting where the number of predictors p by far exceeds the number of observations n, hence the term "ill-posed-problem". Careful model selection and evaluation satisfying accepted good-practice standards is a very complex task for statisticians without experience in this area or for scientists with limited statistical background. The multiplicity of available methods for class prediction based on high-dimensional data is an additional practical challenge for inexperienced researchers. RESULTS: In this article, we introduce a new Bioconductor package called CMA (standing for "Classification for MicroArrays") for automatically performing variable selection, parameter tuning, classifier construction, and unbiased evaluation of the constructed classifiers using a large number of usual methods. Without much time and effort, users are provided with an overview of the unbiased accuracy of most top-performing classifiers. Furthermore, the standardized evaluation framework underlying CMA can also be beneficial in statistical research for comparison purposes, for instance if a new classifier has to be compared to existing approaches. CONCLUSION: CMA is a user-friendly comprehensive package for classifier construction and evaluation implementing most usual approaches. It is freely available from the Bioconductor website at (http://bioconductor.org/packages/2.3/bioc/html/CMA.html).},
affiliation = {Sylvia Lawry Centre for Multiple Sclerosis Research, Munich, Germany. martin.slawski@campus.lmu.de},
pages = {439},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Area Under Curve, Neural Networks (Computer), Statistics: Nonparametric, Computer Simulation, Discriminant Analysis, Sensitivity and Specificity, Monte Carlo Method, Computational Biology, User-Computer Interface, Least-Squares Analysis, Logistic Models, Reproducibility of Results, Software, Algorithms, Models: Statistical, Microarray Analysis, Internet},
date-added = {2010-01-03 13:36:59 +0100},
date-modified = {2010-01-03 13:36:59 +0100},
doi = {10.1186/1471-2105-9-439},
pii = {1471-2105-9-439},
pmid = {18925941},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Slawski-2008-BMC%20Bioinformatics_CMA%20a%20comprehensive.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p523},
rating = {0}
}
@article{Maris:2004p14008,
author = {Gunter Maris and Timo M Bechger},
journal = {Psychometrika},
title = {Equivalent MIRID models},
number = {4},
pages = {627--639},
volume = {69},
year = {2004},
date-added = {2010-08-04 09:32:54 +0200},
date-modified = {2010-08-04 09:33:38 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2004-Psychometrika_Equivalent%20MIRID%20mod.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14008},
rating = {0}
}
@article{Boosma:2000p1295,
author = {D I Boosma and C V Dolan},
title = {Multivariate QTL analysis using structural equation modeling: A look at power under simple conditions},
year = {2000},
date-added = {2010-01-07 11:32:14 +0100},
date-modified = {2010-01-07 11:33:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Boosma-2000-_Multivariate%20QTL%20ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1295},
rating = {0}
}
@article{Qiu:2009p13497,
author = {Ping Qiu and Xiao-Yan Cai and Wei Ding and Qing Zhang and Ellie D Norris and Jonathan R Greene},
journal = {J Biomed Sci},
title = {HCV genotyping using statistical classification approach},
abstract = {The genotype of Hepatitis C Virus (HCV) strains is an important determinant of the severity and aggressiveness of liver infection as well as patient response to antiviral therapy. Fast and accurate determination of viral genotype could provide direction in the clinical management of patients with chronic HCV infections. Using publicly available HCV nucleotide sequences, we built a global Position Weight Matrix (PWM) for the HCV genome. Based on the PWM, a set of genotype specific nucleotide sequence "signatures" were selected from the 5' NCR, CORE, E1, and NS5B regions of the HCV genome. We evaluated the predictive power of these signatures for predicting the most common HCV genotypes and subtypes. We observed that nucleotide sequence signatures selected from NS5B and E1 regions generally demonstrated stronger discriminant power in differentiating major HCV genotypes and subtypes than that from 5' NCR and CORE regions. Two discriminant methods were used to build predictive models. Through 10 fold cross validation, over 99% prediction accuracy was achieved using both support vector machine (SVM) and random forest based classification methods in a dataset of 1134 sequences for NS5B and 947 sequences for E1. Prediction accuracy for each genotype is also reported.},
affiliation = {Molecular Design and Informatics, Schering-Plough Research Institute, 2015 Galloping Hill Road, Kenilworth, NJ 07033, USA. ping.qiu@spcorp.com},
pages = {62},
volume = {16},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Viral Nonstructural Proteins, Algorithms, Sequence Alignment, Computational Biology, Models: Genetic, Reproducibility of Results, Hepacivirus, Genes: Viral, DNA: Viral, Molecular Sequence Data, Antiviral Agents, RNA: Viral, Base Sequence, DNA Primers, Genotype},
date-added = {2010-07-07 20:35:40 +0200},
date-modified = {2010-07-07 20:35:40 +0200},
doi = {10.1186/1423-0127-16-62},
pii = {1423-0127-16-62},
pmid = {19586537},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Qiu-2009-J%20Biomed%20Sci_HCV%20genotyping%20using.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13497},
rating = {0}
}
@article{Yates:2005p7449,
author = {Shona L Yates and Stephen Morley and Christopher Eccleston and Amanda C de C Williams},
journal = {Pain},
title = {A scale for rating the quality of psychological trials for pain},
abstract = {This paper reports the development of a scale for assessing the quality of reports of randomised controlled trials for psychological treatments. The Delphi method was used in which a panel of 15-12 experts generated statements relating to treatment and design components of trials. After three rounds, statements with high consensus agreement were reviewed by a second expert panel and rewritten as a scale. Evidence to support the reliability and validity of the scale is reported. Three expert and five novice raters assessed sets of 31 and 25 published trials to establish scale reliability (ICC ranges from 0.91 to 0.41 for experts and novices, respectively) and item reliability (Kappa and inter-rater agreement). The total scale score discriminated between trials globally judged as good and poor by experts, and trial quality was shown to be a function of year of publication. Uses for the scale are suggested.},
affiliation = {Academic Unit of Psychiatry and Behavioural Sciences, University of Leeds, 15 Hyde Terrace, Leeds LS2 9JT, UK.},
number = {3},
pages = {314--25},
volume = {117},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Pain, Reproducibility of Results, Psychotherapy, Randomized Controlled Trials as Topic, Humans, Pain Measurement, Regression Analysis, Meta-Analysis as Topic, Weights and Measures, Quality Control},
date-added = {2010-03-10 20:40:54 +0100},
date-modified = {2010-03-10 20:40:54 +0100},
doi = {10.1016/j.pain.2005.06.018},
pii = {S0304-3959(05)00317-9},
pmid = {16154704},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7449},
rating = {0}
}
@article{McHorney:1997p5854,
author = {C A McHorney and S M Haley and J E Ware},
journal = {Journal of Clinical Epidemiology},
title = {Evaluation of the MOS SF-36 Physical Functioning Scale (PF-10): II. Comparison of relative precision using Likert and Rasch scoring methods},
abstract = {This study examined the relative precision (RP) of two methods of scoring the 10-item Physical Functioning Scale (PF-10) from a large sample of patients (n = 3445) of the Medical Outcomes Study. Based on a Likert scaling model, the PF-10 summated scoring method was compared with a Rasch Item Response Theory (IRT) scaling model in which raw scores were transformed into a latent trait variable of physical functioning. Potential differences between scoring methods were hypothesized to be attributed to: (1) the logarithmic nature of the Rasch transformation; (2) the unevenness of the PF-10 item distributions; and (3) reduction of within-group variance. RP ratios favored the Rasch model in discriminating between patients who differed in disease severity. The Rasch and Likert scoring models performed similarly for tests involving sensitivity to change over a two-year follow-up period. In all comparisons, differences between methods were most apparent in clinical groups whose scores most approximated the extremes of the score distribution. Further research is necessary to test for differences between scoring models in discrimination and sensitivity to change among clinical groups whose scores are sufficiently spread across the continuum of physical functioning, in particular patients with either very high or low physical functioning. The Rasch model of scoring may have important implications for the clinical interpretation of individual scores at all ranges of the scale.},
affiliation = {Department of Preventive Medicine, University of Wisconsin-Madison Medical School, USA.},
number = {4},
pages = {451--61},
volume = {50},
year = {1997},
month = {Apr},
language = {eng},
keywords = {Health Status Indicators, Psychometrics, Severity of Illness Index, Data Interpretation: Statistical, Heart Failure, Humans, Linear Models},
date-added = {2010-02-17 15:01:00 +0100},
date-modified = {2010-02-23 08:13:30 +0100},
pii = {S0895435696004246},
pmid = {9179104},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McHorney-1997-Journal%20of%20Clinical%20Epidemiology_Evaluation%20of%20the%20MO.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5854},
rating = {4}
}
@inbook{Goodman:2002,
author = {L A Goodman},
journal = {Book},
title = {Applied Latent Class Analysis},
chapter = {Latent Class Analysis},
year = {2002},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goodman-2002-Book_Applied%20Latent%20Class.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1896},
rating = {0}
}
@article{Teo:2007p903,
author = {Yik Y Teo and Michael Inouye and Kerrin S Small and Rhian Gwilliam and Panagiotis Deloukas and Dominic P Kwiatkowski and Taane G Clark},
journal = {Bioinformatics},
title = {A genotype calling algorithm for the Illumina BeadArray platform},
abstract = {MOTIVATION: Large-scale genotyping relies on the use of unsupervised automated calling algorithms to assign genotypes to hybridization data. A number of such calling algorithms have been recently established for the Affymetrix GeneChip genotyping technology. Here, we present a fast and accurate genotype calling algorithm for the Illumina BeadArray genotyping platforms. As the technology moves towards assaying millions of genetic polymorphisms simultaneously, there is a need for an integrated and easy-to-use software for calling genotypes. RESULTS: We have introduced a model-based genotype calling algorithm which does not rely on having prior training data or require computationally intensive procedures. The algorithm can assign genotypes to hybridization data from thousands of individuals simultaneously and pools information across multiple individuals to improve the calling. The method can accommodate variations in hybridization intensities which result in dramatic shifts of the position of the genotype clouds by identifying the optimal coordinates to initialize the algorithm. By incorporating the process of perturbation analysis, we can obtain a quality metric measuring the stability of the assigned genotype calls. We show that this quality metric can be used to identify SNPs with low call rates and accuracy. AVAILABILITY: The C++ executable for the algorithm described here is available by request from the authors.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. teo@well.ox.ac.uk},
number = {20},
pages = {2741--6},
volume = {23},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Sequence Analysis: DNA, Genotype, Chromosome Mapping, Algorithms, Cluster Analysis, Polymorphism: Single Nucleotide, Oligonucleotide Array Sequence Analysis, In Situ Hybridization: Fluorescence},
date-added = {2010-01-03 18:35:07 +0100},
date-modified = {2010-01-03 18:35:07 +0100},
doi = {10.1093/bioinformatics/btm443},
pii = {btm443},
pmid = {17846035},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Teo-2007-Bioinformatics_A%20genotype%20calling%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p903},
rating = {0}
}
@article{Tian:2008p10040,
author = {Chao Tian and Robert M Plenge and Michael Ransom and Annette Lee and Pablo Villoslada and Carlo Selmi and Lars Klareskog and Ann E Pulver and Lihong Qi and Peter K Gregersen and Michael F Seldin},
journal = {PLoS Genet},
title = {Analysis and application of European genetic substructure using 300 K SNP information},
abstract = {European population genetic substructure was examined in a diverse set of >1,000 individuals of European descent, each genotyped with >300 K SNPs. Both STRUCTURE and principal component analyses (PCA) showed the largest division/principal component (PC) differentiated northern from southern European ancestry. A second PC further separated Italian, Spanish, and Greek individuals from those of Ashkenazi Jewish ancestry as well as distinguishing among northern European populations. In separate analyses of northern European participants other substructure relationships were discerned showing a west to east gradient. Application of this substructure information was critical in examining a real dataset in whole genome association (WGA) analyses for rheumatoid arthritis in European Americans to reduce false positive signals. In addition, two sets of European substructure ancestry informative markers (ESAIMs) were identified that provide substantial substructure information. The results provide further insight into European population genetic substructure and show that this information can be used for improving error rates in association testing of candidate genes and in replication studies of WGA scans.},
affiliation = {Rowe Program in Human Genetics, University of California Davis, Davis, California, United States of America.},
number = {1},
pages = {e4},
volume = {4},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Neoplasms, European Continental Ancestry Group, DNA, Case-Control Studies, Genetic Variation, Genetics: Population, Principal Component Analysis, Humans, Algorithms, Geography, Ireland, Jews, United States, Genetic Markers, Cluster Analysis, Bayes Theorem, Polymorphism: Single Nucleotide, Arthritis: Rheumatoid},
date-added = {2010-03-31 20:11:31 +0200},
date-modified = {2010-03-31 20:11:32 +0200},
doi = {10.1371/journal.pgen.0040004},
pii = {07-PLGE-RA-0557},
pmid = {18208329},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tian-2008-PLoS%20Genet_Analysis%20and%20applica.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10040},
rating = {0}
}
@article{Rueda:2008p2936,
author = {O M Rueda and R Diaz-Uriarte},
journal = {COBRA Preprint Series},
title = {Detection of Recurrent Copy Number Alterations in the Genome: a Probabilistic Approach},
abstract = {Copy number variation (CNV) in genomic DNA is linked to a variety of human diseases (including cancer, HIV acquisition, autoimmune and neurodegenerative diseases), and array-based CGH (aCGH) is currently the main technology to locate CNVs. Several methods can analyze aCGH data at the single sample level, but disease-critical genes are more likely to be found in regions that are common or recurrent among samples. Unfortunately, defining recurrent CNV regions remains a challenge. Moreover, the heterogeneous nature of many diseases requires that we search for CNVs that affect only some subsets of the samples (without prior knowledge of which regions and subsets of samples are affected), but this is neglected by current methods.},
year = {2008},
date-added = {2010-01-13 22:57:31 +0100},
date-modified = {2010-01-13 22:58:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rueda-2008-COBRA%20Preprint%20Series_Detection%20of%20Recurre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2936},
rating = {0}
}
@article{Yan:2010p4219,
author = {Ma Yan and Gonzalez Della Valle Alejandro and Zhang Hui and X M Tu},
journal = {Stat Med},
title = {A U-statistics-based approach for modeling Cronbach coefficient alpha within a longitudinal data setting},
abstract = {Cronbach coefficient alpha (CCA) is a classic measure of item internal consistency of an instrument and is used in a wide range of behavioral, biomedical, psychosocial, and health-care-related research. Methods are available for making inference about one CCA or multiple CCAs from correlated outcomes. However, none of the existing approaches effectively address missing data. As longitudinal study designs become increasingly popular and complex in modern-day clinical studies, missing data have become a serious issue, and the lack of methods to systematically address this problem has hampered the progress of research in the aforementioned fields. In this paper, we develop a novel approach to tackle the complexities involved in addressing missing data (at the instrument level due to subject dropout) within a longitudinal data setting. The approach is illustrated with both clinical and simulated data. Copyright (c) 2010 John Wiley {\&} Sons, Ltd.},
affiliation = {Department of Public Health, Weill Medical College of Cornell University, Hospital for Special Surgery, New York, NY 10021, U.S.A.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-21 10:58:01 +0100},
date-modified = {2010-01-21 10:58:01 +0100},
doi = {10.1002/sim.3853},
pmid = {20087849},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yan-2010-Stat%20Med_A%20U-statistics-based.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4219},
rating = {0}
}
@article{Chakrabarti:2009p6030,
author = {Suniti Chakrabarti},
journal = {Indian Pediatr},
title = {Early identification of Autism},
abstract = {This study was carried out to determine the nature and timing of parents initial concerns and their subsequent help seeking behavior, so as to suggest ways to facilitate early identification of autism. The introductory part of the Autism Diagnostic Interview-Revised was used in a survey to elicit relevant information from parents of autistic children. Delayed/deviant speech and language development was the commonest early concern of parents. The mean age of parental recognition of any problem was 23.4 months. The mean time lag from first recognition of the problem to seeking professional help was 4 months and to diagnosis, 32 months. In 68 % of cases, the first professional consulted was a child specialist.},
affiliation = {Pratibandhi Kalyan Kendra, Keota, Hooghly, West Bengal, India. sunit@doctors.org.uk},
number = {5},
pages = {412--4},
volume = {46},
year = {2009},
month = {May},
language = {eng},
date-added = {2010-02-19 17:00:47 +0100},
date-modified = {2010-02-19 17:00:47 +0100},
pii = {S001960610800066-2},
pmid = {19179745},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6030},
rating = {0}
}
@article{Yu:2007a,
author = {C H Yu and A Jannasch-Pennell and S DiGangi and C Kim and S Andrews},
journal = {Practical Assessment Research \{\&} Evaluation},
title = {A data visualization and data mining approach to response and non-response analysis in survey research},
number = {19},
volume = {12},
year = {2007},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-07-29 19:44:42 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2007-Practical%20Assessment%20Research%20%20&%20Evaluation_A%20data%20visualization.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1902},
rating = {0}
}
@article{Keet:1994p9544,
author = {I P Keet and A Krol and M Koot and M T Roos and F de Wolf and F Miedema and R A Coutinho},
journal = {AIDS},
title = {Predictors of disease progression in HIV-infected homosexual men with CD4+ cells < 200 x 10(6)/l but free of AIDS-defining clinical disease},
abstract = {OBJECTIVE: To study progression of HIV infection in individuals who are free of AIDS-defining clinical disease with CD4+ cell counts < 200 x 10(6)/l. DESIGN: Prospective and nested case-control study. SETTING: Amsterdam cohort study on HIV infection, The Netherlands. PARTICIPANTS: Prospective study: 148 asymptomatic HIV-infected individuals with < 200 x 10(6)/l CD4+ cells. Nested case-control study: 58 men with AIDS-free follow-up more than 2 years after CD4 count < 200 x 10(6)/l, compared with 63 who progressed to AIDS within 2 years. MAIN OUTCOME MEASURES: Progression to AIDS according to the 1987 Centers for Disease Control and Prevention case definition and death. RESULTS: Median AIDS-free interval was 22 months, median interval to death 41 months. Presence of syncytium-inducing (SI) HIV variants, HIV p24 antigen, and a low T-cell response after stimulation with phytohaemagglutinin (PHA) were independent predictors of progression to AIDS. Probability of 1 year AIDS-free survival varied between 89 and 38% by the presence or absence of these additional markers. Effect of early treatment could only be detected in men with HIV p24 antigen and SI variants. Case-control analysis showed similar changes over time regarding prognostic markers in both groups although at a lower rate in the AIDS-free men. Eight men remained AIDS-free more than 4 years, SI variants were absent in seven, and all eight were p24-seronegative. CONCLUSIONS: HIV-infected individuals can remain disease-free for more than 4 years with very low CD4+ cell counts, provided that they lack other progression markers: SI variants, p24 antigen and a low PHA-induced T-cell reactivity. A beneficiary effect of early treatment may be limited to men with SI variants and/or p24 antigen.},
affiliation = {Municipal Health Service, Department of Public Health and Environment, Amsterdam, The Netherlands.},
number = {11},
pages = {1577--83},
volume = {8},
year = {1994},
month = {Nov},
language = {eng},
keywords = {Lymphocyte Activation, Follow-Up Studies, HIV Core Protein p24, Acquired Immunodeficiency Syndrome, HIV-1, Humans, Prospective Studies, Proportional Hazards Models, HIV Seropositivity, CD4 Lymphocyte Count, Case-Control Studies, HIV Infections, Homosexuality: Male, Multivariate Analysis, Time Factors, T-Lymphocytes, Analysis of Variance, Male, Probability, Survival Analysis, Predictive Value of Tests},
date-added = {2010-03-23 20:43:22 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
pmid = {7848594},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keet-1994-AIDS_Predictors%20of%20diseas.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9544},
rating = {0}
}
@article{Nigg:2009p5366,
author = {J T Nigg},
journal = {Current Directions in Psychological Science},
title = {Attention-Deficit/Hyperactivity Disorder: Endophenotypes, Structure, and Etiological Pathways},
abstract = {Several lines of research are revising our picture of attention-deficit/hyperactivity disorder (ADHD). I highlight four emerging themes. First, models from temperament and personality research have been fruitful in clarifying the basic pathways to ADHD and their relation to typical development. Second, many kinds of attention are normal in ADHD, but cognitive control and vigilance are not. These last two are among present candidates for clinical markers that may help identify causes of ADHD. Third, any one cognitive marker pertains to only a subset of the ADHD population; the syndrome's heterogeneity increasingly is a focus of research. Fourth, along with energetic pursuit of genes related to ADHD, resurgent interest in environmental causes of ADHD is notable. New insights into environmental effects are illustrated by recent data concerning lead exposure and ADHD.},
year = {2009},
date-added = {2010-02-11 09:16:51 +0100},
date-modified = {2010-07-29 19:24:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nigg-2009-Current%20Directions%20in%20Psychological%20Science_Attention-DeficitHy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5366},
rating = {0}
}
@inbook{Richardson:1992,
author = {S Richardson},
journal = {Book},
title = {Geographical and environmental epidemiology; methods for small area studies},
chapter = {Statistical methods for geographical correlation studies},
pages = {181--204},
year = {1992},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1029},
rating = {0}
}
@article{Reise:1990p2705,
author = {S P Reise},
journal = {Applied Psychological Measurement},
title = {A Comparison of Item- and Person-Fit Methods of Assessing Model-Data Fit in IRT},
number = {2},
pages = {127--137},
volume = {14},
year = {1990},
date-added = {2010-01-13 10:23:23 +0100},
date-modified = {2010-07-29 19:16:53 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reise-1990-Applied%20Psychological%20Measurement_A%20Comparison%20of%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2705},
rating = {0}
}
@article{Gibbons:2007p2767,
author = {R D Gibbons and J C Immekus and R D Bock},
title = {The Added Value of Multidimensional IRT Models},
year = {2007},
date-added = {2010-01-13 14:24:00 +0100},
date-modified = {2010-01-13 14:24:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gibbons-2007-_The%20Added%20Value%20of%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2767},
rating = {0}
}
@article{Shalev:2009p9023,
author = {Idan Shalev and Elad Lerer and Salomon Israel and Florina Uzefovsky and Inga Gritsenko and David Mankuta and Richard P Ebstein and Marsha Kaitz},
journal = {Psychoneuroendocrinology},
title = {BDNF Val66Met polymorphism is associated with HPA axis reactivity to psychological stress characterized by genotype and gender interactions},
abstract = {BACKGROUND: A key protein in maintaining neuronal integrity throughout the life span is brain-derived neurotrophic factor (BDNF). The BDNF gene is characterized by a functional polymorphism, which has been associated with stress-related disorders such as anxiety-related syndromes and depression, prompting us to examine individual responses by Genotype and Sex to a standardized social stress paradigm. Gender differences in BDNFxstress responses were posited because estrogen induces synthesis of BDNF in several brain regions. METHODS: 97 university students (51 females and 46 males) participated in a social stress procedure (Trier Social Stress Test, TSST). Indices of stress were derived from repeated measurement of cortisol, blood pressure, and heart rate during the TSST. All subjects were genotyped for the Val66Met polymorphism. RESULTS: Tests of within-subject effects showed a significant three-way interaction (SPSS GLM repeated measures: Time (eight levels)xBDNF (val/val, val/met)xSex: p=0.0002), which reflects gender differences in the pattern of cortisol rise and decline during the social challenge. In male subjects, val/val homozygotes showed a greater rise in salivary cortisol than val/met heterozygotes. In female subjects, there was a trend for the opposite response, which is significant when area under the curve increase (AUCi) was calculated for the val/val homozygotes to show the lowest rise. Overall, the same pattern of results was observed for blood pressure and heart rate. CONCLUSIONS: These results indicate that a common, functionally significant polymorphism in the BDNF gene modulates HPA axis reactivity and regulation during the TSST differently in men and women. Findings may be related to gender differences in reactivity and vulnerability to social stress.},
affiliation = {Neurobiology, Hebrew University, Jerusalem, Israel.},
number = {3},
pages = {382--8},
volume = {34},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Pituitary-Adrenal System, Adult, Sex Characteristics, Heart Rate, Stress: Psychological, Brain-Derived Neurotrophic Factor, Male, Polymorphism: Genetic, Blood Pressure, Hypothalamo-Hypophyseal System, Saliva, Genotype, Hydrocortisone, Female, Humans},
date-added = {2010-03-22 13:15:22 +0100},
date-modified = {2010-03-22 13:15:22 +0100},
doi = {10.1016/j.psyneuen.2008.09.017},
pii = {S0306-4530(08)00259-X},
pmid = {18990498},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shalev-2009-Psychoneuroendocrinology_BDNF%20Val66Met%20polymo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9023},
rating = {0}
}
@article{Kirsch:2006p10477,
author = {Peter Kirsch and Martin Reuter and Daniela Mier and Tina Lonsdorf and Rudolf Stark and Bernd Gallhofer and Dieter Vaitl and J{\"u}rgen Hennig},
journal = {Neurosci Lett},
title = {Imaging gene-substance interactions: the effect of the DRD2 TaqIA polymorphism and the dopamine agonist bromocriptine on the brain activation during the anticipation of reward},
abstract = {Dopamine is known as the main neurotransmitter modulating the activation of the reward system of the brain. The DRD2 TaqIA polymorphism is associated with dopamine D2 receptor density which plays an important role in the context of reward. Persons carrying an A1 allele have a lower D2 receptor density and a higher risk to show substance abuse. The present study was designed to investigate the influence of the DRD2 TaqIA polymorphism and the selective D2 receptor agonist bromociptine on the activation of the reward system by means of functional magnetic resonance imaging (fMRI). In a double-blind crossover study with 24 participants we found an increase of reward system activation from placebo to bromocriptine only in subjects carrying the A1 allele. Furthermore, only A1 carrier showed an increase of performance under bromocriptine. The results are interpreted as reflecting a specific sensitivity for dopamine agonists in persons carrying an A1 allele and may complement actual data and theories of the development of addiction disorders postulating a higher genetic risk for substance abuse in carrier of the A1 allele.},
affiliation = {Center for Psychiatry, Justus-Liebig-University Giessen, Am Steg 28, D-35385 Giessen, Germany. peter.kirsch@psychiat.med.uni-giessen.de},
number = {3},
pages = {196--201},
volume = {405},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Dopamine Agonists, Reaction Time, Brain, Adult, Reward, Male, Polymorphism: Genetic, Image Processing: Computer-Assisted, Adolescent, Reverse Transcriptase Polymerase Chain Reaction, Cross-Sectional Studies, Receptors: Dopamine D2, Oxygen, Feedback: Psychological, Magnetic Resonance Imaging, Double-Blind Method, Female, Bromocriptine, Humans},
date-added = {2010-04-07 11:17:41 +0200},
date-modified = {2010-07-29 19:41:43 +0200},
doi = {10.1016/j.neulet.2006.07.030},
pii = {S0304-3940(06)00694-X},
pmid = {16901644},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T0G-4KKNNGB-1&_user=2432700&_coverDate=09%252F25%252F2006&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=bcbffe5efb36e825d1aab34dfbaef707},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kirsch-2006-Neurosci%20Lett_Imaging%20gene-substan.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10477},
rating = {0}
}
@article{ForcadaGuex:2006p7930,
author = {Margarita Forcada-Guex and Blaise Pierrehumbert and Ayala Borghini and Adrien Moessinger and Carole Muller-Nix},
journal = {Pediatrics},
title = {Early dyadic patterns of mother-infant interactions and outcomes of prematurity at 18 months},
abstract = {OBJECTIVE: With the increased survival of very preterm infants, there is a growing concern for their developmental and socioemotional outcomes. The quality of the early mother-infant relationship has been noted as 1 of the factors that may exacerbate or soften the potentially adverse impact of preterm birth, particularly concerning the infant's later competencies and development. The first purpose of the study was to identify at 6 months of corrected age whether there were specific dyadic mother-infant patterns of interaction in preterm as compared with term mother-infant dyads. The second purpose was to examine the potential impact of these dyadic patterns on the infant's behavioral and developmental outcomes at 18 months of corrected age. METHODS: During a 12-month period (January-December 1998), all preterm infants who were <34 weeks of gestational age and hospitalized at the NICU of the Lausanne University Hospital were considered for inclusion in this longitudinal prospective follow-up study. Control healthy term infants were recruited during the same period from the maternity ward of our hospital. Mother-infant dyads with preterm infants (n = 47) and term infants (n = 25) were assessed at 6 months of corrected age during a mother-infant play interaction and coded according to the Care Index. This instrument evaluates the mother's interactional behavior according to 3 scales (sensitivity, control, and unresponsiveness) and the child's interactional behavior according to 4 scales (cooperation, compliance, difficult, and passivity). At 18 months, behavioral outcomes of the children were assessed on the basis of a semistructured interview of the mother, the Symptom Check List. The Symptom Check List explores 4 groups of behavioral symptoms: sleeping problems, eating problems, psychosomatic symptoms, and behavioral and emotional disorders. At the same age, developmental outcomes were evaluated using the Griffiths Developmental Scales. Five areas were evaluated: locomotor, personal-social, hearing and speech, eye-hand coordination, and performance. RESULTS: Among the possible dyadic patterns of interaction, 2 patterns emerge recurrently in mother-infant preterm dyads: a "cooperative pattern" with a sensitive mother and a cooperative-responsive infant (28%) and a "controlling pattern" with a controlling mother and a compulsive-compliant infant (28%). The remaining 44% form a heterogeneous group that gathers all of the other preterm dyads and is composed of 1 sensitive mother-passive infant; 10 controlling mothers with a cooperative, difficult, or passive infant; and 10 unresponsive mothers with a cooperative, difficult, or passive infant. Among the term control subjects, 68% of the dyads are categorized as cooperative pattern dyads, 12% as controlling pattern dyads, and the 20% remaining as heterogeneous dyads. At 18 months, preterm infants of cooperative pattern dyads have similar outcomes as the term control infants. Preterm infants of controlling pattern dyads have significantly fewer positive outcomes as compared with preterm infants of cooperative pattern dyads, as well as compared with term control infants. They display significantly more behavioral symptoms than term infants, including more eating problems than term infants as well as infants from cooperative preterm dyads. Infants of the controlling preterm dyads do not differ significantly for the total development quotient but have worse personal-social development than term infants and worse hearing-speech development than infants from cooperative preterm dyads. The preterm infants of the heterogeneous group have outcomes that can be considered as intermediate with no significant differences compared with preterm infants from the cooperative pattern or the controlling pattern dyads. CONCLUSION: Among mother-preterm infant dyads, we identified 2 specific patterns of interaction that could play either a protective (cooperative pattern) or a risk-precipitating (controlling pattern) role on developmental and behavioral outcome, independent of perinatal risk factors and of the family's socioeconomic background. The controlling pattern is much more prevalent among preterm than term dyads and is related to a less favorable infant outcome. However, the cooperative pattern still represents almost 30% of the preterm dyads, with infants' outcome comparable to the ones of term infants. These results point out the impact of the quality of mother-infant relationship on the infant's outcome. The most important clinical implication should be to support a healthy parent-infant relationship already in the NICU but also in the first months of the infant's life. Early individualized family-based interventions during neonatal hospitalization and transition to home have been shown to reduce maternal stress and depression and increase maternal self-esteem and to improve positive early parent-preterm infant interactions.},
affiliation = {Division of Neonatology, Department of Pediatrics, University Hospital Lausanne, Switzerland. Margarita.Forcada-Guex@chuv.ch},
number = {1},
pages = {e107--14},
volume = {118},
year = {2006},
month = {Jul},
language = {eng},
keywords = {Infant: Premature, Mother-Child Relations, Infant: Newborn, Mothers, Female, Child Development, Infant Behavior, Humans, Infant, Prospective Studies, Follow-Up Studies},
date-added = {2010-03-20 19:23:04 +0100},
date-modified = {2010-03-20 19:23:04 +0100},
doi = {10.1542/peds.2005-1145},
pii = {118/1/e107},
pmid = {16818525},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Forcada-Guex-2006-Pediatrics_Early%20dyadic%20pattern.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7930},
rating = {0}
}
@article{Senn:2009p5166,
author = {Stephen Senn and Steven Julious},
journal = {Stat Med},
title = {Measurement in clinical trials: a neglected issue for statisticians?},
abstract = {Biostatisticians have frequently uncritically accepted the measurements provided by their medical colleagues engaged in clinical research. Such measures often involve considerable loss of information. Particularly, unfortunate is the widespread use of the so-called 'responder analysis', which may involve not only a loss of information through dichotomization, but also extravagant and unjustified causal inference regarding individual treatment effects at the patient level, and, increasingly, the use of the so-called number needed to treat scale of measurement. Other problems involve inefficient use of baseline measurements, the use of covariates measured after the start of treatment, the interpretation of titrations and composite response measures. Many of these bad practices are becoming enshrined in the regulatory guidance to the pharmaceutical industry. We consider the losses involved in inappropriate measures and suggest that statisticians should pay more attention to this aspect of their work.},
affiliation = {Department of Statistics, University of Glasgow, Glasgow G12 9LL, U.K. stephen@stats.gla.ac.uk},
number = {26},
pages = {3189--209},
volume = {28},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Randomized Controlled Trials as Topic, Outcome Assessment (Health Care), Electrocardiography, Treatment Outcome, Cross-Over Studies, Data Interpretation: Statistical, Humans, Clinical Trials as Topic, Biostatistics},
date-added = {2010-02-07 12:27:28 +0100},
date-modified = {2010-02-07 12:27:28 +0100},
doi = {10.1002/sim.3603},
pmid = {19455540},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Senn-2009-Stat%20Med_Measurement%20in%20clini.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5166},
rating = {0}
}
@book{Oppenheim:1966,
author = {AN Oppenheim},
journal = {Book},
title = {Questionnaire design and attitude measurement},
year = {1966},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p993},
rating = {0}
}
@article{Bradley:2006,
author = {K Bradley and S Sampson and K Royal},
journal = {Mathematics Education Research Journal},
title = {Applying the Rasch Rating Scale Model to Gain Insights into Students' Conceptualisation of Quality Mathematics Instruction},
number = {2},
pages = {11--26},
volume = {18},
year = {2006},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bradley-2006-Mathematics%20Education%20Research%20Journal_Applying%20the%20Rasch%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1971},
rating = {0}
}
@article{Raychaudhuri:2009p4883,
author = {Soumya Raychaudhuri and Robert M Plenge and Elizabeth J Rossin and Aylwin C Y Ng and International Schizophrenia Consortium and Shaun M Purcell and Pamela Sklar and Edward M Scolnick and Ramnik J Xavier and David M Altshuler and Mark J Daly},
journal = {PLoS Genet},
title = {Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions},
abstract = {Translating a set of disease regions into insight about pathogenic mechanisms requires not only the ability to identify the key disease genes within them, but also the biological relationships among those key genes. Here we describe a statistical method, Gene Relationships Among Implicated Loci (GRAIL), that takes a list of disease regions and automatically assesses the degree of relatedness of implicated genes using 250,000 PubMed abstracts. We first evaluated GRAIL by assessing its ability to identify subsets of highly related genes in common pathways from validated lipid and height SNP associations from recent genome-wide studies. We then tested GRAIL, by assessing its ability to separate true disease regions from many false positive disease regions in two separate practical applications in human genetics. First, we took 74 nominally associated Crohn's disease SNPs and applied GRAIL to identify a subset of 13 SNPs with highly related genes. Of these, ten convincingly validated in follow-up genotyping; genotyping results for the remaining three were inconclusive. Next, we applied GRAIL to 165 rare deletion events seen in schizophrenia cases (less than one-third of which are contributing to disease risk). We demonstrate that GRAIL is able to identify a subset of 16 deletions containing highly related genes; many of these genes are expressed in the central nervous system and play a role in neuronal synapses. GRAIL offers a statistically robust approach to identifying functionally related genes from across multiple disease regions--that likely represent key disease pathways. An online version of this method is available for public use (http://www.broad.mit.edu/mpg/grail/).},
affiliation = {Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America. soumya@broad.mit.edu},
number = {6},
pages = {e1000534},
volume = {5},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Genomics, Genome-Wide Association Study, Databases: Genetic, Genome: Human, Humans, Schizophrenia, Gene Deletion, Meta-Analysis as Topic, Crohn Disease, Polymorphism: Single Nucleotide},
date-added = {2010-02-02 11:23:22 +0100},
date-modified = {2010-07-29 20:21:03 +0200},
doi = {10.1371/journal.pgen.1000534},
pmid = {19557189},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raychaudhuri-2009-PLoS%20Genet_Identifying%20relation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4883},
rating = {0}
}
@article{Foucart:2010p4107,
author = {T Foucart},
title = {{\'E}valuation de la r{\'e}gression born{\'e}e},
abstract = {Le mod{\`e}le lin{\'e}aire est tr{\`e}s fr{\'e}quemment utilis{\'e} en statistique et particuli{\`e}rement dans les secteurs de l'assurance, de la banque et du marketing. Il permet de d{\'e}terminer les variables explicatives qui interviennent dans le risque mesur{\'e} chez les assur{\'e}s et dans les choix effectu{\'e}es par la client{\`e}le, et d'en effectuer des estimations lorsqu'ils sont inconnus. Le probl{\`e}me consid{\'e}r{\'e} dans cet article appara{\^\i}t lorsque ces variables sont li{\'e}es statistiquement, par exemple le revenu et la cat{\'e}gorie socioprofessionnelle. Les estimations donn{\'e}es par le crit{\`e}re des moindres carr{\'e}s ordinaires deviennent alors instables et peuvent prendre des valeurs en contradiction avec les valeurs r{\'e}elles. Il existe de nombreuses m{\'e}thodes adapt{\'e}es {\`a} ce type de donn{\'e}es. Nous proposons ici d'{\'e}valuer l'efficacit{\'e} de la r{\'e}gression born{\'e}e en proc{\'e}dant par simulations. Les r{\'e}sultats sur ces donn{\'e}es sont clairs : le gain en pr{\'e}cision et en stabilit{\'e} des coefficients de r{\'e}gression est impressionnant.},
date-added = {2010-01-19 23:47:14 +0100},
date-modified = {2010-01-19 23:47:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Foucart--_E%CC%81valuation%20de%20la%20re.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4107},
rating = {0}
}
@article{Takane:1979p4020,
author = {Y Takane and F W Young and Jan de Leeuw},
journal = {Behaviormetrika},
title = {Nonmetric common factor analysis: An alternating least squares method with optimal scaling features},
pages = {45--56},
volume = {6},
year = {1979},
date-added = {2010-01-18 15:43:00 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-1979-Behaviormetrika_Nonmetric%20common%20fac.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4020},
rating = {0}
}
@article{Wagenmakers:2007p7183,
author = {Eric-Jan Wagenmakers},
journal = {Psychon Bull Rev},
title = {A practical solution to the pervasive problems of p values},
abstract = {In the field of psychology, the practice of p value null-hypothesis testing is as widespread as ever. Despite this popularity, or perhaps because of it, most psychologists are not aware of the statistical peculiarities of the p value procedure. In particular, p values are based on data that were never observed, and these hypothetical data are themselves influenced by subjective intentions. Moreover, p values do not quantify statistical evidence. This article reviews these p value problems and illustrates each problem with concrete examples. The three problems are familiar to statisticians but may be new to psychologists. A practical solution to these p value problems is to adopt a model selection perspective and use the Bayesian information criterion (BIC) for statistical inference (Raftery, 1995). The BIC provides an approximation to a Bayesian hypothesis test, does not require the specification of priors, and can be easily calculated from SPSS output.},
affiliation = {Department of Psychology, University of Amsterdam, Amsterdam, The Netherlands. ej.wagenmakers@gmail.com},
number = {5},
pages = {779--804},
volume = {14},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Models: Psychological, Bayes Theorem, Humans, Psychology},
date-added = {2010-03-06 20:32:52 +0100},
date-modified = {2010-07-29 19:47:36 +0200},
pmid = {18087943},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wagenmakers-2007-Psychon%20Bull%20Rev_A%20practical%20solution.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7183},
read = {Yes},
rating = {0}
}
@article{Henderson:2006p4118,
author = {T Henderson},
journal = {The PracTEX Journal},
title = {A Beginner's Guide to METAPOST for Creating High-Quality Graphics},
abstract = {Individuals that use TEX (or any of its derivatives) to typeset their docu- ments generally take extra measures to ensure paramount visual quality. Such documents often contain mathematical expressions and graphics to accompany the text. Since TEX was designed ``for the creation of beautiful books -- and especially for books that contain a lot of mathematics''[4], it is clear that it is sufficient (and in fact exceptional) at dealing with mathematics and text. TEX was not designed for creating graphics; however, certain add- on packages can be used to create modest figures. TEX, however, is capable of including graphics created with other utilities in a variety of formats. Because of their scalability, Encapsulated PostScript (EPS) graphics are the most common types used. This paper introduces METAPOST and demon- strates the fundamentals needed to generate high-quality EPS graphics for inclusion into TEX-based documents.},
volume = {4},
year = {2006},
date-added = {2010-01-20 00:05:44 +0100},
date-modified = {2010-07-29 19:52:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Henderson-2006-The%20PracTEX%20Journal_A%20Beginner%E2%80%99s%20Guide%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4118},
rating = {0}
}
@article{Blasi:2009p5770,
author = {Giuseppe Blasi and Luciana Lo Bianco and Paolo Taurisano and Barbara Gelao and Raffaella Romano and Leonardo Fazio and Apostolos Papazacharias and Annabella Di Giorgio and Grazia Caforio and Antonio Rampino and Rita Masellis and Audrey Papp and Gianluca Ursini and Lorenzo Sinibaldi and Teresa Popolizio and Wolfgang Sadee and Alessandro Bertolino},
journal = {J Neurosci},
title = {Functional variation of the dopamine D2 receptor gene is associated with emotional control as well as brain activity and connectivity during emotion processing in humans},
abstract = {Personality traits related to emotion processing are, at least in part, heritable and genetically determined. Dopamine D(2) receptor signaling is involved in modulation of emotional behavior and activity of associated brain regions such as the amygdala and the prefrontal cortex. An intronic single nucleotide polymorphism within the D(2) receptor gene (DRD2) (rs1076560, guanine > thymine or G > T) shifts splicing of the two protein isoforms (D(2) short, mainly presynaptic, and D(2) long) and has been associated with modulation of memory performance and brain activity. Here, our aim was to investigate the association of DRD2 rs1076560 genotype with personality traits of emotional stability and with brain physiology during processing of emotionally relevant stimuli. DRD2 genotype and Big Five Questionnaire scores were evaluated in 134 healthy subjects demonstrating that GG subjects have reduced "emotion control" compared with GT subjects. Functional magnetic resonance imaging in a sample of 24 individuals indicated greater amygdala activity during implicit processing and greater dorsolateral prefrontal cortex (DLPFC) response during explicit processing of facial emotional stimuli in GG subjects compared with GT. Other results also demonstrate an interaction between DRD2 genotype and facial emotional expression on functional connectivity of both amygdala and dorsolateral prefrontal regions with overlapping medial prefrontal areas. Moreover, rs1076560 genotype is associated with differential relationships between amygdala/DLPFC functional connectivity and emotion control scores. These results suggest that genetically determined D(2) signaling may explain part of personality traits related to emotion processing and individual variability in specific brain responses to emotionally relevant inputs.},
affiliation = {Psychiatric Neuroscience Group, Department of Neurological and Psychiatric Sciences, University of Bari, 70124 Bari, Italy.},
number = {47},
pages = {14812--9},
volume = {29},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Genetic Testing, Polymorphism: Genetic, Magnetic Resonance Imaging, Personality, Amygdala, Questionnaires, Stress: Psychological, Genotype, DNA Mutational Analysis, Humans, Neural Pathways, Brain, Emotions, Female, Emotional Intelligence, Neuropsychological Tests, Receptors: Dopamine D2, Adult, Male, Young Adult, Dopamine, Genetic Markers, Affective Symptoms, Prefrontal Cortex},
date-added = {2010-02-17 10:06:20 +0100},
date-modified = {2010-07-29 19:52:28 +0200},
doi = {10.1523/JNEUROSCI.3609-09.2009},
pii = {29/47/14812},
pmid = {19940176},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blasi-2009-J%20Neurosci_Functional%20variation.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5770},
rating = {0}
}
@article{Binder:2008p427,
author = {Harald Binder and Martin Schumacher},
journal = {BMC Bioinformatics},
title = {Allowing for mandatory covariates in boosting estimation of sparse high-dimensional survival models},
abstract = {BACKGROUND: When predictive survival models are built from high-dimensional data, there are often additional covariates, such as clinical scores, that by all means have to be included into the final model. While there are several techniques for the fitting of sparse high-dimensional survival models by penalized parameter estimation, none allows for explicit consideration of such mandatory covariates. RESULTS: We introduce a new boosting algorithm for censored time-to-event data that shares the favorable properties of existing approaches, i.e., it results in sparse models with good prediction performance, but uses an offset-based update mechanism. The latter allows for tailored penalization of the covariates under consideration. Specifically, unpenalized mandatory covariates can be introduced. Microarray survival data from patients with diffuse large B-cell lymphoma, in combination with the recent, bootstrap-based prediction error curve technique, is used to illustrate the advantages of the new procedure. CONCLUSION: It is demonstrated that it can be highly beneficial in terms of prediction performance to use an estimation procedure that incorporates mandatory covariates into high-dimensional survival models. The new approach also allows to answer the question whether improved predictions are obtained by including microarray features in addition to classical clinical criteria.},
affiliation = {Freiburg Center for Data Analysis and Modeling, University of Freiburg, Eckerstr, 1, 79104 Freiburg, Germany. binderh@fdm.uni-freiburg.de},
pages = {14},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Prevalence, Risk Assessment, Proportional Hazards Models, Humans, Computer Simulation, Lymphoma: B-Cell, Sensitivity and Specificity, Survival Analysis, Survival Rate, Neoplasm Proteins, Software, Tumor Markers: Biological, Reproducibility of Results, Models: Biological, Gene Expression Profiling, Risk Factors},
date-added = {2010-01-03 12:23:30 +0100},
date-modified = {2010-01-03 12:23:30 +0100},
doi = {10.1186/1471-2105-9-14},
pii = {1471-2105-9-14},
pmid = {18186927},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Binder-2008-BMC%20Bioinformatics_Allowing%20for%20mandato.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p427},
rating = {0}
}
@misc{Lauritzen:2007,
author = {S L Lauritzen},
journal = {Miscellaneous},
title = {Exchangeable Rasch Matrices},
year = {2007},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lauritzen-2007-Miscellaneous_Exchangeable%20Rasch%20M.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2013},
rating = {0}
}
@article{Alvarenga:2010p14065,
author = {Marle Santos Alvarenga and Raquel Franzini Pereira and Fernanda Baeza Scagliusi and Sonia Tucunduva Philippi and Camilla Chermont Prochnik Estima and Jillian Croll},
journal = {Appetite},
title = {Psychometric evaluation of the Disordered Eating Attitude Scale (DEAS). English version},
abstract = {Eating attitudes are defined as beliefs, thoughts, feelings, behaviors and relationship with food. They could influence people's food choices and their health status. Objective: This study aimed to adapt from Portuguese to English the Disordered Eating Attitude Scale (DEAS) and evaluate its validity and reliability. The original scale in Portuguese was translated and adapted into English and was applied to female university students of University of Minnesota-USA (n=224). Internal consistency was determined (Cronbach's Alpha). Convergent validity was assessed by correlations between Eating Attitude Test-26 (EAT-26) and Restrain Scale (RS). Reliability was evaluated applying twice the scale to a sub-sample (n=30). The scale was back translated into Portuguese and compared with the original version and discrepancies were not found. The internal consistency was .76. The DEAS total score was significantly associated with EAT-26 (r=0.65) and RS (r=0.69) scores. The correlation between test-retest was r=0.9. The English version of DEAS showed appropriate internal consistency, convergent validity and test-retest reliability and will be useful to assess eating attitudes in different population groups in English spoken countries.},
affiliation = {Department of Nutrition - Public Health School, University of Sao Paulo, Avenida Doutor Arnaldo, 715, S{\~a}o Paulo, SP 01246-904, Brazil; Eating Disorders Unit - AMBULIM - of Clinics Hospital, Department of Psychiatry, Institute of Psychiatry, University of Sao Paulo, R. Dr. Ov{\'\i}deo Pires de Campos, 785, S{\~a}o Paulo, SP 01060-970, Brazil.},
pages = {},
year = {2010},
month = {Jul},
language = {ENG},
date-added = {2010-08-18 11:15:32 +0200},
date-modified = {2010-08-18 11:15:33 +0200},
doi = {10.1016/j.appet.2010.07.003},
pii = {S0195-6663(10)00449-6},
pmid = {20624435},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14065},
rating = {0}
}
@article{Tsai:2009p5127,
author = {Chia-Liang Tsai},
journal = {Res Dev Disabil},
title = {The effectiveness of exercise intervention on inhibitory control in children with developmental coordination disorder: using a visuospatial attention paradigm as a model},
abstract = {Children with developmental coordination disorder (DCD) have been demonstrated to show a deficit of inhibitory control in volitional shifts of attention. The aim of this study was to use ecological intervention to investigate the efficacy of table-tennis training on treating both problems with attentional networks and motor disorder in children with DCD. Forty-three children aged 9-10 years old were screened using the Movement Assessment Battery for Children and divided into DCD (n=27) and typically developing (TD, n=16) groups. Children with DCD were then quasi-randomly assigned to either a DCD-training group who underwent a ten-week table-tennis training program with a frequency of 3 times a week or a DCD non-training group. Before and after training, the capacity of inhibitory control was examined with the endogenous Posner paradigm task for DCD and TD groups. Table-tennis training resulted in significant improvement of cognitive and motor functions for the children with DCD. The study demonstrated that exercise intervention employed within the school setting can benefit the inhibitory control and motor performance in children with DCD. However, future research efforts should continue to clarify whether the performance gains could be maintained over time.},
affiliation = {Institute of Physical Education, Health {\&} Leisure Studies, National Cheng Kung University, Taiwan, ROC. andytsai@mail.ncku.edu.tw},
number = {6},
pages = {1268--80},
volume = {30},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Exercise Therapy, Attention, Visual Perception, Cognition, Motor Skills Disorders, Motion Perception, Motor Skills, Child, Adolescent},
date-added = {2010-02-05 20:19:52 +0100},
date-modified = {2010-02-05 20:19:52 +0100},
doi = {10.1016/j.ridd.2009.05.001},
pii = {S0891-4222(09)00082-1},
pmid = {19497707},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5127},
rating = {0}
}
@article{Millsap:2007p6290,
author = {R E Millsap},
journal = {Psychometrika},
title = {INVARIANCE IN MEASUREMENT AND PREDICTION REVISITED},
abstract = {Borsboom (Psychometrika, 71:425--440, 2006) noted that recent work on measurement invariance (MI) and predictive invariance (PI) has had little impact on the practice of measurement in psychology. To understand this contention, the definitions of MI and PI are reviewed, followed by results on the consistency between the two forms of invariance in the general case. The special parametric cases of factor analysis (strict factorial invariance) and linear regression analyses (strong regression invariance) are then described, along with findings on the inconsistency between the two forms of invariance in this context. Two numerical examples of inconsistency are reviewed in detail. The impact of violations of MI on accuracy of selection is illustrated. Finally, reasons for the slow dissemination of work on invariance are discussed, and the prospects for altering this situation are weighed.},
number = {4},
pages = {461--473},
volume = {72},
year = {2007},
date-added = {2010-02-20 20:00:54 +0100},
date-modified = {2010-02-20 20:01:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Millsap-2007-Psychometrika_INVARIANCE%20IN%20MEASUR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6290},
rating = {0}
}
@article{Glahn:2007p9773,
author = {David C Glahn and Tomas Paus and Paul M Thompson},
journal = {Hum Brain Mapp},
title = {Imaging genomics: mapping the influence of genetics on brain structure and function},
affiliation = {Department of Psychiatry and Research Imaging Center, University of Texas Health Science Center, San Antonio, Texas, USA. glan@uthscsa.edu},
number = {6},
pages = {461--3},
volume = {28},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Publications, Humans, Magnetic Resonance Imaging, Brain Mapping, Genomics, Brain},
date-added = {2010-03-26 19:18:55 +0100},
date-modified = {2010-06-09 20:11:42 +0200},
doi = {10.1002/hbm.20416},
pmid = {17471577},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glahn-2007-Hum%20Brain%20Mapp_Imaging%20genomics%20ma.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9773},
rating = {4}
}
@article{Bartley:1997p10251,
author = {A J Bartley and D W Jones and D R Weinberger},
journal = {Brain},
title = {Genetic variability of human brain size and cortical gyral patterns},
abstract = {The development of the primate brain is determined by an interaction of genetic programmes and environmental events. We examined quantitatively the contribution of each of these factors to adult human brain hemisphere volume and global cortical gyral patterns by comparing 3-D MRI renderings of brains of 10 pairs of monozygotic (MZ) and nine pairs of same-sex dizygotic (DZ) twins. Brain volume was highly correlated in MZ pairs [unbiased intraclass correlation coefficient, ICC(U) = 0.95, P < 0.00001], but not in DZ pairs [ICC(U) = 0.35, P = 0.09]. Structural equation modelling indicated a 94% heritability of brain volume. Gyral patterns appeared visually more similar in MZ than in DZ pairs. This was confirmed statistically by a cross-correlation analysis of rendered images of lateral and mesial cortical surfaces. MZ twins exhibited significantly greater similarity than did DZ twins in comparisons of gyral patterns; DZ twins were not more alike than unrelated pairings. Ipsilateral hemispheres were significantly more alike than contralateral hemispheres within MZ pairs, but not within DZ pairs. Contralateral hemispheres within an individual were more alike than contralateral hemispheres between twins in the DZ pairs, but not in the MZ pairs. Heritability for gyral-sulcal patterns, as reflected in the cross-correlation data, was low and ill defined. These results indicate that human cerebral size is determined almost entirely by genetic factors and that overall cortical gyral patterns, though significantly affected by genes, are determined primarily by nongenetic factors.},
affiliation = {Clinical Brain Disorders Branch, NIMH, NIH, NIMH Neuroscience Center at St Elizabeth's, Washington, DC 20032, USA.},
pages = {257--69},
volume = {120 ( Pt 2)},
year = {1997},
month = {Feb},
language = {eng},
keywords = {Humans, Female, Twins: Monozygotic, Adolescent, Twins: Dizygotic, Adult, Male, Genetic Variation, Brain},
date-added = {2010-04-02 10:57:09 +0200},
date-modified = {2010-04-02 10:57:09 +0200},
pmid = {9117373},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bartley-1997-Brain_Genetic%20variability.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10251},
rating = {0}
}
@article{deGroot:2003p7438,
author = {Vincent de Groot and Heleen Beckerman and Gustaaf J Lankhorst and Lex M Bouter},
journal = {Journal of Clinical Epidemiology},
title = {How to measure comorbidity. a critical review of available methods},
abstract = {The object of this article was to systematically review available methods to measure comorbidity and to assess their validity and reliability. A search was made in Medline and Embase, with the keywords comorbidity and multi-morbidity, to identify articles in which a method to measure comorbidity was described. The references of these articles were also checked, and using a standardized checklist the relevant data were extracted from these articles. An assessment was made of the content, concurrent, predictive and construct validity, and the reliability. Thirteen different methods to measure comorbidity were identified: one disease count and 12 indexes. Data on content and predictive validity were available for all measures, while data on construct validity were available for nine methods, data on concurrent validity, and interrater reliability for eight methods, and data on intrarater reliability for three methods. The Charlson Index is the most extensively studied comorbidity index for predicting mortality. The Cumulative Illness Rating Scale (CIRS) addresses all relevant body systems without using specific diagnoses. The Index of Coexisting Disease (ICED) has a two-dimensional structure, measuring disease severity and disability, which can be useful when mortality and disability are the outcomes of interest. The Kaplan Index was specifically developed for use in diabetes research. The Charlson Index, the CIRS, the ICED and the Kaplan Index are valid and reliable methods to measure comorbidity that can be used in clinical research. For the other indexes, insufficient data on the clinimetric properties are available.},
affiliation = {Department of Rehabilitation Medicine, VU University Medical Center, P.O. Box 7057, 1007 MB Amsterdam, The Netherlands. v.degroot@vumc.nl},
number = {3},
pages = {221--9},
volume = {56},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Reproducibility of Results, Health Status Indicators, Epidemiologic Methods, Randomized Controlled Trials as Topic, Humans, Severity of Illness Index, Comorbidity, Prognosis},
date-added = {2010-03-10 20:39:18 +0100},
date-modified = {2010-03-10 20:39:38 +0100},
pii = {S0895435602005851},
pmid = {12725876},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Groot-2003-Journal%20of%20Clinical%20Epidemiology_How%20to%20measure%20comor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7438},
rating = {4}
}
@article{Smit:2003p5714,
author = {A Smit and H Kelderman and H van der Flier},
journal = {Methods of Psychological Research Online},
title = {Latent Trait Latent Class Analysis of an Eysenck Personality Questionnaire},
abstract = {In this paper two scales of a personality questionnaire, extraversion and neuroticism, are analyzed using a family of latent trait latent class models. The items are re- sponded to in one of three categories: ``yes'', ``?'', or ``no''. The results show that one single measurement model does not suffice in describing the data. More specifically, the meaning of the ``?'' response category is not invariant over subjects.},
affiliation = {Free University of Amsterdam},
number = {3},
pages = {23--50},
volume = {8},
year = {2003},
date-added = {2010-02-15 12:12:55 +0100},
date-modified = {2010-07-29 19:40:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smit-2003-Methods%20of%20Psychological%20Research%20Online_Latent%20Trait%20Latent.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5714},
rating = {0}
}
@article{Athanasiu:2010p6654,
author = {Lavinia Athanasiu and Morten Mattingsdal and Anna K K{\"a}hler and Andrew Brown and Omar Gustafsson and Ingrid Agartz and Ina Giegling and Pierandrea Muglia and Sven Cichon and Marcella Rietschel and Olli P H Pietil{\"a}inen and Leena Peltonen and Elvira Bramon and David Collier and David St Clair and Engilbert Sigurdsson and Hannes Petursson and Dan Rujescu and Ingrid Melle and Vidar M Steen and Srdjan Djurovic and Ole A Andreassen},
journal = {J Psychiatr Res},
title = {Gene variants associated with schizophrenia in a Norwegian genome-wide study are replicated in a large European cohort},
abstract = {We have performed a genome-wide association study (GWAS) of schizophrenia in a Norwegian discovery sample of 201 cases and 305 controls (TOP study) with a focused replication analysis in a larger European sample of 2663 cases and 13,780 control subjects (SGENE-plus study). Firstly, the discovery sample was genotyped with Affymetrix Genome-Wide Human SNP Array 6.0 and 572,888 markers were tested for schizophrenia association. No SNPs in the discovery sample attained genome-wide significance (P<8.7x10(-8)). Secondly, based on the GWAS data, we selected 1000 markers with the lowest P values in the discovery TOP sample, and tested these (or HapMap-based surrogates) for association in the replication sample. Sixteen loci were associated with schizophrenia (nominal P value<0.05 and concurring OR) in the replication sample. As a next step, we performed a combined analysis of the findings from these two studies, and the strongest evidence for association with schizophrenia was provided for markers rs7045881 on 9p21, rs433598 on 16p12 and rs10761482 on 10q21. The markers are located in PLAA, ACSM1 and ANK3, respectively. PLAA has not previously been described as a susceptibility gene, but 9p21 is implied as a schizophrenia linkage region. ACSM1 has been identified as a susceptibility gene in a previous schizophrenia GWAS study. The association of ANK3 with schizophrenia is intriguing in light of recent associations of ANK3 with bipolar disorder, thereby supporting the hypothesis of an overlap in genetic susceptibility between these psychopathological entities.},
affiliation = {Institute of Psychiatry, University of Oslo, P.O. 1130, Blindern, N-0318 Oslo, Norway; Department of Medical Genetics, Oslo University Hospital, Ulleval, Kirkeveien 166, N-0407 Oslo, Norway; Department of Psychiatry, Oslo University Hospital, Ulleval, Kirkeveien 166, N-0407 Oslo, Norway.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-03 20:39:43 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2010.02.002},
pii = {S0022-3956(10)00036-1},
pmid = {20185149},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Athanasiu-2010-J%20Psychiatr%20Res_Gene%20variants%20associ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6654},
rating = {0}
}
@article{Baare:2010p4927,
author = {William F C Baar{\'e} and Maj Vinberg and Gitte M Knudsen and Olaf B Paulson and Annika R Langkilde and Terry L Jernigan and Lars Vedel Kessing},
journal = {J Psychiatr Res},
title = {Hippocampal volume changes in healthy subjects at risk of unipolar depression},
abstract = {Unipolar depression is moderately heritable. It is unclear whether structural brain changes associated with unipolar depression are present in healthy persons at risk of the disorder. Here we investigated whether a genetic predisposition to unipolar depression is associated with structural brain changes. A priori, hippocampal volume reductions were hypothesized. Using a high-risk study design, magnetic resonance imaging brain scans were obtained from 59 healthy high-risk subjects having a co-twin with unipolar depression, and 53 healthy low-risk subjects without a first-degree family history of major psychiatric disorder. High-risk twins had smaller hippocampal volumes than low-risk twins (p<0.04). The finding was most pronounced in DZ twins. Groups did not differ on global brain tissue volumes or regional tissue volumes assessed in exploratory voxel-wise whole cerebrum analyses. In conclusion, hippocampal volume reduction may index a predisposition to develop depression and thus may be predictive of future onset of the disorder. Further studies are needed to elucidate the role of (shared) environmental and genetic factors.},
affiliation = {Danish Centre for Magnetic Resonance, MR Department, Hvidovre Hospital, University Hospital of Copenhagen, Hvidovre, Denmark; Center for Integrated Molecular Brain Imaging, Copenhagen, Denmark.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-02-02 11:48:30 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2009.12.009},
pii = {S0022-3956(09)00284-2},
pmid = {20096419},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baar%C3%A9-2010-J%20Psychiatr%20Res_Hippocampal%20volume%20c-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4927},
rating = {0}
}
@article{Batterham:2009p8330,
author = {Philip J Batterham and Helen Christensen and Andrew J Mackinnon},
journal = {BMC Psychiatry},
title = {Modifiable risk factors predicting major depressive disorder at four year follow-up: a decision tree approach},
abstract = {BACKGROUND: Relative to physical health conditions such as cardiovascular disease, little is known about risk factors that predict the prevalence of depression. The present study investigates the expected effects of a reduction of these risks over time, using the decision tree method favoured in assessing cardiovascular disease risk. METHODS: The PATH through Life cohort was used for the study, comprising 2,105 20-24 year olds, 2,323 40-44 year olds and 2,177 60-64 year olds sampled from the community in the Canberra region, Australia. A decision tree methodology was used to predict the presence of major depressive disorder after four years of follow-up. The decision tree was compared with a logistic regression analysis using ROC curves. RESULTS: The decision tree was found to distinguish and delineate a wide range of risk profiles. Previous depressive symptoms were most highly predictive of depression after four years, however, modifiable risk factors such as substance use and employment status played significant roles in assessing the risk of depression. The decision tree was found to have better sensitivity and specificity than a logistic regression using identical predictors. CONCLUSION: The decision tree method was useful in assessing the risk of major depressive disorder over four years. Application of the model to the development of a predictive tool for tailored interventions is discussed.},
affiliation = {Centre for Mental Health Research, The Australian National University, Canberra, Australia. philip.batterham@anu.edu.au},
pages = {75},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Humans, Aged, Outcome Assessment (Health Care), Prevalence, Age Distribution, Longitudinal Studies, Probability, Data Collection, Depressive Disorder: Major, Australia, Follow-Up Studies, Female, Risk Factors, Adult, Cardiovascular Diseases, Middle Aged, Logistic Models, Decision Trees, Risk Reduction Behavior, Risk Assessment, Male},
date-added = {2010-03-21 12:34:39 +0100},
date-modified = {2010-03-21 12:34:39 +0100},
doi = {10.1186/1471-244X-9-75},
pii = {1471-244X-9-75},
pmid = {19930610},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Batterham-2009-BMC%20Psychiatry_Modifiable%20risk%20fact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8330},
rating = {0}
}
@article{Subramanian:2008p425,
author = {S V Subramanian and Karen Ertel},
journal = {Int J Epidemiol},
title = {Is the use of self-rated health measures to assess health inequalities misleading?},
number = {6},
pages = {1436-7; author reply 1437--40},
volume = {37},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Humans, Health Status, Socioeconomic Factors, Self Efficacy, Bias (Epidemiology)},
date-added = {2010-01-03 12:22:13 +0100},
date-modified = {2010-01-03 12:22:13 +0100},
doi = {10.1093/ije/dyn205},
pii = {dyn205},
pmid = {18812360},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Subramanian-2008-Int%20J%20Epidemiol_Is%20the%20use%20of%20self-r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p425},
rating = {0}
}
@article{Gibbons:2009p10569,
author = {Robert D Gibbons and A John Rush and Jason C Immekus},
journal = {J Psychiatr Res},
title = {On the psychometric validity of the domains of the PDSQ: an illustration of the bi-factor item response theory model},
abstract = {Competing item response theory (IRT) models were used to test the factor structure of the psychiatric diagnostic screening questionnaire (PDSQ; Zimmerman M, Mattia JI. A self-report scale to help make psychiatric diagnoses: the psychiatric diagnostic screening questionnaire. Archives of General Psychiatry 2001;58:787-94), a self-report psychiatric measure comprised of 139 items sampled from 15 symptom domains (e.g., Psychosis, Mania). Tested IRT models included: (a) a unidimensional model, (b) a simple structure model, (c) a bi-factor model, and (d) models that included 6, 10, and 15 sub-domain alternative conceptualizations of the scale. Based on the responses of 3791 individuals with major depressive disorder, the bi-factor model was found to provide a theoretically and statistically plausible description of the PDSQ factor structure. Primary dimension loadings were low to moderate; group factor loadings were moderate to high. Results support the validity of the PDSQ in identifying distinct categories of illness as defined by the diagnostic and statistical manual diagnostic groups, since preserving the 15 symptom categories (domains) provided a more accurate characterization of the observed data by the IRT models. The bi-factor model is useful in evaluating the multidimensional structure of mental health data. The specification of alternative IRT models is demonstrated as a noteworthy benefit over classical test theory for psychiatric measurement.},
affiliation = {Department of Biostatistics and Psychiatry, Center for Health Statistics PI 455-457, Chicago, IL 60612, USA. rdgib@uic.edu},
number = {4},
pages = {401--10},
volume = {43},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Psychometrics, Questionnaires, Mental Disorders, Humans, Factor Analysis: Statistical, Depressive Disorder: Major, Reproducibility of Results, Personality Inventory},
date-added = {2010-04-07 11:34:28 +0200},
date-modified = {2010-04-07 11:34:34 +0200},
doi = {10.1016/j.jpsychires.2008.04.013},
pii = {S0022-3956(08)00100-3},
pmid = {18554611},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T8T-4SRDFM0-1&_user=2432700&_coverDate=01%252F31%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=34746798f5e28bc99ae01226b54b1348},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gibbons-2009-J%20Psychiatr%20Res_On%20the%20psychometric.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10569},
rating = {4}
}
@article{Karlin:1985p12579,
author = {S Karlin and D Carmelli},
journal = {Behav Genet},
title = {A Study of Familial Resemblance for Two Cognitive Psychometric Tests by Permutation Analyses},
abstract = {The recently expanded structured exploratory data analysis (SEDA ) meth- odology is applied to two psychometric test scores of Caucasian and Japanese families who participated in the Hawaii Family Study of Cog- nition. Our analyses focused on the Raven progressive matrices (PM) test, which assesses deductive reasoning aptitude, and the Thurstone vocabulary (VOC) test, which bears on verbalfacility. Both tests revealed pronounced spouse closeness and parent-child similarity. The degree of closeness of a child to the midparental value tends to be stronger than the corresponding level of closeness of a child to each separate parent. In addition, sex asymmetries in our assessments ofparent-child closeness appeared, which also differ between the two ethnic groups. Deductive reasoning abilities of daughters were relatively closer to those of their parents in the Americans of Japanese ancestry (AJA) group than in the Americans of European ancestry (AEA) group. The opposite ordering was realized with respect to parent-son closeness measures. In terms of verbal aptitudes, measures of parent-offspring closeness were stronger in the AJA group compared to the AEA group, for both sons and daugh- ters. Possible interpretations related to cultural and behavioral covariates in the populations studied are given.},
number = {3},
pages = {223--244},
volume = {15},
year = {1985},
date-added = {2010-06-15 22:33:18 +0200},
date-modified = {2010-07-29 20:09:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Karlin-1985-Behav%20Genet_A%20Study%20of%20Familial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12579},
rating = {0}
}
@article{Fu:2007p9635,
author = {An-Ting Fu and Huei-Chen Ko and Jo Yung-Wei Wu and Bing-Lin Cherng and Chung-Ping Cheng},
journal = {Addict Behav},
title = {Impulsivity and expectancy in risk for alcohol use: comparing male and female college students in Taiwan},
abstract = {This was a longitudinal study designed to examine whether gender differences would exist in acquired preparedness model (APM) for explaining the risk of alcohol use in Chinese college students. Impulsivity was assessed for 3,584 students in 2002. In 2003, 1,377 students were traced and assessed in alcohol outcome expectancy, drinking behavior, and alcohol related problems, with 1,122 valid data (male=438). Separated by gender, the data was analyzed with the Structural Equation Model. Results showed that positive, not negative, outcome expectancy for alcohol mediated impulsivity's effect on alcohol use, and alcohol use had a direct effect on alcohol related problems in both males and females. In males, both negative and positive outcome expectancies failed to mediate impulsivity and alcohol related problems. In females, only positive outcome expectancy mediated the relation between impulsivity and alcohol related problems. This longitudinal data supported the acquired preparedness model for the risk in alcohol use among Chinese college students, providing a reference for designing prevention and intervention strategies guided towards both genders.},
affiliation = {Institute of Behavioral Medicine, College of Medicine, National Cheng Kung University, No. 1, University Road, Tainan 701, Taiwan.},
number = {9},
pages = {1887--96},
volume = {32},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Questionnaires, Students, Attitude, Adult, Alcohol Drinking, Taiwan, Male, Female, Impulse Control Disorders, Universities, Humans, Risk Factors},
date-added = {2010-03-25 14:48:38 +0100},
date-modified = {2010-07-29 19:12:35 +0200},
doi = {10.1016/j.addbeh.2007.01.003},
pii = {S0306-4603(07)00005-6},
pmid = {17287091},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fu-2007-Addict%20Behav_Impulsivity%20and%20expe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9635},
rating = {0}
}
@article{Kendler:1998p10215,
author = {K S Kendler},
journal = {Pharmacopsychiatry},
title = {Anna-Monika-Prize paper. Major depression and the environment: a psychiatric genetic perspective},
abstract = {Genetic factors can interact with environmental factors to influence the vulnerability to major depression (MD) in subtle ways. I explore two such mechanisms: "genetic control of sensitivity to the environment," and "genetic control of exposure to the environment." "Genetic control of sensitivity to the environment" suggests that genes, in part, render individuals relatively vulnerable or relatively invulnerable to the pathogenic effects of environmental stress. In support of this hypothesis, evidence is presented that the depressogenic effect of stressful life events is substantially greater in those at high versus low genetic risk to the MD. "Genetic control of exposure to the environment" suggests that genetic factors influence the probability that individuals will select themselves into high vs. low risk environments. In support of this hypothesis, evidence from a population based twin study suggests that certain classes of stressful life events are modestly heritable. The genetic risk factors for MD in part express themselves by influencing the probability that individuals will experience stressful life events, particularly of an interpersonal nature.},
affiliation = {Department of Psychiatry, Medical College of Virginia of Virginia Commonwealth University, Richmond, USA.},
number = {1},
pages = {5--9},
volume = {31},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Humans, Environment, Depressive Disorder},
date-added = {2010-04-02 10:48:51 +0200},
date-modified = {2010-04-02 10:48:51 +0200},
pmid = {9524977},
url = {http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=Retrieve&list_uids=9524977&dopt=abstractplus},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10215},
rating = {0}
}
@article{Hampson:2006p13884,
author = {Sarah E Hampson and Lewis R Goldberg},
journal = {J Pers Soc Psychol},
title = {A first large cohort study of personality trait stability over the 40 years between elementary school and midlife},
abstract = {This report provides some initial findings from an investigation of the relations between childhood Big Five personality traits assessed by elementary school teachers and similar traits assessed 40 years later by self-reports at midlife (N = 799). Short-term (1-3 years) test-retest reliabilities were lower (.22-.53) in childhood when personality was developing than they were in adulthood (.70-.79) when personality stability should be at its peak. Stability coefficients across the 40-year interval between the childhood assessment and the 2 measures of adulthood personality were higher for Extraversion (e.g., .29) and Conscientiousness (e.g., .25) than for Openness (e.g., .16), Agreeableness (e.g., .08), and Neuroticism (e.g., .00). Construct continuity between childhood and adulthood was evaluated by canonical analysis and by structural equation modeling and indicated continuity at both a broad, two-dimensional level and at the level of the Big Five. The findings are discussed in relation to A. Caspi, B. W. Roberts, and R. L. Shiner's (2005) principles of rank-order personality stability.},
affiliation = {Department of Psychology, University of Surrey, Guildford, United Kingdom. sarah@ori.org},
number = {4},
pages = {763--79},
volume = {91},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Time Factors, Male, Students, Female, Personality, Cohort Studies, Personality Assessment, Aging, Humans},
date-added = {2010-07-29 18:04:26 +0200},
date-modified = {2010-07-29 19:35:33 +0200},
doi = {10.1037/0022-3514.91.4.763},
pii = {2006-12810-013},
pmid = {17014298},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hampson-2006-J%20Pers%20Soc%20Psychol_A%20first%20large%20cohort.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13884},
rating = {0}
}
@article{Wickramaratne:1998p2972,
author = {P J Wickramaratne and S E Hodge and A Rotondo},
journal = {Am J Med Genet},
title = {Association studies in the presence of comorbidity: design and analysis},
abstract = {Methods for the design and analysis of allelic association studies in the presence of two comorbid disorders are discussed. These methods are applicable to population-based (i.e., case-control) designs. We first develop probability models that represent pathways to the comorbidity of two disorders when it is hypothesized that at least one of the two disorders is associated with a specific allele. These potential pathways are illustrated with the specific example of the association of the human leptin (OB) gene with obesity and major depressive disorders in humans. We then discuss methods of design and analysis using the well-known methods of log-linear analysis [Bishop et al., 1975: "Discrete Multivariate Analysis." M.I.T. Press, Cambridge, MA] to differentiate between these pathways. With the increasing focus in psychiatric genetics on both association studies and pathways to comorbidity we anticipate that these methods will have wide applications.},
affiliation = {Division of Clinical and Genetic Epidemiology, New York State Psychiatric Institute, New York, USA. wickramp@child.cpmc.columbia.edu},
number = {5},
pages = {355--60},
volume = {81},
year = {1998},
month = {Sep},
language = {eng},
keywords = {Linear Models, Depression, Genetic Complementation Test, Leptin, Alleles, Case-Control Studies, Humans, Models: Theoretical, Models: Biological, Obesity, Comorbidity, Proteins},
date-added = {2010-01-13 23:05:53 +0100},
date-modified = {2010-07-29 19:13:49 +0200},
pii = {10.1002/(SICI)1096-8628(19980907)81:5<355::AID-AJMG2>3.0.CO;2-S},
pmid = {9754619},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2972},
rating = {0}
}
@article{Golestani:2006p4633,
author = {Narly Golestani and F-Xavier Alario and S{\'e}bastien Meriaux and Denis Le Bihan and Stanislas Dehaene and Christophe Pallier},
journal = {Neuropsychologia},
title = {Syntax production in bilinguals},
abstract = {We used fMRI to examine the functional correlates of syntactical processing in the first (L1) and second (L2) languages of non-proficient, late bilinguals. Subjects either covertly read words or produced sentences from them. Syntactical production during sentence production activated regions including left inferior frontal (LIFG) gyrus and the supplementary motor area in both languages. Analyses performed on the LIFG activation identified on a subject-by-subject basis revealed greater activation in L2 compared to L1 during sentence production and during word reading, consistent with previous work suggesting that greater cognitive effort may be subserved by less well-tuned neural representations that require greater neuronal activity. Remarkably, there was a greater separation in the LIFG activations in L1 versus L2 in less compared to more proficient bilinguals during syntax production, suggesting a functional reorganisation of regions involved in syntactical production as a function of syntactical proficiency.},
affiliation = {Institute of Cognitive Neuroscience, University College London, 17 Queen Square, London WC1N 3AR, UK. narlyg@bic.mni.mcgill.ca},
number = {7},
pages = {1029--40},
volume = {44},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Verbal Behavior, Adult, Semantics, Magnetic Resonance Imaging, Psycholinguistics, Oxygen, Male, Frontal Lobe, Image Processing: Computer-Assisted, Dominance: Cerebral, Imaging: Three-Dimensional, Brain Mapping, Motor Cortex, Female, Reading, Humans, Multilingualism},
date-added = {2010-01-30 15:37:19 +0100},
date-modified = {2010-01-30 15:37:19 +0100},
doi = {10.1016/j.neuropsychologia.2005.11.009},
pii = {S0028-3932(05)00358-1},
pmid = {16427099},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Golestani-2006-Neuropsychologia_Syntax%20production%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4633},
rating = {0}
}
@article{Duggal:2008p4967,
author = {Priya Duggal and Elizabeth M Gillanders and Taura N Holmes and Joan E Bailey-Wilson},
journal = {BMC Genomics},
title = {Establishing an adjusted p-value threshold to control the family-wide type 1 error in genome wide association studies},
abstract = {BACKGROUND: By assaying hundreds of thousands of single nucleotide polymorphisms, genome wide association studies (GWAS) allow for a powerful, unbiased review of the entire genome to localize common genetic variants that influence health and disease. Although it is widely recognized that some correction for multiple testing is necessary, in order to control the family-wide Type 1 Error in genetic association studies, it is not clear which method to utilize. One simple approach is to perform a Bonferroni correction using all n single nucleotide polymorphisms (SNPs) across the genome; however this approach is highly conservative and would "overcorrect" for SNPs that are not truly independent. Many SNPs fall within regions of strong linkage disequilibrium (LD) ("blocks") and should not be considered "independent". RESULTS: We proposed to approximate the number of "independent" SNPs by counting 1 SNP per LD block, plus all SNPs outside of blocks (interblock SNPs). We examined the effective number of independent SNPs for Genome Wide Association Study (GWAS) panels. In the CEPH Utah (CEU) population, by considering the interdependence of SNPs, we could reduce the total number of effective tests within the Affymetrix and Illumina SNP panels from 500,000 and 317,000 to 67,000 and 82,000 "independent" SNPs, respectively. For the Affymetrix 500 K and Illumina 317 K GWAS SNP panels we recommend using 10(-5), 10(-7) and 10(-8) and for the Phase II HapMap CEPH Utah and Yoruba populations we recommend using 10(-6), 10(-7) and 10(-9) as "suggestive", "significant" and "highly significant" p-value thresholds to properly control the family-wide Type 1 error. CONCLUSION: By approximating the effective number of independent SNPs across the genome we are able to 'correct' for a more accurate number of tests and therefore develop 'LD adjusted' Bonferroni corrected p-value thresholds that account for the interdepdendence of SNPs on well-utilized commercially available SNP "chips". These thresholds will serve as guides to researchers trying to decide which regions of the genome should be studied further.},
affiliation = {Statistical Genetics Section, Inherited Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Baltimore, MD USA. pduggal@mail.nih.gov},
pages = {516},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genome-Wide Association Study, Polymorphism: Single Nucleotide, Algorithms, Genome: Human, Linkage Disequilibrium, Humans},
date-added = {2010-02-03 21:02:23 +0100},
date-modified = {2010-02-03 21:02:27 +0100},
doi = {10.1186/1471-2164-9-516},
pii = {1471-2164-9-516},
pmid = {18976480},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Duggal-2008-BMC%20Genomics_Establishing%20an%20adju.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4967},
rating = {4}
}
@article{Rutledge:2004p865,
author = {Thomas Rutledge and Cathy Loh},
journal = {Ann Behav Med},
title = {Effect sizes and statistical testing in the determination of clinical significance in behavioral medicine research},
abstract = {BACKGROUND: The interpretation of clinical significance continues to be an obstacle for researchers in behavioral medicine. PURPOSE: To review selected behavioral medicine research to critically examine the perception among investigators that behavioral effects on health are small based on common metrics of clinical significance. METHODS: Using quantitative findings from recent behavioral medicine research in medical and psychiatric journals, we explored results in terms of several statistical metrics to assess potential clinical significance: r coefficients, risk ratios, risk difference measures, and attributable risk. RESULTS: Translated into r coefficients, even established health predictors such as smoking, obesity, and fitness had only modest effects (rs =.03-.22), and the range of effect sizes were comparable with those based on psychological predictors including depression and stress-reactivity (rs =.06-.22). In contrast, effects for both classes of predictors were suggestive of clinical significance based on public health statistics. CONCLUSIONS: Our choice of statistics for defining "small" and "large" effect sizes affects the perceived importance of behavioral health findings. In the assessment of health outcomes with low incidence rates, effects expressed as correlations using even the most robust predictors will often appear small. In these instances, we challenge researchers to move beyond conventional data analysis approaches and to expand their clinical interpretation efforts by employing additional statistical methods favored in medicine and public health.},
affiliation = {University of California, San Diego, USA. dr.tom@medscape.com},
number = {2},
pages = {138--45},
volume = {27},
year = {2004},
month = {Apr},
language = {eng},
keywords = {Research Personnel, Models: Statistical, Data Interpretation: Statistical, Research Design, Humans, Behavioral Medicine, Sensitivity and Specificity, Behavioral Research},
date-added = {2010-01-03 18:06:36 +0100},
date-modified = {2010-01-03 18:06:36 +0100},
doi = {10.1207/s15324796abm2702_9},
pmid = {15026298},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rutledge-2004-Ann%20Behav%20Med_Effect%20sizes%20and%20sta.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p865},
rating = {0}
}
@article{Butow:2000p13090,
author = {P N Butow and J E Hiller and M A Price and S V Thackway and A Kricker and C C Tennant},
journal = {J Psychosom Res},
title = {Epidemiological evidence for a relationship between life events, coping style, and personality factors in the development of breast cancer},
abstract = {OBJECTIVE: Review empirical evidence for a relationship between psychosocial factors and breast cancer development. METHODS: Standardised quality assessment criteria were utilised to assess the evidence of psychosocial predictors of breast cancer development in the following domains: (a) stressful life events, (b) coping style, (c) social support, and (d) emotional and personality factors. RESULTS: Few well-designed studies report any association between life events and breast cancer, the exception being two small studies using the Life Events and Difficulties Schedule (LEDS) reporting an association between severely threatening events and breast cancer risk. Seven studies show anger repression or alexithymia are predictors, the strongest evidence suggesting younger women are at increased risk. There is no evidence that social support, chronic anxiety, or depression affects breast cancer development. With the exception of rationality/anti-emotionality, personality factors do not predict breast cancer risk. CONCLUSION: The evidence for a relationship between psychosocial factors and breast cancer is weak. The strongest predictors are emotional repression and severe life events. Future research would benefit from theoretical grounding and greater methodological rigour. Recommendations are given.},
affiliation = {Department of Psychological Medicine, Royal North Shore Hospital, and University of Sydney, NWS 2065, Australia. phyllisb@med.usyd.edu.au},
number = {3},
pages = {169--81},
volume = {49},
year = {2000},
month = {Sep},
language = {eng},
keywords = {Personality Inventory, Adaptation: Psychological, Female, Risk Factors, Breast Neoplasms, Stress: Psychological, Humans, Epidemiologic Studies, Personality, Life Change Events},
date-added = {2010-06-26 10:47:21 +0200},
date-modified = {2010-06-26 10:47:21 +0200},
pii = {S0022-3999(00)00156-2},
pmid = {11110988},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Butow-2000-J%20Psychosom%20Res_Epidemiological%20evid.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13090},
rating = {0}
}
@phdthesis{Nigam:2001,
author = {K P Nigam},
journal = {PhD Thesis},
title = {Using Unlabeled Data to Improve Text Classification},
affiliation = {Carnegie Mellon University},
year = {2001},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nigam-2001-PhD%20Thesis_Using%20Unlabeled%20Data.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2073},
rating = {0}
}
@article{Killeen:2005p7081,
author = {Peter R Killeen},
journal = {Psychol Sci},
title = {An alternative to null-hypothesis significance tests},
abstract = {The statistic p(rep) estimates the probability of replicating an effect. It captures traditional publication criteria for signal-to-noise ratio, while avoiding parametric inference and the resulting Bayesian dilemma. In concert with effect size and replication intervals, p(rep) provides all of the information now used in evaluating research, while avoiding many of the pitfalls of traditional statistical inference.},
affiliation = {Department of Psychology, Arizona State University, Tempe, AZ 85287-1104, USA. killeen@asu.edu},
number = {5},
pages = {345--53},
volume = {16},
year = {2005},
month = {May},
language = {eng},
keywords = {Psychology, Models: Psychological, Humans, Bayes Theorem, Research Design, Reproducibility of Results},
date-added = {2010-03-06 20:30:06 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.0956-7976.2005.01538.x},
pii = {PSCI1538},
pmid = {15869691},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Killeen-2005-Psychol%20Sci_An%20alternative%20to%20nu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7081},
rating = {4}
}
@article{Tedeschi:1983p14143,
author = {G Tedeschi and A T Smith and S Dhillon and A Richens},
journal = {Br J Clin Pharmacol},
title = {Rate of entrance of benzodiazepines into the brain determined by eye movement recording},
abstract = {1 Peak saccadic velocity of horizontal eye movements, saccade duration at 30 degrees of amplitude and saccade reaction time were measured in six drug free male subjects. 2 In two separate experiments, intravenous doses of diazepam (5 mg), lorazepam (2 mg), chlordiazepoxide (25 mg) and placebo were given, and eye movement recordings were made before and at frequent intervals after drug administration. 3 All the benzodiazepines produced a significant impairment of peak saccadic velocity and saccade duration. Only lorazepam significantly affected saccade reaction time. 4 Time to achieve maximum effect was 10 min after diazepam, 29 min after lorazepam and 42 min after chlordiazepoxide.},
number = {1},
pages = {103--7},
volume = {15},
year = {1983},
month = {Jan},
language = {eng},
keywords = {Blood-Brain Barrier, Reaction Time, Male, Adult, Eye Movements, Benzodiazepines, Brain, Humans},
date-added = {2010-08-18 17:03:50 +0200},
date-modified = {2010-08-18 17:03:50 +0200},
pmid = {6849731},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tedeschi-1983-Br%20J%20Clin%20Pharmacol_Rate%20of%20entrance%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14143},
rating = {0}
}
@article{Smith:2010p11586,
author = {Adam B Smith and Lesley J Fallowfield and Dan P Stark and Galina Velikova and Valerie Jenkins},
journal = {Health Qual Life Outcomes},
title = {A Rasch and confirmatory factor analysis of the General Health Questionnaire (GHQ) - 12},
abstract = {ABSTRACT: BACKGROUND: The General Health Questionnaire (GHQ) - 12 was designed as a short questionnaire to assess psychiatric morbidity. Despite the fact that studies have suggested a number of competing multidimensional factor structures, it continues to be largely used as a unidimensional instrument. This may have an impact on the identification of psychiatric morbidity in target populations. The aim of this study was to explore the dimensionality of the GHQ-12 and to evaluate a number of alternative models for the instrument. METHODS: The data were drawn from a large heterogeneous sample of cancer patients. The Partial Credit Model (Rasch) was applied to the 12-item GHQ. Item misfit (infit mean square >= 1.3) was identified, misfitting items removed and unidimensionality and differential item functioning (age, gender, and treatment aims) were assessed. The factor structures of the various alternative models proposed in the literature were explored and optimum model fit evaluated using Confirmatory Factor Analysis. RESULTS: The Rasch analysis of the 12-item GHQ identified six misfitting items. Removal of these items produced a six-item instrument which was not unidimensional. The Rasch analysis of an 8-item GHQ demonstrated two unidimensional structures corresponding to Anxiety/Depression and Social Dysfunction. No significant differential item functioning was observed by age, gender and treatment aims for the six- and eight-item GHQ. Two models competed for best fit from the confirmatory factor analysis, namely the GHQ-8 and Hankin's (2008) unidimensional model, however, the GHQ-8 produced the best overall fit statistics. CONCLUSIONS: The results are consistent with the evidence that the GHQ-12 is a multi-dimensional instrument. Use of the summated scores for the GHQ-12 could potentially lead to an incorrect assessment of patients' psychiatric morbidity. Further evaluation of the GHQ-12 with different target populations is warranted.},
number = {1},
pages = {45},
volume = {8},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-09 18:32:47 +0200},
date-modified = {2010-05-09 18:32:52 +0200},
doi = {10.1186/1477-7525-8-45},
pii = {1477-7525-8-45},
pmid = {20433690},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-2010-Health%20and%20Quality%20of%20Life%20Outcomes_A%20Rasch%20and%20confirma-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11586},
rating = {5}
}
@article{Noortgate:2003,
author = {W Van den Noortgate and Paul De Boeck and M Meulders},
journal = {Journal of Educational and Behavioral Statistics},
title = {Cross-Classification Multilevel Logistic Models in Psychometrics},
abstract = {In IRT models, responses are explained on the basis of person and item effects. Person effects are usually defined as a random sample from a population distribution. Regular IRT models therefore can be formulated as multilevel models, including a within-person part and a between-person part. In a similar way, the effects of the items can be studied as random parameters, yielding multilevel models with a within-item part and a between-item part. The combination of a multilevel model with random person effects and one with random item effects leads to a cross-classification multilevel model, which can be of interest for IRT applications. The use of cross-classification multilevel logistic models will be illustrated with an educational measurement application.},
number = {4},
pages = {369--386},
volume = {28},
year = {2003},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1139},
read = {Yes},
rating = {0}
}
@article{Hu:2000p3641,
author = {F Hu and J D Kalbfleisch},
journal = {The Canadian Journal of Statistics},
title = {The estimating function bootstrap},
abstract = {The authors propose a bootstrap procedure which estimates the distribution of an estimat- ing function by resampling its terms using bootstrap techniques. Studentized versions of this so-called estimating function (EF) bootstrap yield methods which are invariant under reparametrizations. This approach often has substantial advantage, both in computation and accuracy, over more traditional bootstrap methods and it applies to a wide class of practical problems where the data are independent but not necessarily identically dis- tributed. The methods allow for simultaneous estimation of vector parameters and their components. The authors use simulations to compare the EF bootstrap with competing methods in several examples including the common means problem and nonlinear regres- sion. They also prove symptotic results showing that the studentized EF bootstrap yields higher order approximations for the whole vector parameter in a wide class of problems.},
volume = {28},
year = {2000},
date-added = {2010-01-16 19:45:15 +0100},
date-modified = {2010-01-16 19:45:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hu-2000-The%20Canadian%20Journal%20of%20Statistics_The%20estimating%20funct.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3641},
rating = {0}
}
@article{Zee:2006p6436,
author = {Benny Chung-Ying Zee},
journal = {J Clin Oncol},
title = {Planned equivalence or noninferiority trials versus unplanned noninferiority claims: are they equal?},
number = {7},
pages = {1026--8},
volume = {24},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Hematinics, Treatment Outcome, Antineoplastic Combined Chemotherapy Protocols, Epoetin Alfa, Confidence Intervals, Anemia: Hypochromic, Humans, Drug Administration Schedule, Quality of Life, Prostatic Neoplasms, Therapeutic Equivalency, Female, Ovarian Neoplasms, Randomized Controlled Trials as Topic, Male, Odds Ratio, Survival Analysis, Disease Progression},
date-added = {2010-02-23 08:27:58 +0100},
date-modified = {2010-02-23 08:27:58 +0100},
doi = {10.1200/JCO.2005.04.9684},
pii = {24/7/1026},
pmid = {16505420},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zee-2006-J%20Clin%20Oncol_Planned%20equivalence.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6436},
rating = {0}
}
@article{Pavoine:2007p12009,
author = {Sandrine Pavoine and Xavier Bailly},
journal = {BMC Evol Biol},
title = {New analysis for consistency among markers in the study of genetic diversity: development and application to the description of bacterial diversity},
abstract = {BACKGROUND: The development of post-genomic methods has dramatically increased the amount of qualitative and quantitative data available to understand how ecological complexity is shaped. Yet, new statistical tools are needed to use these data efficiently. In support of sequence analysis, diversity indices were developed to take into account both the relative frequencies of alleles and their genetic divergence. Furthermore, a method for describing inter-population nucleotide diversity has recently been proposed and named the double principal coordinate analysis (DPCoA), but this procedure can only be used with one locus. In order to tackle the problem of measuring and describing nucleotide diversity with more than one locus, we developed three versions of multiple DPCoA by using three ordination methods: multiple co-inertia analysis, STATIS, and multiple factorial analysis. RESULTS: This combination of methods allows i) testing and describing differences in patterns of inter-population diversity among loci, and ii) defining the best compromise among loci. These methods are illustrated by the analysis of both simulated data sets, which include ten loci evolving under a stepping stone model and a locus evolving under an alternative population structure, and a real data set focusing on the genetic structure of two nitrogen fixing bacteria, which is influenced by geographical isolation and host specialization. All programs needed to perform multiple DPCoA are freely available. CONCLUSION: Multiple DPCoA allows the evaluation of the impact of various loci in the measurement and description of diversity. This method is general enough to handle a large variety of data sets. It complements existing methods such as the analysis of molecular variance or other analyses based on linkage disequilibrium measures, and is very useful to study the impact of various loci on the measurement of diversity.},
affiliation = {Unit{\'e} de Conservation des esp{\`e}ces, restauration et suivi des populations (UMR MNHN-UPMC-CNRS 5173), Mus{\'e}um National d'Histoire Naturelle, 55 rue Buffon, 75005 Paris, France. pavoine@mnhn.fr},
pages = {156},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Sinorhizobium, Likelihood Functions, Computer Simulation, Factor Analysis: Statistical, Genome: Bacterial, Genetic Variation, Bacteria, Models: Genetic, Genetic Markers},
date-added = {2010-05-23 17:39:04 +0200},
date-modified = {2010-07-29 19:19:55 +0200},
doi = {10.1186/1471-2148-7-156},
pii = {1471-2148-7-156},
pmid = {17767711},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pavoine-2007-BMC%20Evol%20Biol_New%20analysis%20for%20con.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12009},
rating = {0}
}
@article{Parker:1987,
author = {G Parker},
journal = {Psychol Med},
title = {Are the lifetime prevalence estimates in the ECA study accurate?},
abstract = {A travers le mod{\`e}le de la d{\'e}pression, cette {\'e}tude montre la m{\'e}diocre validit{\'e} des estimations de la fr{\'e}quence des troubles mentaux dans la vie d'un individu, selon les rapports «Epidemiologic Catchment Area» du NIMH},
number = {2},
pages = {275--282},
volume = {17},
year = {1987},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1044},
rating = {0}
}
@article{Aitkin:1999p6786,
author = {M Aitkin},
journal = {Biometrics},
title = {A general maximum likelihood analysis of variance components in generalized linear models},
abstract = {This paper describes an EM algorithm for nonparametric maximum likelihood (ML) estimation in generalized linear models with variance component structure. The algorithm provides an alternative analysis to approximate MQL and PQL analyses (McGilchrist and Aisbett, 1991, Biometrical Journal 33, 131-141; Breslow and Clayton, 1993; Journal of the American Statistical Association 88, 9-25; McGilchrist, 1994, Journal of the Royal Statistical Society, Series B 56, 61-69; Goldstein, 1995, Multilevel Statistical Models) and to GEE analyses (Liang and Zeger, 1986, Biometrika 73, 13-22). The algorithm, first given by Hinde and Wood (1987, in Longitudinal Data Analysis, 110-126), is a generalization of that for random effect models for overdispersion in generalized linear models, described in Aitkin (1996, Statistics and Computing 6, 251-262). The algorithm is initially derived as a form of Gaussian quadrature assuming a normal mixing distribution, but with only slight variation it can be used for a completely unknown mixing distribution, giving a straightforward method for the fully nonparametric ML estimation of this distribution. This is of value because the ML estimates of the GLM parameters can be sensitive to the specification of a parametric form for the mixing distribution. The nonparametric analysis can be extended straightforwardly to general random parameter models, with full NPML estimation of the joint distribution of the random parameters. This can produce substantial computational saving compared with full numerical integration over a specified parametric distribution for the random parameters. A simple method is described for obtaining correct standard errors for parameter estimates when using the EM algorithm. Several examples are discussed involving simple variance component and longitudinal models, and small-area estimation.},
affiliation = {Department of Statistics, University of Newcastle, UK. Murray.Aitkin@newcastle.ac.uk},
number = {1},
pages = {117--28},
volume = {55},
year = {1999},
month = {Mar},
language = {eng},
keywords = {Algorithms, Female, Male, Obesity, Humans, Child, Biometry, Lung Neoplasms, Middle Aged, Myocardial Infarction, Analysis of Variance, Adrenergic beta-Antagonists, Missouri, Likelihood Functions, Epidemiologic Methods, Clinical Trials as Topic, Linear Models},
date-added = {2010-03-05 22:25:22 +0100},
date-modified = {2010-03-05 22:25:22 +0100},
pmid = {11318145},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Aitkin-1999-Biometrics_A%20general%20maximum%20li.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6786},
rating = {0}
}
@article{Cook:2010p11507,
author = {Trevor M Cook and Jianli Wang},
journal = {BMC Psychiatry},
title = {Descriptive epidemiology of stigma against depression in a general population sample in Alberta},
abstract = {ABSTRACT: BACKGROUND: Mental health illnesses, such as depression, are responsible for a growing disease burden worldwide. Unfortunately, effective treatment is often impeded by stigmatizing attitudes of other individuals, which have been found to lead to a number of negative consequences including reduced help-seeking behavior and increased social distance. Despite the high prevalence of depression in Canada, little research has been conducted to examine stigma against depression in the Canadian general population. Such information is crucial to understanding the current state of stigmatizing attitudes in the Canadian communities, and framing future stigma reduction initiatives. The objectives of this study were to estimate the percentages of various stigmatizing attitudes toward depression in a general population sample and to compare the percentages by demographics and socioeconomic characteristics. METHODS: We conducted a cross-sectional telephone survey in Alberta, Canada, between February and June 2006. Random digit dialing was used to recruit participants who were aged 18-74 years old (n = 3047). Participants were presented a case vignette describing a depressed individual, and responded to a 9-item Personal Stigma questionnaire. The percentages of stigmatizing attitudes were estimated and compared by demographic and socioeconomic variables. RESULTS: Among the participants, 45.9% endorsed that depressed individuals were unpredictable and 21.9% held the view that people with depression were dangerous. Significant differences in stigmatizing attitudes were found by gender, age, education, and immigration status. A greater proportion of men than women held stigmatizing views on each stigma item. No consistent trend emerged by age in stigma against depression. Participants with higher levels of education reported less stigmatizing attitudes than those with less education. Participants who were not born in Canada were more likely to hold stigmatizing attitudes than those who were born in Canada. CONCLUSION: In the general population, stigmatizing attitudes towards depression differ by demographic characteristics. Men, those with less education and immigrants should be the targets of stigma reduction campaigns.},
number = {1},
pages = {29},
volume = {10},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-05-01 17:29:25 +0200},
date-modified = {2010-05-01 17:29:25 +0200},
doi = {10.1186/1471-244X-10-29},
pii = {1471-244X-10-29},
pmid = {20398429},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cook-2010-BMC%20Psychiatry_Descriptive%20epidemio-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11507},
rating = {0}
}
@article{Tsoumakas:2006p14040,
author = {G Tsoumakas and I Katakis},
title = {Multi-Label Classification: An Overview},
abstract = {Nowadays, multi-label classification methods are increasingly required by modern applications, such as protein function classification, music categorization and semantic scene classification. This paper introduces the task of multi-label classification, organizes the sparse related literature into a structured presentation and performs comparative experimental results of certain multi-label classification methods. It also contributes the definition of concepts for the quantification of the multi-label nature of a data set.},
year = {2006},
date-added = {2010-08-10 12:36:20 +0200},
date-modified = {2010-08-10 12:37:19 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tsoumakas-2006-_Multi-Label%20Classifi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14040},
rating = {0}
}
@article{Shimizu:2005,
author = {Y Shimizu and Bruno D Zumbo},
journal = {Japan Language Testing Association Journal},
title = {A logistic regression for Differential Item Functioning primer},
number = {110-124},
volume = {7},
year = {2005},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1173},
read = {Yes},
rating = {0}
}
@misc{Junker:2000c,
author = {B Junker},
journal = {Miscellaneous},
title = {Some topics in nonparametric and parametric IRT, with some thoughts about the future},
year = {2000},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Junker-2000-Miscellaneous_Some%20topics%20in%20nonpa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2114},
rating = {0}
}
@article{Janssen:1999,
author = {R Janssen and Paul De Boeck},
journal = {Multivariate Behavioral Research},
title = {Confirmatory analyses of componential test structure using multidimensional item response theory},
number = {2},
pages = {245--268},
volume = {34},
year = {1999},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Janssen-1999-Multivariate%20Behavioral%20Research_Confirmatory%20analyse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1977},
rating = {0}
}
@article{Sun:2010p3635,
author = {J Sun and J Raz and J J Faraway},
title = {Confidence bands for growth and response curves},
date-added = {2010-01-16 19:25:53 +0100},
date-modified = {2010-01-16 19:31:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sun--_Confidence%20bands%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3635},
rating = {0}
}
@article{Haga:2009p5145,
author = {Monika Haga},
journal = {Phys Ther},
title = {Physical fitness in children with high motor competence is different from that in children with low motor competence},
abstract = {BACKGROUND: Physical therapists often treat children with low motor competence. Earlier studies have demonstrated poor physical fitness outcomes and a reduced level of physical activity for these children compared with their peers with normal motor skills. OBJECTIVE: The aim of this study was to examine how physical fitness developed over time in 2 groups of children: those with a low level of competence in motor skills (low motor competence [LMC]), and those with a high level of competence in motor skills (high motor competence [HMC]). DESIGN AND METHODS: From an initial sample of 67 children, a group of 18 was identified as having HMC or LMC on the Movement Assessment Battery for Children and was selected for the present study. Eight children (3 girls and 5 boys) comprised the LMC group, and 10 children (4 girls and 6 boys) made up the HMC group. A longitudinal design was implemented, and physical fitness in the 2 groups was evaluated by measuring different fitness components over a period of 32 months. RESULTS: A mixed-effects analysis of variance revealed significant main effects for group and for time but no group x time interaction effect. The LMC group performed less well on all physical fitness measures than the HMC group, and both groups scored significantly higher on the physical fitness test after a period of 32 months. The lack of a significant interaction effect indicated that the relative differences in physical fitness outcomes between the groups were relatively constant over time. LIMITATIONS: This study was limited by the small sample size and lack of assessment of anthropometric variables and children's perceived self-efficacy. CONCLUSIONS: Children with LMC are likely to have poor physical fitness compared with children with HMC. The differences in physical fitness outcomes between the groups were relatively constant over time. Given that various physical fitness components are linked to different health outcomes, these consequences are matters of concern for both current health status and later health status in children with LMC.},
affiliation = {Department of Physiotherapy, Faculty of Health Education and Social Work, S{\o}r-Tr{\o}ndelag University College, Trondheim, 7004 Norway. monika.haga@hist.no},
number = {10},
pages = {1089--97},
volume = {89},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Male, Female, Motor Activity, Case-Control Studies, Humans, Physical Fitness, Child, Motor Skills, Child Development, Exercise Tolerance, Cohort Studies, Motor Skills Disorders},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-02-05 20:19:44 +0100},
doi = {10.2522/ptj.20090052},
pii = {ptj.20090052},
pmid = {19679648},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5145},
rating = {0}
}
@article{Chen:2007p9661,
author = {Andrew C H Chen and Bernice Porjesz and Madhavi Rangaswamy and Chella Kamarajan and Yongqiang Tang and Kevin A Jones and David B Chorlian and Arthur T Stimus and Henri Begleiter},
journal = {Alcohol Clin Exp Res},
title = {Reduced frontal lobe activity in subjects with high impulsivity and alcoholism},
abstract = {OBJECTIVE: Impulsivity is an important characteristic of many psychiatric disorders, including substance-related disorders. These disinhibitory disorders have a similar underlying genetic diathesis, with each disorder representing a different expression of the same underlying genetic liability. This study assessed whether there is a relationship between impulsivity and alcohol dependence, and their correlations with P3 (P300) amplitude, a proposed endophenotype of alcoholism. METHODS: Healthy control subjects (n=58) and subjects with DSM-IV diagnosis of alcohol dependence (n=57) were assessed with a visual oddball task. Event-Related Potentials (ERPs) were recorded from 61 scalp electrodes and P3 amplitudes measured. Barratt Impulsiveness Scale (BIS), version 11, was used to evaluate impulsivity. Source localization of P3 was computed using low-resolution brain electromagnetic tomography (LORETA). RESULTS: Alcoholic subjects manifested reductions in target P3 amplitudes (p<0.0001). Using LORETA, significantly reduced activation was mapped in the cingulate, medial, and superior frontal regions in alcoholic subjects and highly impulsive subjects. Alcoholic subjects had significantly higher scores on the BIS (p<0.0001) than nonalcoholic individuals. There were significant negative correlations between total scores on BIS and P3 amplitude (r=-0.274, p=0.003, on Pz; r=-0.250, p=0.007, on Cz). CONCLUSIONS: Our results demonstrate a strong frontal focus of reduced activation during processing of visual targets in alcoholic subjects and individuals with higher impulsivity. The findings suggest that impulsivity may be an important factor that underlies the pathogenesis of alcohol dependence. Studies are underway to examine the relationship between impulsivity and ERPs in offspring of alcoholic subjects, and to identify genes associated with the underlying predisposition involved in disinhibitory disorders.},
affiliation = {Henri Begleiter Neurodynamics Laboratory, Department of Psychiatry, SUNY Downstate Medical Center, 450 Clarkson Avenue, Brooklyn, NY 11203, USA.},
number = {1},
pages = {156--65},
volume = {31},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Visual Perception, Psychiatric Status Rating Scales, Frontal Lobe, Adult, Signal Processing: Computer-Assisted, Male, Female, Data Interpretation: Statistical, Alcoholism, Humans, Impulsive Behavior, Evoked Potentials, Electroencephalography},
date-added = {2010-03-25 14:58:13 +0100},
date-modified = {2010-07-29 19:13:02 +0200},
doi = {10.1111/j.1530-0277.2006.00277.x},
pii = {ACER277},
pmid = {17207114},
url = {http://www3.interscience.wiley.com/journal/118520080/abstract},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9661},
rating = {0}
}
@article{Tracy:2002p1693,
author = {C A Tracy and H Widom},
journal = {ICM},
title = {Distribution Functions for Largest Eigenvalues and Their Applications},
abstract = {It is now believed that the limiting distribution function of the largest eigenvalue in the three classic random matrix models GOE, GUE and GSE describe new universal limit laws for a wide variety of processes arising in mathematical physics and interacting particle systems. These distribution functions, expressed in terms of a certain Painlev ́e II function, are described and their occurences surveyed.},
number = {1-3},
pages = {1--10},
volume = {III},
year = {2002},
date-added = {2010-01-09 18:47:25 +0100},
date-modified = {2010-01-09 18:48:18 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tracy-2002-ICM_Distribution%20Functio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1693},
rating = {0}
}
@article{Onatski:2007p5067,
author = {A Onatski},
title = {Tracy-Widom limit for the largest eigenvalues of singular complex Wishart matrices},
abstract = {This paper establishes the fact that the joint distribution of the centered and scaled several largest eigenvalues of a p-dimensional complex Wishart matrix WC (Ω, n) con- verge to the joint Tracy-Widom distribution when n and p tend to infinity so that n/p remains in a compact subset of (0, ∞) . Our result extends Baik et al. (2005) and El Karoui (2007) who study the asymptotic distribution of the single largest eigenvalue of WC (Ω, n) as n and p tend to infinity so that n/p remains in a compact subset of [1, ∞) . We show how our result can be used to find a 95% confidence set for the number of common factors in excess stock returns.},
year = {2007},
date-added = {2010-02-05 20:09:37 +0100},
date-modified = {2010-02-05 20:10:04 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Onatski-2007-_Tracy-Widom%20limit%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5067},
rating = {0}
}
@article{Heo:2005p12562,
author = {Moonseong Heo and Andrew C Leon},
journal = {Stat Med},
title = {Comparison of statistical methods for analysis of clustered binary observations},
abstract = {When correlated observations are obtained in a randomized controlled trial, the assumption of independence among observations within cluster likely will not hold because the observations share the same cluster (e.g. clinic, physician, or subject). Further, the outcome measurements of interest are often binary. The objective of this paper is to compare the performance of four statistical methods for analysis of clustered binary observations: namely (1) full likelihood method; (2) penalized quasi-likelihood method; (3) generalized estimating equation method; (4) fixed-effects logistic regression method. The first three methods take correlations into account in inferential processes whereas the last method does not. Type I error rate, power, bias, and standard error are compared across the four statistical methods through computer simulations under varying effect sizes, intraclass correlation coefficients, number of clusters, and number of observations per cluster, including large numbers 20 and 100 of observations per cluster. The results show that the performance of the full likelihood and the penalized quasi-likelihood methods is superior for analysis of clustered binary observations, and is not necessarily inferior to that of the fixed-effects logistic regression fit even when within-cluster correlations are zero.},
affiliation = {Department of Psychiatry, Weill Medical College of Cornell University, Westchester Division, White Plains, NY 10605, USA. moh2002@med.cornell.edu},
number = {6},
pages = {911--23},
volume = {24},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Humans, Likelihood Functions, Monte Carlo Method, Cluster Analysis, Computer Simulation, Data Interpretation: Statistical, Randomized Controlled Trials as Topic},
date-added = {2010-06-15 22:16:54 +0200},
date-modified = {2010-06-15 22:16:54 +0200},
doi = {10.1002/sim.1958},
pmid = {15558576},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heo-2005-Stat%20Med_Comparison%20of%20statis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12562},
rating = {0}
}
@article{Francois:2007p3549,
author = {R Fran{\c c}ois and J M Marin},
journal = {Modulad},
title = {Initiation {\`a} R},
abstract = {Ce document a pour objectif de familiariser son lecteur avec le langage et l'en- vironnement de programmation R dans sa version 2.4.1 (d{\'e}cembre 2006). Il ne constitue pas une r{\'e}f{\'e}rence compl{\`e}te mais plut{\^o}t un aper{\c c}u des capacit{\'e}s de R et un point d'entr{\'e}e vers d'autres documents plus complets. {\`A} plusieurs reprises, le lecteur est invit{\'e} {\`a} ex{\'e}cuter les commandes propos{\'e}es dans une session R afin de s'habituer {\`a} la syntaxe.},
pages = {83--101},
volume = {37},
year = {2007},
date-added = {2010-01-15 21:01:39 +0100},
date-modified = {2010-01-15 21:02:33 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fran%C3%A7ois-2007-Modulad_Initiation%20a%CC%80%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3549},
rating = {0}
}
@article{Verstralen:2001aa,
author = {Huub Verstralen and Timo M Bechger and Gunter Maris},
title = {The Combined Use of Classical Test Theory and Item Response Theory},
abstract = {The present paper is about a number of relations between concepts of models from classical test theory (CTT), such as reliability, and item response theory (IRT). It is demonstrated that the use of IRT models allows us to extend the range of applications of CTT, and investigate relations among concepts that are central in CTT such as reliability and item-test correlation.},
year = {2001},
month = {Sep},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-2001-_The%20Combined%20Use%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1190},
rating = {0}
}
@article{Scharpf:2010p2505,
author = {R B Scharpf and I Ruczinski and B Carvalho},
title = {A multilevel model to address batch effects in copy number estimation using SNP arrays},
abstract = {Submicroscopic changes in chromosomal DNA copy number dosage are common and have been implicated in many heritable diseases and cancers. Recent high-throughput technologies have a resolution that permits the detection of segmental changes in DNA copy number that span thousands of basepairs across the genome. Genome-wide association studies (GWAS) may simultaneously screen for copy number-phenotype and SNP-phenotype associations as part of the analytic strategy. However, genome-wide array analyses are particularly susceptible to batch effects as the logistics of preparing DNA and processing thousands of arrays often involves multiple laboratories and technicians, or changes over calendar time to the reagents and laboratory equipment. Failure to adjust for batch effects can lead to incorrect inference and requires inefficient post-hoc quality control procedures that exclude regions that are associated with batch. Our work extends previous model-based approaches for copy number estima- tion by explicitly modeling batch effects and using shrinkage to improve locus-specific estimates of copy number uncertainty. Key features of this approach include the use of diallelic genotype calls from experimental data to estimate batch- and locus-specific parameters of background and signal without the requirement of training data. We illustrate these ideas using a study of bipolar disease and a study of chromosome 21 trisomy. The former has batch effects that dominate much of the observed variation in quantile-normalized intensities, while the latter illustrates the robustness of our approach to datasets where as many as 25% of the samples have altered copy number. Locus-specific estimates of copy number can be plotted on the copy-number scale to investigate mosaicism and guide the choice of appropriate downstream approaches for smoothing the copy number as a function of physical position. The software is open source and implemented in the R package CRLMM available at Bioconductor (http:www.bioconductor.org).},
date-added = {2010-01-12 13:42:23 +0100},
date-modified = {2010-01-12 13:43:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharpf--_A%20multilevel%20model%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2505},
rating = {0}
}
@article{Hill:1965,
author = {AB Hill},
journal = {Proceedings of the Royal Society of Medicine},
title = {The environment and disease: association or causation?},
pages = {295--300},
volume = {58},
year = {1965},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1056},
rating = {0}
}
@article{Ferron:2007p884,
author = {John M Ferron and Melinda R Hess},
journal = {Journal of Educational and Behavioral Statistics},
title = {Estimation in SEM: A Concrete Example},
abstract = {A concrete example is used to illustrate maximum likelihood estimation of a structural equation model with two unknown parameters. The fitting function is found for the example, as are the vector of first-order partial derivatives, the matrix of second-order partial derivatives, and the estimates obtained from each iteration of the Newton-Raphson algorithm. The goal is to provide a concrete illustration to help those learning structural equation modeling bridge the gap between the verbal descriptions of estimation procedures and the mathematical definition of these procedures provided in the technical literature.},
affiliation = {University of South Florida},
number = {1},
pages = {110--120},
volume = {32},
year = {2007},
keywords = {structural equation modeling, teaching statistics, Newton-Raphson, parameter estimation, maximum likelihood},
date-added = {2010-01-03 18:22:42 +0100},
date-modified = {2010-07-29 19:33:45 +0200},
doi = {10.3102/1076998606298025},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ferron-2007-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Estimation%20in%20SEM%20A.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p884},
rating = {0}
}
@article{Vacha-Haase:2004,
author = {T Vacha-Haase and B Thompson},
journal = {Counseling Psychology},
title = {How to estimate and interpret various effect sizes},
pages = {473--481},
volume = {51},
year = {2004},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1934},
rating = {0}
}
@article{Willeit:2003p8020,
author = {M Willeit and N Praschak-Rieder and A Neumeister and P Zill and F Leisch and J Stastny and E Hilger and N Thierry and A Konstantinidis and D Winkler and K Fuchs and W Sieghart and H Aschauer and M Ackenheil and B Bondy and S Kasper},
journal = {Mol Psychiatry},
title = {A polymorphism (5-HTTLPR) in the serotonin transporter promoter gene is associated with DSM-IV depression subtypes in seasonal affective disorder},
abstract = {Serotonergic mechanisms are thought to play an important role in the pathogenesis of seasonal affective disorder (SAD). The expression of the serotonin transporter (5-HTT) is regulated in part by an insertion/deletion polymorphism in the serotonin transporter gene promoter region (5-HTTLPR). The 5-HTTLPR short allele (s) has been associated with anxiety-related personality traits and depression, and one study observed an association between the 5-HTTLPR s-allele and SAD and the trait of seasonality. We genotyped 138 SAD patients and 146 healthy volunteers with low seasonality for 5-HTTLPR. No difference between patients and controls was found for genotype distribution and s-allele frequency. However, genotype distribution and allele frequencies were strongly associated with DSM-IV depression subtypes. Melancholic depression was associated with the 5-HTTLPR long (l) allele and atypical depression with the 5-HTTLPR s-allele (two-sided Fisher's exact test: genotype distribution: P=0.0038; allele frequencies: P=0.007). Our data are compatible with the hypothesis of a disease process that is not causally related to 5-HTTLPR, but involves 5-HT neurotransmission and 5-HTTLPR somewhere on its way to phenotypic disease expression.},
affiliation = {Department of General Psychiatry, University Hospital of Psychiatry, Vienna, Austria. matthaeus.willeit@camhpet.ca},
number = {11},
pages = {942--6},
volume = {8},
year = {2003},
month = {Nov},
language = {eng},
keywords = {Depressive Disorder: Major, Gene Frequency, Promoter Regions: Genetic, Nerve Tissue Proteins, Membrane Transport Proteins, Polymorphism: Genetic, Carrier Proteins, Genotype, Serotonin Plasma Membrane Transport Proteins, Bipolar Disorder, Humans, Seasonal Affective Disorder, Membrane Glycoproteins},
date-added = {2010-03-20 19:37:02 +0100},
date-modified = {2010-03-20 19:37:02 +0100},
doi = {10.1038/sj.mp.4001392},
pii = {4001392},
pmid = {14593433},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Willeit-2003-Mol%20Psychiatry_A%20polymorphism%20(5-HT.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8020},
rating = {0}
}
@article{Gao:2009p3031,
author = {Hong Gao and Julie M Granka and Marcus W Feldman},
journal = {Genetics},
title = {On the Classification of Epistatic Interactions},
abstract = {Modern genome-wide association studies are characterized by the problem of "missing heritability". Epistasis, or genetic interaction, has been suggested as a possible explanation for the relatively small contribution of single significant associations to the fraction of variance explained. Of particular concern to investigators of genetic interactions is how to best represent and define epistasis. Previous studies have found that the use of different quantitative definitions for genetic interaction can lead to different conclusions when constructing genetic interaction networks and when addressing evolutionary questions. We suggest that instead, multiple representations of epistasis, or epistatic "subtypes," may be valid within a given system. Selecting among these epistatic subtypes may provide additional insight into the biological and functional relationships among pairs of genes. In this study, we propose maximum likelihood and model selection methods in a hypothesis-testing framework to choose epistatic subtypes which best represent functional relationships for pairs of genes based on fitness data from both single and double mutants in haploid systems. We gauge the performance of our method with extensive simulations under various interaction scenarios. Our approach performs reasonably well in detecting the most likely epistatic subtype for pairs of genes, as well as in reducing bias when estimating the epistatic parameter (epsilon). We apply our approach to two available datasets from yeast (Saccharomyces cerevisiae), and demonstrate through overlap of our identified epistatic pairs with experimentally-verified interactions and functional links that our results are likely of biological significance in understanding interaction mechanisms. We anticipate that our method will improve detection of epistatic interactions and will help to unravel the mysteries of complex biological systems.},
affiliation = {Stanford University School of Medicine.},
pages = {},
year = {2009},
month = {Dec},
language = {ENG},
date-added = {2010-01-14 11:24:35 +0100},
date-modified = {2010-07-29 19:27:13 +0200},
doi = {10.1534/genetics.109.111120},
pii = {genetics.109.111120},
pmid = {20026678},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gao-2009-Genetics_On%20the%20Classificatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3031},
rating = {0}
}
@article{Martin:1964,
author = {J Martin},
journal = {British Journal of Social and Clinical Psychology},
title = {Acquiescence--measurement and theory},
pages = {216--225},
volume = {3},
year = {1964},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1012},
rating = {0}
}
@article{deLeeuw:2005p4271,
author = {Jan de Leeuw},
title = {Unidimensional scaling},
year = {2005},
date-added = {2010-01-23 21:38:49 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2005-_Unidimensional%20scali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4271},
rating = {0}
}
@article{Bolton:2006p5242,
author = {Derek Bolton and Thalia C Eley and Thomas G O'Connor and Sean Perrin and Sophia Rabe-Hesketh and Fr{\"u}hling Rijsdijk and Patrick Smith},
journal = {Psychol Med},
title = {Prevalence and genetic and environmental influences on anxiety disorders in 6-year-old twins},
abstract = {BACKGROUND: Prevalence of childhood anxiety disorders at specific ages and genetic etiological influences on anxiety disorders in young children have been little studied. The present study reports prevalence estimates in a community sample of 6-year-old twins, and patterns of genetic and environmental influences on these early-onset anxiety disorders. METHOD: Using a two-phase design 4,662 twin-pairs were sampled and 854 pairs were assessed in the second phase by maternal-informant diagnostic interview using DSM-IV criteria. RESULTS: The most common conditions were separation anxiety disorder (SAD) [2.8%, 95% confidence interval (CI) 2.1-3.8, for current disorder] and specific phobia (10.8%, 95% CI 8.4-13.6, for current disorder). Behavioral genetic modeling was feasible for these two conditions, applied to two phenotypes: symptom syndrome (regardless of impairment) and the narrower one of diagnostic status (symptom syndrome with associated impairment). The heritability estimate for SAD diagnostic status was high, 73%, with remaining variance attributed to non-shared environment. The heritability estimates for specific phobia were also high, 80% for the symptom syndrome and 60% for diagnostic status, with remaining variance attributed in both cases to non-shared environment. CONCLUSIONS: Compared with previous epidemiological surveys of children and adolescents in wide age-bands, the current estimates suggest that rates of anxiety disorders assessed in young childhood are generally at least as high and perhaps higher compared with those found in older children. The heritability estimates suggest that the genetic effects on these early-onset anxiety disorders are substantial and more significant than environmental effects, whether shared or non-shared.},
affiliation = {Institute of Psychiatry, Kings College London, UK. d.bolton@iop.kcl.ac.uk},
number = {3},
pages = {335--44},
volume = {36},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Prevalence, Female, Child, Male, Diagnostic and Statistical Manual of Mental Disorders, Anxiety Disorders, Interview: Psychological, Humans, Environment, Social Environment, Twins},
date-added = {2010-02-09 21:57:25 +0100},
date-modified = {2010-02-09 21:57:25 +0100},
doi = {10.1017/S0033291705006537},
pii = {S0033291705006537},
pmid = {16288680},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5242},
rating = {0}
}
@article{Cho:2009p7187,
author = {Seoae Cho and Haseong Kim and Sohee Oh and Kyunga Kim and Taesung Park},
journal = {BMC Proc},
title = {Elastic-net regularization approaches for genome-wide association studies of rheumatoid arthritis},
abstract = {ABSTRACT : The current trend in genome-wide association studies is to identify regions where the true disease-causing genes may lie by evaluating thousands of single-nucleotide polymorphisms (SNPs) across the whole genome. However, many challenges exist in detecting disease-causing genes among the thousands of SNPs. Examples include multicollinearity and multiple testing issues, especially when a large number of correlated SNPs are simultaneously tested. Multicollinearity can often occur when predictor variables in a multiple regression model are highly correlated, and can cause imprecise estimation of association. In this study, we propose a simple stepwise procedure that identifies disease-causing SNPs simultaneously by employing elastic-net regularization, a variable selection method that allows one to address multicollinearity. At Step 1, the single-marker association analysis was conducted to screen SNPs. At Step 2, the multiple-marker association was scanned based on the elastic-net regularization. The proposed approach was applied to the rheumatoid arthritis (RA) case-control data set of Genetic Analysis Workshop 16. While the selected SNPs at the screening step are located mostly on chromosome 6, the elastic-net approach identified putative RA-related SNPs on other chromosomes in an increased proportion. For some of those putative RA-related SNPs, we identified the interactions with sex, a well known factor affecting RA susceptibility.},
affiliation = {Interdisciplinary Program in Bioinformatics, Seoul National University, Kwan-ak St, 599, Kwan-ak Gu, Seoul, South Korea 151-741, Republic of Korea. sacho71@snu.ac.kr.},
pages = {S25},
volume = {3 Suppl 7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-06 21:18:27 +0100},
date-modified = {2010-07-29 19:21:18 +0200},
pmid = {20018015},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7187},
rating = {0}
}
@article{Verstralen:2006aa,
author = {Huub Verstralen},
title = {Explorations in recursive designs},
abstract = {Starting from a set of basic designs, more complex designs are created by recursive application of the basic designs. Properties of these designs, and their effects on the accuracy of Rasch CML-parameter estimates are investigated.},
year = {2006},
month = {Apr},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-2006-_Explorations%20in%20recu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1212},
rating = {0}
}
@article{Nicodemus:2010p13381,
author = {Kristin K Nicodemus and James D Malley and Carolin Strobl and Andreas Ziegler},
journal = {BMC Bioinformatics},
title = {The behaviour of random forest permutation-based variable importance measures under predictor correlation},
abstract = {BACKGROUND: Random forests (RF) have been increasingly used in applications such as genome-wide association and microarray studies where predictor correlation is frequently observed. Recent works on permutation-based variable importance measures (VIMs) used in RF have come to apparently contradictory conclusions. We present an extended simulation study to synthesize results. RESULTS: In the case when both predictor correlation was present and predictors were associated with the outcome (HA), the unconditional RF VIM attributed a higher share of importance to correlated predictors, while under the null hypothesis that no predictors are associated with the outcome (H0) the unconditional RF VIM was unbiased. Conditional VIMs showed a decrease in VIM values for correlated predictors versus the unconditional VIMs under HA and was unbiased under H0. Scaled VIMs were clearly biased under HA and H0. CONCLUSIONS: Unconditional unscaled VIMs are a computationally tractable choice for large datasets and are unbiased under the null hypothesis. Whether the observed increased VIMs for correlated predictors may be considered a "bias" - because they do not directly reflect the coefficients in the generating model - or if it is a beneficial attribute of these VIMs is dependent on the application. For example, in genetic association studies, where correlation between markers may help to localize the functionally relevant variant, the increased importance of correlated predictors may be an advantage. On the other hand, we show examples where this increased importance may result in spurious signals.},
affiliation = {Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK. kristin.nicodemus@well.ox.ac.uk},
pages = {110},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Algorithms, Genomics, Genome-Wide Association Study, Genome},
date-added = {2010-07-01 19:20:01 +0200},
date-modified = {2010-07-01 19:23:18 +0200},
doi = {10.1186/1471-2105-11-110},
pii = {1471-2105-11-110},
pmid = {20187966},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Nicodemus-2010-BMC%20Bioinformatics_The%20behaviour%20of%20ran.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13381},
rating = {5}
}
@article{LynneLandsman:2010p12170,
author = {Sarah D Lynne-Landsman and Julia A Graber and Tracy R Nichols and Gilbert J Botvin},
journal = {J Youth Adolesc},
title = {Is Sensation Seeking a Stable Trait or Does it Change Over Time?},
abstract = {The theory of sensation seeking has conceptualized this construct as a stable personality trait associated with a variety of problem behaviors. Reckless behavior theory posits that increases in reckless behavior during adolescence can be attributed, in part, to increases in sensation seeking. This study evaluated patterns of stability and change in sensation seeking among 868 urban, minority youth (53% female), followed longitudinally across middle school (6th-8th grades). Group-based trajectory analysis identified a stable low group (20%), a moderate increasing group (60%), and a stable high group (20%) each of which demonstrated unique associations with changes in problem behaviors. Stable low sensation seekers reported consistently low levels of aggression, delinquency, and substance use across middle school. Moderate increasing sensation seekers reported significant increases in these risk behaviors over time from levels near zero in the 6th grade. Stable high sensation seekers reported high, stable levels of aggression and delinquency upon entry into middle school as well as significant increases in substance use across middle school. These results lend support to both theories and highlight a need for caution when categorizing adolescents as high or low sensation seekers.},
affiliation = {Department of Mental Health, Johns Hopkins Bloomberg School of Public Health, 624 North Broadway, Hampton House/Room 802, Baltimore, MD, 21205, USA, slynne@jhsph.edu.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-05-30 10:44:26 +0200},
date-modified = {2010-05-30 10:44:26 +0200},
doi = {10.1007/s10964-010-9529-2},
pmid = {20354775},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12170},
rating = {0}
}
@article{Kyle:2010p7252,
author = {Simon D Kyle and Kevin Morgan and Colin A Espie},
journal = {Sleep Med Rev},
title = {Insomnia and health-related quality of life},
abstract = {Health-related Quality of Life (HRQoL) has become an important construct in contemporary medicine and health care, permitting assessment of disorder burden and evaluation of interventions on various aspects of functioning, in a standardized manner. Here we review literature on the measurement of HRQoL in insomnia populations, and the extent to which insomnia treatment improves domains of HRQoL. It is concluded from the relatively small literature that insomnia impacts on diverse areas of HRQoL, and that both pharmacological and non-pharmacological interventions can produce, to varying degrees, improvements in domains spanning physical, social and emotional functioning. Limitations of the current literature are identified; with particular emphasis on measurement and conceptual shortcomings. Suggestions are made in relation to improving the quality of future research, and how to further shed light on the impact of insomnia - and treatment thereof - on both HRQoL and global quality of life.},
affiliation = {University of Glasgow Sleep Centre, Sackler Institute of Psychobiological Research, Faculty of Medicine, Southern General Hospital, Glasgow G51 4TF, Scotland. s.d.kyle@clinmed.gla.ac.uk},
number = {1},
pages = {69--82},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-03-10 20:13:13 +0100},
date-modified = {2010-03-10 20:13:13 +0100},
doi = {10.1016/j.smrv.2009.07.004},
pii = {S1087-0792(09)00071-9},
pmid = {19962922},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kyle-2010-Sleep%20Med%20Rev_Insomnia%20and%20health.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7252},
rating = {0}
}
@phdthesis{Sheng:2005,
author = {Y Sheng},
journal = {PhD Thesis},
title = {BAYESIAN ANALYSIS OF HIERARCHICAL IRT MODELS: COMPARING AND COMBINING THE UNIDIMENSIONAL {\&} MULTI-UNIDIMENSIONAL IRT MODELS},
affiliation = {University of Missouri-Columbia},
year = {2005},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sheng-2005-PhD%20Thesis_BAYESIAN%20ANALYSIS%20OF.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2154},
rating = {0}
}
@article{Ast:1997,
author = {DB Ast and ER Schlesinger},
journal = {Am J Public Health},
title = {The conclusion of a ten year study of water fluoridation},
abstract = {This is a section of the book The Challenge of Epidemiology: Issues and Selected Readings. Edited by four eminent epidemiologists, this book consolidates, for the first time, a core of landmark articles on the evolution, scope and limitations, uses, and prospects of epidemiology. An outstanding feature of the book is the inclusion of the editors' assessments of the realm of epidemiology, where it is and where it should be going. It represents a useful tool for both students and practicing professionals and provides a much-needed frame of reference for reorienting the practice of epidemiology. The book is a collection of 91 articles, grouped in five parts. This article deals with the health, in particular pediatric and dental, aspects of water supplies that contain fluoride ion. A brief discussion on the metabolism of fluorides is provided.},
pages = {265--271},
volume = {46},
year = {1997},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1034},
rating = {0}
}
@misc{Lubke:2000,
author = {G Lubke and B Muth\'e},
journal = {Miscellaneous},
title = {Factor-analyzing Likert-scale data under the assumption of mutlivariate normality complicates a meaningful comparison of observed groups or latent classes},
year = {2000},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubke-2000-Miscellaneous_Factor-analyzing%20Lik.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1927},
rating = {0}
}
@article{Szymczak:2009p13176,
author = {Silke Szymczak and Joanna M Biernacka and Heather J Cordell and Oscar Gonz{\'a}lez-Recio and Inke R K{\"o}nig and Heping Zhang and Yan V Sun},
journal = {Genet Epidemiol},
title = {Machine learning in genome-wide association studies},
abstract = {Recently, genome-wide association studies have substantially expanded our knowledge about genetic variants that influence the susceptibility to complex diseases. Although standard statistical tests for each single-nucleotide polymorphism (SNP) separately are able to capture main genetic effects, different approaches are necessary to identify SNPs that influence disease risk jointly or in complex interactions. Experimental and simulated genome-wide SNP data provided by the Genetic Analysis Workshop 16 afforded an opportunity to analyze the applicability and benefit of several machine learning methods. Penalized regression, ensemble methods, and network analyses resulted in several new findings while known and simulated genetic risk variants were also identified. In conclusion, machine learning approaches are promising complements to standard single-and multi-SNP analysis methods for understanding the overall genetic architecture of complex human diseases. However, because they are not optimized for genome-wide SNP data, improved implementations and new variable selection procedures are required.},
affiliation = {Institut f{\"u}r Medizinische Biometrie und Statistik, Universit{\"a}t zu L{\"u}beck, L{\"u}beck, Germany. silke.szymczak@imbs.uni-luebeck.de},
pages = {S51--7},
volume = {33 Suppl 1},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Bayes Theorem, Artificial Intelligence, Genome-Wide Association Study, Neural Networks (Computer), Humans, Regression Analysis, Molecular Epidemiology, Genetic Predisposition to Disease, Polymorphism: Single Nucleotide},
date-added = {2010-06-26 11:19:28 +0200},
date-modified = {2010-06-26 11:19:28 +0200},
doi = {10.1002/gepi.20473},
pmid = {19924717},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Szymczak-2009-Genet%20Epidemiol_Machine%20learning%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13176},
read = {Yes},
rating = {0}
}
@article{Edwards:2010p12922,
author = {M C Edwards},
journal = {Psychometrika},
title = {A Markov Chain Monte Carlo approach to confirmatory item factor analysis},
abstract = {Item factor analysis has a rich tradition in both the structural equation modeling and item response theory frameworks. The goal of this paper is to demonstrate a novel combination of various Markov chain Monte Carlo (MCMC) estimation routines to estimate parameters of a wide variety of confirmatory item factor analysis models. Further, I show that these methods can be implemented in a flexible way which requires minimal technical sophistication on the part of the end user. After providing an overview of item factor analysis and MCMC, results from several examples (simulated and real) will be discussed. The bulk of these examples focus on models that are problematic for current ``gold-standard'' estimators. The results demonstrate that it is possible to obtain accurate parameter estimates using MCMC in a relatively user-friendly package.},
year = {2010},
date-added = {2010-06-24 18:05:27 +0200},
date-modified = {2010-06-24 18:10:34 +0200},
doi = {10.1007/S11336-010-9161-9},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Edwards-2010-Psychometrika_A%20Markov%20Chain%20Monte.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12922},
rating = {4}
}
@article{Hothorn:2007p14023,
author = {T Hothorn and K Hornik and Mark A van de Wiel and A Zeilis},
title = {Implementing a Class of Permutation Tests: The coin Package},
abstract = {This description of the R package coin is a (slightly) modified version of Hothorn, Hornik, van ̃de Wiel, and Zeileis (2008a) published in the Journal of Statistical Software. The R package coin implements a unified approach to permutation tests providing a huge class of independence tests for nominal, ordered, numeric, and censored data as well as multivariate data at mixed scales. Based on a rich and flexible conceptual framework that embeds different permutation test procedures into a common theory, a computational framework is established in coin that likewise embeds the corresponding R functionality in a common S4 class structure with associated generic functions. As a consequence, the computational tools in coin inherit the flexibility of the underlying theory and con- ditional inference functions for important special cases can be set up easily. Conditional versions of classical tests---such as tests for location and scale problems in two or more samples, independence in two- or three-way contingency tables, or association problems for censored, ordered categorical or multivariate data---can easily be implemented as special cases using this computational toolbox by choosing appropriate transformations of the observations. The paper gives a detailed exposition of both the internal structure of the package and the provided user interfaces along with examples on how to extend the implemented functionality.},
year = {2007},
date-added = {2010-08-09 10:00:41 +0200},
date-modified = {2010-08-09 10:02:21 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hothorn-2007-_Implementing%20a%20Class.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14023},
rating = {0}
}
@article{Egger:2003p4364,
author = {Jos I M Egger and Hubert R A De Mey and Jan J L Derksen and Cees P F van der Staak},
journal = {Psychol Assess},
title = {Cross-cultural replication of the five-factor model and comparison of the NEO-PI-R and MMPI-2 PSY-5 scales in a Dutch psychiatric sample},
abstract = {The authors investigated cross-cultural replicability of the five-factor model (FFM) of personality as represented by the revised NEO Personality Inventory (NEO-PI-R; P. T. Costa {\&} R. R. McCrae, 1992) in a sample of 423 Dutch psychiatric patients. Also, NEO-PI-R domain scales were compared with the Personality Psychopathology Five (PSY-5; A. R. Harkness {\&} J. L. McNulty, 1994) scales of the Minnesota Multiphasic Personality Inventory-2 (J. N. Butcher, W. G. Dahlstrom, J. R. Graham, A. Tellegen, {\&} B. Kaemmer, 2002). Principal-components analysis with procrustean rotation confirmed the hypothesized structural similarity of the present sample with the U.S. normative factor scores. All of the hypothesized relations between NEO-PI-R and PSY-5 scales were confirmed. The results provide evidence for cross-cultural replicability of the FFM and for validity of the NEO-PI-R and PSY-5 constructs in the psychological assessment of psychiatric patients.},
affiliation = {Department of Clinical Psychology and Personality, University of Nijmegen, P.O. Box 9104, 6500 HE Nijmegen, The Netherlands. j.egger@psych.kun.nl},
number = {1},
pages = {81--8},
volume = {15},
year = {2003},
month = {Mar},
language = {eng},
keywords = {Cross-Cultural Comparison, Personality Inventory, MMPI, Personality Disorders, Female, Culture, Male, Middle Aged, Humans, Factor Analysis: Statistical, Aged, Adult},
date-added = {2010-01-28 16:29:27 +0100},
date-modified = {2010-01-28 16:29:27 +0100},
pmid = {12674727},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4364},
rating = {0}
}
@article{Miller:2009p12309,
author = {Lucy J Miller and Darci M Nielsen and Sarah A Schoen and Barbara A Brett-Green},
journal = {Frontiers in integrative neuroscience},
title = {Perspectives on sensory processing disorder: a call for translational research},
abstract = {THIS ARTICLE EXPLORES THE CONVERGENCE OF TWO FIELDS, WHICH HAVE SIMILAR THEORETICAL ORIGINS: a clinical field originally known as sensory integration and a branch of neuroscience that conducts research in an area also called sensory integration. Clinically, the term was used to identify a pattern of dysfunction in children and adults, as well as a related theory, assessment, and treatment method for children who have atypical responses to ordinary sensory stimulation. Currently the term for the disorder is sensory processing disorder (SPD). In neuroscience, the term sensory integration refers to converging information in the brain from one or more sensory domains. A recent subspecialty in neuroscience labeled multisensory integration (MSI) refers to the neural process that occurs when sensory input from two or more different sensory modalities converge. Understanding the specific meanings of the term sensory integration intended by the clinical and neuroscience fields and the term MSI in neuroscience is critical. A translational research approach would improve exploration of crucial research questions in both the basic science and clinical science. Refinement of the conceptual model of the disorder and the related treatment approach would help prioritize which specific hypotheses should be studied in both the clinical and neuroscience fields. The issue is how we can facilitate a translational approach between researchers in the two fields. Multidisciplinary, collaborative studies would increase knowledge of brain function and could make a significant contribution to alleviating the impairments of individuals with SPD and their families.},
affiliation = {Sensory Processing Disorder Foundation Greenwood Village, CO, USA.},
pages = {22},
volume = {3},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-06-12 09:26:55 +0200},
date-modified = {2010-06-12 09:26:55 +0200},
doi = {10.3389/neuro.07.022.2009},
pmid = {19826493},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Miller-2009-Frontiers%20in%20integrative%20neuroscience_Perspectives%20on%20sens.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12309},
rating = {0}
}
@article{Takane:1987p2727,
author = {Y Takane and Jan de Leeuw},
journal = {Psychometrika},
title = {On the relationship between Item Response Theory and Factor Analysis of discretized variables},
number = {3},
pages = {393--408},
volume = {52},
year = {1987},
date-added = {2010-01-13 14:16:52 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-1987-Psychometrika_On%20the%20relationship.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2727},
read = {Yes},
rating = {5}
}
@article{Horton:2004p14044,
author = {N J Horton and E R Brown and L Qian},
journal = {The American Statistician},
title = {Use of R as a toolbox for mathematical statistics exploration},
abstract = {The R language, a freely available environment for statistical computing and graphics is widely used in many fields. This ``expert-friendly'' system has a powerful command language and programming environment, combined with an active user community. We discuss how R is ideal as a platform to support experimentation in mathematical statistics, both at the undergraduate and graduate levels. Using a series of case studies and activities, we describe how R can be utilized in a mathematical statistics course as a toolbox for experimentation. Examples include the calculation of a running variance, maximization of a non-linear function, resampling of a statistic, simple Bayesian modeling, sampling from multivariate normal and estimation of power. These activities, often requiring only a few dozen lines of code, offer the student the opportunity to explore statistical concepts and experiment. In addition, they provide an introduction to the framework and idioms available in this rich environment.},
number = {4},
pages = {343--357},
volume = {58},
year = {2004},
date-added = {2010-08-10 12:40:18 +0200},
date-modified = {2010-08-10 12:42:14 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Horton-2004-The%20American%20Statistician_Use%20of%20R%20as%20a%20toolbo-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14044},
rating = {3}
}
@article{Medland:2003p1853,
author = {Sarah E Medland and Margaret J Wright and Gina M Geffen and David A Hay and Florence Levy and Nicholas G Martin and David L Duffy},
journal = {Twin Res},
title = {Special twin environments, genetic influences and their effects on the handedness of twins and their siblings},
abstract = {It has been suggested that twinning may influence handedness through the effects of birth order, intra-uterine crowding and mirror imaging. The influence of these effects on handedness (for writing and throwing) was examined in 3657 Monozygotic (MZ) and 3762 Dizygotic (DZ) twin pairs (born 1893-1992). Maximum likelihood analyses revealed no effects of birth order on the incidence of left-handedness. Twins were no more likely to be left-handed than their singleton siblings (n = 1757), and there were no differences between the DZ co-twin and sibling-twin covariances, suggesting that neither intra-uterine crowding nor the experience of being a twin affects handedness. There was no evidence of mirror imaging; the co-twin correlations of monochorionic and dichorionic MZ twins did not differ. Univariate genetic analyses revealed common environmental factors to be the most parsimonious explanation of familial aggregation for the writing-hand measure, while additive genetic influences provided a better interpretation of the throwing hand data.},
affiliation = {Genetic Epidemiology Unit, Queensland Institute of Medical Research, 300 Herston Road, Brisbane, Queensland 4029, Australia. sarahMe@qimr.edu.au},
number = {2},
pages = {119--30},
volume = {6},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Chi-Square Distribution, Placenta, Male, Siblings, Humans, Birth Order, Likelihood Functions, Female, Functional Laterality, Social Environment, Twins, Pregnancy},
date-added = {2010-01-10 11:28:55 +0100},
date-modified = {2010-01-10 11:28:56 +0100},
doi = {10.1375/136905203321536245},
pmid = {12723998},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Medland-2003-Twin%20Res_Special%20twin%20environ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1853},
rating = {0}
}
@article{Glas:1989,
author = {C A W Glas and N Verhelst},
journal = {Psychometrika},
title = {Extensions of the partial credit model},
pages = {635--659},
volume = {54},
year = {1989},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glas-1989-Psychometrika_Extensions%20of%20the%20pa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1974},
rating = {0}
}
@article{Chun:2007p1525,
author = {H Chun and S Keles},
title = {Sparse Partial Least Squares Regression for Simulta- neous Dimension Reduction and Variable Selection},
abstract = {Analysis of modern biological data often involves ill-posed problems due to high dimensionality and multicollinearity. Partial Least Squares (pls) regression has been an alternative to ordinary least squares for handling multicollinearity in several areas of scientific research since 1960s. At the core of the pls methodology lies a dimension reduction technique coupled with a regression model. Although pls regression has been shown to achieve good predictive performance, it is not particularly tailored for variable/feature selection and therefore often produces linear combinations of the original predictors that are hard to interpret due to high dimensionality. In this paper, we investigate the known asymptotic properties of the pls estimator and show that its consistency property no longer holds with the very large p and small n paradigm. We, then, propose a sparse partial least squares (spls) formulation which aims to simultaneously achieve good predictive performance and variable selection by producing sparse linear combinations of the original predictors. We provide an efficient implementation of spls regression based on the lars algorithm and benchmark the proposed method by comparisons to well known variable selection and dimension reduction approaches via simulation experiments. An additional advantage of the spls regression is its ability to handle multivariate responses without much additional computational cost. We illustrate this in a joint analysis of gene expression and genome-wide binding data.},
affiliation = {Department of Statistics University of Wisconsin, Madison, 53706 USA},
year = {2007},
date-added = {2010-01-07 15:59:21 +0100},
date-modified = {2010-01-07 16:00:21 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chun-2007-_Sparse%20Partial%20Least.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1525},
rating = {0}
}
@article{Norton:2004p4120,
author = {E C Norton and H Wang and C Ai},
journal = {The Stata Joumal},
title = {Computinginteractioneffectsand standard errorsin logit and Probit models},
abstract = {This paper explailrswhy computing the rnarginalefect of a change in two va,riablesis more complicated in nonlinear models than in linear models The command iDteff computesthe correct marginal eflect of a changein two intera.ted variablesfor a logit or probit model, as well as the correct standard errors. The intef command graphs the interaction effect and savesthe results to allow further investigation},
number = {2},
pages = {154--167},
volume = {4},
year = {2004},
date-added = {2010-01-20 00:07:19 +0100},
date-modified = {2010-07-29 19:53:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Norton-2004-The%20Stata%20Joumal_Computinginteraction.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4120},
rating = {0}
}
@article{Jara:2007,
author = {A Jara and M J Garcia-Zattera and E Lesaffre},
journal = {Computational Statistics},
title = {A Dirichlet process mixture model for the analysis of correlated binary responses},
abstract = {The multivariate probit model is a popular choice for modelling correlated binary responses. It assumes an underlying multivariate normal distribution dichotomized to yield a binary response vector. Other choices for the latent distribution have been suggested, but basically all models assume homogeneity in the correlation structure across the subjects. When interest lies in the association structure, relaxing this homogeneity assumption could be useful. The latent multivariate normal model is replaced by a location and association mixture model defined by a Dirichlet process. Attention is paid to the parameterization of the covariance matrix in order to make the Bayesian computations convenient. The approach is illustrated on a simulated data set and applied to oral health data from the Signal Tandmobiel^(R) study to examine the hypothesis that caries is mainly a spatially local disease.},
affiliation = {Interuniversity Attraction Pole},
number = {11},
pages = {5402--5415},
volume = {51},
year = {2007},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 19:24:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jara-2007-Computational%20Statistics_A%20Dirichlet%20process.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1121},
rating = {0}
}
@article{Malo:2008p1443,
author = {Nathalie Malo and Ondrej Libiger and Nicholas J Schork},
journal = {Am J Hum Genet},
title = {Accommodating linkage disequilibrium in genetic-association analyses via ridge regression},
abstract = {Large-scale genetic-association studies that take advantage of an extremely dense set of genetic markers have begun to produce very compelling statistical associations between multiple makers exhibiting strong linkage disequilibrium (LD) in a single genomic region and a phenotype of interest. However, the ultimate biological or "functional" significance of these multiple associations has been difficult to discern. In fact, the LD relationships between not only the markers found to be associated with the phenotype but also potential functionally or causally relevant genetic variations that reside near those markers have been exploited in such studies. Unfortunately, LD, especially strong LD, between variations at neighboring loci can make it difficult to distinguish the functionally relevant variations from nonfunctional variations. Although there are (rare) situations in which it is impossible to determine the independent phenotypic effects of variations in LD, there are strategies for accommodating LD between variations at different loci, and they can be used to tease out their independent effects on a phenotype. These strategies make it possible to differentiate potentially causative from noncausative variations. We describe one such approach involving ridge regression. We showcase the method by using both simulated and real data. Our results suggest that ridge regression and related techniques have the potential to distinguish causative from noncausative variations in association studies.},
affiliation = {Department of Experimental Medicine, The Scripps Research Institute, La Jolla, CA 92037, USA.},
number = {2},
pages = {375--85},
volume = {82},
year = {2008},
month = {Feb},
language = {eng},
keywords = {Regression Analysis, Computer Simulation, Genetic Variation, Linkage Disequilibrium, Data Interpretation: Statistical, Phenotype, Models: Genetic},
date-added = {2010-01-07 12:19:46 +0100},
date-modified = {2010-07-29 19:13:31 +0200},
doi = {10.1016/j.ajhg.2007.10.012},
pii = {S0002-9297(08)00091-8},
pmid = {18252218},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Malo-2008-Am%20J%20Hum%20Genet_Accommodating%20linkag.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1443},
read = {Yes},
rating = {0}
}
@article{Wang:2008p12892,
author = {Jie Wang and KN Plataniotis and Juwei Lu and AN Venetsanopoulos},
journal = {Pattern Recognition},
title = {Kernel quadratic discriminant analysis for small sample size problem},
abstract = {It is generally believed that quadratic discriminant analysis (QDA) can better fit the data in practical pattern recognition applications compared to linear discriminant analysis (LDA) method. This is due to the fact that QDA relaxes the assumption made by LDA-based methods that the covariance matrix for each class is identical. However, it still assumes that the class conditional distribution is Gaussian which is usually not the case in many real-world applications. In this paper, a novel kernel-based QDA method is proposed to further relax the Gaussian assumption by using the kernel machine technique. The proposed method solves the complex pattern recognition problem by combining the QDA solution and the kernel machine technique, and at the same time, tackles the so-called small sample size problem through a regularized estimation of the covariance matrix. Extensive experimental results indicate that the proposed method is a more sophisticated solution outperforming many traditional kernel-based learning algorithms.},
pages = {1528--1538},
volume = {41},
year = {2008},
date-added = {2010-06-24 13:25:38 +0200},
date-modified = {2010-06-24 13:26:41 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2008-Pattern%20Recognition_Kernel%20quadratic%20dis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12892},
rating = {4}
}
@article{Schlaepfer:2006p3461,
author = {Thomas E Schlaepfer and Eric Lancaster and Rebecca Heidbreder and Eric C Strain and Markus Kosel and Hans-Ulrich Fisch and Godfrey D Pearlson},
journal = {Int J Neuropsychopharmacol},
title = {Decreased frontal white-matter volume in chronic substance abuse},
abstract = {There is quite a body of work assessing functional brain changes in chronic substance abuse, much less is known about structural brain abnormalities in this patient population. In this study we used magnetic resonance imaging (MRI) to determine if structural brain differences exist in patients abusing illicit drugs compared to healthy controls. Sixteen substance abusers who abused heroin, cocaine and cannabis but not alcohol and 16 age-, sex- and race-matched controls were imaged on a MRI scanner. Contiguous, 5-mm-thick axial slices were acquired with simultaneous T2 and proton density sequences. Volumes were estimated for total grey and white matter, frontal grey and white matter, ventricles, and CSF using two different methods: a conventional segmentation and a stereological method based on the Cavalieri principle. Overall brain volume differences were corrected for by expressing the volumes of interest as a percentage of total brain volume. Volume measures obtained with the two methods were highly correlated (r=0.65, p<0.001). Substance abusers had significantly less frontal white-matter volume percentage than controls. There were no significant differences in any of the other brain volumes measured. This difference in frontal lobe white matter might be explained by a direct neurotoxic effect of drug use on white matter, a pre-existing abnormality in the development of the frontal lobe or a combination of both effects. This last explanation might be compelling based on the fact that newer concepts on shared aspects of some neuropsychiatric disorders focus on the promotion and inhibition of the process of myelination throughout brain development and subsequent degeneration.},
affiliation = {Department of Psychiatry, University Hospital, Bonn, Germany. schlaepf@jhmi.edu},
number = {2},
pages = {147--53},
volume = {9},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Magnetic Resonance Imaging, Case-Control Studies, Substance-Related Disorders, Adult, Male, Middle Aged, Female, Image Processing: Computer-Assisted, Brain Mapping, Stereotaxic Techniques, Humans, Frontal Lobe},
date-added = {2010-01-15 15:19:49 +0100},
date-modified = {2010-01-15 15:19:57 +0100},
doi = {10.1017/S1461145705005705},
pii = {S1461145705005705},
pmid = {16004619},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3461},
rating = {4}
}
@article{Schieken:1992p10382,
author = {R M Schieken and M Mosteller and M M Goble and W B Moskowitz and J K Hewitt and L J Eaves and W E Nance},
journal = {Circulation},
title = {Multivariate genetic analysis of blood pressure and body size. The Medical College of Virginia Twin Study},
abstract = {BACKGROUND: In subjects of all ages, those who weigh the most often have the highest blood pressure. Thus, in epidemiological studies, weight is the most important correlate of blood pressure. Using the data from the Medical College of Virginia Twin Study, we asked these questions: 1) Do the same genetic paths that regulate body size also regulate systolic and diastolic blood pressure? 2) Are there distinct genetic pathways that regulate each of these variables? 3) Does environment play a major regulatory role? 4) Are the correlations among these variables mainly due to genetic or environmental effects? 5) Do genetic paths that regulate body size mediate the correlation between systolic blood pressure and diastolic blood pressure? METHODS AND RESULTS: We ascertained 253 Caucasian twin pairs living in the Commonwealth of Virginia. The average age was 11.2 +/- 0.2 years. We used multivariate path analyses to investigate the genetic relations among systolic blood pressure, diastolic blood pressure, and body size. We found that there was a highly significant genetic relation between systolic blood pressure and body size and between systolic and diastolic blood pressure. There are genetic paths that are shared within these two sets of variables, but in each case, the paths for each pair appear to be separate from one another. CONCLUSIONS: These analyses provide a method to partition correlation coefficients found in epidemiological studies into genetic and environmental components. The correlations found among these three variables are in large part due to these genetic relations. We found no genetic relation between diastolic blood pressure and body size.},
affiliation = {Children's Medical Center, Division of Pediatric Cardiology, Richmond.},
number = {6},
pages = {1780--8},
volume = {86},
year = {1992},
month = {Dec},
language = {eng},
keywords = {Twins, Systole, Humans, Multivariate Analysis, Male, Environment, Blood Pressure, Child, Diastole, Female, Body Constitution, Body Mass Index, Models: Cardiovascular, Sex Characteristics},
date-added = {2010-04-02 18:22:45 +0200},
date-modified = {2010-04-02 18:22:45 +0200},
pmid = {1451250},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schieken-1992-Circulation_Multivariate%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10382},
rating = {0}
}
@article{Revelle:2006p13936,
author = {W Revelle},
title = {The Contribution of Reinforcement Sensitivity Theory to Personality Theory},
year = {2006},
date-added = {2010-07-29 19:00:07 +0200},
date-modified = {2010-07-29 19:00:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revelle-2006-_The%20Contribution%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13936},
rating = {0}
}
@article{Lindstrom:1990p2363,
author = {M L Lindstrom and D M Bates},
journal = {Biometrics},
title = {Nonlinear mixed effects models for repeated measures data},
abstract = {We propose a general, nonlinear mixed effects model for repeated measures data and define estimators for its parameters. The proposed estimators are a natural combination of least squares estimators for nonlinear fixed effects models and maximum likelihood (or restricted maximum likelihood) estimators for linear mixed effects models. We implement Newton-Raphson estimation using previously developed computational methods for nonlinear fixed effects models and for linear mixed effects models. Two examples are presented and the connections between this work and recent work on generalized linear mixed effects models are discussed.},
affiliation = {Biostatistics Center, University of Wisconsin-Madison 53706.},
number = {3},
pages = {673--87},
volume = {46},
year = {1990},
month = {Sep},
language = {eng},
keywords = {Likelihood Functions, Biometry, Analysis of Variance, Models: Statistical, Algorithms},
date-added = {2010-01-10 13:38:34 +0100},
date-modified = {2010-01-10 13:38:34 +0100},
pmid = {2242409},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lindstrom-1990-Biometrics_Nonlinear%20mixed%20effe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2363},
rating = {0}
}
@article{Gonidakis:2007p4367,
author = {F Gonidakis and A D Rabavilas and E Varsou and G Kreatsas and G N Christodoulou},
journal = {J Affect Disord},
title = {Maternity blues in Athens, Greece: a study during the first 3 days after delivery},
abstract = {BACKGROUND: Although maternity blues have been studied in many countries worldwide the factors that influence the occurrence of this clinical entity are not well understood. The purpose of this study was to investigate the prevalence, time course and symptomatology of maternity blues in a Greek urban environment as well as the relation of maternity blues with certain clinical and sociodemographic factors. METHOD: A study of a sample of 402 women that were recruited during the first day after delivery. Each woman completed the Kennerley's Blues Questionnaire on a daily basis for the first 3 days of puerpartum. Clinical and sociodemographic data were obtained through questionnaires and personal interview. RESULTS: 179 (44.5%) women experienced severe maternity blues during the first 3 days after delivery. Delivery by caesarian section (P=0.006), stressful events during pregnancy (P=0.02), depressive feelings the last month prior to delivery (P=0.002), anxiety on the day of delivery (P=0.001) and hypochondriasis (P=0.001) were the factors that were found to relate significantly to maternity blues. CONCLUSION: The women's emotional condition prior and after delivery, delivery via caesarotomy, as well as fears concerning somatic health had strong impact on the occurrence of maternity blues.},
affiliation = {Department of Psychiatry, Athens University Medical School, Greece. fragoni@yahoo.com},
number = {1-3},
pages = {107--15},
volume = {99},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Urban Population, Incidence, Life Change Events, Depression, Cesarean Section, Female, Hypochondriasis, Adult, Pregnancy, Cross-Sectional Studies, Greece, Socioeconomic Factors, Statistics as Topic, Depression: Postpartum, Cross-Cultural Comparison, Risk Factors, Pregnancy: Unwanted, Humans, Personality Inventory, Anxiety, Personality Assessment},
date-added = {2010-01-28 16:31:10 +0100},
date-modified = {2010-01-28 16:31:11 +0100},
doi = {10.1016/j.jad.2006.08.028},
pii = {S0165-0327(06)00362-4},
pmid = {17011042},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4367},
rating = {0}
}
@article{vanderValk:1998p11413,
author = {J C van der Valk and F C Verhulst and T M Stroet and Dorret I Boomsma},
journal = {Twin Res},
title = {Quantitative genetic analysis of internalising and externalising problems in a large sample of 3-year-old twins},
abstract = {For a quantitative genetic study of pre-school problem behaviours, we have collected data with the Child Behavior Checklist for 2 and 3-year-old children (CBCL 2/3). Questionnaires were completed by mothers of 3620 twin pairs: 633 monozygotic males, 581 dizygotic males, 695 monozygotic females, 519 dizygotic females and 1192 dizygotic opposite sex twin pairs. The genetic and environmental influences on the Externalising and Internalising Problem scales were estimated, simultaneously with sex differences and sibling interaction effects. Genetic factors explained most of the observed variance for both Externalising and Internalising Problems. Cooperative sibling interactions were found for Externalising Problems, indicating that twins reinforce each other's behaviour. Sex differences in genetic architecture were found for Externalising Problems. Genetic factors explained 75% of the variance in girls and 50% in boys. Shared environmental influences were only of importance in boys. For both problem scales, non-shared environmental factors accounted for 25 to 32% of the variance. The observed variances of Internalising Problems could be adequately explained by genetic and nonshared environmental factors, with genetic factors accounting for 68% of the variance.},
affiliation = {Department of Child and Adolescent Psychiatry, Sophia Children's Hospital, Rotterdam, The Netherlands. vandervalk@psys.azr.nl},
number = {1},
pages = {25--33},
volume = {1},
year = {1998},
month = {May},
language = {eng},
keywords = {Diseases in Twins, Models: Genetic, Male, Child Behavior, Twins, Female, Genetics: Behavioral, Child Behavior Disorders, Humans, Models: Psychological, Internal-External Control, Child: Preschool},
date-added = {2010-05-01 16:37:22 +0200},
date-modified = {2010-07-29 20:25:51 +0200},
pmid = {10051354},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20der%20Valk-1998-Twin%20Res_Quantitative%20genetic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11413},
rating = {0}
}
@inproceedings{Cikrikci-Demirtasli:2000,
author = {N Cikrikci-Demirtasli},
journal = {Proceedings},
title = {A study of Raven Standard Progressive Matrices test's item measures under classic and item response models: An empirical comparison},
year = {2000},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cikrikci-Demirtasli-2000-Proceedings_A%20study%20of%20Raven%20Sta.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2233},
rating = {0}
}
@article{Epstein:1994p12182,
author = {E E Epstein and B E Ginsburg and V M Hesselbrock and J C Schwarz},
journal = {Ann N Y Acad Sci},
title = {Alcohol and drug abusers subtyped by antisocial personality and primary or secondary depressive disorder},
abstract = {Our data show that when substance abusers are subtyped simultaneously by antisocial personality disorder and the onset of depression relative to alcohol or drug abuse, groups of people with unique personality and affective profiles are identified. The profiles are represented by measures of affect-related personality variables such as trait anxiety, trait depression, histrionic traits, sensation seeking, and novelty seeking. These measures were chosen in an attempt to show that a "low arousal" personality type may be associated with antisocial personality and may thus indirectly be linked to a certain type (i.e., ASP/nondepressed) of substance abuser. By using a multi-symptomatic typological schema (i.e., a constellation of diagnostic categories rather than just one), we can show that different personality or affective profiles are indeed associated with certain subtypes of substance abusers and that depressed people who use drugs or alcohol are different affectively from antisocial types. We also show that the relationship between "low" and "high" arousal personality profile and subtypes based on co-morbid psychopathology is highlighted even more when we take into account the onset of dysthymia or depression that is primary versus secondary to substance abuse. Our findings are in accord with others' descriptions of the "affective arousal" dimensions of personality and are the first to link these dimensions with subtypes based on ASP and depression.},
affiliation = {Center of Alcohol Studies, Rutgers--The State University of New Jersey, Piscataway 08855.},
pages = {187--201},
volume = {708},
year = {1994},
month = {Feb},
language = {eng},
keywords = {Depressive Disorder, Humans, Male, Antisocial Personality Disorder, Socioeconomic Factors, Adult, Age of Onset, Interviews as Topic, Personality, Personality Inventory, Demography, Alcoholism, Substance-Related Disorders},
date-added = {2010-05-30 10:45:13 +0200},
date-modified = {2010-05-30 10:45:13 +0200},
pmid = {8154680},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12182},
rating = {0}
}
@article{Scholz:2009p418,
author = {Markus Scholz and Dirk Hasenclever},
journal = {arXiv},
title = {A Canonical Measure of Allelic Association},
abstract = { The measurement of biallelic pair-wise association called linkage disequilibrium (LD) is an important issue in order to understand the genomic architecture. A large variety of such measures of association have been proposed in the literature. We propose and justify six biometrical postulates which should be fulfilled by a canonical measure of LD. In short, LD measures are defined as a mapping of probability tables to the set of real numbers. They should be zero in case of independence and extremal if one of the entries approaches zero while the marginals are positively bounded. They should reflect the symmetry group of the tables and be invariant under certain transformations of the marginals (selection invariance). There scale should have maximum entropy relative to a calibrating symmetric distribution. None of the established measures fulfil all of these properties in general. We prove that there is a unique canonical measure of LD for each choice of a calibrating distribution. We compa- re the canonical LD measures with other candidates from the literature. We recommend the canonical measure derived from Jeffreys' non-informative prior distribution when assessing linkage disequilibrium of SNP array data. In a second part, we consider various estimators for the theoretical LD measures discussed and compare them in a simulation study. },
note = {38 pages, 7 figures},
eprint = {0903.3886v1},
volume = {stat.AP},
year = {2009},
month = {Jan},
keywords = {stat.AP},
date-added = {2010-01-03 12:12:41 +0100},
date-modified = {2010-01-03 12:12:41 +0100},
pmid = {0903.3886v1},
url = {http://arxiv.org/abs/0903.3886v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scholz-2009-arXiv_A%20Canonical%20Measure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p418},
rating = {0}
}
@article{Joreskog:1969p6782,
author = {K G J{\"o}reskog},
journal = {Psychometrika},
title = {A general approach to confirmatory maximum likelihood factor analysis},
abstract = {We describe a general procedure by which any number of parameters of the factor analytic model can be held fixed at any values and the remaining free parameters estimated by the maximum likelihood method. The generality of the approach makes it possible to deal with all kinds of solutions: orthog- onal, oblique and various mixtures of these. By choosing the fixed parameters appropriately, factors can be defined to have desired properties and make subsequent rotation unnecessary. The goodness of fit of the maximum likeli- hood solution under the hypothesis represented by the fixed parameters is tested by a large sample x~test based on the likelihood ratio technique. A by- product of the procedure is an estimate of the variance-covariance matrix of the estimated parameters. From this, approximate confidence intervals for the parameters can be obtained. Several examples illustrating the use-
fulness of the procedure are given.},
number = {2},
pages = {183--202},
volume = {34},
year = {1969},
date-added = {2010-03-05 22:23:15 +0100},
date-modified = {2010-07-11 09:51:01 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/J%C3%B6reskog-1969-Psychometrika_A%20general%20approach%20t-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6782},
rating = {0}
}
@article{Beck:2009p9582,
author = {Anne Beck and Florian Schlagenhauf and Torsten W{\"u}stenberg and Jakob Hein and Thorsten Kienast and Thorsten Kahnt and Katharina Schmack and Claudia H{\"a}gele and Brian Knutson and Andreas Heinz and Jana Wrase},
journal = {Biol Psychiatry},
title = {Ventral striatal activation during reward anticipation correlates with impulsivity in alcoholics},
abstract = {BACKGROUND: Alcohol dependence is often associated with impulsivity, which may be correlated with dysfunction of the brain reward system. We explored whether functional brain activation during anticipation of incentive stimuli is associated with impulsiveness in detoxified alcoholics and healthy control subjects. METHODS: Nineteen detoxified male alcoholics and 19 age-matched healthy men participated in a functional magnetic resonance imaging (fMRI) study using a monetary incentive delay (MID) task, in which visual cues predicted that a rapid response to a subsequent target stimulus would either result in monetary gain, avoidance of monetary loss, or no consequence. Impulsivity was assessed with the Barratt Impulsiveness Scale-Version 10 (BIS-10). RESULTS: Detoxified alcoholics showed reduced activation of the ventral striatum during anticipation of monetary gain relative to healthy control subjects. Low activation of the ventral striatum and anterior cingulate during gain anticipation was correlated with high impulsivity only in alcoholics, not in control subjects. CONCLUSIONS: This study suggests that reduced ventral striatal recruitment during anticipation of conventional rewards in alcoholics may be related to their increased impulsivity and indicate possibilities for enhanced treatment approaches in alcohol dependence.},
affiliation = {Department of Psychiatry, Charit{\'e} Universit{\"a}tsmedizin Berlin, Campus Mitte, Berlin, Germany.},
number = {8},
pages = {734--42},
volume = {66},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Gyrus Cinguli, Adult, Male, Brain Mapping, Basal Ganglia, Alcoholism, Reward, Magnetic Resonance Imaging, Humans, Impulsive Behavior, Affect, Psychomotor Performance},
date-added = {2010-03-25 14:08:26 +0100},
date-modified = {2010-03-25 14:08:27 +0100},
doi = {10.1016/j.biopsych.2009.04.035},
pii = {S0006-3223(09)00567-8},
pmid = {19560123},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9582},
rating = {0}
}
@article{Johnstone:2004p5897,
author = {I M Johnstone and A Y Lu},
title = {Sparse Principal Components Analysis},
abstract = {Principal components analysis (PCA) is a classical method for the reduction of dimensionality of data in the form of n observations (or cases) of a vector with p variables. Contemporary data sets often have p comparable to, or even much larger than n. Our main assertions, in such settings, are (a) that some initial reduction in dimensionality is desirable before applying any PCA-type search for principal modes, and (b) the initial reduction in dimensionality is best achieved by working in a basis in which the signals have a sparse representation. We describe a simple asymptotic model in which the estimate of the leading principal component vector via standard PCA is consistent if and only if p(n)/n → 0. We provide a simple algorithm for selecting a subset of coordinates with largest sample variances, and show that if PCA is done on the selected subset, then consistency is recovered, even if p(n) ≫ n.
Our main setting is that of signals and images, in which the number of sampling points, or pixels, is often comparable with or larger than the number of cases, n. Our particular example here is the electrocardiogram (ECG) signal of the beating heart, but similar approaches have been used, say, for PCA on libraries of face images.
Standard PCA involves an O(min(p3,n3)) search for directions of maximum variance. But if we have some a priori way of selecting k ≪ min(n, p) coordinates in which most of the variation among cases is to be found, then the complexity of PCA is much reduced, to O(k3). This is a computational reason, but if there is instrumental or other observational noise in each case that is uncorrelated with or independent of relevant case-to-case variation, then there is another compelling reason to preselect a small subset of variables before running PCA.
Indeed, we construct a model of factor analysis type and show that ordinary PCA can produce a consistent (as n → ∞) estimate of the principal factor if and only if p(n) is asymptotically of smaller order than n. Heuristically, if p(n) ≥ cn, there is so much observational noise and so many dimensions over which to search, that a spurious noise maximum will always drown out the true factor.
Fortunately, it is often reasonable to expect such small subsets of variables to exist: Much recent research in signal and image analysis has sought orthonormal basis and related systems in which typical signals have sparse representations: most co-ordinates have small signal energies. If such a basis is used to represent a signal -- we use wavelets as the classical example here -- then the variation in many coordinates is likely to be very small.
Consequently, we study a simple ``sparse PCA'' algorithm with the following ingredients: a) given a suitable orthobasis, compute coefficients for each case, b) compute sample variances (over cases) for each coordinate in the basis, and select the k coordinates of largest sample variance, c) run standard PCA on the selected k coordinates, obtaining up to k estimated eigenvectors, d) if desired, use soft or hard thresholding to denoise these estimated eigenvectors, and e) re-express the (denoised) sparse PCA eigenvector estimates in the original signal domain.
We illustrate the algorithm on some exercise ECG data, and also develop theory to show in a single factor model, under an appropriate sparsity assumption, that it indeed overcomes the inconsistency problems when p(n) ≥ cn, and yields consistent estimates of the principal factor.},
year = {2004},
date-added = {2010-02-17 21:15:33 +0100},
date-modified = {2010-02-17 21:20:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Johnstone-2004-_Sparse%20Principal%20Com.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5897},
rating = {0}
}
@article{deLeeuw:2001p4733,
author = {Jan de Leeuw},
title = {Reproducible Research. The Bottom Line},
abstract = {From the interesting and provocative paper by Buckheit and Donoho [2] we take the following quotation. ''When we publish articles containing figures which were generated by computer, we also publish the complete software envi- ronment which generated the figures.''
This principle is quite forcefully and recognizably motivated with problems in current research practice. Buckheit and Donoho have taken their inspiration from the ``Green'' Stanford geophysicist Jon Claerbout (his views are expounded in more detail in [3]). They formulate what I shall call Claerbout's Principle.},
year = {2001},
date-added = {2010-01-30 16:20:49 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2001-_Reproducible%20Researc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4733},
rating = {0}
}
@article{Dudbridge:2004p3365,
author = {Frank Dudbridge and Bobby P C Koeleman},
journal = {Am J Hum Genet},
title = {Efficient computation of significance levels for multiple associations in large studies of correlated data, including genomewide association studies},
abstract = {Large exploratory studies, including candidate-gene-association testing, genomewide linkage-disequilibrium scans, and array-expression experiments, are becoming increasingly common. A serious problem for such studies is that statistical power is compromised by the need to control the false-positive rate for a large family of tests. Because multiple true associations are anticipated, methods have been proposed that combine evidence from the most significant tests, as a more powerful alternative to individually adjusted tests. The practical application of these methods is currently limited by a reliance on permutation testing to account for the correlated nature of single-nucleotide polymorphism (SNP)-association data. On a genomewide scale, this is both very time-consuming and impractical for repeated explorations with standard marker panels. Here, we alleviate these problems by fitting analytic distributions to the empirical distribution of combined evidence. We fit extreme-value distributions for fixed lengths of combined evidence and a beta distribution for the most significant length. An initial phase of permutation sampling is required to fit these distributions, but it can be completed more quickly than a simple permutation test and need be done only once for each panel of tests, after which the fitted parameters give a reusable calibration of the panel. Our approach is also a more efficient alternative to a standard permutation test. We demonstrate the accuracy of our approach and compare its efficiency with that of permutation tests on genomewide SNP data released by the International HapMap Consortium. The estimation of analytic distributions for combined evidence will allow these powerful methods to be applied more widely in large exploratory studies.},
affiliation = {MRC Rosalind Franklin Centre for Genomics Research, and MRC Biostatistics Unit, Cambridge, United Kingdom. frank.dudbridge@mrc-bsu.cam.ac.uk},
number = {3},
pages = {424--35},
volume = {75},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Genome: Human, Linkage (Genetics), Genetic Markers, Linkage Disequilibrium, Statistics as Topic, Polymorphism: Single Nucleotide, Chromosome Mapping, Genetic Techniques, Models: Genetic, Association, Models: Statistical, Genotype, Humans, Genome, Databases as Topic},
date-added = {2010-01-15 14:38:34 +0100},
date-modified = {2010-01-15 14:38:36 +0100},
doi = {10.1086/423738},
pii = {S0002-9297(07)63314-X},
pmid = {15266393},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3365},
rating = {3}
}
@article{Hannum:2009p5847,
author = {Gregory Hannum and Rohith Srivas and Aude Gu{\'e}nol{\'e} and Haico van Attikum and Nevan J Krogan and Richard M Karp and Trey Ideker},
journal = {PLoS Genet},
title = {Genome-wide association data reveal a global map of genetic interactions among protein complexes},
abstract = {This work demonstrates how gene association studies can be analyzed to map a global landscape of genetic interactions among protein complexes and pathways. Despite the immense potential of gene association studies, they have been challenging to analyze because most traits are complex, involving the combined effect of mutations at many different genes. Due to lack of statistical power, only the strongest single markers are typically identified. Here, we present an integrative approach that greatly increases power through marker clustering and projection of marker interactions within and across protein complexes. Applied to a recent gene association study in yeast, this approach identifies 2,023 genetic interactions which map to 208 functional interactions among protein complexes. We show that such interactions are analogous to interactions derived through reverse genetic screens and that they provide coverage in areas not yet tested by reverse genetic analysis. This work has the potential to transform gene association studies, by elevating the analysis from the level of individual markers to global maps of genetic interactions. As proof of principle, we use synthetic genetic screens to confirm numerous novel genetic interactions for the INO80 chromatin remodeling complex.},
affiliation = {Department of Bioengineering, University of California San Diego, La Jolla, California, USA.},
number = {12},
pages = {e1000782},
volume = {5},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-02-17 10:19:29 +0100},
date-modified = {2010-02-17 10:19:29 +0100},
doi = {10.1371/journal.pgen.1000782},
pmid = {20041197},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hannum-2009-PLoS%20Genet_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5847},
rating = {0}
}
@inbook{Hardouin:2007,
author = {Jean-Benoit Hardouin and M Mesbah},
journal = {Book},
title = {Mathematical methods for survival analysis, reliability and Quality of life},
chapter = {Selection of items fitting a Rasch model},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hardouin-2007-Book_Mathematical%20methods.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1866},
rating = {0}
}
@article{Scharl:2009p13378,
author = {Theresa Scharl and Gerald Striedner and Florentina P{\"o}tschacher and Friedrich Leisch and Karl Bayer},
journal = {Microb Cell Fact},
title = {Interactive visualization of clusters in microarray data: an efficient tool for improved metabolic analysis of E. coli},
abstract = {ABSTRACT: BACKGROUND: Interpretation of comprehensive DNA microarray data sets is a challenging task for biologists and process engineers where scientific assistance of statistics and bioinformatics is essential. Interdisciplinary cooperation and concerted development of software-tools for simplified and accelerated data analysis and interpretation is the key to overcome the bottleneck in data-analysis workflows. This approach is exemplified by gcExplorer an interactive visualization toolbox based on cluster analysis. Clustering is an important tool in gene expression data analysis to find groups of co-expressed genes which can finally suggest functional pathways and interactions between genes. The visualization of gene clusters gives practitioners an understanding of the cluster structure of their data and makes it easier to interpret the cluster results. RESULTS: In this study the interactive visualization toolbox gcExplorer is applied to the interpretation of E. coli microarray data. The data sets derive from two fedbatch experiments conducted in order to investigate the impact of different induction strategies on the host metabolism and product yield. The software enables direct graphical comparison of these two experiments. The identification of potentially interesting gene candidates or functional groups is substantially accelerated and eased. CONCLUSION: It was shown that gcExplorer is a very helpful tool to gain a general overview of microarray experiments. Interesting gene expression patterns can easily be found, compared among different experiments and combined with information about gene function from publicly available databases.},
affiliation = {Department of Biotechnology, University of Natural Resources and Applied Life Sciences, Vienna, Muthgasse 18, A-1190 Vienna, Austria. gerald.striedner@boku.ac.at.},
pages = {37},
volume = {8},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-07-01 19:14:34 +0200},
date-modified = {2010-07-01 19:14:35 +0200},
doi = {10.1186/1475-2859-8-37},
pii = {1475-2859-8-37},
pmid = {19604371},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scharl-2009-Microb%20Cell%20Fact_Interactive%20visualiz.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13378},
rating = {0}
}
@article{Quarantini:2008p4539,
author = {Lucas C Quarantini and Angela Miranda-Scippa and Susana Batista-Neves and Amanda Galv{\~a}o-de-Almeida and Acioly L Lacerda and Ta{\'\i}s S Moriyama and Aline S Sampaio and Ana C Melcop and Maria I Schinoni and Irismar R de Oliveira and Raymundo Paran{\'a} and Rodrigo A Bressan},
journal = {J Med Virol},
title = {The effect of early virological response in health-related quality of life in HCV-infected patients},
abstract = {Twenty-nine HCV-infected patients were treated with pegylated interferon alpha. Diagnosis was based on serum HCV RNA-PCR positive results and liver biopsy. All patients had elevated serum levels of alanine aminotransferase at the time of the study, but liver disease was compensated. Patients were evaluated at baseline treatment and after 4 and 12 weeks of antiviral treatment with the Medical Outcomes Study 36-item Short-Form Health Survey. The Mini-International Neuropsychiatric Interview was used to exclude previous or current psychiatric diagnoses. Both patients and psychiatrists were blind to the HCV RNA status, and serum HCV RNA test results only became available after the visit at week 12. After antiviral treatment, 16 patients (55.2%) were classified as nonresponders and 13 (44.8%) were classified as responders. When compared to nonresponders, responders had a greater improvement in the HRQOL scores for the mental health domain (P < .019). Differences in other domains were not significant. The present study confirms that active viral infection is one possible reason for the poor Health-Related Quality of Life in this population.},
affiliation = {Hospital Universit{\'a}rio Professor Edgard Santos, Universidade Federal da Bahia, Bahia, Brazil. lcq@ufba.br},
number = {3},
pages = {419--23},
volume = {80},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Hepatitis C: Chronic, Male, Interferon Alfa-2a, Interferon Alfa-2b, Female, Health Surveys, Humans, RNA: Viral, Polyethylene Glycols, Hepacivirus, Antiviral Agents, Quality of Life, Middle Aged},
date-added = {2010-01-29 22:29:56 +0100},
date-modified = {2010-01-29 22:29:56 +0100},
doi = {10.1002/jmv.21094},
pmid = {18205211},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4539},
rating = {0}
}
@article{Salomon:2004p1750,
author = {Joshua A Salomon and Ajay Tandon and Christopher J L Murray},
journal = {BMJ},
title = {Comparability of self rated health: cross sectional multi-country survey using anchoring vignettes},
abstract = {OBJECTIVE: To examine differences in expectations for health using anchoring vignettes, which describe fixed levels of health on dimensions such as mobility. DESIGN: Cross sectional survey of adults living in the community. SETTING: China, Myanmar, Sri Lanka, Pakistan, Turkey, and United Arab Emirates. PARTICIPANTS: 3012 men and women aged 18 years and older (self ratings); subsample of 406 (vignette ratings). MAIN OUTCOME MEASURES: Self rated mobility levels and ratings of hypothetical vignettes using the same questions and response categories. RESULTS: Consistent rankings of vignettes are evidence that vignettes are understood in similar ways in different settings, and internal consistency of orderings on two mobility questions indicates good comprehension. Variation in vignette ratings across age groups suggests that expectations for mobility decline with age. Comparison of responses to two different mobility questions supports the assumption that individual ratings of hypothetical vignettes relate to expectations for health in similar ways as self assessments. CONCLUSIONS: Anchoring vignettes could provide a powerful tool for understanding and adjusting for the influence of different health expectations on self ratings of health. Incorporating anchoring vignettes in surveys can improve the comparability of self reported measures.},
affiliation = {Department of Population and International Health, Center for Population and Development Studies, Harvard School of Public Health, 9 Bow Street, Cambridge, MA 02138, USA. jsalomon@hsph.harvard.edu},
number = {7434},
pages = {258},
volume = {328},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Attitude to Health, Cross-Cultural Comparison, Health Status, Pilot Projects, Cross-Sectional Studies, World Health, Adolescent, Health Surveys, Female, Aged, Adult, Male, Middle Aged, Humans, Movement Disorders},
date-added = {2010-01-09 20:57:38 +0100},
date-modified = {2010-01-09 20:57:42 +0100},
doi = {10.1136/bmj.37963.691632.44},
pii = {bmj.37963.691632.44},
pmid = {14742348},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Salomon-2004-BMJ_Comparability%20of%20sel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1750},
rating = {3}
}
@article{Verstralen:2000aa,
author = {H H F M Verstralen and N D Verhelst},
title = {IRT models for subjective weights of options of multiple choice questions.},
abstract = {From earlier investigations it was found that the information from Multiple Choice (MC) questions could be increased about four fold by having the subject indicate the subset of options that he is unable to expose as false. In the present models this approach is general ized by having the subject distribute a number of 'taws' over the options, or draw a line after the options, such that the number of taws given to an option, or the line length rejects its subjective degree of correctness. It appears that even with values of the relevant parameters that seem modest, the information relative to binary scoring still is in excess of two. This means that with less than half the test length the same accuracy or reliability can be obtained as with binary scoring. With a real data set we found a relative information greater than five. If a few main fallacies can be rejected in the distractors of the items, the model can be applied to identify subjects with one of these fallacies.},
year = {2000},
month = {Aug},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-2000-_IRT%20models%20for%20subje.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1197},
rating = {0}
}
@article{Dipple:2001p5531,
author = {K M Dipple and J K Phelan and E R McCabe},
journal = {Mol Genet Metab},
title = {Consequences of complexity within biological networks: robustness and health, or vulnerability and disease},
affiliation = {Department of Pediatrics, UCLA School of Medicine and Mattel Children's Hospital at UCLA, Los Angeles, California 90095-1752, USA.},
number = {1-2},
pages = {45--50},
volume = {74},
year = {2001},
month = {Jan},
language = {eng},
keywords = {Genetic Predisposition to Disease, Phenotype, Proteome, Mutation, Nerve Net, Humans, Empiricism, Genotype, Health},
date-added = {2010-02-12 15:30:11 +0100},
date-modified = {2010-02-12 15:30:11 +0100},
doi = {10.1006/mgme.2001.3227},
pii = {S1096-7192(01)93227-5},
pmid = {11592802},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dipple-2001-Mol%20Genet%20Metab_Consequences%20of%20comp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5531},
rating = {0}
}
@article{Ma:2007p5893,
author = {Shuangge Ma and Xiao Song and Jian Huang},
journal = {BMC Bioinformatics},
title = {Supervised group Lasso with applications to microarray data analysis},
abstract = {BACKGROUND: A tremendous amount of efforts have been devoted to identifying genes for diagnosis and prognosis of diseases using microarray gene expression data. It has been demonstrated that gene expression data have cluster structure, where the clusters consist of co-regulated genes which tend to have coordinated functions. However, most available statistical methods for gene selection do not take into consideration the cluster structure. RESULTS: We propose a supervised group Lasso approach that takes into account the cluster structure in gene expression data for gene selection and predictive model building. For gene expression data without biological cluster information, we first divide genes into clusters using the K-means approach and determine the optimal number of clusters using the Gap method. The supervised group Lasso consists of two steps. In the first step, we identify important genes within each cluster using the Lasso method. In the second step, we select important clusters using the group Lasso. Tuning parameters are determined using V-fold cross validation at both steps to allow for further flexibility. Prediction performance is evaluated using leave-one-out cross validation. We apply the proposed method to disease classification and survival analysis with microarray data. CONCLUSION: We analyze four microarray data sets using the proposed approach: two cancer data sets with binary cancer occurrence as outcomes and two lymphoma data sets with survival outcomes. The results show that the proposed approach is capable of identifying a small number of influential gene clusters and important genes within those clusters, and has better prediction performance than existing methods.},
affiliation = {Department of Epidemiology and Public Health, Yale University, New Haven, CT 06520, USA. shuangge.ma@yale.edu},
pages = {60},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Tumor Markers: Biological, Gene Expression Profiling, Cluster Analysis, Humans, Neoplasm Proteins, Algorithms, Neoplasms, Oligonucleotide Array Sequence Analysis, Multigene Family, Artificial Intelligence, Pattern Recognition: Automated},
date-added = {2010-02-17 21:07:47 +0100},
date-modified = {2010-02-17 21:07:47 +0100},
doi = {10.1186/1471-2105-8-60},
pii = {1471-2105-8-60},
pmid = {17316436},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ma-2007-BMC%20Bioinformatics_Supervised%20group%20Las.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5893},
rating = {0}
}
@article{Rice:2000p7894,
author = {D Rice and S Barone},
journal = {Environ Health Perspect},
title = {Critical periods of vulnerability for the developing nervous system: evidence from humans and animal models},
abstract = {Vulnerable periods during the development of the nervous system are sensitive to environmental insults because they are dependent on the temporal and regional emergence of critical developmental processes (i.e., proliferation, migration, differentiation, synaptogenesis, myelination, and apoptosis). Evidence from numerous sources demonstrates that neural development extends from the embryonic period through adolescence. In general, the sequence of events is comparable among species, although the time scales are considerably different. Developmental exposure of animals or humans to numerous agents (e.g., X-ray irradiation, methylazoxymethanol, ethanol, lead, methyl mercury, or chlorpyrifos) demonstrates that interference with one or more of these developmental processes can lead to developmental neurotoxicity. Different behavioral domains (e.g., sensory, motor, and various cognitive functions) are subserved by different brain areas. Although there are important differences between the rodent and human brain, analogous structures can be identified. Moreover, the ontogeny of specific behaviors can be used to draw inferences regarding the maturation of specific brain structures or neural circuits in rodents and primates, including humans. Furthermore, various clinical disorders in humans (e.g., schizophrenia, dyslexia, epilepsy, and autism) may also be the result of interference with normal ontogeny of developmental processes in the nervous system. Of critical concern is the possibility that developmental exposure to neurotoxicants may result in an acceleration of age-related decline in function. This concern is compounded by the fact that developmental neurotoxicity that results in small effects can have a profound societal impact when amortized across the entire population and across the life span of humans.},
affiliation = {National Center for Environmental Assessment, U.S. Environmental Protection Agency, Washington, D.C., USA.},
pages = {511--33},
volume = {108 Suppl 3},
year = {2000},
month = {Jun},
language = {eng},
keywords = {Pregnancy, Embryonic and Fetal Development, Humans, Time Factors, Nervous System, Neurotoxins, Primates, Female, Infant, Child: Preschool, Rats, Infant: Newborn, Neuronal Plasticity, Cell Movement, Apoptosis, Adult, Middle Aged, Xenobiotics, Animals, Child, Aging, Cell Differentiation, Aged, Mice},
date-added = {2010-03-20 19:19:39 +0100},
date-modified = {2010-03-20 19:19:39 +0100},
pii = {sc271_5_1835},
pmid = {10852851},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rice-2000-Environ%20Health%20Perspect_Critical%20periods%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7894},
rating = {0}
}
@article{Mogg:2007p10196,
author = {Karin Mogg and Matthew Garner and Brendan P Bradley},
journal = {Biol Psychol},
title = {Anxiety and orienting of gaze to angry and fearful faces},
abstract = {Neuroscience research indicates that individual differences in anxiety may be attributable to a neural system for threat-processing, involving the amygdala, which modulates attentional vigilance, and which is more sensitive to fearful than angry faces. Complementary cognitive studies indicate that high-anxious individuals show enhanced visuospatial orienting towards angry faces, but it is unclear whether fearful faces elicit a similar attentional bias. This study compared biases in initial orienting of gaze to fearful and angry faces, which varied in emotional intensity, in high- and low-anxious individuals. Gaze was monitored whilst participants viewed a series of face-pairs. Results showed that fearful and angry faces elicited similar attentional biases. High-anxious individuals were more likely to direct gaze at intense negative facial expressions, than low-anxious individuals, whereas the groups did not differ in orienting to mild negative expressions. Implications of the findings for research into the neural and cognitive bases of emotion processing are discussed.},
affiliation = {School of Psychology, University of Southampton, Highfield, Southampton, UK. kmogg@soton.ac.uk},
number = {3},
pages = {163--9},
volume = {76},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Anger, Adult, Fear, Female, Fixation: Ocular, Humans, Pattern Recognition: Visual, Adolescent, Reaction Time, Facial Expression, Anxiety, Male, Analysis of Variance, Attention},
date-added = {2010-04-01 18:17:24 +0200},
date-modified = {2010-04-01 18:17:24 +0200},
doi = {10.1016/j.biopsycho.2007.07.005},
pii = {S0301-0511(07)00119-6},
pmid = {17764810},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mogg-2007-Biol%20Psychol_Anxiety%20and%20orientin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10196},
rating = {0}
}
@inbook{Martin:1983,
author = {E Martin},
journal = {Book},
title = {Handbook of survey research},
chapter = {Surveys as social indicators: Problems in monitoring trends},
year = {1983},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p980},
rating = {0}
}
@article{Jones:2009p5387,
author = {James F Jones and Jin-Mann S Lin and Elizabeth M Maloney and Roumiana S Boneva and Urs M Nater and Elizabeth R Unger and William C Reeves},
journal = {BMC Med},
title = {An evaluation of exclusionary medical/psychiatric conditions in the definition of chronic fatigue syndrome},
abstract = {BACKGROUND: The diagnosis of chronic fatigue syndrome (CFS) in research studies requires the exclusion of subjects with medical and psychiatric conditions that could confound the analysis and interpretation of results. This study compares illness parameters between individuals with CFS who have and those who do not have exclusionary conditions. METHODS: We used a population-based telephone survey of randomly selected individuals, followed by a clinical evaluation in the study metropolitan, urban, and rural counties of Georgia, USA. The medical and psychiatric histories of the subjects were examined and they underwent physical and psychiatric examinations and laboratory screening. We also employed the multidimensional fatigue inventory (MFI), the medical outcomes survey short form-36 (SF-36) and the US Centres for Disease Control and Prevention symptom inventory (SI). RESULTS: Twenty-nine percent (1,609) of the 5623 subjects who completed the detailed telephone interview reported exclusionary diagnoses and we diagnosed an exclusionary condition in 36% of 781 clinically evaluated subjects. Both medical and psychiatric exclusionary conditions were more common in women, blacks and participants from rural areas. Subjects with and without exclusions had similar levels of fatigue and impairment as measured by the MFI and SF-36; those with CFS-like illness (not meeting the formal CFS definition) were more likely to have an exclusionary diagnosis. After adjusting for demographics, body mass index, fatigue subscales, SF-36 subscales and CFS symptoms, CFS-like illness did not remain significantly associated with having an exclusionary diagnosis. CONCLUSION: Medical and psychiatric illnesses associated with fatigue are common among the unwell. Those who fulfill CFS-like criteria need to be evaluated for potentially treatable conditions. Those with exclusionary conditions are equally impaired as those without exclusions.},
affiliation = {Chronic Viral Diseases Branch, Coordinating Center for Infectious Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road, MS A15, Atlanta, GA 30333, USA. jaj9@cdc.gov},
pages = {57},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Biomedical Research, Adult, Random Allocation, Adolescent, Humans, Fatigue Syndrome: Chronic, Confounding Factors (Epidemiology), Male, Comorbidity, Interviews as Topic, Young Adult, Georgia, Middle Aged, Patient Selection, Female},
date-added = {2010-02-11 10:35:00 +0100},
date-modified = {2010-07-29 19:20:21 +0200},
doi = {10.1186/1741-7015-7-57},
pii = {1741-7015-7-57},
pmid = {19818157},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jones-2009-BMC%20Med_An%20evaluation%20of%20exc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5387},
rating = {0}
}
@article{Shoemaker:1999p7182,
author = {J S Shoemaker and I S Painter and B S Weir},
journal = {Trends Genet},
title = {Bayesian statistics in genetics: a guide for the uninitiated},
abstract = {Statistical analyses are used in many fields of genetic research. Most geneticists are taught classical statistics, which includes hypothesis testing, estimation and the construction of confidence intervals; this framework has proved more than satisfactory in many ways. What does a Bayesian framework have to offer geneticists? Its utility lies in offering a more direct approach to some questions and the incorporation of prior information. It can also provide a more straightforward interpretation of results. The utility of a Bayesian perspective, especially for complex problems, is becoming increasingly clear to the statistics community; geneticists are also finding this framework useful and are increasingly utilizing the power of this approach.},
affiliation = {The Cancer Prevention, Detection, Control Research Program, Duke Medical Center, Box 2949, Durham, NC 27710, USA. shoem003@mc.duke.edu},
number = {9},
pages = {354--8},
volume = {15},
year = {1999},
month = {Sep},
language = {eng},
keywords = {Models: Genetic, Quantitative Trait: Heritable, Biometry, Probability, Genetics, Bayes Theorem},
date-added = {2010-03-06 20:32:49 +0100},
date-modified = {2010-07-29 19:54:35 +0200},
pii = {S0168-9525(99)01751-5},
pmid = {10461203},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7182},
rating = {0}
}
@article{deStavola:2008p421,
author = {BL de Stavola and D R Cox},
journal = {Biometrika},
title = {On the consequences of overstratification},
abstract = {It is common, in particular in observational studies in epidemiology, to impose stratification to adjust for possible effects of age and other variables on the binary outcome of interest. Overstratification may lower the precision of the estimated effects of interest. Understratification risks bias. These issues are studied analytically. Asymptotic results show that loss of efficiency depends on the true effect and on a measure of the average imbalance across strata between exposed and unexposed individuals. Bias depends on the correlation between stratum-specific size imbalances and event rates in the unexposed. Approximate results are also given. An example is used.},
affiliation = {London School of Hygiene and Tropical Medicine, London WC1E 7HT, U.K.},
number = {4},
pages = {992--996},
volume = {95},
year = {2008},
keywords = {Epidemiology, Logistic model, Confounder, Bias, Matched pairs, Poisson distribution, Conditional likelihood, Information},
date-added = {2010-01-03 12:16:20 +0100},
date-modified = {2010-01-03 12:19:05 +0100},
doi = {10.1093/biomet/asn039},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Stavola-2008-Biometrika_On%20the%20consequences.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p421},
rating = {0}
}
@article{Mojs:2007p6024,
author = {Ewa Mojs and Ewa Gajewska and W{\l}odzimierz Samborski},
journal = {Ann Acad Med Stetin},
title = {[Diagnostic and therapeutic problems in children with West syndrom]},
abstract = {West syndrome is a kind of epileptic encephalopathy causing many different psychomotor disturbances--feet and hand movements, cognitive dysfunctions and mental retardation. Psychomotor retardation and other cognitive deficits occur in 80-85% of children with West syndrome. There are two clinical forms of the syndrome distinguished-- mild and severe disease. Good control of seizures is one of the most important factors influencing the effectiveness of rehabilitation activity. Only integrated long lasting therapeutic process, demanding close cooperation of neurologists, rehabilitants and psychologists improves the effectiveness of work.},
affiliation = {Zak{\l}ad Organizacji i Zarzadzania Uniwersytetu Medycznego im. K. Marcinkowskiego ul. Smoluchowskiego 11, 60-179 Pozna{\'n}.},
number = {1},
pages = {68--71; discussion 71},
volume = {53},
year = {2007},
month = {Jan},
language = {pol},
keywords = {Spasms: Infantile, Child, Infant, Infant: Newborn, Humans, Social Environment, Family Characteristics},
date-added = {2010-02-19 16:59:04 +0100},
date-modified = {2010-02-19 16:59:04 +0100},
pmid = {18561613},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6024},
rating = {0}
}
@article{Wyrwich:2003p7448,
author = {Kathleen W Wyrwich and Harold S Nelson and William M Tierney and Ajit N Babu and Kurt Kroenke and Fredric D Wolinsky},
journal = {Ann Allergy Asthma Immunol},
title = {Clinically important differences in health-related quality of life for patients with asthma: an expert consensus panel report},
abstract = {BACKGROUND: Standards for change in health-related quality of life (HRQoL) measures used among asthmatic patients have been established by considering only patient preferences to determine important differences and may not reflect an informed clinical evaluation of change. OBJECTIVE: To establish clinically important difference (CID) standards through the consensus of an expert physician panel for the Juniper Asthma Quality of Life Questionnaire (AQLQ) and Medical Outcomes Study Short-Form 36-Item Health Survey (SF-36, version 2) when used to measure HRQoL among asthmatic patients. METHODS: We organized an 8-person panel of physicians familiar with measuring HRQoL among asthmatic patients with the AQLQ and the SF-36. This expert panel participated in 2 rounds of a modified Delphi process before attending an in-person consensus meeting to establish the CID standards for small, moderate, and large changes in the AQLQ and the SF-36. After the consensus meeting, the panel used an iterative improvement process to cooperatively complete their final report. RESULTS: The expert panel's thresholds for detecting CIDs in the domains of the AQLQ were much higher than previously established levels using patient-perceived changes. CIDs for asthma were also ascertained on the scales of the SF-36, version 2, which were markedly greater than previously cited cross-sectional differences between patient groups. CONCLUSIONS: The CID standards established by this expert panel elucidate a potential distinction between patient and physician perspectives of important HRQoL changes. The many stakeholders of HRQoL difference standards should consider this distinction when adopting standards to evaluate patient change.},
affiliation = {Saint Louis University Department of Research Methodology, St. Louis, Missouri, USA. wyrwichk@slu.edu},
number = {2},
pages = {148--53},
volume = {91},
year = {2003},
month = {Aug},
language = {eng},
keywords = {Questionnaires, Disease Management, Treatment Outcome, Asthma, Humans, Quality of Life},
date-added = {2010-03-10 20:40:51 +0100},
date-modified = {2010-03-10 20:40:51 +0100},
pmid = {12952108},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7448},
rating = {0}
}
@article{Frokjaer:2009p8855,
author = {Vibe G Frokjaer and Maj Vinberg and David Erritzoe and Claus Svarer and William Baar{\'e} and Esben Budtz-Joergensen and Karine Madsen and Jacob Madsen and Lars V Kessing and Gitte M Knudsen},
journal = {Neuroimage},
title = {High familial risk for mood disorder is associated with low dorsolateral prefrontal cortex serotonin transporter binding},
abstract = {Mood disorders are elicited through a combination of genetic and environmental stress factors, and treatment with selective serotonin reuptake inhibitors ameliorates depressive symptoms. Changes in the serotonin transporter (SERT) binding may therefore occur in depressive patients and in subjects at risk for developing depression. The aim of this study was to explore whether abnormalities in SERT might be present in healthy individuals with familial predisposition to mood disorder. Nine individuals at high familial risk (mean age 32.2+/-4.2 years) and 11 individuals at low risk (mean age 32.4+/-5.0 years) for developing mood disorder were included. The subjects were healthy twins with or without a co-twin history of mood disorder identified by linking information from the Danish Twin Register and the Danish Psychiatric Central Register. Regional in vivo brain serotonin transporter binding was measured with [(11)C]DASB PET. The volumes of interest included the orbitofrontal cortex, the dorsolateral prefrontal cortex, the ventrolateral prefrontal cortex, anterior cingulate, caudate, putamen, thalamus, and midbrain. We found that individuals at high familial risk for mood disorders had a 35% reduction in SERT binding in dorsolateral prefrontal cortex (p=0.014, Bonferroni corrected) and on a trend basis a 15% reduction in anterior cingulate (p=0.018, un-corrected). The depression and symptom scores of the high and the low risk individuals were not significantly different. In conclusion, our data suggest that a low SERT binding in dorsolateral prefrontal cortex represents a trait marker for mood disorders.},
affiliation = {Neurobiology Research Unit and Center for Integrated Molecular Brain Imaging, Copenhagen University Hospital, Denmark. vibe@nru.dk},
number = {2},
pages = {360--6},
volume = {46},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Serotonin Plasma Membrane Transport Proteins, Protein Binding, Family, Humans, Aniline Compounds, Adult, Mood Disorders, Male, Diseases in Twins, Positron-Emission Tomography, Risk Factors, Radiopharmaceuticals, Sulfides, Tissue Distribution, Prefrontal Cortex, Female},
date-added = {2010-03-22 12:39:36 +0100},
date-modified = {2010-03-22 12:39:36 +0100},
doi = {10.1016/j.neuroimage.2009.02.008},
pii = {S1053-8119(09)00145-1},
pmid = {19233297},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WNP-4VNH3YB-1&_user=2432700&_coverDate=06%252F30%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=68a281d74858eb5dc773d25e300a470b},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Frokjaer-2009-Neuroimage_High%20familial%20risk%20f.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8855},
rating = {0}
}
@article{Edwards:2010p8343,
author = {Phil Edwards},
journal = {Trials},
title = {Questionnaires in clinical trials: guidelines for optimal design and administration},
abstract = {A good questionnaire design for a clinical trial will minimise bias and maximise precision in the estimates of treatment effect within budget. Attempts to collect more data than will be analysed may risk reducing recruitment (reducing power) and increasing losses to follow-up (possibly introducing bias). The mode of administration can also impact on the cost, quality and completeness of data collected. There is good evidence for design features that improve data completeness but further research is required to evaluate strategies in clinical trials. Theory-based guidelines for style, appearance, and layout of self-administered questionnaires have been proposed but require evaluation.},
affiliation = {Department of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, London, UK. phil.edwards@LSHTM.ac.uk},
pages = {2},
volume = {11},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:47:09 +0100},
date-modified = {2010-07-29 19:54:38 +0200},
doi = {10.1186/1745-6215-11-2},
pii = {1745-6215-11-2},
pmid = {20064225},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Edwards-2010-Trials_Questionnaires%20in%20cl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8343},
rating = {0}
}
@article{Youngstrom:2002,
author = {E A Youngstrom and K W Green},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization of self-report of emotions when using the Differential Emotions Scale},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2068},
rating = {0}
}
@article{Scognamiglio:2007p4517,
author = {Paola Scognamiglio and Vincenzo Galati and Assunta Navarra and Maria Antonella Longo and Maria Stella Aloisi and Maria Giulia Antonini and Massimo Puoti and Piero Luigi Almasio and Giuseppe Ippolito and Enrico Girardi},
journal = {World J Gastroenterol},
title = {Impact of hepatitis C virus infection on lifestyle},
abstract = {AIM: To evaluate the impact of the diagnosis of hepatitis C infection on lifestyle habits such as smoking, drinking, sports activity and diet. METHODS: A self-administered, anonymous questionnaire was offered to out-patients with HCV infection consecutively attending three clinical centres in Italy. RESULTS: Of the 275 respondents, 62.2% (171) were male. Mean age was 51 (range 20-80) years. Overall, after the diagnosis of hepatitis C, 74.5% of drinkers had modified (giving up or reducing) alcohol consumption, 21.3% of smokers had modified their habits and 32.3% of subjects who reported sports activity had either stopped or reduced frequency of activity or chose a less fatiguing sport. Sixty-four percent of the respondents reported having modified their diet, most of them on physician's advice. CONCLUSION: After the diagnosis of hepatitis C many patients correctly modified their alcohol consumption and a minority their smoking habits. The reason for reported changes in diet and physical activity needs further investigations.},
affiliation = {Istituto Nazionale per le Malattie Infettive, L. Spallanzani IRCCS, Via Portuense 292, Roma 00149, Italy. scognamiglio@inmi.it},
number = {19},
pages = {2722--6},
volume = {13},
year = {2007},
month = {May},
language = {eng},
keywords = {Italy, Male, Alcohol Drinking, Female, Health Surveys, Sports, Aged, Humans, Smoking, Aged: 80 and over, Hepatitis C, Health Behavior, Adult, Middle Aged, Diet, Life Style},
date-added = {2010-01-29 22:10:20 +0100},
date-modified = {2010-07-29 19:55:16 +0200},
pmid = {17569142},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scognamiglio-2007-World%20J%20Gastroenterol_Impact%20of%20hepatitis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4517},
rating = {0}
}
@article{Bosco:2010p6525,
author = {Jaclyn L F Bosco and Rebecca A Silliman and Soe Soe Thwin and Ann M Geiger and Diana S M Buist and Marianne N Prout and Marianne Ulcickas Yood and Reina Haque and Feifei Wei and Timothy L Lash},
journal = {Journal of Clinical Epidemiology},
title = {A most stubborn bias: no adjustment method fully resolves confounding by indication in observational studies},
abstract = {OBJECTIVE: To evaluate the effectiveness of methods that control for confounding by indication, we compared breast cancer recurrence rates among women receiving adjuvant chemotherapy with those who did not. STUDY DESIGN AND SETTING: In a medical record review-based study of breast cancer treatment in older women (n=1798) diagnosed between 1990 and 1994, our crude analysis suggested that adjuvant chemotherapy was positively associated with recurrence (hazard ratio [HR]=2.6; 95% confidence interval [CI]=1.9, 3.5). We expected a protective effect, so postulated that the crude association was confounded by indications for chemotherapy. We attempted to adjust for this confounding by restriction, multivariable regression, propensity scores (PSs), and instrumental variable (IV) methods. RESULTS: After restricting to women at high risk for recurrence (n=946), chemotherapy was not associated with recurrence (HR=1.1; 95% CI=0.7, 1.6) using multivariable regression. PS adjustment yielded similar results (HR=1.3; 95% CI=0.8, 2.0). The IV-like method yielded a protective estimate (HR=0.9; 95% CI=0.2, 4.3); however, imbalances of measured factors across levels of the IV suggested residual confounding. CONCLUSION: Conventional methods do not control for unmeasured factors, which often remain important when addressing confounding by indication. PS and IV analysis methods can be useful under specific situations, but neither method adequately controlled confounding by indication in this study.},
affiliation = {Department of Medicine, Geriatrics Section, Boston University School of Medicine, Boston, MA 02118, USA. jfong@bu.edu},
number = {1},
pages = {64--74},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:33:38 +0100},
date-modified = {2010-02-24 20:33:39 +0100},
doi = {10.1016/j.jclinepi.2009.03.001},
pii = {S0895-4356(09)00060-2},
pmid = {19457638},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bosco-2010-Journal%20of%20Clinical%20Epidemiology_A%20most%20stubborn%20bias.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6525},
rating = {0}
}
@article{Murray:2004p9334,
author = {David M Murray and Sherri P Varnell and Jonathan L Blitstein},
journal = {Am J Public Health},
title = {Design and analysis of group-randomized trials: a review of recent methodological developments},
abstract = {We review recent developments in the design and analysis of group-randomized trials (GRTs). Regarding design, we summarize developments in estimates of intraclass correlation, power analysis, matched designs, designs involving one group per condition, and designs in which individuals are randomized to receive treatments in groups. Regarding analysis, we summarize developments in marginal and conditional models, the sandwich estimator, model-based estimators, binary data, survival analysis, randomization tests, survey methods, latent variable methods and nonlinear mixed models, time series methods, global tests for multiple endpoints, mediation effects, missing data, trial reporting, and software. We encourage investigators who conduct GRTs to become familiar with these developments and to collaborate with methodologists who can strengthen the design and analysis of their trials.},
affiliation = {Department of Psychology, College of Arts and Sciences, University of Memphis, Memphis, TN, USA. d.murray@mail.psyc.memphis.edu},
number = {3},
pages = {423--32},
volume = {94},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Epidemiologic Research Design, Public Health Practice, Cluster Analysis, Intervention Studies, Software, Randomized Controlled Trials as Topic, Humans, Time Factors},
date-added = {2010-03-23 18:38:05 +0100},
date-modified = {2010-07-29 19:14:25 +0200},
pmid = {14998806},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Murray-2004-Am%20J%20Public%20Health_Design%20and%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9334},
rating = {0}
}
@article{Lin:2009p11162,
author = {T H Lin and G Yao},
journal = {Socioeconomic Indicators Research},
title = {Evaluating Item Discrimination Power of WHOQOL- BREF from an Item Response Model Perspectives},
abstract = {Quality of life (QOL) has become an important component of health. By using the methodology of psychometric theory, we examine the item properties of the WHOQOL-BRIEF. Samejima's graded response model with natural metrics of the logistic response function was fitted. The results showed items with negative natures were less discriminating. Items written in a specific way were more suitable to assess certain sub- groups. The national items showed variation in discriminatory power. Questions measuring objective and specific issues performed worse than items assessing general aspects of the QOL.},
pages = {141--153},
volume = {91},
year = {2009},
date-added = {2010-04-25 20:29:03 +0200},
date-modified = {2010-04-25 21:03:58 +0200},
doi = {10.1007/s11205-008-9273-0},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lin-2009-Socioeconomic%20Indicators%20Research_Evaluating%20Item%20Disc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11162},
rating = {4}
}
@article{Fox:2005p1833,
author = {J P Fox},
journal = {Journal of Educational and Behavioral Statistics},
title = {Randomized Item Response Theory Models},
abstract = {The randomized response (RR) technique is often used to obtain answers on sen- sitive questions. A new method is developed to measure latent variables using the RR technique because direct questioning leads to biased results. Within the RR technique is the probability of the true response modeled by an item response theory (IRT) model. The RR technique links the observed item response with the true item response. Attitudes can be measured without knowing the true individ- ual answers. This approach makes also a hierarchical analysis possible, with explanatory variables, given observed RR data. All model parameters can be esti- mated simultaneously using Markov chain Monte Carlo. The randomized item response technique was applied in a study on cheating behavior of students at a Dutch University. In this study, it is of interest if students' cheating behavior dif- fers across studies and if there are indicators that can explain differences in cheating behavior.},
number = {2},
pages = {1--24},
volume = {30},
year = {2005},
keywords = {Analysis of Variance, Markov chain Monte Carlo (MCMC), item response theory model, random effects, randomized response},
date-added = {2010-01-09 23:00:41 +0100},
date-modified = {2010-01-09 23:02:08 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fox-2005-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Randomized%20Item%20Resp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1833},
rating = {0}
}
@article{Cooper:2006p10197,
author = {Robbie M Cooper and Stephen R H Langton},
journal = {Behaviour Research and Therapy},
title = {Attentional bias to angry faces using the dot-probe task? It depends when you look for it},
abstract = {A number of studies using the dot-probe task now report the existence of an attentional bias to angry faces in participants who rate highly on scales of anxiety; however, no equivalent bias has been observed in non-anxious populations, despite evidence to the contrary from studies using other tasks. One reason for this discrepancy may be that researchers using the dot-probe task have rarely investigated any effects which might emerge earlier than 500 ms following presentation of the threat-related faces. Accordingly, in the current study we presented pairs of face stimuli with emotional and neutral expressions and probed the allocation of attention to these stimuli for presentation times of 100 and 500 ms. Results showed that at 100 ms there was an attentional bias towards the location of the relatively threatening stimulus (the angry face in angry/neutral pairs and the neutral face in neutral/happy pairs) and this pattern reversed by 500 ms. Comparisons of reaction time (RT) scores with an appropriate baseline suggested that the early bias toward threatening faces may actually arise through inhibition of the relatively least threatening member of a face pair rather than through facilitation of, or vigilance towards, the more threatening stimulus. However the mechanisms governing the observed biases are interpreted, these data provide evidence that probing for the location of spatial attention at 500 ms is not necessarily indicative of the initial allocation of attention between competing emotional facial stimuli.},
affiliation = {Department of Psychology, University of Stirling, Stirling, FK9 4LA, UK. r.m.cooper@stir.ac.uk},
number = {9},
pages = {1321--9},
volume = {44},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Female, Facial Expression, Humans, Anger, Pattern Recognition: Visual, Adult, Reaction Time, Emotions, Attention, Male, Photic Stimulation},
date-added = {2010-04-01 18:17:40 +0200},
date-modified = {2010-07-29 19:18:49 +0200},
doi = {10.1016/j.brat.2005.10.004},
pii = {S0005-7967(05)00213-5},
pmid = {16321361},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cooper-2006-Behaviour%20Research%20and%20Therapy_Attentional%20bias%20to-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10197},
rating = {0}
}
@article{Agarwal:2007p12878,
author = {D Agarwal and S Merugu},
journal = {KDD},
title = {Predictive Discrete Latent Factor Models for Large Scale Dyadic Data},
abstract = {We propose a novel statistical method to predict large scale dyadic response variables in the presence of covariate information. Our approach simultaneously incorporates the effect of covariates and estimates local structure that is induced by interactions among the dyads through a discrete latent factor model. The discovered la- tent factors provide a predictive model that is both accurate and interpretable. We illustrate our method by working in a framework of generalized linear models, which include commonly used re- gression techniques like linear regression, logistic regression and Poisson regression as special cases. We also provide scalable gen- eralized EM-based algorithms for model fitting using both "hard" and "soft" cluster assignments. We demonstrate the generality and efficacy of our approach through large scale simulation studies and analysis of datasets obtained from certain real-world movie recom- mendation and internet advertising applications.},
year = {2007},
date-added = {2010-06-24 13:02:07 +0200},
date-modified = {2010-06-24 13:02:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Agarwal-2007-KDD_Predictive%20Discrete.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12878},
rating = {0}
}
@article{Ai:2003p4115,
author = {C Ai and E C Norton},
journal = {Economics Letters},
title = {Interaction terms in logit and probit models},
abstract = {The magnitude of the interaction effect in nonlinear models does not equal the marginal effect of the interaction term, can be of opposite sign, and its statistical significance is not calculated by standard software. We present the correct way to estimate the magnitude and standard errors of the interaction effect in nonlinear models.},
pages = {123--129},
volume = {80},
year = {2003},
date-added = {2010-01-20 00:02:39 +0100},
date-modified = {2010-01-20 00:03:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ai-2003-Economics%20Letters_Interaction%20terms%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4115},
rating = {0}
}
@article{Potter:2006p10064,
author = {Douglas M Potter and Derek J Griffiths},
journal = {J Biopharm Stat},
title = {Omnibus permutation tests of the overall null hypothesis in datasets with many covariates},
abstract = {Tests of the overall null hypothesis in datasets with one outcome variable and many covariates can be based on various methods to combine the p-values for univariate tests of association of each covariate with the outcome. The overall p-value is computed by permuting the outcome variable. We discuss the situations in which this approach is useful and provide several examples. We use simulations to investigate seven omnibus test statistics and find that the Anderson-Darling and Fisher's statistics are superior to the others.},
affiliation = {Biostatistics Department, Graduate School of Public Health, University of Pittsburgh and Biostatistics Facility, University of Pittsburgh Cancer Institute, PA 15213, USA. potter@upci.pitt.edu},
number = {3},
pages = {327--41},
volume = {16},
year = {2006},
month = {May},
language = {eng},
keywords = {Data Interpretation: Statistical, Randomized Controlled Trials as Topic, Male, Humans, Parasympatholytics, Models: Statistical, Mandelic Acids, Oxidative Phosphorylation, Gene Expression Profiling, Urinary Incontinence, Glucose Intolerance, Statistics: Nonparametric, Computer Simulation, Regression Analysis, Research Design},
date-added = {2010-03-31 20:17:29 +0200},
date-modified = {2010-07-29 19:32:23 +0200},
pmid = {16724488},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10064},
rating = {0}
}
@article{Handlos:2009p6398,
author = {Line Neerup Handlos and Hrishikesh Chakraborty and Pranab Kumar Sen},
journal = {Trop Med Int Health},
title = {Evaluation of cluster-randomized trials on maternal and child health research in developing countries},
abstract = {OBJECTIVE: To summarize and evaluate all publications including cluster-randomized trials used for maternal and child health research in developing countries during the last 10 years. METHODS: All cluster-randomized trials published between 1998 and 2008 were reviewed, and those that met our criteria for inclusion were evaluated further. The criteria for inclusion were that the trial should have been conducted in maternal and child health care in a developing country and that the conclusions should have been made on an individual level. Methods of accounting for clustering in design and analysis were evaluated in the eligible trials. RESULTS: Thirty-five eligible trials were identified. The majority of them were conducted in Asia, used community as randomization unit, and had less than 10,000 participants. To minimize confounding, 23 of the 35 trials had stratified, blocked, or paired the clusters before they were randomized, while 17 had adjusted for confounding in the analysis. Ten of the 35 trials did not account for clustering in sample size calculations, and seven did not account for the cluster-randomized design in the analysis. The number of cluster-randomized trials increased over time, and the trials generally improved in quality. CONCLUSIONS: Shortcomings exist in the sample-size calculations and in the analysis of cluster-randomized trials conducted during maternal and child health research in developing countries. Even though there has been improvement over time, further progress in the way that researchers utilize and analyse cluster-randomized trials in this field is needed.},
affiliation = {Department of Biostatistics, University of North Carolina, Chapel Hill, NC, USA. lneerup@gmail.com},
number = {8},
pages = {947--56},
volume = {14},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Infant, Child, Maternal-Child Health Centers, Cluster Analysis, Infant: Newborn, Humans, Child: Preschool, Developing Countries, Research Design, Female, Randomized Controlled Trials as Topic, Male, Pregnancy},
date-added = {2010-02-23 08:25:46 +0100},
date-modified = {2010-02-23 08:25:46 +0100},
doi = {10.1111/j.1365-3156.2009.02313.x},
pii = {TMI2313},
pmid = {19563429},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6398},
rating = {0}
}
@article{Senra:1993p12755,
author = {C Senra and A Polaino},
journal = {J Affect Disord},
title = {Concordance between clinical and self-report depression scales during the acute phase and after treatment},
abstract = {The concordance between self-report and clinical rating scales of depression increases during progress from the acute depressive episode to recovery or improvement of symptoms. We investigated this convergence in a group of 52 outpatients with DSM-III major depression disorders using three widely employed depression scales and their parallel formats (i.e., alternative modes of administering the scales). The six instruments were applied at admission and after 12 and 24 weeks' treatment. The results indicate that the increase in the global concordance between scales may be a statistical effect deriving from broadening of the range of scores.},
affiliation = {Universidad de Santiago de Compostela, Spain.},
number = {1},
pages = {13--9},
volume = {27},
year = {1993},
month = {Jan},
language = {eng},
keywords = {Antidepressive Agents: Tricyclic, Personality Assessment, Humans, Depressive Disorder, Male, Adult, Personality Inventory, Psychometrics, Female, Follow-Up Studies},
date-added = {2010-06-15 22:51:38 +0200},
date-modified = {2010-06-15 22:51:47 +0200},
pmid = {8432955},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Senra-1993-J%20Affect%20Disord_Concordance%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12755},
rating = {3}
}
@article{Vinkhuyzen:2009p7669,
author = {Anna A E Vinkhuyzen and Sophie van der Sluis and Dorret I Boomsma and Eco J C de Geus and Danielle Posthuma},
journal = {Behav Genet},
title = {Individual Differences in Processing Speed and Working Memory Speed as Assessed with the Sternberg Memory Scanning Task},
abstract = {The Sternberg Memory Scanning (SMS) task provides a measure of processing speed (PS) and working memory retrieval speed (WMS). In this task, participants are presented with sets of stimuli that vary in size. After a delay, one item is presented, and participants indicate whether or not the item was part of the set. Performance is assessed by speed and accuracy for both the positive (item is part of the set) and the negative trials (items is not part of the set). To examine the causes of variation in PS and WMS, 623 adult twins and their siblings completed the SMS task. A non-linear growth curve (nLGC) model best described the increase in reaction time with increasing set size. Genetic analyses showed that WMS (modeled as the Slope in the nLGC model) has a relatively small variance which is not due to genetic variation while PS (modeled as the Intercept in the nLGC model) showed large individual differences, part of which could be attributed to additive genetic factors. Heritability was 38% for positive and 32% for negative trials. Additional multivariate analyses showed that the genetic effects on PS for positive and negative trials were completely shared. We conclude that genetic influences on working memory performance are more likely to act upon basic processing speed and (pre)motoric processes than on the speed with which an item is retrieved from short term memory.},
affiliation = {Department of Biological Psychology, VU University Amsterdam, Van der Boechorststraat 1, 1081 BT, Amsterdam, The Netherlands, aae.vinkhuyzen@psy.vu.nl.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-03-15 23:44:48 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9315-7},
pmid = {20091112},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vinkhuyzen-2009-Behav%20Genet_Individual%20Differenc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7669},
rating = {0}
}
@article{Liu:2005p4622,
author = {H Liu and G Li and W G Cumberland and T Wu},
journal = {Journal of Data Science},
title = {Testing Statistical Significance of the Area under a Receiving Operating Characteristics Curve for Repeated Measures Design with Bootstrapping},
abstract = {Receiver operating characteristic (ROC) curve is an effective and widely used method for evaluating the discriminating power of a diagnostic test or statistical model. As a useful statistical method, a wealth of lit- erature about its theories and computation methods has been established. The research on ROC curves, however, has focused mainly on cross-sectional design. Very little research on estimating ROC curves and their summary statistics, especially significance testing, has been conducted for repeated measures design. Due to the complexity of estimating the standard error of a ROC curve, there is no currently established statistical method for testing the significance of ROC curves under a repeated measures design. In this paper, we estimate the area of a ROC curve under a repeated measures de- sign through generalized linear mixed model (GLMM) using the predicted probability of a disease or positivity of a condition and propose a bootstrap method to estimate the standard error of the area under a ROC curve for such designs. Statistical significance testing of the area under a ROC curve is then conducted using the bootstrapped standard error. The validity of bootstrap approach and the statistical testing of the area under the ROC curve was validated through simulation analyses. A special statistical soft- ware written in SAS/IML/MACRO v8 was also created for implementing the bootstrapping algorithm, conducting the calculations and statistical testing.},
pages = {257--278},
volume = {3},
year = {2005},
date-added = {2010-01-30 15:30:06 +0100},
date-modified = {2010-01-30 15:30:53 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2005-Journal%20of%20Data%20Science_Testing%20Statistical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4622},
rating = {0}
}
@article{Verguts:2000,
author = {Tom Verguts and Paul De Boeck},
journal = {Methods of Psychological Research Online},
title = {A note on the Martin-L{\"o}f test for unidimensionality},
number = {1},
volume = {5},
year = {2000},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verguts-2000-Methods%20of%20Psychological%20Research%20Online_A%20note%20on%20the%20Martin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2178},
rating = {0}
}
@article{Steiger:2010p2931,
author = {J H Steiger},
title = {Confirmatory Factor Analysis with R},
date-added = {2010-01-13 22:17:59 +0100},
date-modified = {2010-01-13 22:18:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steiger--_Confirmatory%20Factor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2931},
rating = {0}
}
@article{Dolnicar:2002p13229,
author = {S Dolnicar},
title = {A Review of Unquestioned Standards in Using Cluster Analysis for Data-Driven Market Segmentation},
abstract = {Clustering is a highly popular and widely used tool for identifying or constructing databased market segments. Over decades of applying cluster analytical procedures for the purpose of searching for homogeneous subgroups among consumers, questionable standards of utilization have emerged, e.g. the non-explorative manner in which results from cluster analytic procedures are reported, the black-box approach ignoring crucial parameters of the algorithms applied or the lack of harmonization of methodology chosen and data conditions. The purpose of this study is threefold: (1) to investigate whether and which standards of application of cluster analysis have emerged in the academic marketing literature, (2) to compare these standards of application to methodological knowledge about clustering procedures and (3) suggest changes in clustering habits. These goals are achieved by systematically reviewing 243 data-driven segmentation studies that apply cluster analysis for partitioning purposes.},
year = {2002},
date-added = {2010-07-01 17:25:01 +0200},
date-modified = {2010-07-01 17:25:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dolnicar-2002-_A%20Review%20of%20Unquesti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13229},
read = {Yes},
rating = {0}
}
@article{Wessman:2009p9856,
author = {Jaana Wessman and Tiina Paunio and Annamari Tuulio-Henriksson and Mikko Koivisto and Timo Partonen and Jaana Suvisaari and Joni A Turunen and Juho Wedenoja and William Hennah and Olli P H Pietil{\"a}inen and Jouko L{\"o}nnqvist and Heikki Mannila and Leena Peltonen},
journal = {Biol Psychiatry},
title = {Mixture model clustering of phenotype features reveals evidence for association of DTNBP1 to a specific subtype of schizophrenia},
abstract = {BACKGROUND: While DTNBP1, DISC1, and NRG1 have been extensively studied as candidate genes of schizophrenia, results remain inconclusive. Possible explanations for this are that the genes might be relevant only to certain subtypes of the disease and/or only in certain populations. METHODS: We performed unsupervised clustering of individuals from Finnish schizophrenia families, based on extensive clinical and neuropsychological data, including Structured Clinical Interview for DSM-IV (SCID) information. Families with at least one affected member with DSM-IV diagnosis of a schizophrenia spectrum psychosis were included in a register-based ascertainment. Final sample consisted of 904 individuals from 288 families. We then used the cluster phenotypes in a genetic association study of candidate genes. RESULTS: A robust three-class clustering of individuals emerged: 1) psychotic disorder with mood symptoms (n = 172), 2) core schizophrenia (n = 223), and 3) absence of psychotic disorder (n = 509). One third of the individuals diagnosed with schizophrenia were assigned to cluster 1. These individuals had fewer negative and positive psychotic symptoms and cognitive deficits but more depressive symptoms than individuals in cluster 2. There was a significant association of cluster 2 cases with the DTNBP1 gene, while the DISC1 gene indicated a significant association with schizophrenia spectrum disorders based on the DSM-IV criteria. CONCLUSIONS: In the Finnish population, DTNBP1 gene is associated with a schizophrenia phenotype characterized by prominent negative symptoms, generalized cognitive impairment, and few mood symptoms. Identification of genes and pathways related to schizophrenia necessitates novel definitions of disease phenotypes associated more directly with underlying biology.},
affiliation = {Department of Molecular Medicine, Helsinki, Finland. jaana.wessman@cs.helsinki.fi},
number = {11},
pages = {990--6},
volume = {66},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Neuregulin-1, Nerve Tissue Proteins, Polymorphism: Single Nucleotide, Schizophrenic Psychology, Aged, Phenotype, Cluster Analysis, Humans, Psychotic Disorders, Middle Aged, Alleles, Genetic Association Studies, Adult, Carrier Proteins, Schizophrenia},
date-added = {2010-03-26 19:30:58 +0100},
date-modified = {2010-03-26 19:30:58 +0100},
doi = {10.1016/j.biopsych.2009.05.034},
pii = {S0006-3223(09)00831-2},
pmid = {19782967},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9856},
rating = {0}
}
@article{Yu:2008,
author = {Q Yu and E Stasny and B Li},
journal = {Annals of Applied Probability},
title = {Bayesian models to adjust for response bias in survey data for estimating rape and domestic violence rates from the NCVS},
year = {2008},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2008-Annals%20of%20Applied%20Probability_Bayesian%20models%20to%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1872},
rating = {0}
}
@article{Henson:2001,
author = {R K Henson and L R Kogan and T Vacha-Haase},
journal = {Educational and Psychological Measurement},
title = {A reliability generalization study of the Teacher Efficacy Scale and related instruments},
number = {404-420},
volume = {61},
year = {2001},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1998},
rating = {0}
}
@article{Pfeffermann:1993p6310,
author = {D Pfeffermann},
journal = {International Statistical Review},
title = {The Role of Sampling Weights When Modeling Survey Data},
abstract = {The purposeof this paperis to providea criticalsurveyof the literature,directedat answering two main questions.i) Can the use of the samplingweightsbe justifiedfor analyticinferenceabout modelparametersandif so, underwhatcircumstances?ii) Canguidelinesbe developedfor how to
incorporatethe weightsin the analysis?The generalconclusionof thisstudyis thatthe weightscan be used to test and protectagainstinformativesamplingdesignsand againstmisspecificationof the model holding in the population. Six approachesfor incorporatingthe weights in the inference processare considered.The firstfour approachesare intendedto yield design consistentestimators for correspondingdescriptivepopulationquantitiesof the model parameters.The other two approachesattemptto incorporatethe weightsinto the model.},
number = {2},
pages = {317--337},
volume = {61},
year = {1993},
date-added = {2010-02-20 21:04:43 +0100},
date-modified = {2010-02-20 21:05:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pfeffermann-1993-International%20Statistical%20Review_The%20Role%20of%20Sampling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6310},
rating = {0}
}
@article{Wang:2008p5891,
author = {H Wang and C Leng},
journal = {Computational Statistics},
title = {A note on adaptive group lasso},
abstract = {Group lasso is a natural extension of lasso and selects variables in a grouped manner. However, group lasso suffers from estimation inefficiency and selection inconsistency. To remedy these problems, we propose the adaptive group lasso method. We show theoretically that the new method is able to identify the true model consistently, and the resulting estimator can be as efficient as oracle. Numerical studies confirmed our theoretical findings.},
pages = {5277--5286},
volume = {52},
year = {2008},
date-added = {2010-02-17 21:05:40 +0100},
date-modified = {2010-07-29 19:24:30 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2008-Computational%20Statistics_A%20note%20on%20adaptive%20g.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5891},
rating = {0}
}
@article{Sawatzky:2010p5235,
author = {Richard Sawatzky and Pamela A Ratner and Joy L Johnson and Jacek A Kopec and Bruno D Zumbo},
journal = {Health Qual Life Outcomes},
title = {Self-reported physical and mental health status and quality of life in adolescents: a latent variable mediation model},
abstract = {ABSTRACT: BACKGROUND: We examined adolescents' differentiation of their self-reported physical and mental health status, the relative importance of these variables and five important life domains (satisfaction with family, friends, living environment, school and self) with respect to adolescents' global quality of life (QOL), and the extent to which the five life domains mediate the relationships between self-reported physical and mental health status and global QOL. METHODS: The data were obtained via a cross-sectional health survey of 8,225 adolescents in 49 schools in British Columbia, Canada. Structural equation modeling was applied to test the implied latent variable mediation model. The Pratt index (d) was used to evaluate variable importance. RESULTS: Relative to one another, self-reported mental health status was found to be more strongly associated with depressive symptoms, and self-reported physical health status more strongly associated with physical activity. Self-reported physical and mental health status and the five life domains explained 76% of the variance in global QOL. Relatively poorer mental health and physical health were significantly associated with lower satisfaction in each of the life domains. Global QOL was predominantly explained by three of the variables: mental health status (d = 30%), satisfaction with self (d = 42%), and satisfaction with family (d = 20%). Satisfaction with self and family were the predominant mediators of mental health and global QOL (45% total mediation), and of physical health and global QOL (68% total mediation). CONCLUSIONS: This study provides support for the validity and relevance of differentiating self-reported physical and mental health status in adolescent health surveys. Self-reported mental health status and, to a lesser extent, self-reported physical health status were associated with significant differences in the adolescents' satisfaction with their family, friends, living environment, school experiences, self, and their global QOL. Questions about adolescents' self-reported physical and mental health status and their experiences with these life domains require more research attention so as to target appropriate supportive services, particularly for adolescents with mental or physical health challenges.},
number = {1},
pages = {17},
volume = {8},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-02-08 19:33:17 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
doi = {10.1186/1477-7525-8-17},
pii = {1477-7525-8-17},
pmid = {20128913},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sawatzky-2010-Health%20Qual%20Life%20Outcomes_Self-reported%20physic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5235},
rating = {4}
}
@article{Gratacos:2010p7572,
author = {M{\`o}nica Gratac{\`o}s and Ge{\`o}rgia Escaram{\'\i}s and Mariona Bustamante and Ester Saus and Zaida Ag{\"u}era and M{\`o}nica Bay{\'e}s and Elena Cellini and Rafael de Cid and Fernando Fern{\'a}ndez-Aranda and Laura Forcano and Juan R Gonz{\'a}lez and Philip Gorwood and Johannes Hebebrand and Anke Hinney and Josep M Mercader and Benedetta Nacmias and Nicolas Ramoz and Marta Ribas{\'e}s and Valdo Ricca and Lucia Romo and Sandro Sorbi and Audrey Versini and Xavier Estivill},
journal = {J Psychiatr Res},
title = {Role of the neurotrophin network in eating disorders' subphenotypes: Body mass index and age at onset of the disease},
abstract = {Eating disorders (ED) are severe psychiatric diseases that most likely result from, and are sustained by socio-cultural, psychological and biological factors. We explored whether members of the neurotrophin family are disease-modifying factors of quantitative traits, potentially contributing to the outcome or prognosis of the disease. We studied lifetime minimum and maximum body mass index (minBMI and maxBMI) and age at onset of the disease in a sample of 991 ED patients from France, Germany, Italy and Spain and analysed 183 genetic variants located in 10 candidate genes encoding different neurotrophins and their receptors. We used a hierarchical model approach to include prior genetic knowledge of the specific and found that variants in CNTF, in its receptor CNTFR, and in NTRK2 were significantly associated with a lower age at onset of the ED. In addition, one variant in NTRK1 was associated with a higher minBMI. The results suggest that for these two subphenotypes, CNTF, CNTFR, NTRK1 and NTRK2 might act as disease-modifying factors and add preliminary evidence to the global hypothesis that EDs are the result of complex interactions and reciprocal controls between the immune, endocrine and central nervous systems.},
affiliation = {CIBER en Epidemiolog{\'\i}a y Salud P{\'u}blica (CIBERESP), Genes and Disease Program, Center for Genomic Regulation (CRG-UPF), Barcelona 08003, Catalonia, Spain.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-14 11:01:00 +0100},
date-modified = {2010-07-29 19:35:54 +0200},
doi = {10.1016/j.jpsychires.2010.01.009},
pii = {S0022-3956(10)00018-X},
pmid = {20219210},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gratac%C3%B2s-2010-J%20Psychiatr%20Res_Role%20of%20the%20neurotro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7572},
rating = {3}
}
@article{Fone:2006p7521,
author = {David L Fone and Daniel M Farewell and Frank D Dunstan},
journal = {Popul Health Metr},
title = {An ecometric analysis of neighbourhood cohesion},
abstract = {BACKGROUND: It is widely believed that the social environment has an important influence on health, but there is less certainty about how to measure specific factors within the social environment that could link the neighbourhood of residence to a health outcome. The objectives of the study were to examine the underlying constructs captured by an adapted version of Buckner's neighbourhood cohesion scale, and to assess the reliability of the scale at the small-area-level by combining ecometric methodology with ordinal modelling of a five-point scale. METHODS: Data were analysed from 11,078 participants in the Caerphilly Health and Social Needs Study, who were sampled from within 325 UK census enumeration districts in Caerphilly county borough, Wales, UK. The responses of interest came from 15 question items designed to capture different facets of neighbourhood cohesion. Factor analysis was used to identify constructs underlying the neighbourhood cohesion item responses. Using a multilevel ecometric model, the variability present in these ordinal responses was decomposed into contextual, compositional, item-level and residual components. RESULTS: Two constructs labelled neighbourhood belonging and social cohesion were identified, and variability in both constructs was modelled at each level of the multilevel structure. The intra-neighbourhood correlations were 6.4% and 1.0% for the neighbourhood belonging and social cohesion subscales, respectively. Given the large sample size, contextual neighbourhood cohesion scores can be estimated reliably. The wide variation in the observed frequency of occurence of the scale item activities suggests that the two subscales have desirable ecometric properties. Further, the majority of between-neighbourhood variation is not explained by the socio-demographic characteristics of the individual respondents. CONCLUSION: Assessment of the properties of the adapted neighbourhood cohesion scale using factor analysis and ecometric analysis extended to an ordinal scale has shown that the items allow fine discrimination between individuals. However, large sample sizes are needed in order to accurately estimate contextual neighbourhood cohesion. The scale is therefore appropriate for use in the measurement of neighbourhood cohesion at small-area-level in future studies of neighbourhoods and health.},
affiliation = {Department of Epidemiology, Statistics and Public Health, Centre for Health Sciences Research, School of Medicine, Cardiff University, Neuadd Meirionnydd, Heath Park, Cardiff, Wales, CF14 4YS, UK. foned@cf.ac.uk},
pages = {17},
volume = {4},
year = {2006},
month = {Jan},
language = {eng},
date-added = {2010-03-14 10:53:26 +0100},
date-modified = {2010-03-14 10:53:26 +0100},
doi = {10.1186/1478-7954-4-17},
pii = {1478-7954-4-17},
pmid = {17184538},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fone-2006-Popul%20Health%20Metr_An%20ecometric%20analysi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7521},
rating = {0}
}
@article{Schafer:2005p2933,
author = {Juliane Sch{\"a}fer and Korbinian Strimmer},
journal = {Statistical Applications in Genetics and Molecular Biology},
title = {A shrinkage approach to large-scale covariance matrix estimation and implications for functional genomics},
abstract = {Inferring large-scale covariance matrices from sparse genomic data is an ubiquitous problem in bioinformatics. Clearly, the widely used standard covariance and correlation estimators are ill-suited for this purpose. As statistically efficient and computationally fast alternative we propose a novel shrinkage covariance estimator that exploits the Ledoit-Wolf (2003) lemma for analytic calculation of the optimal shrinkage intensity. Subsequently, we apply this improved covariance estimator (which has guaranteed minimum mean squared error, is well-conditioned, and is always positive definite even for small sample sizes) to the problem of inferring large-scale gene association networks. We show that it performs very favorably compared to competing approaches both in simulations as well as in application to real expression data.},
affiliation = {Department of Statistics, University of Munich, Germany. schaefer@stat.math.ethz.ch},
pages = {Article32},
volume = {4},
year = {2005},
month = {Jan},
language = {eng},
date-added = {2010-01-13 22:54:58 +0100},
date-modified = {2010-01-13 22:54:58 +0100},
doi = {10.2202/1544-6115.1175},
pmid = {16646851},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sch%C3%A4fer-2005-Statistical%20Applications%20in%20Genetics%20and%20Molecular%20Biology_A%20shrinkage%20approach.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2933},
rating = {0}
}
@article{Dobra:2009p3718,
author = {Adrian Dobra},
journal = {Biostatistics},
title = {Variable selection and dependency networks for genomewide data},
abstract = {We describe a new stochastic search algorithm for linear regression models called the bounded mode stochastic search (BMSS). We make use of BMSS to perform variable selection and classification as well as to construct sparse dependency networks. Furthermore, we show how to determine genetic networks from genomewide data that involve any combination of continuous and discrete variables. We illustrate our methodology with several real-world data sets.},
affiliation = {Department of Statistics and Department of Biobehavioral Nursing and Health Systems, University of Washington Seattle, WA 98195, USA. adobra@u.washington.edu},
number = {4},
pages = {621--39},
volume = {10},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Gene Expression, Algorithms, Receptors: Estrogen, Lymphatic Metastasis, Stochastic Processes, Breast Neoplasms, Linear Models, Biostatistics, Humans, Gene Regulatory Networks, Genome-Wide Association Study, Female},
date-added = {2010-01-16 20:56:59 +0100},
date-modified = {2010-01-16 20:56:59 +0100},
doi = {10.1093/biostatistics/kxp018},
pii = {kxp018},
pmid = {19520789},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3718},
rating = {0}
}
@article{Meulders:2005,
author = {M Meulders and E H Ip and Paul De Boeck},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Latent variable models for partially ordered responses and trajectory analysis of anger-related feelings},
pages = {117--143},
volume = {58},
year = {2005},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meulders-2005-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Latent%20variable%20mode.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1860},
rating = {0}
}
@article{Wang:2009p5142,
author = {Tien-Ni Wang and Mei-Hui Tseng and Brenda N Wilson and Fu-Chang Hu},
journal = {Dev Med Child Neurol},
title = {Functional performance of children with developmental coordination disorder at home and at school},
abstract = {This study investigated the functional performance of daily activities at home and at school in a population-based sample of children with different degrees of motor coordination impairment and competence. Sixteen children (seven males, nine females; mean age 8 y, SD 9 mo) with developmental coordination disorder (DCD), 25 with suspected DCD ([sDCD] 17 males, eight females; mean age 7 y 6 mo, SD 8 mo), and 63 children without motor problems (39 males, 24 females; mean age 7 y 9 mo, SD 7 mo) were recruited from public schools (Grades 1-3, age 6 y 4 mo-9 y 10 mo) using the Chinese version of the Developmental Coordination Disorder Questionnaire, the Movement Assessment Battery for Children, and the Bruininks-Oseretsky Test of Motor Proficiency. Functional performance was assessed using the Chinese versions of the Vineland Adaptive Behavior Scales and the School Function Assessment-Chinese version. The functional performance of children with DCD and sDCD was statistically significantly lower than those without DCD (p's<0.05). chi(2) and logistic regression analyses showed significant differences among all groups in the proportion of children scoring at the 'inadequate' adaptive level of home performance (p's<0.05). There were also significant differences among the groups in the proportion of children scoring below the cut-off in school performance (p's<0.05). The findings show the pervasive impact of DCD on children's functional performance in daily activities at home and at school.},
affiliation = {School of Occupational Therapy, College of Medicine, National Taiwan University, Taipei, Taiwan, Republic of China.},
number = {10},
pages = {817--25},
volume = {51},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Male, Disability Evaluation, Motor Activity, Adaptation: Physiological, Female, Schools, Humans, Child, Severity of Illness Index, Activities of Daily Living, Questionnaires, Educational Status, Chi-Square Distribution, Motor Skills Disorders},
date-added = {2010-02-05 20:19:43 +0100},
date-modified = {2010-07-29 19:25:11 +0200},
doi = {10.1111/j.1469-8749.2009.03271.x},
pii = {DMCN3271},
pmid = {19416344},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5142},
rating = {0}
}
@article{Durlak:2009p14217,
author = {Joseph A Durlak},
journal = {J Pediatr Psychol},
title = {How to select, calculate, and interpret effect sizes},
abstract = {The objective of this article is to offer guidelines regarding the selection, calculation, and interpretation of effect sizes (ESs). To accomplish this goal, ESs are first defined and their important contribution to research is emphasized. Then different types of ESs commonly used in group and correlational studies are discussed. Several useful resources are provided for distinguishing among different types of effects and what modifications might be required in their calculation depending on a study's purpose and methods. This article should assist producers and consumers of research in understanding the role, importance, and meaning of ESs in research reports.},
affiliation = {Department of Psychology, Loyola University Chicago, 6525 N. Sheridan Road, Chicago, IL 60626, USA. jdurlak@luc.edu},
number = {9},
pages = {917--28},
volume = {34},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Models: Statistical, Meta-Analysis as Topic, Research Design, Research, Humans, Statistics as Topic},
date-added = {2010-08-22 20:53:39 +0200},
date-modified = {2010-08-22 20:53:40 +0200},
doi = {10.1093/jpepsy/jsp004},
pii = {jsp004},
pmid = {19223279},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Durlak-2009-J%20Pediatr%20Psychol_How%20to%20select%20calcu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14217},
rating = {4}
}
@article{OHara:2010p4930,
author = {R B O'Hara and P Komulainen and O Savolainen and M J Sillanp{\"a}{\"a}},
journal = {Nature Precedings},
title = {A Latent Variable Approach to Multivariate Quantitative Trait Loci},
abstract = {A novel approach based on latent variable modelling is presented for the analysis of multivariate quantitative and qualitative trait loci. The approach is general in the sense that it enables the joint analysis of many kinds of quantitative and qualitative traits (including count data and censored traits) in a single modelling framework. In the framework, the observations are modelled as functions of latent variables, which are then affected by quantitative trait loci. Separating the analysis in this way means that measurement errors in the phenotypic observations can be included easily in the model, providing robust inferences. The performance of the method is illustrated using two real multivariate datasets, from barley and Scots pine.},
number = {4137.1},
year = {2010},
date-added = {2010-02-02 11:50:39 +0100},
date-modified = {2010-02-02 11:51:42 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/O'Hara-2010-Nature%20Precedings_A%20Latent%20Variable%20Ap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4930},
rating = {0}
}
@article{Erosheva:2005p6280,
author = {E A Erosheva},
journal = {Psychometrika},
title = {COMPARING LATENT STRUCTURES OF THE GRADE OF MEMBERSHIP, RASCH, AND LATENT CLASS MODELS},
abstract = {This paper focuses on model interpretation issues and employs a geometric approach to compare the potential value of using the Grade of Membership (GoM) model in representing population heterogeneity. We consider population heterogeneity manifolds generated by letting subject specific parameters vary over their natural range, while keeping other population parameters fixed, in the marginal space (based on marginal probabilities) and in the full parameter space (based on cell probabilities). The case of a 2 × 2 contingency table is discussed in detail, and a generalization to 2J tables with J ≥ 3 is sketched. Our approach highlights the main distinction between the GoM model and the probabilistic mixture of classes by demonstrating geometrically the difference between the concepts of partial and probabilistic memberships. By using the geometric approach we show that, in special cases, the GoM model can be thought of as being similar to an item response theory (IRT) model in representing population heterogeneity. Finally, we show that the GoM item parameters can provide quantities analogous to more general logistic IRT item parameters. As a latent structure model, the GoM model might be considered a useful alternative for a data analysis when both classes of extreme responses, and additional heterogeneity that cannot be captured by those latent classes, are expected in the population.},
number = {4},
pages = {619--628},
volume = {70},
year = {2005},
date-added = {2010-02-20 18:02:29 +0100},
date-modified = {2010-02-20 18:03:16 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Erosheva-2005-Psychometrika_COMPARING%20LATENT%20STR.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6280},
rating = {0}
}
@article{Straetmans:2003aa,
author = {Gerard J J M Straetmans and Theo J H M Eggen},
title = {Computerize Adaptive Testing: What It Is and How It Works},
year = {2003},
month = {Jan},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Straetmans-2003-_Computerize%20Adaptive.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1205},
rating = {0}
}
@article{Banerjee:2010p12322,
author = {O Banerjee and L El Ghaoui and A d'Aspremont},
journal = {Journal of Machine Learning},
title = {Model Selection Through Sparse Maximum Likelihood Estimation for Multivariate Gaussian or Binary Data},
abstract = {We consider the problem of estimating the parameters of a Gaussian or binary distribution in such a way that the resulting undirected graphical model is sparse. Our approach is to solve a maximum likelihood problem with an added l1-norm penalty term. The problem as formulated is convex but the memory requirements and complexity of existing interior point methods are prohibitive for problems with more than tens of nodes. We present two new algorithms for solving problems with at least a thousand nodes in the Gaussian case. Our first algorithm uses block coordinate descent, and can be interpreted as recursive l1-norm penalized regression. Our second algorithm, based on Nesterov's first order method, yields a complexity estimate with a better dependence on problem size than existing interior point methods. Using a log determinant relaxation of the log partition function (Wainwright and Jordan [2006]), we show that these same algorithms can be used to solve an approximate sparse maximum likelihood problem for the binary case. We test our algorithms on synthetic data, as well as on gene expression and senate voting records data.},
date-added = {2010-06-12 09:40:44 +0200},
date-modified = {2010-07-29 19:34:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Banerjee--Journal%20of%20Machine%20Learning_Model%20Selection%20Thro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12322},
read = {Yes},
rating = {0}
}
@article{Velthove:2010p11907,
author = {Karin J Velthove and Hubert Gm Leufkens and Patrick C Souverein and Rene C Schweizer and Wouter W van Solinge},
journal = {Emerging themes in epidemiology},
title = {Testing bias in clinical databases: methodological considerations},
abstract = {ABSTRACT: BACKGROUND: Laboratory testing in clinical practice is never a random process. In this study we evaluated testing bias for neutrophil counts in clinical practice by using results from requested and non-requested hematological blood tests. METHODS: This study was conducted using data from the Utrecht Patient Oriented Database, a unique clinical database as it contains physician requested data, but also data that are not requested by the physician, but measured as result of requesting other hematological parameters. We identified adult patients, hospitalized in 2005 with at least two blood tests during admission, where requests for general blood profiles and specifically for neutrophil counts were contrasted in scenario analyses. Possible effect modifiers were diagnosis and glucocorticoid use. RESULTS: A total of 567 patients with requested neutrophil counts and 1,439 patients with non-requested neutrophil counts were analyzed. The absolute neutrophil count at admission differed with a mean of 7.4.10E9/l for requested counts and 8.3.10E9/l for non-requested counts (p-value <0.001). This difference could be explained for 83.2% by the occurrence of cardiovascular disease as underlying disease and for 4.5% by glucocorticoid use. CONCLUSION: Requests for neutrophil counts in clinical databases are associated with underlying disease and with cardiovascular disease in particular. The results from our study show the importance of evaluating testing bias in epidemiological studies obtaining data from clinical databases.},
number = {1},
pages = {2},
volume = {7},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-23 11:55:08 +0200},
date-modified = {2010-05-23 11:55:08 +0200},
doi = {10.1186/1742-7622-7-2},
pii = {1742-7622-7-2},
pmid = {20470397},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Velthove-2010-Emerging%20themes%20in%20epidemiology_Testing%20bias%20in%20clin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11907},
rating = {0}
}
@article{Fan:2001p5596,
author = {X Fan and B Thompson},
journal = {Educational and Psychological Measurement},
title = {Confidence intervals about score reliability coefficients, please: An EPM guidelines editorial},
abstract = {Confidence intervals for reliability coefficients can be estimated in various ways. The present article illustrates a variety of these applications. This guidelines editorial also promulgates a request that EPM authors report confidence intervals for reliability esti- mates whenever they report score reliabilities and note what interval estimation methods they have used. This will reinforce reader understanding that all statistical estimates, including those for score reliability, are affected by sampling error variance. And these requirements may also facilitate understanding that tests are not impregnated with invariant reliability as a routine part of printing.},
number = {4},
pages = {517--531},
volume = {61},
year = {2001},
date-added = {2010-02-12 15:42:12 +0100},
date-modified = {2010-02-12 15:43:29 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fan-2001-Educational%20and%20Psychological%20Measurement_Confidence%20intervals.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5596},
rating = {0}
}
@article{Levy:2009p542,
author = {Roy Levy and Dubravka Svetina},
title = {A New Statistic and Posterior Predictive Model Checking Procedure for Dimensionality Assessment in Multidimensional Item Response Theory},
abstract = {A generalized dimensionality statistic is introduced to facilitate a critique of dimensionality
assumptions in multidimensional item response models. Connections between dimensionality and local independence motivate the development of the statistic from a conditional covariance theory perspective. A simulation study and a real data analysis demonstrate the utility of the statistic's application at multiple levels of analysis in a posterior predictive model checking framework.},
affiliation = {Arizona State University},
year = {2009},
keywords = {posterior predictive model checking, generalized dimensionality statistic, multidimensional item response theory},
date-added = {2010-01-03 14:12:06 +0100},
date-modified = {2010-01-03 14:13:31 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levy-2009-_A%20New%20Statistic%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p542},
rating = {0}
}
@article{Middelberg:2007p2238,
author = {Rita P S Middelberg and Sarah E Medland and Nicholas G Martin and John B Whitfield},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {A longitudinal genetic study of uric acid and liver enzymes in adolescent twins},
abstract = {Biochemical traits such as plasma alanine aminotransferase (ALT), aspartate aminotransferase (AST), gamma glutamyltransferase (GGT) and uric acid are associated with obesity, and with risk of cardiovascular disease, metabolic syndrome and diabetes. Each is subject to genetic influences, but little is known about changes in genetic and environmental influences on these traits over time. We investigated the contribution of genetic and environmental influences to variation in these biochemical traits in adolescent twins and their nontwin siblings from 965 twin families. Twins were studied at ages 12, 14 and 16 years. Multivariate genetic models that included effects of age and sex were fitted to determine whether the same or different genetic or environmental factors influence each trait at different ages. Results showed that the genetic factors influencing AST, ALT, GGT and uric acid change over time during adolescence, and that the magnitude of these effects differs between males and females. The nonshared environment effects were generally time specific. There are developmental changes in genes affecting these traits during adolescence.},
affiliation = {Genetic Epidemiology Unit, Queensland Institute of Medical Research, Brisbane, Australia. rita.middelberg@qimr.edu.au},
number = {5},
pages = {757--64},
volume = {10},
year = {2007},
month = {Oct},
language = {eng},
keywords = {gamma-Glutamyltransferase, Male, Genetic Variation, Alanine Transaminase, Twins: Monozygotic, Environment, Uric Acid, Multivariate Analysis, Female, Longitudinal Studies, Aspartate Aminotransferases, Twins: Dizygotic, Humans, Adolescent, Liver, Age Factors},
date-added = {2010-01-10 11:59:05 +0100},
date-modified = {2010-01-10 11:59:05 +0100},
doi = {10.1375/twin.10.5.757},
pmid = {17903117},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Middelberg-2007-Twin%20research%20and%20human%20genetics%20the%20official%20journal%20of%20the%20International%20Society%20for%20Twin%20Studies_A%20longitudinal%20genet.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2238},
rating = {0}
}
@article{Lieber:2000p11163,
author = {E Lieber and K-S Yang},
journal = {Journal of Cross-Cultural Psychology},
title = {An external orientation to the study of causal beliefs. Applications to Chinese populations and comparative research},
number = {2},
pages = {160--186},
volume = {31},
year = {2000},
date-added = {2010-04-25 21:04:23 +0200},
date-modified = {2010-04-25 21:08:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lieber-2000-Journal%20of%20Cross-Cultural%20Psychology_An%20external%20orientat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11163},
rating = {0}
}
@article{Yuan:2007p12323,
author = {M Yuan and Y Lin},
journal = {Biometrika},
title = {Model selection and estimation in the Gaussian graphical model},
abstract = {We propose penalized likelihood methods for estimating the concentration matrix in the Gaussian graphical model. The methods lead to a sparse and shrinkage estimator of the concentration matrix that is positive definite, and thus conduct model selection and estimation simultaneously. The implementation of the methods is nontrivial because of the positive definite constraint on the concentration matrix, but we show that the computation can be done effectively by taking advantage of the efficient maxdet algorithm developed in convex optimization. We propose a BIC-type criterion for the selection of the tuning parameter in the penalized likelihood methods. The connection between our methods and existing methods is illustrated. Simulations and real examples demonstrate the competitive performance of the new methods.},
number = {1},
pages = {19--35},
volume = {94},
year = {2007},
date-added = {2010-06-12 09:41:48 +0200},
date-modified = {2010-06-12 09:42:49 +0200},
doi = {10.1093/biomet/asm018},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yuan-2007-Biometrika_Model%20selection%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12323},
rating = {0}
}
@article{Leinonen:2005p5244,
author = {Raija Leinonen and Jaakko Kaprio and Marja Jylh{\"a} and Asko Tolvanen and Markku Koskenvuo and Eino Heikkinen and Taina Rantanen},
journal = {J Am Geriatr Soc},
title = {Genetic influences underlying self-rated health in older female twins},
abstract = {OBJECTIVES: To examine the genetic and environmental sources of variation in self-rated health (SRH) in older female twins and to explore the roles of morbidity, functional limitation, and psychological well-being as mediators of genetic and environmental effects on SRH. DESIGN: Cross-sectional analysis of twin data. SETTING: Research laboratory. PARTICIPANTS: One hundred two monozygotic and 115 dizygotic female twin pairs aged 63 to 76. MEASUREMENTS: SRH was categorized as good, average, or poor. Morbidity was described using a physician-assessed disease-severity scale together with information about the presence of diabetes mellitus and cancer. Maximal walking speed measured over 10 m was used to assess physical functional limitation; the Mini-Mental State Examination and the Center for Epidemiologic Studies Depression Scale were used to characterize psychological well-being. The contributions of genetic and environmental (defined as familial (shared by siblings) or nonshared (unique to each sibling)) effects were assessed using univariate and multivariate structural equation modeling of twin data. RESULTS: SRH did not have its own specific genetic effect but shared a genetic component in common with the genetic components underlying liability to disease severity, maximal walking speed, and depressive symptoms. It accounted for 64% of the variation in SRH, with environmental effects accounting for the remaining variation. CONCLUSION: The current results suggest that there are no specific genetic effects on SRH but rather that genetic influences on SRH are mediated through genetic influences affecting chronic diseases, functional limitation, and mood.},
affiliation = {Finnish Center for Interdisciplinary Gerontology, Department of Health Sciences, University of Jyv{\"a}skyla{\"a}, Finland. raija.leinonen@sport.jyu.fi},
number = {6},
pages = {1002--7},
volume = {53},
year = {2005},
month = {Jun},
language = {eng},
keywords = {Cross-Sectional Studies, Middle Aged, Finland, Female, Activities of Daily Living, Mental Health, Environment, Depression, Humans, Twins, Aged, Health Status, Self Concept, Diseases in Twins, Logistic Models, Walking, Multivariate Analysis},
date-added = {2010-02-09 22:00:13 +0100},
date-modified = {2010-02-09 22:00:13 +0100},
doi = {10.1111/j.1532-5415.2005.53319.x},
pii = {JGS53319},
pmid = {15935024},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5244},
rating = {0}
}
@article{Vasic:2008p4288,
author = {Nenad Vasic and Henrik Walter and Annett H{\"o}se and Robert Christian Wolf},
journal = {J Affect Disord},
title = {Gray matter reduction associated with psychopathology and cognitive dysfunction in unipolar depression: a voxel-based morphometry study},
abstract = {BACKGROUND: Functional neuroimaging studies on both cognitive processing and psychopathology in patients with major depression have reported several functionally aberrant brain areas within limbic-cortical circuits. However, less is known about the relationship between psychopathology, cognitive deficits and regional volume alterations in this patient population. METHODS: By means of voxel-based morphometry (VBM) and a standardized neuropsychological test battery, we examined 15 patients meeting DSM-IV criteria for major depression disorder and 14 healthy controls in order to investigate the relationship between affective symptoms, cognitive deficits and structural abnormalities. RESULTS: Patients with depression showed reduced gray matter concentration (GMC) in the left inferior temporal cortex (BA 20), the right orbitofrontal (BA 11) and the dorsolateral prefrontal cortex (BA 46). Reduced gray matter volume (GMV) was found in the left hippocampal gyrus, the cingulate gyrus (BA 24/32) and the thalamus. Structure-cognition correlation analyses revealed that decreased GMC of the right medial and inferior frontal gyrus was associated with both depressive psychopathology and worse executive performance as measured by the Wisconsin Card Sorting Test (WCST). Furthermore, depressive psychopathology and worse performance during the WCST were associated with decreased GMV of the hippocampus. Decreased GMV of the cingulate cortex was associated with worse executive performance. LIMITATIONS: Moderate illness severity, medication effects, and the relatively small patient sample size should be taken into consideration when reviewing the implications of these results. CONCLUSIONS: The volumetric results indicate that regional abnormalities in gray matter volume and concentration may be associated with both psychopathological changes and cognitive deficits in depression.},
affiliation = {Department of Psychiatry III, University of Ulm, Leimgrubenweg 12-14, 89075 Ulm, Germany. nenad.vasic@uni-ulm.de},
number = {1-2},
pages = {107--16},
volume = {109},
year = {2008},
month = {Jul},
language = {eng},
keywords = {Cognition Disorders, Prefrontal Cortex, Neuropsychological Tests, Magnetic Resonance Imaging, Severity of Illness Index, Male, Brief Psychiatric Rating Scale, Female, Adult, Depressive Disorder, Humans, Diagnostic and Statistical Manual of Mental Disorders},
date-added = {2010-01-25 20:29:07 +0100},
date-modified = {2010-01-25 20:29:07 +0100},
doi = {10.1016/j.jad.2007.11.011},
pii = {S0165-0327(07)00399-0},
pmid = {18191459},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4288},
rating = {0}
}
@article{Leclerc:2005p12052,
author = {H Leclerc and W F Fikse and V Ducrocq},
journal = {Journal of Dairy Science},
title = {Principal Components and Factorial Approaches for Estimating
Genetic Correlations in International Sire Evaluation},
abstract = {The increasing number of participating countries and the lack of genetic links among some of them lead to statistical and computational difficulties in estimating the genetic (co)variance matrix needed for international sire evaluation of milk yield. Reparameterization using principal components or factorial approaches is pro- posed to exploit patterns in the genetic correlation ma- trix in order to reduce the number of parameters to be estimated without much loss of information. A 2-step approach was used. First, the genetic matrix between 8 or 9 ``base'' countries was used to determine a reduced number of principal components or factors. Then, the contributions of the remaining countries to these princi- pal components or factors were computed. The resulting genetic correlations for the 18 countries were compared with the ``reference'' genetic correlations obtained with a classical model. The impact of using reparameterized genetic correlation matrices on breeding value predic- tion was investigated for both approaches. A better agreement between predicted breeding values and sta- bility of their rankings was found when an approximate factor analysis was used, whatever the number of fac- tors considered. The estimation of genetic correlations among 18 countries using an approximate factorial ap- proach with 5 factors taken into account led to a reduc- tion of the number of parameters to estimate from 171 to 80. The average absolute deviation of the correlations estimated with an approximate factorial approach from the ``reference'' genetic correlations was 0.014, which is considered very satisfactory in light of the computa- tional ease.},
pages = {3306--3315},
volume = {88},
year = {2005},
date-added = {2010-05-24 10:36:57 +0200},
date-modified = {2010-05-24 10:37:51 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leclerc-2005-Journal%20of%20Dairy%20Science_Principal%20Components.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12052},
rating = {0}
}
@article{Wong:2008p7575,
author = {Chloe C Y Wong and Gunter Schumann},
journal = {Philos Trans R Soc Lond, B, Biol Sci},
title = {Review. Genetics of addictions: strategies for addressing heterogeneity and polygenicity of substance use disorders},
abstract = {Addictions are common psychiatric disorders that exert high cost to the individual and to society. Addictions are a result of the interplay of multiple genetic and environmental factors. They are characterized by phenotypic and genetic heterogeneity as well as polygenicity, implying a contribution of different neurobiological mechanisms to the clinical diagnosis. Therefore, treatments for most substance use disorders are often only partially effective, with a substantial proportion of patients failing to respond. To address heterogeneity and polygenicity, strategies have been developed to identify more homogeneous subgroups of patients and to characterize genes contributing to their phenotype. These include genetic linkage and association studies as well as functional genetic analysis using endophenotypes and animal behavioural experimentation. Applying these strategies in a translational context aims at improving therapeutic response by the identification of subgroups of addiction patients for individualized, targeted treatment strategies. This article aims to discuss strategies addressing heterogeneity and polygenicity of substance use disorders by presenting results of recent research on genetic and environmental components of addiction. It will also introduce the European IMAGEN study that aims to integrate methodical approaches discussed in order to identify the genetic and neurobiological basis of behavioural traits relevant to the development of addictions.},
affiliation = {Interdisciplinary Research Group Addiction, MRC-SGDP-Centre, Institute of Psychiatry at King's College, London, 16 De Crespigny Park, London SE5 8AF, UK.},
number = {1507},
pages = {3213--22},
volume = {363},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Inheritance Patterns, Multifactorial Inheritance, Substance-Related Disorders, Phenotype, Corticotropin-Releasing Hormone, Genomics, Humans, Linkage (Genetics), Genetic Heterogeneity, Genetic Variation, Stress: Psychological},
date-added = {2010-03-14 11:04:05 +0100},
date-modified = {2010-03-14 11:04:06 +0100},
doi = {10.1098/rstb.2008.0104},
pii = {4804031Q83TH275J},
pmid = {18640915},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wong-2008-Philos%20Trans%20R%20Soc%20Lond%20B%20Biol%20Sci_Review.%20Genetics%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7575},
rating = {3}
}
@article{Pournara:2007p874,
author = {Iosifina Pournara and Lorenz Wernisch},
journal = {BMC Bioinformatics},
title = {Factor analysis for gene regulatory networks and transcription factor activity profiles},
abstract = {BACKGROUND: Most existing algorithms for the inference of the structure of gene regulatory networks from gene expression data assume that the activity levels of transcription factors (TFs) are proportional to their mRNA levels. This assumption is invalid for most biological systems. However, one might be able to reconstruct unobserved activity profiles of TFs from the expression profiles of target genes. A simple model is a two-layer network with unobserved TF variables in the first layer and observed gene expression variables in the second layer. TFs are connected to regulated genes by weighted edges. The weights, known as factor loadings, indicate the strength and direction of regulation. Of particular interest are methods that produce sparse networks, networks with few edges, since it is known that most genes are regulated by only a small number of TFs, and most TFs regulate only a small number of genes. RESULTS: In this paper, we explore the performance of five factor analysis algorithms, Bayesian as well as classical, on problems with biological context using both simulated and real data. Factor analysis (FA) models are used in order to describe a larger number of observed variables by a smaller number of unobserved variables, the factors, whereby all correlation between observed variables is explained by common factors. Bayesian FA methods allow one to infer sparse networks by enforcing sparsity through priors. In contrast, in the classical FA, matrix rotation methods are used to enforce sparsity and thus to increase the interpretability of the inferred factor loadings matrix. However, we also show that Bayesian FA models that do not impose sparsity through the priors can still be used for the reconstruction of a gene regulatory network if applied in conjunction with matrix rotation methods. Finally, we show the added advantage of merging the information derived from all algorithms in order to obtain a combined result. CONCLUSION: Most of the algorithms tested are successful in reconstructing the connectivity structure as well as the TF profiles. Moreover, we demonstrate that if the underlying network is sparse it is still possible to reconstruct hidden activity profiles of TFs to some degree without prior connectivity information.},
affiliation = {School of Crystallography, Birkbeck College, University of London, London, UK. i.pournara@cryst.bbk.ac.uk},
pages = {61},
volume = {8},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Transcription Factors, Oligonucleotide Array Sequence Analysis, Transcriptional Activation, Computer Simulation, Signal Transduction, Gene Expression Profiling, Models: Genetic, Bayes Theorem, Gene Expression Regulation, Algorithms, Factor Analysis: Statistical},
date-added = {2010-01-03 18:08:53 +0100},
date-modified = {2010-03-03 19:39:26 +0100},
doi = {10.1186/1471-2105-8-61},
pii = {1471-2105-8-61},
pmid = {17319944},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pournara-2007-BMC%20Bioinformatics_Factor%20analysis%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p874},
rating = {3}
}
@article{Bizzarri:2007p13040,
author = {Jacopo V Bizzarri and Alfredo Sbrana and Paola Rucci and Laura Ravani and Guido Jacopo Massei and Chiara Gonnelli and Sabrina Spagnolli and Maria Rosa Doria and Federica Raimondi and Jean Endicott and Liliana Dell'Osso and Giovanni Battista Cassano},
journal = {Bipolar Disord},
title = {The spectrum of substance abuse in bipolar disorder: reasons for use, sensation seeking and substance sensitivity},
abstract = {OBJECTIVES: To examine the spectrum of alcohol and substance abuse, including reasons for use, in patients with bipolar I disorder, compared with patients with substance use disorder and healthy controls, with a specific focus on the relationship between substance use, substance sensitivity, other comorbid psychiatric symptoms and traits related to sensation seeking. METHODS: This study included 104 patients with bipolar I disorder (BPD I), of whom 57 (54.8%) met DSM-IV criteria for lifetime alcohol or substance use disorder (BPD + SUD), 35 patients with substance use disorder (SUD) and no psychiatric disorder and 50 healthy controls. Assessments included the Structured Clinical Interview for DSM-IV Axis I Disorders (SCID) and the Structured Clinical Interview for the Spectrum of Substance Use (SCI-SUBS). RESULTS: Patients with BPD + SUD and SUD had significantly higher scores on the SCI-SUBS domains of self-medication, substance sensitivity and sensation seeking compared with patients with BPD and healthy controls. Reasons for substance use did not differ between patients with BPD + SUD and patients with SUD. Those most frequently cited were: improving mood; relieving tension; alleviating boredom; achieving/maintaining euphoria; and increasing energy. CONCLUSIONS: Recourse to substances is associated with increased mood and anxiety symptoms, substance sensitivity, and sensation seeking among patients with BPD + SUD and SUD. Substance sensitivity and sensation seeking traits should be investigated in all patients with BPD as possible factors associated with a development of SUD, in order to warn patients of the specific risks related to improper use of medications and substances.},
affiliation = {Drug Addiction Service, Bolzano, Italy.},
number = {3},
pages = {213--20},
volume = {9},
year = {2007},
month = {May},
language = {eng},
keywords = {Substance-Related Disorders, Male, Exploratory Behavior, Diagnostic and Statistical Manual of Mental Disorders, Boredom, Severity of Illness Index, Comorbidity, Adult, Female, Self Medication, Humans, Antipsychotic Agents, Prevalence, Bipolar Disorder, Anxiety Disorders},
date-added = {2010-06-25 22:38:39 +0200},
date-modified = {2010-06-25 22:38:40 +0200},
doi = {10.1111/j.1399-5618.2007.00383.x},
pii = {BDI383},
pmid = {17430295},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13040},
rating = {0}
}
@article{Gao:2010p3115,
author = {Xiaoyi Gao and Lewis C Becker and Diane M Becker and Joshua D Starmer and Michael A Province},
journal = {Genet Epidemiol},
title = {Avoiding the high Bonferroni penalty in genome-wide association studies},
abstract = {A major challenge in genome-wide association studies (GWASs) is to derive the multiple testing threshold when hypothesis tests are conducted using a large number of single nucleotide polymorphisms. Permutation tests are considered the gold standard in multiple testing adjustment in genetic association studies. However, it is computationally intensive, especially for GWASs, and can be impractical if a large number of random shuffles are used to ensure accuracy. Many researchers have developed approximation algorithms to relieve the computing burden imposed by permutation. One particularly attractive alternative to permutation is to calculate the effective number of independent tests, M(eff), which has been shown to be promising in genetic association studies. In this study, we compare recently developed M(eff) methods and validate them by the permutation test with 10,000 random shuffles using two real GWAS data sets: an Illumina 1M BeadChip and an Affymetrix GeneChip Human Mapping 500K Array Set. Our results show that the simpleM method produces the best approximation of the permutation threshold, and it does so in the shortest amount of time. We also show that M(eff) is indeed valid on a genome-wide scale in these data sets based on statistical theory and significance tests. The significance thresholds derived can provide practical guidelines for other studies using similar population samples and genotyping platforms.},
affiliation = {Division of Statistical Genomics, Washington University School of Medicine, St. Louis, MO 63108, USA. ray.x.gao@gmail.com},
number = {1},
pages = {100--5},
volume = {34},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-14 20:21:36 +0100},
date-modified = {2010-01-14 20:21:38 +0100},
doi = {10.1002/gepi.20430},
pmid = {19434714},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3115},
rating = {3}
}
@article{Allen:2005,
author = {A S Allen and H X Barnhart},
journal = {Journal of Data Science},
title = {General marginal regression models for the joint modeling of event frequency and correlated severities with applications to clinical trials},
abstract = {In many clinical trials, information is collected on both the fre- quency of event occurrence and the severity of each event. For example, in evaluating a new anti-epileptic medication both the total number of seizures a patient has during the study period as well as the severity (e.g., mild, severe) of each seizure could be measured. In order to arrive at a full picture of drug or treatment performance, one needs to jointly model the number of events and their correlated ordinal severity measures. A separate analysis is not recommended as it is inefficient and can lead to what we define as ``zero length bias'' in estimates of treatment effect on severity. This paper proposes a general, likelihood based, marginal regression model for jointly modeling the number of events and their correlated ordinal severity measures. We de- scribe parameter estimation issues and derive the Fisher information matrix for the joint model in order to obtain the asymptotic covariance matrix of the parameter estimates. A limited simulation study is conducted to exam- ine the asymptotic properties of the maximum likelihood estimators. Using this joint model, we propose tests that incorporate information from both the number of events and their correlated ordinal severity measures. The methodology is illustrated with two examples from clinical trials: the first concerning a new drug treatment for epilepsy; the second evaluating the effect of a cholesterol lowering medication on coronary artery disease.},
pages = {199--219},
volume = {3},
year = {2005},
date-added = {2010-01-03 19:38:21 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1135},
read = {Yes},
rating = {0}
}
@article{Nuevo:2009p13795,
author = {Roberto Nuevo and Graham Dunn and Christopher Dowrick and Jos{\'e} Luis V{\'a}zquez-Barquero and Patricia Casey and Odd Stefen Dalgard and Ville Lehtinen and Jos{\'e} Luis Ayuso-Mateos},
journal = {J Affect Disord},
title = {Cross-cultural equivalence of the Beck Depression Inventory: a five-country analysis from the ODIN study},
abstract = {BACKGROUND: The Beck Depression Inventory (BDI) has demonstrated excellent psychometric properties and good performance as a screening measure in different contexts and languages. However, comparison of its structure across countries and languages remains understudied. Measurement invariance is a prerequisite for considering the BDI equivalent across versions, and for using it to make valid and interpretable comparisons of the severity of depression among different groups. METHODS: As part of a five-country (UK, Ireland, Spain, Norway, and Finland), two-stage epidemiological study of depressive disorder, 7934 persons were screened using the BDI. The item equivalence and measurement invariance of the BDI across the samples of the five countries was tested using Item Response Theory (IRT) and Multiple Indicators Multiple Causes (MIMIC) models. RESULTS: Overall results support the factorial validity of the BDI, with a unidimensional structure. Item 19 (weight loss) presented a clear misfit in the five countries. IRT models, as well as MIMIC models, suggest that complete measurement invariance cannot be assumed across the five countries. The Spanish sample accounted for the majority of the differences, with a moderate to low Differential Item Functioning for the other countries on the different items. CONCLUSIONS: The BDI could be used cross-culturally in Europe, with particular cautions regarding the Spanish sample, and with the constraints and limits pointed out for the present results. The methodology used for the present work is suggested as a soundness approach for testing the cross-cultural validity of severity rating scales.},
affiliation = {Department of Psychiatry, Aut{\'o}noma University of Madrid, La Princesa University Hospital, Madrid, Spain.},
number = {1-3},
pages = {156--62},
volume = {114},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Finland, Ireland, Cross-Cultural Comparison, Severity of Illness Index, Norway, Reference Values, Spain, Reproducibility of Results, Questionnaires, Psychometrics, Humans, Great Britain, Psychiatric Status Rating Scales, Factor Analysis: Statistical, Depressive Disorder},
date-added = {2010-07-29 12:18:11 +0200},
date-modified = {2010-07-29 12:18:11 +0200},
doi = {10.1016/j.jad.2008.06.021},
pii = {S0165-0327(08)00278-4},
pmid = {18684511},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13795},
rating = {0}
}
@article{Stein:2010p9781,
author = {Jason L Stein and Xue Hua and Suh Lee and April J Ho and Alex D Leow and Arthur W Toga and Andrew J Saykin and Li Shen and Tatiana Foroud and Nathan Pankratz and Matthew J Huentelman and David W Craig and Jill D Gerber and April N Allen and Jason J Corneveaux and Bryan M Dechairo and Steven G Potkin and Michael W Weiner and Paul M Thompson and the Alzheimer's Disease Neuroimaging Initiative},
journal = {Neuroimage},
title = {Voxelwise genome-wide association study (vGWAS)},
abstract = {The structure of the human brain is highly heritable, and is thought to be influenced by many common genetic variants, many of which are currently unknown. Recent advances in neuroimaging and genetics have allowed collection of both highly detailed structural brain scans and genome-wide genotype information. This wealth of information presents a new opportunity to find the genes influencing brain structure. Here we explore the relation between 448,293 single nucleotide polymorphisms in each of 31,622 voxels of the entire brain across 740 elderly subjects (mean age+/-s.d.: 75.52+/-6.82 years; 438 male) including subjects with Alzheimer's disease, Mild Cognitive Impairment, and healthy elderly controls from the Alzheimer's Disease Neuroimaging Initiative (ADNI). We used tensor-based morphometry to measure individual differences in brain structure at the voxel level relative to a study-specific template based on healthy elderly subjects. We then conducted a genome-wide association at each voxel to identify genetic variants of interest. By studying only the most associated variant at each voxel, we developed a novel method to address the multiple comparisons problem and computational burden associated with the unprecedented amount of data. No variant survived the strict significance criterion, but several genes worthy of further exploration were identified, including CSMD2 and CADPS2. These genes have high relevance to brain structure. This is the first voxelwise genome wide association study to our knowledge, and offers a novel method to discover genetic influences on brain structure.},
affiliation = {Laboratory of Neuro Imaging, Department of Neurology, University of California, Los Angeles School of Medicine, Neuroscience Research Building 225E, 635 Charles Young Drive, Los Angeles, CA 90095-1769, USA.},
pages = {},
year = {2010},
month = {Feb},
language = {ENG},
date-added = {2010-03-26 19:19:48 +0100},
date-modified = {2010-03-26 19:20:02 +0100},
doi = {10.1016/j.neuroimage.2010.02.032},
pii = {S1053-8119(10)00200-4},
pmid = {20171287},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9781},
rating = {5}
}
@article{Levin:2009p13249,
author = {Kate A Levin and Candace Currie and Janine Muldoon},
journal = {Eur J Public Health},
title = {Mental well-being and subjective health of 11- to 15-year-old boys and girls in Scotland, 1994-2006},
abstract = {BACKGROUND: Promoting young people's mental well-being and reducing socioeconomic inequalities are priority areas for WHO and the Scottish Government. This article describes changes in the subjective health and mental well-being of adolescents living in Scotland between 1994 and 2006, and investigates socioeconomic inequalities in mental well-being and subjective health over time. METHODS: Data from the 1994, 1998, 2002 and 2006 Health Behaviour in School-aged Children surveys were analysed using Multilevel Binomial modelling. RESULTS: Boys and younger adolescents scored more favourably on measures of confidence, happiness, helplessness and feeling left out than girls and older adolescents. Multiple health complaints (MHC) were also more prevalent among girls than boys. Significant increases over time were observed for all mental well-being measures among girls and for all but confidence among boys. Similarly, there was a significant decrease in odds of MHC over time for both boys and girls. There were no socioeconomic inequalities in any of the five outcomes in 1998. However by 2006, socioeconomic inequalities in young people's happiness, confidence and MHC emerged, while inequalities in girls' helplessness also approached significance. Between 1998 and 2006 significant increases in socioeconomic inequalities in happiness and MHC were observed and increases in feeling left out also approached significance. CONCLUSIONS: Adolescent mental well-being and subjective health in Scotland is improving. However, gender differences persist and socioeconomic inequalities are emerging for some measures, suggesting that a longer term monitoring of mental well-being and subjective health in Scotland is required.},
affiliation = {Child and Adolescent Health Research Unit, University of Edinburgh, Edinburgh, UK. kate.levin@ed.ac.uk},
number = {6},
pages = {605--10},
volume = {19},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-07-01 18:16:48 +0200},
date-modified = {2010-07-01 18:16:48 +0200},
doi = {10.1093/eurpub/ckp046},
pii = {ckp046},
pmid = {19383842},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Levin-2009-Eur%20J%20Public%20Health_Mental%20well-being%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13249},
rating = {0}
}
@book{Boeck:2004,
author = {Paul De Boeck and Mark Wilson},
journal = {Book},
title = {Explanatory Item Response Models: a Generalized Linear and Nonlinear Approach},
year = {2004},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1115},
rating = {5}
}
@article{Abswoude:2004,
author = {Alexandra A H van Abswoude and L Andries van der Ark and Klaas Sijtsma},
journal = {Applied Psychological Measurement},
title = {A comparative study of test data dimensionality assessment procedures under nonparametric IRT models},
number = {1},
pages = {3--24},
volume = {28},
year = {2004},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Abswoude-2004-Applied%20Psychological%20Measurement_A%20comparative%20study.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2064},
rating = {0}
}
@article{Robins:2000p1699,
author = {J M Robins and M A Hernan and B Brumback},
journal = {Epidemiology},
title = {Marginal structural models and causal inference in epidemiology},
number = {5},
pages = {550--560},
volume = {11},
year = {2000},
keywords = {epidemiologic methods, Causality, confounding, longitudinal data, counterfactuals, intermediate variables, structural models},
date-added = {2010-01-09 19:01:43 +0100},
date-modified = {2010-01-09 19:03:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robins-2000-Epidemiology_Marginal%20structural.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1699},
rating = {0}
}
@article{Borsboom:2006p5476,
author = {D Borsboom and C V Dolan},
journal = {Psychological Review},
title = {Why g Is Not an Adaptation: A Comment on Kanazawa (2004)},
abstract = {In S. Kanazawa's (2004) evolutionary theory of general intelligence (g), g is presented as a species- typical information-processing mechanism. This conceptualization of g departs radically from the accepted conceptualization of g as a source of individual differences that is manifest in the positive manifold. Kanazawa's theory is thus problematic in the sense that it concerns a purely hypothetical, and empirically unsupported, conceptualization of g. The authors argue that an evolutionary account of g should address it as a source of individual differences---that is, in a manner that is consistent with the empirical support for g.},
number = {2},
pages = {433--437},
volume = {113},
year = {2006},
date-added = {2010-02-12 14:30:05 +0100},
date-modified = {2010-02-12 14:31:15 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2006-Psychological%20Review_Why%20g%20Is%20Not%20an%20Adap.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5476},
rating = {0}
}
@article{Rochat:2004p7464,
author = {Ryan Rochat},
journal = {Journal of Clinical Epidemiology},
title = {International differences in major depression prevalence: what do they mean?},
number = {7},
pages = {761; author reply 762},
volume = {57},
year = {2004},
month = {Jul},
language = {eng},
keywords = {Psychiatric Status Rating Scales, Depressive Disorder, Humans, Prevalence, Cross-Cultural Comparison},
date-added = {2010-03-10 20:42:51 +0100},
date-modified = {2010-03-10 20:42:51 +0100},
doi = {10.1016/j.jclinepi.2003.12.006},
pii = {S0895435603004438},
pmid = {15358408},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rochat-2004-Journal%20of%20Clinical%20Epidemiology_International%20differ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7464},
rating = {0}
}
@article{Zegers:2010p6523,
author = {Marieke Zegers and Martine C de Bruijne and Cordula Wagner and Peter P Groenewegen and Gerrit van der Wal and Henrica C W de Vet},
journal = {Journal of Clinical Epidemiology},
title = {The inter-rater agreement of retrospective assessments of adverse events does not improve with two reviewers per patient record},
abstract = {OBJECTIVE: To evaluate the inter-rater agreement of the record review process of the Dutch Adverse Event study, which we aimed to improve by the involvement of two independent physician reviewers per record instead of one including a consensus procedure in case of disagreement. METHODS: The inter-rater agreement within pairs of physicians (independent review between physician A+B) and between pairs of physicians (independent review between physician A+B and C+D) was measured to evaluate the record review process with two physicians including a consensus procedure, with 4,272 and 119 records, respectively. RESULTS: The inter-rater agreement within pairs of physicians was substantial for the determination of adverse events (AEs) with a kappa of 0.64 (95% confidence interval [CI]: 0.61, 0.68). The inter-rater agreement between pairs of physicians was fair for the determination of AEs with a kappa of 0.25 (95% CI: 0.05, 0.45). CONCLUSION: A record review process with two physicians per record including a consensus procedure to assess AEs is not more reliable than a record review process with one physician. Retrospective estimates of incidence of AEs from record review studies should be interpreted with caution. Improvement of the method is necessary for monitoring incidence of AEs over time at a national level.},
affiliation = {NIVEL, Netherlands Institute for Health Services Research, P.O. box 1568, 3500 BN Utrecht, The Netherlands. m.zegers@nivel.nl},
number = {1},
pages = {94--102},
volume = {63},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-02-24 20:33:07 +0100},
date-modified = {2010-02-24 20:33:07 +0100},
doi = {10.1016/j.jclinepi.2009.03.004},
pii = {S0895-4356(09)00079-1},
pmid = {19473812},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zegers-2010-Journal%20of%20Clinical%20Epidemiology_The%20inter-rater%20agre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6523},
rating = {0}
}
@article{Jarvis:2006p2911,
author = {Roger M Jarvis and David Broadhurst and Helen Johnson and Noel M O'Boyle and Royston Goodacre},
journal = {Bioinformatics},
title = {PYCHEM: a multivariate analysis package for python},
abstract = {We have implemented a multivariate statistical analysis toolbox, with an optional standalone graphical user interface (GUI), using the Python scripting language. This is a free and open source project that addresses the need for a multivariate analysis toolbox in Python. Although the functionality provided does not cover the full range of multivariate tools that are available, it has a broad complement of methods that are widely used in the biological sciences. In contrast to tools like MATLAB, PyChem 2.0.0 is easily accessible and free, allows for rapid extension using a range of Python modules and is part of the growing amount of complementary and interoperable scientific software in Python based upon SciPy. One of the attractions of PyChem is that it is an open source project and so there is an opportunity, through collaboration, to increase the scope of the software and to continually evolve a user-friendly platform that has applicability across a wide range of analytical and post-genomic disciplines. AVAILABILITY: http://sourceforge.net/projects/pychem},
affiliation = {School of Chemistry, The University of Manchester PO Box 88, Sackville Street, Manchester M60 1QD, UK. Roger.Jarvis@manchester.ac.uk},
number = {20},
pages = {2565--6},
volume = {22},
year = {2006},
month = {Oct},
language = {eng},
keywords = {User-Computer Interface, Data Interpretation: Statistical, Models: Statistical, Oligonucleotide Array Sequence Analysis, Programming Languages, Algorithms, Models: Biological, Multivariate Analysis, Computer Simulation, Software},
date-added = {2010-01-13 15:03:21 +0100},
date-modified = {2010-01-13 15:03:21 +0100},
doi = {10.1093/bioinformatics/btl416},
pii = {btl416},
pmid = {16882648},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jarvis-2006-Bioinformatics_PYCHEM%20a%20multivaria.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2911},
rating = {0}
}
@article{Maris:2005aa,
author = {Gunter Maris},
title = {FUZZY SET THEORY ⊆ PROBABILITY THEORY?},
year = {2005},
month = {Apr},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-01-03 19:39:03 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2005-_FUZZY%20SET%20THEORY%20%E2%8A%86%20P.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1213},
rating = {0}
}
@article{DelPino:2008p12903,
author = {G Del Pino and E San Martin},
journal = {Psychometrika},
title = {On the relationships between sum score based estimation and joint maximum likelihood estimation},
abstract = {This paper analyzes the sum score based (SSB) formulation of the Rasch model, where items and sum scores of persons are considered as factors in a logit model. After reviewing the evolution leading to the equality between their maximum likelihood estimates, the SSB model is then discussed from the point of view of pseudo-likelihood and of misspecified models. This is then employed to provide new insights into the origin of the known inconsistency of the difficulty parameter estimates in the Rasch model. The main results consist of exact relationships between the estimated standard errors for both models; and, for the ability parameters, an upper bound for the estimated standard errors of the Rasch model in terms of those for the SSB model, which are more easily available.},
number = {1},
pages = {145--151},
volume = {73},
year = {2008},
date-added = {2010-06-24 17:24:51 +0200},
date-modified = {2010-06-24 17:27:06 +0200},
doi = {10.1007/S11336-007-9023-2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Del%20Pino-2008-Psychometrika_On%20the%20relationships.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12903},
rating = {0}
}
@article{Bates:2003p520,
author = {Douglas M Bates and Saikat DebRoy},
journal = {Proceedings of the 3rd International Workshop on Distributed Statistical Computing (DSC 2003)},
title = {Converting a large R package to S4 classes and methods},
abstract = {The nlme package for fitting and examining linear and nonlinear mixed- effects models in R is a required package and also one of the largest R packages. In the first phase of a project to extend the capabilities of the nlme package to include generalized linear mixed models (glmm's), we reimplemented linear mixed-effects (lme) models using `S4' classes and methods, as described in John Chambers' book ``Programming with Data'' and as implemented in the methods package for R. Our general goals for this phase are to incorporate new theoretical and computational developments for the lme model and to provide a faster, cleaner implementation of lme fits in R while including hooks for later extensions to the glmm model and the nlme model. In particular, we use our reStruct (random-effects structure) class in iterative PQL fits for glmm's, based on Brian Ripley's function glmmPQL from the MASS package.
As described in ``Programming with Data'', classes, slots and inheritance relationships must be declared explicitly when using the methods package. Although such formal declarations require package authors to be more disciplined than when using informal `S3' classes, they provide assurance that each object in a class has the required slots and that the names and classes of data in the slots are consistent. This is important to us because we are trying to achieve both efficiency and flexibility. We provide flexibility by defining many classes and methods and by using multiple-argument signatures in method declarations. We achieve efficiency by implementing many methods in C code using the .Call interface and through liberal use of GET_SLOT and SET_SLOT within the C code.
We feel that the new implementation is much cleaner and easier to understand than the previous implementation, due in large part to the more extensive use of classes and methods. It is definitely faster and can handle larger problems than the previous implementation.},
pages = {1--8},
year = {2003},
date-added = {2010-01-03 13:26:37 +0100},
date-modified = {2010-01-03 13:29:12 +0100},
url = {http://www.ci.tuwien.ac.at/Conferences/DSC-2003/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bates-2003-Proceedings%20of%20the%203rd%20International%20Workshop%20on%20Distributed%20Statistical%20Computing%20(DSC%202003)_Converting%20a%20large%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p520},
rating = {0}
}
@article{Baker:2009p3081,
author = {Timothy B Baker and Robert B Weiss and Daniel Bolt and Andrew von Niederhausern and Michael C Fiore and Diane M Dunn and Megan E Piper and Nori Matsunami and Stevens S Smith and Hilary Coon and William M McMahon and Mary B Scholand and Nanda Singh and John R Hoidal and Su-Young Kim and Mark F Leppert and Dale S Cannon},
journal = {Nicotine Tob Res},
title = {Human neuronal acetylcholine receptor A5-A3-B4 haplotypes are associated with multiple nicotine dependence phenotypes},
abstract = {INTRODUCTION: Previous research revealed significant associations between haplotypes in the CHRNA5-A3-B4 subunit cluster and scores on the Fagerstr{\"o}m Test for Nicotine Dependence among individuals reporting daily smoking by age 17. The present study used subsamples of participants from that study to investigate associations between the CHRNA5-A3-B4 haplotypes and an array of phenotypes not analyzed previously (i.e., withdrawal severity, ability to stop smoking, and specific scales on the Wisconsin Inventory of Smoking Dependence Motives (WISDM-68) that reflect loss of control, strong craving, and heavy smoking. METHODS: Two cohorts of current or former smokers (N = 886) provided both self-report data and DNA samples. One sample (Wisconsin) comprised smokers making a quit smoking attempt, which permitted the assessment of withdrawal and relapse during the attempt. The other sample (Utah) comprised participants studied for risk factors for nicotine dependence and chronic obstructive pulmonary disease and included individuals originally recruited in the Lung Health Study. RESULTS: The CHRNA5-A3-B4 haplotypes were significantly associated with the targeted WISDM-68 scales (Tolerance, Craving, Loss of Control) in both samples of participants but only among individuals who began smoking early in life. The haplotypes were significantly associated with relapse likelihood and withdrawal severity, but these associations showed no evidence of an interaction with age at daily smoking. DISCUSSION: The CHRNA5-A3-B4 haplotypes are associated with a broad range of nicotine dependence phenotypes, but these associations are not consistently moderated by age at initial smoking.},
affiliation = {Department of Medicine, Center for Tobacco Research and Intervention, University of Wisconsin School of Medicine and Public Health, 1930 Monroe Street, Suite 200, Madison, WI 53711, USA. tbb@ctri.medicine.wisc.edu},
number = {7},
pages = {785--96},
volume = {11},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Male, Humans, Utah, Nerve Tissue Proteins, Tobacco Use Disorder, Haplotypes, Receptors: Nicotinic, Polymorphism: Single Nucleotide, Middle Aged, Behavior: Addictive, Female, Aged, Adult, Risk Factors, Wisconsin, Smoking, Phenotype},
date-added = {2010-01-14 19:55:31 +0100},
date-modified = {2010-07-29 19:41:55 +0200},
doi = {10.1093/ntr/ntp064},
pii = {ntp064},
pmid = {19436041},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3081},
rating = {0}
}
@article{TuckerDrob:2009p9084,
author = {Elliot M Tucker-Drob and K Paige Harden and Eric Turkheimer},
journal = {Behav Genet},
title = {Combining nonlinear biometric and psychometric models of cognitive abilities},
abstract = {It is well-established that genetic factors account for large proportions of individual differences in multiple cognitive abilities. It is also well-established that individual differences in performance on many different cognitive ability measures are strongly correlated. Recent empirical investigations, however, have suggested two interesting qualifications to these well-established findings: Genetic variance in cognitive abilities is higher in richer home environments (gene-by-environment interaction), and common variance in different cognitive abilities is lower at higher levels of overall ability (nonlinear factor structure). Although they have been investigated independently, these two phenomena may interact, because richer environments are routinely associated with higher ability levels. Using simulation we demonstrate how un-modeled nonlinear factor structure can obscure interpretation of gene-by-environment interaction. We then reanalyze data from the National Collaborative Perinatal Project, previously used by Turkheimer et al. (2003; Psychol Science), with a two-step method to model both phenomena.},
affiliation = {Department of Psychology, University of Virginia, P.O. Box 400400, Charlottesville, VA, 22904-4400, USA. tuckerdrob@virginia.edu},
number = {5},
pages = {461--71},
volume = {39},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Twins: Monozygotic, Social Class, Intelligence, Humans, Twins: Dizygotic, Computer Simulation, Male, Mental Processes, Models: Genetic, Cognition, Databases: Factual, Psychometrics, Genetic Variation, Female, Environment, Models: Statistical},
date-added = {2010-03-22 13:22:15 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9288-6},
pmid = {19633945},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tucker-Drob-2009-Behav%20Genet_Combining%20nonlinear.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9084},
rating = {5}
}
@article{Kenny:2010p2924,
author = {D Kenny},
title = {Correlation and causality},
date-added = {2010-01-13 22:11:19 +0100},
date-modified = {2010-01-13 22:11:47 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kenny--_Correlation%20and%20caus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2924},
rating = {0}
}
@article{Tuerlinckx:2006p12898,
author = {F Tuerlinckx and F Rijmen and G Verbeke and Paul De Boeck},
journal = {British Journal of Mathematical {\&} Statistical Psychology},
title = {Statistical inference in generalized linear mixed models: A review},
abstract = {We present a review of statistical inference in generalized linear mixed models (GLMMs). GLMMs are an extension of generalized linear models and are suitable for the analysis of non-normal data with a clustered structure. A GLMM contains parameters common to all clusters (fixed regression effects and variance components) and cluster-specific parameters. The latter parameters are assumed to be randomly drawn from a population distribution. The parameters of this population distribution (the variance components) have to be estimated together with the fixed effects. We focus on the case in which the cluster-specific parameters are normally distributed. The cluster-specific effects are integrated out of the likelihood so that the fixed effects and variance components can be estimated. Unfortunately, the integral over the cluster-specific effects is intractable for most GLMMs with a normal mixing distribution. Within a classical statistical framework, we distinguish between two broad classes of methods to handle this intractable integral: methods that rely on a numerical approximation to the integral and methods that use an analytical approximation to the integrand. Finally, we present an overview of available methods for testing hypotheses about the parameters of GLMMs.},
pages = {225--255},
volume = {59},
year = {2006},
date-added = {2010-06-24 13:57:15 +0200},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tuerlinckx-2006-British%20Journal%20of%20Mathematical%20&%20Statistical%20Psychology_Statistical%20inferenc-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12898},
rating = {5}
}
@article{Cantillon:329,
author = {P Cantillon and B Irish and D Sales},
journal = {BMJ},
title = {Using computers for assessment in medicine},
pages = {606--609},
volume = {329},
year = {2004},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cantillon-2004-BMJ_Using%20computers%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2223},
rating = {0}
}
@techreport{Cazievel:2000,
author = {V Cazievel},
journal = {Techreport},
title = {Estimation for the Rasch Model under a linkage structure: a case study},
affiliation = {Dipartimento di Matematica, Statistica, Informatica e Applicazioni "Lorenzo Mascheroni"},
year = {2000},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cazievel-2000-Techreport_Estimation%20for%20the%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2034},
rating = {0}
}
@article{Kallman:2007p4546,
author = {Jillian Kallman and Mary Margaret O'Neil and Brett Larive and Navdeep Boparai and Leonard Calabrese and Zobair M Younossi},
journal = {Dig Dis Sci},
title = {Fatigue and health-related quality of life (HRQL) in chronic hepatitis C virus infection},
abstract = {In addition to chronic hepatitis, many individuals infected with hepatitis C virus (HCV) suffer from fatigue, which may compromise their health-related quality of life (HRQL). To assess systematically health-related quality of life (HRQL) in patients with chronic hepatitis C and to determine if any clinical, biochemical, virologic, demographic, and histologic features are associated with HRQL status. In this cross-sectional observational study, one hundred thirty patients with chronic HCV infection (HCV RNA positive by PCR) and 61 healthy controls were enrolled from a tertiary care teaching medical center. All patients and controls completed one generic HRQL questionnaire (MOS SF-36) and one liver-disease specific instrument (Chronic Liver Disease Questionnaire, CLDQ). Ninety-five HCV patients and all the controls also completed a fatigue questionnaire (Chronic Fatigue Screener, CFS) and had immunologic markers determined (Cryoglobulin, Soluble IL-2 receptors, Rheumatoid Factor). We compared the HRQL of HCV-infected patients to the controls and, using data from other studies, to the general population, patients with diabetes, and patients with chronic low back pain. Patients with chronic HCV had greater HRQL impairment than healthy controls and those with type II diabetes. Fatigue was the most important symptom with negative impact on HRQL. Sixty-one percent of HCV-infected patients reported fatigue-related loss of activity. Additionally, other factors associated with HRQL were gender and histologic cirrhosis. Chronic HCV infection has a profound negative impact on patients' HRQL. Disabling fatigue is the most important factor that contributes to loss of well-being in this relatively young group of patients.},
affiliation = {Center for Liver Diseases at Inova Fairfax Hospital, Falls Church, 3289 Woodburn Road, Suite 375, Annandale, Virginia 22003, USA.},
number = {10},
pages = {2531--9},
volume = {52},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Hepatitis C Antibodies, Hepatitis C: Chronic, Male, Female, Enzyme-Linked Immunosorbent Assay, Cross-Sectional Studies, Questionnaires, Fatigue, Health Status, Severity of Illness Index, Humans, Prevalence, RNA: Viral, Polymerase Chain Reaction, Middle Aged, Hepacivirus, Ohio, Quality of Life},
date-added = {2010-01-29 22:29:50 +0100},
date-modified = {2010-01-29 22:29:50 +0100},
doi = {10.1007/s10620-006-9708-x},
pmid = {17406828},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4546},
rating = {0}
}
@article{Joyce:2006p1561,
author = {Andrew R Joyce and Bernhard {\O} Palsson},
journal = {Nat Rev Mol Cell Biol},
title = {The model organism as a system: integrating 'omics' data sets},
abstract = {Various technologies can be used to produce genome-scale, or 'omics', data sets that provide systems-level measurements for virtually all types of cellular components in a model organism. These data yield unprecedented views of the cellular inner workings. However, this abundance of information also presents many hurdles, the main one being the extraction of discernable biological meaning from multiple omics data sets. Nevertheless, researchers are rising to the challenge by using omics data integration to address fundamental biological questions that would increase our understanding of systems as a whole.},
affiliation = {Bioinformatics Program, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093-0412, USA. ajoyce@ucsd.edu},
number = {3},
pages = {198--210},
volume = {7},
year = {2006},
month = {Mar},
language = {eng},
keywords = {Transcription: Genetic, Genome, Cell Physiological Phenomena, Models: Biological, Animals, Genomics, Proteins, Neural Networks (Computer), DNA, Proteome},
date-added = {2010-01-07 16:48:29 +0100},
date-modified = {2010-06-24 13:07:55 +0200},
doi = {10.1038/nrm1857},
pii = {nrm1857},
pmid = {16496022},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Joyce-2006-Nat%20Rev%20Mol%20Cell%20Biol_The%20model%20organism%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1561},
rating = {4}
}
@article{Soltesz:2010p8339,
author = {Fruzsina Solt{\'e}sz and D{\'e}nes Szucs and L{\'\i}via Szucs},
journal = {Behav Brain Funct},
title = {Relationships between magnitude representation, counting and memory in 4- to 7-year-old children: A developmental study},
abstract = {ABSTRACT: BACKGROUND: The development of an evolutionarily grounded analogue magnitude representation linked to the parietal lobes is frequently thought to be a major factor in the arithmetic development of humans. We investigated the relationship between counting and the development of magnitude representation in children, assessing also children's knowledge of number symbols, their arithmetic fact retrieval, their verbal skills, and their numerical and verbal short-term memory. METHODS: The magnitude representation was tested by a non-symbolic magnitude comparison task. We have perfected previous experimental designs measuring magnitude discrimination skills in 65 children kindergarten (4-7-year-olds) by controlling for several variables which were not controlled for in previous similar research. We also used a large number of trials which allowed for running a full factorial ANOVA including all relevant factors. Tests of verbal counting, of short term memory, of number knowledge, of problem solving abilities and of verbal fluency were administered and correlated with performance in the magnitude comparison task. RESULTS AND DISCUSSION: Verbal counting knowledge and performance on simple arithmetic tests did not correlate with non-symbolic magnitude comparison at any age. Older children performed successfully on the number comparison task, showing behavioural patterns consistent with an analogue magnitude representation. In contrast, 4-year-olds were unable to discriminate number independently of task-irrelevant perceptual variables. Sensitivity to irrelevant perceptual features of the magnitude discrimination task was also affected by age, and correlated with memory, suggesting that more general cognitive abilities may play a role in performance in magnitude comparison tasks. CONCLUSION: We conclude that young children are not able to discriminate numerical magnitudes when co-varying physical magnitudes are methodically pitted against number. We propose, along with others, that a rather domain general magnitude representation provides the later basis for a specialized representation of numerical magnitudes. For this representational specialization, the acquisition of the concept of abstract numbers, together with the development of other cognitive abilities, is indispensable.},
affiliation = {Centre for Neuroscience in Education, Faculty of Education, University of Cambridge, UK. fs299@cam.ac.uk.},
pages = {13},
volume = {6},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:40:41 +0100},
date-modified = {2010-07-29 19:18:41 +0200},
doi = {10.1186/1744-9081-6-13},
pii = {1744-9081-6-13},
pmid = {20167066},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Solt%C3%A9sz-2010-Behav%20Brain%20Funct_Relationships%20betwee.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8339},
rating = {0}
}
@article{Dubayova:2009p9443,
author = {Tatiana Dubayova and Iveta Nagyova and Eva Havlikova and Jaroslav Rosenberger and Zuzana Gdovinova and Berrie Middel and Jitse P van Dijk and Johan W Groothoff},
journal = {Qual Life Res},
title = {Neuroticism and extraversion in association with quality of life in patients with Parkinson's disease},
abstract = {PURPOSE: Personality traits appear as determinants of quality of life (QoL) in most chronic diseases. The aim of this study is to explore whether neuroticism and extraversion contribute to the variance in QoL in patients with Parkinson's disease (PD) when controlled for age, functional status and disease duration. METHODS: The Parkinson's Disease Quality of Life Questionnaire (PDQ-39) was used to assess QoL and the Unified Parkinson's Disease Rating Scale (UPDRS) for disease severity. Neuroticism and extraversion were measured with the Eysenck Personality Questionnaire (EPQR-A). Multiple linear regression analysis was then used to assess the contribution of neuroticism and extraversion to QoL. RESULTS: The sample consisted of 153 PD patients (48.4% women; 67.9 +/- 9.3 years; mean disease duration 7.5 +/- 5.8 years). Neuroticism was, after disease severity, the second most important variable associated with QoL in PD patients, in particular for domains associated with psychological processes: emotional well-being, social support, stigma and communication. A higher score in extraversion was significantly associated with better emotional well-being in males, but surprisingly, with worse emotional well-being in females. CONCLUSIONS: After functional status, personality traits were clearly associated with QoL in PD patients. Therefore, they should be taken into account by health-care professionals in their appraisal of patient complaints.},
affiliation = {Kosice Institute for Society and Health, P. J. Safarik University, Kosice, Slovakia. dubayovat@unipo.sk},
number = {1},
pages = {33--42},
volume = {18},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Extraversion (Psychology), Quality of Life, Male, Neurotic Disorders, Female, Aged, Parkinson Disease, Questionnaires, Slovakia, Middle Aged, Humans},
date-added = {2010-03-23 19:36:33 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
doi = {10.1007/s11136-008-9410-x},
pmid = {18989757},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dubayova-2009-Qual%20Life%20Res_Neuroticism%20and%20extr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9443},
rating = {0}
}
@article{Fisher:2006p10476,
author = {Simon E Fisher},
journal = {Cognition},
title = {Tangled webs: tracing the connections between genes and cognition},
abstract = {The rise of molecular genetics is having a pervasive influence in a wide variety of fields, including research into neurodevelopmental disorders like dyslexia, speech and language impairments, and autism. There are many studies underway which are attempting to determine the roles of genetic factors in the aetiology of these disorders. Beyond the obvious implications for diagnosis, treatment and understanding, success in these efforts promises to shed light on the links between genes and aspects of cognition and behaviour. However, the deceptive simplicity of finding correlations between genetic and phenotypic variation has led to a common misconception that there exist straightforward linear relationships between specific genes and particular behavioural and/or cognitive outputs. The problem is exacerbated by the adoption of an abstract view of the nature of the gene, without consideration of molecular, developmental or ontogenetic frameworks. To illustrate the limitations of this perspective, I select two cases from recent research into the genetic underpinnings of neurodevelopmental disorders. First, I discuss the proposal that dyslexia can be dissected into distinct components specified by different genes. Second, I review the story of the FOXP2 gene and its role in human speech and language. In both cases, adoption of an abstract concept of the gene can lead to erroneous conclusions, which are incompatible with current knowledge of molecular and developmental systems. Genes do not specify behaviours or cognitive processes; they make regulatory factors, signalling molecules, receptors, enzymes, and so on, that interact in highly complex networks, modulated by environmental influences, in order to build and maintain the brain. I propose that it is necessary for us to fully embrace the complexity of biological systems, if we are ever to untangle the webs that link genes to cognition.},
affiliation = {Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK. simon.fisher@well.ox.ac.uk },
number = {2},
pages = {270--97},
volume = {101},
year = {2006},
month = {Sep},
language = {eng},
keywords = {Forkhead Transcription Factors, Cognition Disorders, Dyslexia, Autistic Disorder, Humans},
date-added = {2010-04-07 11:10:31 +0200},
date-modified = {2010-04-07 11:10:31 +0200},
doi = {10.1016/j.cognition.2006.04.004},
pii = {S0010-0277(06)00074-6},
pmid = {16764847},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T24-4K4WMYF-1&_user=2432700&_coverDate=09%252F30%252F2006&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=64891d1408680a9ca657d3d3b8b1d9f0},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fisher-2006-Cognition_Tangled%20webs%20tracin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10476},
rating = {0}
}
@article{Saemundsen:2007p10985,
author = {Evald Saemundsen and Petur Ludvigsson and Ingibjorg Hilmarsdottir and Vilhjalmur Rafnsson},
journal = {Epilepsia},
title = {Autism spectrum disorders in children with seizures in the first year of life - a population-based study},
abstract = {PURPOSE: To describe autistic spectrum disorders (ASDs) in a cohort of children with history of unprovoked seizures other than infantile spasms in the first year of life. METHODS: The source of data was computer records from all the three pediatric departments in Iceland. Children diagnosed 1982-2000 with unprovoked seizures with onset between 28 days and 12 months of age (N = 102) were invited to participate in a study. Children with known developmental disorders and those whose parents had concerns regarding their child's development or behavior were investigated for possible ASD. Parents were asked to complete the Social Communication Questionnaire and children scoring 10 points or higher were further examined with the Autism Diagnostic Interview-Revised and observational measures. RESULTS: Eighty-four children (82.4%), 28 boys and 56 girls, participated in the study and 36.9% (31/84) were investigated for possible ASD. Twenty-four (28.6%) had at least one neurodevelopmental disorder, 14.3% had mental retardation (MR), and six (7.1%) were diagnosed with ASD, all of whom also had MR and three of whom had congenital brain abnormalities. CONCLUSION: These results suggest that the estimated prevalence of ASD is higher in children with history of seizure in the first year of life than it is in the general population. There are indications that support the view that children with ASD and history of seizure in the first year of life have higher prevalence of congenital brain abnormalities and are more often female, than other children with ASD.},
affiliation = {State Diagnostic and Counseling Center, Division of Autism and Communication Disorders, Kopavogur, Iceland. evald@greining.is},
number = {9},
pages = {1724--30},
volume = {48},
year = {2007},
month = {Sep},
language = {eng},
keywords = {Epilepsy, Questionnaires, Prevalence, Humans, Psychiatric Status Rating Scales, Adolescent, Adult, Mass Screening, Child, Age Factors, Age of Onset, Family, Autistic Disorder, Sex Factors, Child: Preschool, Parents, Comorbidity, Intelligence Tests, Neuropsychological Tests, Female, Cohort Studies, Male, Iceland},
date-added = {2010-04-13 16:27:38 +0200},
date-modified = {2010-04-13 16:27:38 +0200},
doi = {10.1111/j.1528-1167.2007.01150.x},
pii = {EPI1150},
pmid = {17555525},
url = {http://www3.interscience.wiley.com/journal/117958212/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Saemundsen-2007-Epilepsia_Autism%20spectrum%20diso.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10985},
rating = {0}
}
@article{Robert:2009p13334,
author = {Christian P Robert and Kerrie L Mengersen and Carla Chen},
journal = {arXiv},
title = {Model choice versus model criticism},
abstract = { The new perspectives on ABC and Bayesian model criticisms presented in Ratmann et al.(2009) are challenging standard approaches to Bayesian model choice. We discuss here some issues arising from the authors' approach, including prior influence, model assessment and criticism, and the meaning of error in ABC. },
annote = {This is a comment on the recent paper by Ratmann, Andrieu, Wiuf, and
Richardson (PNAS, 106), submitted too late for PNAS to consider it},
eprint = {0909.5673v2},
volume = {stat.ME},
year = {2009},
month = {Sep},
keywords = {stat.CO, stat.ME},
date-added = {2010-07-01 19:08:03 +0200},
date-modified = {2010-07-01 19:08:03 +0200},
pmid = {0909.5673v2},
url = {http://arxiv.org/abs/0909.5673v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robert-2009-arXiv_Model%20choice%20versus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13334},
rating = {0}
}
@article{Godambe:1955p6323,
author = {V P Godambe},
journal = {Journal of the Royal Society, Serie B},
title = {A Unified Theory of Sampling From Finite Populations},
number = {2},
pages = {269--278},
volume = {17},
year = {1955},
date-added = {2010-02-20 21:17:25 +0100},
date-modified = {2010-07-29 19:38:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Godambe-1955-Journal%20of%20the%20Royal%20Society%20Serie%20B_A%20Unified%20Theory%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6323},
rating = {0}
}
@article{Bush:2008p6632,
author = {William S Bush and Todd L Edwards and Scott M Dudek and Brett A McKinney and Marylyn D Ritchie},
journal = {BMC Bioinformatics},
title = {Alternative contingency table measures improve the power and detection of multifactor dimensionality reduction},
abstract = {BACKGROUND: Multifactor Dimensionality Reduction (MDR) has been introduced previously as a non-parametric statistical method for detecting gene-gene interactions. MDR performs a dimensional reduction by assigning multi-locus genotypes to either high- or low-risk groups and measuring the percentage of cases and controls incorrectly labelled by this classification - the classification error. The combination of variables that produces the lowest classification error is selected as the best or most fit model. The correctly and incorrectly labelled cases and controls can be expressed as a two-way contingency table. We sought to improve the ability of MDR to detect gene-gene interactions by replacing classification error with a different measure to score model quality. RESULTS: In this study, we compare the detection and power of MDR using a variety of measures for two-way contingency table analysis. We simulated 40 genetic models, varying the number of disease loci in the model (2 - 5), allele frequencies of the disease loci (.2/.8 or .4/.6) and the broad-sense heritability of the model (.05 - .3). Overall, detection using NMI was 65.36% across all models, and specific detection was 59.4% versus detection using classification error at 62% and specific detection was 52.2%. CONCLUSION: Of the 10 measures evaluated, the likelihood ratio and normalized mutual information (NMI) are measures that consistently improve the detection and power of MDR in simulated data over using classification error. These measures also reduce the inclusion of spurious variables in a multi-locus model. Thus, MDR, which has already been demonstrated as a powerful tool for detecting gene-gene interactions, can be improved with the use of alternative fitness functions.},
affiliation = {Center for Human Genetics Research, Department of Molecular Physiology and Biophysics, Vanderbilt University Medical Center, Nashville, Tennessee, USA. wbush@chgr.mc.vanderbilt.edu},
pages = {238},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Weights and Measures, Models: Genetic, Risk Assessment, Odds Ratio, Bias (Epidemiology), Sensitivity and Specificity, Information Storage and Retrieval, Genotype, Genetic Markers, Statistics: Nonparametric, Gene Frequency, Diagnostic Errors, Gene Regulatory Networks},
date-added = {2010-03-03 20:35:15 +0100},
date-modified = {2010-03-03 20:35:15 +0100},
doi = {10.1186/1471-2105-9-238},
pii = {1471-2105-9-238},
pmid = {18485205},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6632},
rating = {0}
}
@article{Andersson:2000p2428,
author = {C A Andersson and R Bro},
journal = {Chemometrics and Intelligent Laboratory Systems},
title = {The N-way Toolbox for MATLAB},
abstract = {This communication describes a free toolbox for MATLABw for analysis of multiway data. The toolbox is called ``The N-way Toolbox for MATLAB'' and is available on the internet at http:rrwww.models.kvl.dkrsourcer. This communica- tion is by no means an attempt to summarize or review the extensive work done in multiway data analysis but is intended solely for informing the reader of the existence, functionality, and applicability of the N-way Toolbox for MATLAB. q2000 Elsevier Science B.V. All rights reserved.},
pages = {1--4},
volume = {52},
year = {2000},
date-added = {2010-01-11 23:30:47 +0100},
date-modified = {2010-01-11 23:31:32 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andersson-2000-Chemometrics%20and%20Intelligent%20Laboratory%20Systems_The%20N-way%20Toolbox%20fo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2428},
rating = {0}
}
@article{Tu:2009p4694,
author = {Yu-Kang Tu},
journal = {Int J Epidemiol},
title = {Commentary: Is structural equation modelling a step forward for epidemiologists?},
affiliation = {Biostatistics Unit, Centre for Epidemiology and Biostatistics, Leeds Institute for Genetics, Health and Therapeutics, and Leeds Dental Institute, University of Leeds, UK. y.k.tu@leeds.ac.uk},
number = {2},
pages = {549--51},
volume = {38},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Fetal Development, Young Adult, Male, Causality, Female, Models: Statistical, Blood Pressure, Models: Cardiovascular, Humans},
date-added = {2010-01-30 16:17:11 +0100},
date-modified = {2010-01-30 16:17:11 +0100},
doi = {10.1093/ije/dyn346},
pii = {dyn346},
pmid = {19153137},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tu-2009-Int%20J%20Epidemiol_Commentary%20Is%20struc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4694},
rating = {0}
}
@article{Romano:2007p4751,
author = {J P Romano and A M Shaikh and M Wolf},
title = {Formalized Data Snooping Based on Generalized Error Rates},
abstract = {It is common in econometric applications that several hypothesis tests are carried out simul- taneously. The problem then becomes how to decide which hypotheses to reject, accounting for the multitude of tests. The classical approach is to control the familywise error rate (FWE) which is the probability of one or more false rejections. But when the number of hypotheses under consideration is large, control of the FWE can become too demanding. As a result, the number of false hypotheses rejected may be small or even zero. This suggests replacing control of the FWE by a more liberal measure. To this end, we review a number of recent proposals from the statistical literature. We briefly discuss how these procedures apply to the general problem of model selection. A simulation study and two empirical applications illustrate the methods.},
year = {2007},
date-added = {2010-02-01 12:03:53 +0100},
date-modified = {2010-02-01 12:05:09 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Romano-2007-_Formalized%20Data%20Snoo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4751},
rating = {0}
}
@article{Spekle:2010p12298,
author = {Erwin M Spekle and Marco Jm Hoozemans and Birgitte M Blatter and Judith Heinrich and Allard J van der Beek and Dirk L Knol and Paulien M Bongers and Jaap H van Dieen},
journal = {BMC musculoskeletal disorders},
title = {Effectiveness of a questionnaire based intervention programme on the prevalence of arm, shoulder and neck symptoms, risk factors and sick leave in computer workers: A cluster randomised controlled trial in an occupational setting},
abstract = {ABSTRACT: BACKGROUND: Arm, shoulder and neck symptoms are very prevalent among computer workers. In an attempt to reduce these symptoms, a large occupational health service in the Netherlands developed a preventive programme on exposure to risk factors, prevalence of arm, shoulder and neck symptoms, and sick leave in computer workers. The purpose of this study was to assess the effectiveness of this intervention programme. METHODS: The study was a randomised controlled trial. The participants were assigned to either the intervention group or the usual care group by means of cluster randomisation. At baseline and after 12 months of follow-up, the participants completed the RSI QuickScan questionnaire on exposure to the risk factors and on the prevalence of arm, shoulder and neck symptoms. A tailor-made intervention programme was proposed to participants with a high risk profile at baseline. Examples of implemented interventions are an individual workstation check, a visit to the occupational health physician and an education programme on the prevention of arm, shoulder and neck symptoms. The primary outcome measure was the prevalence of arm, shoulder and neck symptoms. Secondary outcome measures were the scores on risk factors for arm, shoulder and neck symptoms and the number of days of sick leave. Sick leave data was obtained from the companies. Multilevel analyses were used to test the effectiveness. RESULTS: Of the 1,673 persons invited to participate in the study, 1,183 persons (71%) completed the baseline questionnaire and 741 persons participated at baseline as well as at 12-month follow-up. At 12-month follow-up, the intervention group showed a significant positive change (OR=0.48) in receiving information on healthy computer use, as well as a significant positive change regarding risk indicators for work posture and movement, compared to the usual care group. There were no significant differences in changes in the prevalence of arm, shoulder and neck symptoms or sick leave between the intervention and usual care group. CONCLUSIONS: The effects of the RSI QuickScan intervention programme were small, possibly as a result of difficulties with the implementation process of the proposed interventions. However, some significant positive effects were found as to an increase in receiving education and a decrease in exposure to adverse postures and movements. With regard to symptoms and sick leave, only small and non-significant effects were found. Trial registration Netherlands National Trial Register NTR1117.},
number = {1},
pages = {99},
volume = {11},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-06-09 20:57:11 +0200},
date-modified = {2010-07-29 19:20:35 +0200},
doi = {10.1186/1471-2474-11-99},
pii = {1471-2474-11-99},
pmid = {20507548},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spekle-2010-BMC%20musculoskeletal%20disorders_Effectiveness%20of%20a%20q.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12298},
rating = {0}
}
@article{Deary:2010p8901,
author = {Ian J Deary and Lars Penke and Wendy Johnson},
journal = {Nat Rev Neurosci},
title = {The neuroscience of human intelligence differences},
abstract = {Neuroscience is contributing to an understanding of the biological bases of human intelligence differences. This work is principally being conducted along two empirical fronts: genetics--quantitative and molecular--and brain imaging. Quantitative genetic studies have established that there are additive genetic contributions to different aspects of cognitive ability--especially general intelligence--and how they change through the lifespan. Molecular genetic studies have yet to identify reliably reproducible contributions from individual genes. Structural and functional brain-imaging studies have identified differences in brain pathways, especially parieto-frontal pathways, that contribute to intelligence differences. There is also evidence that brain efficiency correlates positively with intelligence.},
affiliation = {Centre for Cognitive Ageing and Cognitive Epidemiology, Department of Psychology, University of Edinburgh, Edinburgh, Scotland, UK. i.deary@ed.ac.uk},
number = {3},
pages = {201--11},
volume = {11},
year = {2010},
month = {Mar},
language = {eng},
keywords = {Humans, Cognition, Brain Mapping, Brain, Thinking, Individuality, Intelligence Tests, Intelligence, Learning},
date-added = {2010-03-22 12:51:52 +0100},
date-modified = {2010-03-22 12:51:52 +0100},
doi = {10.1038/nrn2793},
pii = {nrn2793},
pmid = {20145623},
url = {http://www.nature.com/nrn/journal/vaop/ncurrent/abs/nrn2793.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Deary-2010-Nat%20Rev%20Neurosci_The%20neuroscience%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8901},
rating = {0}
}
@article{Ramsay:2010p11865,
author = {Claire E Ramsay and Glen R Abedi and John D Marson and Michael T Compton},
journal = {J Psychiatr Res},
title = {Overview and initial validation of two detailed, multidimensional, retrospective measures of substance use: The Lifetime Substance Use Recall (LSUR) and Longitudinal Substance Use Recall for 12 Weeks (LSUR-12) Instruments},
abstract = {Research on comorbidities between substance use disorders and serious mental illnesses would be facilitated by new methods for collecting comprehensive data on substance use, including data on onset, progression, frequency, amounts, and consequential behaviors. Given substantial limitations of available instruments, and a nearly complete absence of methodologies that allow derivation of continuous measures that estimate dose or cumulative exposure, this report describes the development and initial validation of two interviewer-administered, multidimensional measures of substance use, the Lifetime Substance Use Recall (LSUR) and Longitudinal Substance Use Recall for 12 Weeks (LSUR-12) Instruments. Participants (n=60) in an ongoing study of first-episode psychosis were evaluated with the LSUR, LSUR-12, and a number of other concurrent measures pertaining to substance use, substance use disorder diagnoses, select demographic features, and two personality traits. Specific a priori hypothesis tests were selected to demonstrate validity, relying on effect sizes to estimate strengths of association, considering small-to-medium correlations (e.g., rho) as |.20-.50| and medium-to-large effect sizes as >|.50|. Numerous associations were observed between key nicotine-, alcohol-, and cannabis-related variables from the LSUR and LSUR-12 and scores from other concurrently administered measures. These findings provide a thorough initial validation of scores obtained with the new multidimensional instruments. Although validity of the two new measures of lifetime and past 12-week substance use was demonstrated, empirical data on inter-rater and test-retest reliability are needed. Careful development, and demonstration of psychometric properties, of these and related instruments may advance the fields of addiction and comorbidity research.},
affiliation = {Emory University School of Medicine, Department of Psychiatry and Behavioral Sciences, Atlanta, Georgia, United States.},
pages = {},
year = {2010},
month = {May},
language = {ENG},
date-added = {2010-05-23 11:48:47 +0200},
date-modified = {2010-05-23 11:49:03 +0200},
doi = {10.1016/j.jpsychires.2010.04.018},
pii = {S0022-3956(10)00128-7},
pmid = {20488461},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ramsay-2010-J%20Psychiatr%20Res_Overview%20and%20initial.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11865},
rating = {4}
}
@article{Steffens:2006p538,
author = {Michael Steffens and Claudia Lamina and Thomas Illig and Thomas Bettecken and Rainer Vogler and Patricia Entz and Eun-Kyung Suk and Mohammad Reza Toliat and Norman Klopp and Amke Caliebe and Inke R K{\"o}nig and Karola K{\"o}hler and Jan Ludemann and Amalia Diaz Lacava and Rolf Fimmers and Peter Lichtner and Andreas Ziegler and Andreas Wolf and Michael Krawczak and Peter N{\=u}rnberg and Jochen Hampe and Stefan Schreiber and Thomas Meitinger and H-Erich Wichmann and Kathryn Roeder and Thomas F Wienker and Max P Baur},
journal = {Hum Hered},
title = {SNP-based analysis of genetic substructure in the German population},
abstract = {OBJECTIVE: To evaluate the relevance and necessity to account for the effects of population substructure on association studies under a case-control design in central Europe, we analysed three samples drawn from different geographic areas of Germany. Two of the three samples, POPGEN (n = 720) and SHIP (n = 709), are from north and north-east Germany, respectively, and one sample, KORA (n = 730), is from southern Germany. METHODS: Population genetic differentiation was measured by classical F-statistics for different marker sets, either consisting of genome-wide selected coding SNPs located in functional genes, or consisting of selectively neutral SNPs from 'genomic deserts'. Quantitative estimates of the degree of stratification were performed comparing the genomic control approach [Devlin B, Roeder K: Biometrics 1999;55:997-1004], structured association [Pritchard JK, Stephens M, Donnelly P: Genetics 2000;155:945-959] and sophisticated methods like random forests [Breiman L: Machine Learning 2001;45:5-32]. RESULTS: F-statistics showed that there exists a low genetic differentiation between the samples along a north-south gradient within Germany (F(ST)(KORA/POPGEN): 1.7 . 10(-4); F(ST)(KORA/SHIP): 5.4 . 10(-4); F(ST)(POPGEN/SHIP): -1.3 . 10(-5)). CONCLUSION: Although the F(ST )-values are very small, indicating a minor degree of population structure, and are too low to be detectable from methods without using prior information of subpopulation membership, such as STRUCTURE [Pritchard JK, Stephens M, Donnelly P: Genetics 2000;155:945-959], they may be a possible source for confounding due to population stratification.},
affiliation = {Institute of Medical Biometry, Informatics and Epidemiology, Rheinische Friedrich-Wilhelms-University, Bonn, Germany. steffens@imbie.meb.uni-bonn.de},
number = {1},
pages = {20--9},
volume = {62},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Population Groups, Humans, Genome: Human, Genetics: Population, Case-Control Studies, Models: Genetic, Genetic Variation, Genotype, Germany},
date-added = {2010-01-03 14:02:34 +0100},
date-modified = {2010-01-03 14:02:34 +0100},
doi = {10.1159/000095850},
pii = {HHE2006062001020},
pmid = {17003564},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p538},
rating = {0}
}
@article{Telzer:2008p10193,
author = {Eva H Telzer and Karin Mogg and Brendan P Bradley and Xiaoqin Mai and Monique Ernst and Daniel S Pine and Christopher S Monk},
journal = {Biol Psychol},
title = {Relationship between trait anxiety, prefrontal cortex, and attention bias to angry faces in children and adolescents},
abstract = {Using event-related functional magnetic resonance imaging (fMRI) with a visual-probe task that assesses attention to threat, we investigated the cognitive and neurophysiological correlates of trait anxiety in youth. During fMRI acquisition, 16 healthy children and adolescents viewed angry-neutral face pairs and responded to a probe that was on the same (angry-congruent) or opposite (angry-incongruent) side as the angry face. Attention bias scores were calculated by subtracting participants' mean reaction time for angry-congruent trials from angry-incongruent trials. Trait anxiety was positively associated with attention bias towards angry faces. Neurophysiologically, trait anxiety was positively associated with right dorsolateral prefrontal cortex (PFC) activation on a contrast of trials that reflect the attention bias for angry faces (i.e. angry-incongruent versus angry-congruent trials). Trait anxiety was also positively associated with right ventrolateral PFC activation on trials with face stimuli (vesus baseline), irrespective of their emotional content.},
affiliation = {Department of Psychology, University of California, Los Angeles, CA, USA. ehtelzer@ucla.edu},
number = {2},
pages = {216--22},
volume = {79},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Anger, Child, Prefrontal Cortex, Photic Stimulation, Oxygen, Female, Bias (Epidemiology), Humans, Pattern Recognition: Visual, Image Processing: Computer-Assisted, Magnetic Resonance Imaging, Adolescent, Reaction Time, Facial Expression, Anxiety, Male, Attention},
date-added = {2010-04-01 18:16:43 +0200},
date-modified = {2010-04-01 18:16:47 +0200},
doi = {10.1016/j.biopsycho.2008.05.004},
pii = {S0301-0511(08)00125-7},
pmid = {18599179},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Telzer-2008-Biol%20Psychol_Relationship%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10193},
rating = {5}
}
@article{Roberts:2007p864,
author = {Robert E Roberts and Catherine Ramsay Roberts and Yun Xing},
journal = {J Psychiatr Res},
title = {Rates of DSM-IV psychiatric disorders among adolescents in a large metropolitan area},
abstract = {We present prevalence data for adolescents in a large metropolitan area in the US and the association of DSM-IV diagnoses to functional impairment and selected demographic correlates. We sampled 4175 youths aged 11-17 years from households enrolled in large health maintenance organizations. Data were collected using questionnaires and the Diagnostic Interview Schedule for Children, Version IV (DISC-IV). Impairment was measured using the Child Global Assessment Scale and diagnostic specific impairment in the DISC-IV. 17.1% of the sample met DSM-IV criteria for one or more disorders in the past year; 11% when only DISC impairment was considered and 5.3% only using the CGAS. The most prevalent disorders were anxiety (6.9%), disruptive (6.5%), and substance use (5.3%) disorders. The most prevalent specific disorders were agoraphobia, conduct and marijuana abuse/dependence, then alcohol use and oppositional defiant disorder. Younger youths and females had lower odds for any disorder, as did youths from two parent homes. There was increased odds associated with lower family income. Females had greater odds of mood and anxiety disorders, males of disruptive and substance use disorders. There were greater odds of mood and disruptive disorders for older youths. Prevalences were highly comparable to recent studies using similar methods in diverse non-metropolitan populations. We found associations with age, gender, and to a lesser extent, socioeconomic status reported in previous studies. The inclusion of both diagnosis-specific impairment and global impairment reduced prevalence rates significantly. Our results suggest commonality of prevalences and associated factors in diverse study settings, including urban and rural areas.},
affiliation = {Division of Behavioral Sciences, School of Public Health, The University of Texas, Health Sciences Center at Houston, 1200 Herman Pressler Dr., Houston, TX 77030, USA. Robert.E.Roberts@uth.tmc.edu},
number = {11},
pages = {959--67},
volume = {41},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Disability Evaluation, Alcoholism, Eating Disorders, Male, Mental Disorders, Urban Population, Socioeconomic Factors, Humans, Health Surveys, Substance-Related Disorders, Female, Mood Disorders, Diagnostic and Statistical Manual of Mental Disorders, Adolescent, Anxiety Disorders, Attention Deficit and Disruptive Behavior Disorders, Cross-Sectional Studies, Marijuana Abuse, Texas, Personality Assessment},
date-added = {2010-01-03 18:06:17 +0100},
date-modified = {2010-01-03 18:06:17 +0100},
doi = {10.1016/j.jpsychires.2006.09.006},
pii = {S0022-3956(06)00198-1},
pmid = {17107689},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p864},
rating = {0}
}
@article{Jenkins:1997a,
author = {R Jenkins and PE Bebbington and T Brugha and M Farrell and B Gill and G Lewis and H Meltzer and M Petticrew},
journal = {Psychol Med},
title = {National Psychiatric Morbidity Surveys of Great Britain--strategy and methods},
pages = {765--774},
volume = {27},
year = {1997},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 20:44:27 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1033},
rating = {0}
}
@article{Lee:2008p6650,
author = {Kirby Lee and Peter Bacchetti and Ida Sim},
journal = {PLoS Med},
title = {Publication of clinical trials supporting successful new drug applications: a literature analysis},
abstract = {BACKGROUND: The United States (US) Food and Drug Administration (FDA) approves new drugs based on sponsor-submitted clinical trials. The publication status of these trials in the medical literature and factors associated with publication have not been evaluated. We sought to determine the proportion of trials submitted to the FDA in support of newly approved drugs that are published in biomedical journals that a typical clinician, consumer, or policy maker living in the US would reasonably search. METHODS AND FINDINGS: We conducted a cohort study of trials supporting new drugs approved between 1998 and 2000, as described in FDA medical and statistical review documents and the FDA approved drug label. We determined publication status and time from approval to full publication in the medical literature at 2 and 5 y by searching PubMed and other databases through 01 August 2006. We then evaluated trial characteristics associated with publication. We identified 909 trials supporting 90 approved drugs in the FDA reviews, of which 43% (394/909) were published. Among the subset of trials described in the FDA-approved drug label and classified as "pivotal trials" for our analysis, 76% (257/340) were published. In multivariable logistic regression for all trials 5 y postapproval, likelihood of publication correlated with statistically significant results (odds ratio [OR] 3.03, 95% confidence interval [CI] 1.78-5.17); larger sample sizes (OR 1.33 per 2-fold increase in sample size, 95% CI 1.17-1.52); and pivotal status (OR 5.31, 95% CI 3.30-8.55). In multivariable logistic regression for only the pivotal trials 5 y postapproval, likelihood of publication correlated with statistically significant results (OR 2.96, 95% CI 1.24-7.06) and larger sample sizes (OR 1.47 per 2-fold increase in sample size, 95% CI 1.15-1.88). Statistically significant results and larger sample sizes were also predictive of publication at 2 y postapproval and in multivariable Cox proportional models for all trials and the subset of pivotal trials. CONCLUSIONS: Over half of all supporting trials for FDA-approved drugs remained unpublished >/= 5 y after approval. Pivotal trials and trials with statistically significant results and larger sample sizes are more likely to be published. Selective reporting of trial results exists for commonly marketed drugs. Our data provide a baseline for evaluating publication bias as the new FDA Amendments Act comes into force mandating basic results reporting of clinical trials.},
affiliation = {Department of Clinical Pharmacy, University of California San Francisco, San Francisco, California, USA.},
number = {9},
pages = {e191},
volume = {5},
year = {2008},
month = {Sep},
language = {eng},
keywords = {United States, Cohort Studies, PubMed, Bias (Epidemiology), Drug Approval, United States Food and Drug Administration, Clinical Trials as Topic, Periodicals as Topic, Databases as Topic, Humans},
date-added = {2010-03-03 20:36:26 +0100},
date-modified = {2010-07-29 19:43:47 +0200},
doi = {10.1371/journal.pmed.0050191},
pii = {08-PLME-RA-0452},
pmid = {18816163},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2008-PLoS%20Med_Publication%20of%20clini.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6650},
rating = {0}
}
@article{Everitt:1999p4938,
author = {B S Everitt and E T Bullmore},
journal = {Hum Brain Mapp},
title = {Mixture model mapping of the brain activation in functional magnetic resonance images},
abstract = {We report on a novel method of identifying brain regions activated by periodic experimental design in functional magnetic resonance imaging data. This involves fitting a mixture distribution with two components to a test statistic estimated at each voxel in an image. The two parameters of this distribution, the proportion of nonactivated voxels, and the effect size can be estimated using maximum likelihood methods. Standard errors of the parameters can also be estimated. The fitted distribution can be used to derive brain activation maps and two examples are described, one involving a visual stimulation task, the other an auditory stimulation task. The method appears to have some advantages over direct use of the P-values corresponding to each voxel's value of the test statistic.},
affiliation = {Department of Biostatistics and Computing, Institute of Psychiatry, London, UK. b.everitt@iop.bpmf.ac.uk},
number = {1},
pages = {1--14},
volume = {7},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Brain, Humans, Models: Neurological, Image Processing: Computer-Assisted, Mathematics, Brain Mapping, Acoustic Stimulation, Computer Simulation, Magnetic Resonance Imaging},
date-added = {2010-02-03 20:58:10 +0100},
date-modified = {2010-02-03 20:58:10 +0100},
pii = {10.1002/(SICI)1097-0193(1999)7:1<1::AID-HBM1>3.0.CO;2-H},
pmid = {9882086},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Everitt-1999-Hum%20Brain%20Mapp_Mixture%20model%20mappin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4938},
rating = {0}
}
@article{Scott:2010p14049,
author = {Neil W Scott and Peter M Fayers and Neil K Aaronson and Andrew Bottomley and Alexander de Graeff and Mogens Groenvold and Chad Gundy and Michael Koller and Morten A Petersen and Mirjam Ag Sprangers and Eortc Quality Of Life Group and Quality Of Life Cross-Cultural Meta-Analysis Group},
journal = {Health Qual Life Outcomes},
title = {Differential item functioning (DIF) analyses of health-related quality of life instruments using logistic regression},
abstract = {ABSTRACT: BACKGROUND: Differential item functioning (DIF) methods can be used to determine whether different subgroups respond differently to particular items within a health-related quality of life (HRQoL) subscale, after allowing for overall subgroup differences in that scale. This article reviews issues that arise when testing for DIF in HRQoL instruments. We focus on logistic regression methods, which are often used because of their efficiency, simplicity and ease of application. METHODS: A review of logistic regression DIF analyses in HRQoL was undertaken. Methodological articles from other fields and using other DIF methods were also included if considered relevant. RESULTS: There are many competing approaches for the conduct of DIF analyses and many criteria for determining what constitutes significant DIF. DIF in short scales, as commonly found in HRQL instruments, may be more difficult to interpret. Qualitative methods may aid interpretation of such DIF analyses. CONCLUSIONS: A number of methodological choices must be made when applying logistic regression for DIF analyses, and many of these affect the results. We provide recommendations based on reviewing the current evidence. Although the focus is on logistic regression, many of our results should be applicable to DIF analyses in general. There is a need for more empirical and theoretical work in this area.},
number = {1},
pages = {81},
volume = {8},
year = {2010},
month = {Aug},
language = {ENG},
date-added = {2010-08-10 12:44:49 +0200},
date-modified = {2010-08-10 12:44:53 +0200},
doi = {10.1186/1477-7525-8-81},
pii = {1477-7525-8-81},
pmid = {20684767},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Scott-2010-Health%20Qual%20Life%20Outcomes_Differential%20item%20fu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14049},
rating = {4}
}
@article{Akshoomoff:2006p8596,
author = {Natacha Akshoomoff},
journal = {Child Neuropsychol},
title = {Use of the Mullen Scales of Early Learning for the assessment of young children with Autism Spectrum Disorders},
abstract = {The psychological assessment is an important component of the diagnostic evaluation in young children suspected of having an Autism Spectrum Disorder but can be hampered by behavioral difficulties. Overt behaviors during administration of the Mullen Scales of Early Learning were coded in 22 preschoolers with an Autism Spectrum Disorder and 20 age-matched typically developing children. Children in the Autism Spectrum Disorder group required less time to complete the assessment but spent proportionally more time exhibiting off-task behaviors and less time engaged with the assessment. Scores obtained on the Mullen Scales were positively correlated with level of engagement and negatively correlated with off task behaviors.},
affiliation = {Department of Psychiatry, School of Medicine, University of California, San Diego, USA. natacha@ucsd.edu},
number = {4-5},
pages = {269--77},
volume = {12},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Time Factors, Autistic Disorder, Male, Diagnosis: Differential, Reference Values, Intelligence Tests, Videotape Recording, Neuropsychological Tests, Female, Child: Preschool, Child Behavior, Infant, Humans, Infant Behavior, Learning},
date-added = {2010-03-22 00:15:57 +0100},
date-modified = {2010-03-22 00:15:57 +0100},
doi = {10.1080/09297040500473714},
pii = {Q778PT217V25017U},
pmid = {16911972},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Akshoomoff-2006-Child%20Neuropsychol_Use%20of%20the%20Mullen%20Sc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8596},
rating = {0}
}
@article{Hamerly:2003p820,
author = {Greg Hamerly and Charles Elkan},
journal = {Proceedings of the NIPS 2003},
title = {Learning the k in k-means},
abstract = {When clustering a dataset, the right number k of clusters to use is often not obvious, and choosing k automatically is a hard algorithmic prob- lem. In this paper we present an improved algorithm for learning k while clustering. The G-means algorithm is based on a statistical test for the hypothesis that a subset of data follows a Gaussian distribution. G-means runs k-means with increasing k in a hierarchical fashion until the test ac- cepts the hypothesis that the data assigned to each k-means center are Gaussian. Two key advantages are that the hypothesis test does not limit the covariance of the data and does not compute a full covariance matrix. Additionally, G-means only requires one intuitive parameter, the stand- ard statistical significance level α. We present results from experiments showing that the algorithm works well, and better than a recent method based on the BIC penalty for model complexity. In these experiments, we show that the BIC is ineffective as a scoring function, since it does not penalize strongly enough the model's complexity.},
affiliation = {Department of Computer Science and Engineering University of California, San Diego La Jolla, California 92093-0114},
number = {AA36},
pages = {1--8},
year = {2003},
date-added = {2010-01-03 17:27:35 +0100},
date-modified = {2010-01-03 17:28:55 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hamerly-2003-Proceedings%20of%20the%20NIPS%202003_Learning%20the%20k%20in%20k.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p820},
rating = {0}
}
@article{Stevens:2000p9966,
author = {M C Stevens and D H Fein and L H Waterhouse},
journal = {J Clin Exp Neuropsychol},
title = {Season of birth effects in autism},
abstract = {This study examined a sample of preschool-age children with autism in an attempt to identify patterns of birth dates that deviated from expected frequencies by month or season. Birth dates of children with autism and those of a non-autistic sibling control group were compared to the number of total live births gathered from U.S. Census data. Analyses included two types of chi-square analyses and a seasonal harmonic trend analysis. Previously unmentioned in the literature is a seasonal effect finding for females within the entire sample, and both a seasonal and monthly effect for children classified as socially Passive by the Wing system. A significant elevation was also found in March within the Boston sub-sample (n = 37). This sample largely comprised low-functioning boys with autism, a finding consistent with previous findings in the literature. Peri-natal complications and early life development of the subjects from the Boston site are detailed.},
affiliation = {Department of Psychiatry, University of Connecticut Health Center, Farmington, CT 06030-2103, United States of America. stevens@psychiatry.uchc.edu},
number = {3},
pages = {399--407},
volume = {22},
year = {2000},
month = {Jun},
language = {eng},
keywords = {Case-Control Studies, Sex Distribution, Female, Pregnancy, Child: Preschool, Age Distribution, Male, Chi-Square Distribution, Humans, Seasons, Child, United States, Risk Factors, Autistic Disorder, Boston, Labor: Obstetric},
date-added = {2010-03-31 19:43:50 +0200},
date-modified = {2010-03-31 19:43:50 +0200},
pmid = {10855047},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stevens-2000-J%20Clin%20Exp%20Neuropsychol_Season%20of%20birth%20effe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9966},
rating = {0}
}
@article{Stranger:2007p4013,
author = {Barbara E Stranger and Matthew S Forrest and Mark Dunning and Catherine E Ingle and Claude Beazley and Natalie Thorne and Richard Redon and Christine P Bird and Anna de Grassi and Charles Lee and Chris Tyler-Smith and Nigel Carter and Stephen W Scherer and Simon Tavar{\'e} and Panagiotis Deloukas and Matthew E Hurles and Emmanouil T Dermitzakis},
journal = {Science},
title = {Relative impact of nucleotide and copy number variation on gene expression phenotypes},
abstract = {Extensive studies are currently being performed to associate disease susceptibility with one form of genetic variation, namely, single-nucleotide polymorphisms (SNPs). In recent years, another type of common genetic variation has been characterized, namely, structural variation, including copy number variants (CNVs). To determine the overall contribution of CNVs to complex phenotypes, we have performed association analyses of expression levels of 14,925 transcripts with SNPs and CNVs in individuals who are part of the International HapMap project. SNPs and CNVs captured 83.6% and 17.7% of the total detected genetic variation in gene expression, respectively, but the signals from the two types of variation had little overlap. Interrogation of the genome for both types of variants may be an effective way to elucidate the causes of complex phenotypes and disease in humans.},
affiliation = {Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.},
number = {5813},
pages = {848--53},
volume = {315},
year = {2007},
month = {Feb},
language = {eng},
keywords = {Haplotypes, Genomics, Genetic Variation, Phenotype, Linkage Disequilibrium, Gene Dosage, Gene Duplication, Genome: Human, Female, Gene Expression Regulation, Genetics: Population, Cell Line, Mutation, Gene Deletion, Polymorphism: Single Nucleotide, Regression Analysis, Humans, Male, Nucleic Acid Hybridization},
date-added = {2010-01-18 15:00:08 +0100},
date-modified = {2010-07-29 19:50:10 +0200},
doi = {10.1126/science.1136678},
pii = {315/5813/848},
pmid = {17289997},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4013},
rating = {0}
}
@article{Rushton:2009p13858,
author = {J Philippe Rushton and Trudy Ann Bons and Juko Ando and Yoon-Mi Hur and Paul Irwing and Philip A Vernon and K V Petrides and Claudio Barbaranelli},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {A general factor of personality from multitrait-multimethod data and cross-national twins},
abstract = {In three studies, a General Factor of Personality (GFP) was found to occupy the apex of the hierarchical structure. In Study 1, a GFP emerged independent of method variance and accounted for 54% of the reliable variance in a multitrait-multimethod assessment of 391 Italian high school students that used self-, teacher-, and parent-ratings on the Big Five Questionnaire - Children. In Study 2, a GFP was found in the seven dimensions of Cloninger's Temperament and Character Inventory as well as the Big Five of the NEO PI-R, with the GFPtci correlating r = .72 with the GFPneo. These results indicate that the GFP is practically the same in both test batteries, and its existence does not depend on being extracted using the Big Five model. The GFP accounted for 22% of the total variance in these trait measures, which were assessed in 651 pairs of 14- to 30-year-old Japanese twins. In Study 3, a GFP accounted for 32% of the total variance in nine scales derived from the NEO PI-R, the Humor Styles Questionnaire, and the Trait Emotional Intelligence Questionnaire assessed in 386 pairs of 18- to 74-year-old Canadian and U.S. twins. The GFP was found to be 50% heritable with high scores indicating openness, conscientiousness, sociability, agreeableness, emotional stability, good humor and emotional intelligence. The possible evolutionary origins of the GFP are discussed.},
affiliation = {University of Western Ontario, London, Canada. rushton@uwo.ca},
number = {4},
pages = {356--65},
volume = {12},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Humans, Male, Japan, Cross-Cultural Comparison, United States, Aged, Intelligence, Personality, Adolescent, Canada, Middle Aged, Adult, Twins, Temperament, Personality Assessment, Interpersonal Relations, Female},
date-added = {2010-07-29 17:43:48 +0200},
date-modified = {2010-07-29 17:43:48 +0200},
doi = {10.1375/twin.12.4.356},
pii = {10.1375/twin.12.4.356},
pmid = {19653836},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13858},
rating = {0}
}
@article{Kremen:2010p9777,
author = {William S Kremen and Elizabeth Prom-Wormley and Matthew S Panizzon and Lisa T Eyler and Bruce Fischl and Michael C Neale and Carol E Franz and Michael J Lyons and Jennifer Pacheco and Michele E Perry and Allison Stevens and J Eric Schmitt and Michael D Grant and Larry J Seidman and Heidi W Thermenos and Ming T Tsuang and Seth A Eisen and Anders M Dale and Christine Fennema-Notestine},
journal = {Neuroimage},
title = {Genetic and environmental influences on the size of specific brain regions in midlife: the VETSA MRI study},
abstract = {The impact of genetic and environmental factors on human brain structure is of great importance for understanding normative cognitive and brain aging as well as neuropsychiatric disorders. However, most studies of genetic and environmental influences on human brain structure have either focused on global measures or have had samples that were too small for reliable estimates. Using the classical twin design, we assessed genetic, shared environmental, and individual-specific environmental influences on individual differences in the size of 96 brain regions of interest (ROIs). Participants were 474 middle-aged male twins (202 pairs; 70 unpaired) in the Vietnam Era Twin Study of Aging (VETSA). They were 51-59 years old, and were similar to U.S. men in their age range in terms of sociodemographic and health characteristics. We measured thickness of cortical ROIs and volume of other ROIs. On average, genetic influences accounted for approximately 70% of the variance in the volume of global, subcortical, and ventricular ROIs and approximately 45% of the variance in the thickness of cortical ROIs. There was greater variability in the heritability of cortical ROIs (0.00-0.75) as compared with subcortical and ventricular ROIs (0.48-0.85). The results did not indicate lateralized heritability differences or greater genetic influences on the size of regions underlying higher cognitive functions. The findings provide key information for imaging genetic studies and other studies of brain phenotypes and endophenotypes. Longitudinal analysis will be needed to determine whether the degree of genetic and environmental influences changes for different ROIs from midlife to later life.},
affiliation = {Department of Psychiatry, University of California, San Diego, 9500 Gilman Drive (MC 0738), La Jolla, CA 92093, USA. wkremen@ucsd.edu},
number = {2},
pages = {1213--23},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Brain, Humans, Male, Environment, United States, Magnetic Resonance Imaging, Middle Aged, Aging, Image Processing: Computer-Assisted, Quality Control, Organ Size, Twins},
date-added = {2010-03-26 19:20:07 +0100},
date-modified = {2010-03-26 19:20:07 +0100},
doi = {10.1016/j.neuroimage.2009.09.043},
pii = {S1053-8119(09)01022-2},
pmid = {19786105},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9777},
rating = {0}
}
@article{Zheng:2008p13922,
author = {L Zheng and L R Goldberg and Y Zheng and Y Zhao and Y Tang and L Liu},
journal = {Personality and Individual Differences},
title = {Reliability and concurrent validation of the IPIP Big-Five factor markers in China: Consistencies in factor structure between Internet-obtained heterosexual and homosexual samples},
abstract = {Previous studies have suggested the cross-cultural generalizability of a 5-factor structure for personality traits. In this article, we analyzed the utility of 2 versions (100-item and 50-item) of the IPIP Big-Five fac- tor markers in both heterosexual (N = 633) and homosexual (N = 437) samples in China. Factor analysis within versions showed that both versions of these IPIP measures showed clear 5-factor orthogonal struc- tures that were nearly identical to the American structure in both subject samples. The reliabilities of the five factors were quite high except for the 50-item measure of Agreeableness. The part-whole correla- tions between the 100-item and 50-item factors were high, as were the factor congruence coefficients between the heterosexual and the homosexual samples. Both versions of the IPIP Big-Five factor markers were strongly correlated with the scales from the Big-Five Inventory (BFI: John, Donahue, {\&} Kentle, 1991), thus providing some concurrent validation in a Chinese context.},
pages = {649--654},
volume = {45},
year = {2008},
date-added = {2010-07-29 18:46:26 +0200},
date-modified = {2010-07-29 18:47:41 +0200},
doi = {10.1016/j.paid.2008.07.009},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zheng-2008-Personality%20and%20Individual%20Differences_Reliability%20and%20conc.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13922},
rating = {0}
}
@article{Gelman:2004p6232,
author = {A Gelman},
journal = {Journal of Computational and Graphical Statistics},
title = {Exploratory Data Analysis for Complex Models},
abstract = {``Exploratory'' and ``confirmatory'' data analysis can both be viewed as methods for comparing observed data to what would be obtained under an implicit or explicit statistical model. For example, many of Tukey's methods can be interpreted as checks against hy- pothetical linear models and Poisson distributions. In more complex situations, Bayesian methods can be useful for constructing reference distributions for various plots that are useful in exploratory data analysis. This article proposes an approach to unify exploratory data analysis with more formal statistical methods based on probability models. These ideas are developed in the context of examples from fields including psychology, medicine, and social science.},
number = {4},
pages = {755--779},
volume = {13},
year = {2004},
date-added = {2010-02-19 20:39:22 +0100},
date-modified = {2010-05-23 17:30:33 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gelman-2004-Journal%20of%20Computational%20and%20Graphical%20Statistics_Exploratory%20Data%20Ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6232},
read = {Yes},
rating = {0}
}
@article{Blaschko:2008p10350,
author = {M B Blaschko and C H Lampert and A Gretton},
title = {Semi-Supervised Laplacian Regularization of Kernel Canonical Correlation Analysis},
abstract = {Kernel canonical correlation analysis (KCCA) is a dimen- sionality reduction technique for paired data. By finding directions that maximize correlation, KCCA learns representations that are more closely tied to the underlying semantics of the data rather than noise. However, meaningful directions are not only those that have high correlation to an- other modality, but also those that capture the manifold structure of the data. We propose a method that is simultaneously able to find highly correlated directions that are also located on high variance directions along the data manifold. This is achieved by the use of semi-supervised Laplacian regularization of KCCA. We show experimentally that Lapla- cian regularized training improves class separation over KCCA with only Tikhonov regularization, while causing no degradation in the correlation between modalities. We propose a model selection criterion based on the Hilbert-Schmidt norm of the semi-supervised Laplacian regularized cross-covariance operator, which we compute in closed form.},
year = {2008},
date-added = {2010-04-02 18:19:55 +0200},
date-modified = {2010-04-02 18:20:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Blaschko-2008-_Semi-Supervised%20Lapl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10350},
rating = {0}
}
@article{Resnick:2000p5620,
author = {B Resnick and S I Zimmerman and D Orwig and A L Furstenberg and J Magaziner},
journal = {J Gerontol B Psychol Sci Soc Sci},
title = {Outcome expectations for exercise scale: utility and psychometrics},
abstract = {OBJECTIVES: The purpose of this study was to develop a measure of outcome expectations for exercise specifically for the older adult (The Outcome Expectations for Exercise [OEE] Scale), and to test the reliability and validity of this measure in a sample of older individuals. This scale was developed based on Bandura's theory of self-efficacy and the work of prior researchers in the development of measures of outcome expectations. METHODS: The OEE scale, which was completed during a face-to-face interview, was tested in a sample of 175 residents in a continuing care retirement community. RESULTS: There was support for the internal consistency of the OEE scale (alpha coefficient of .89), and some support for reliability based on a structural equation modeling approach that used R2 estimates, although less than half of these were greater than 0.5. There was evidence of validity of the measure based on: (a) a confirmatory factor analysis in which the model fit the data (normed fit index [NFI] = .99, root mean square error of approximation [RMSEA] - .07, chi2/df = 2.8); (b) support for the hypothesis that those who exercised regularly had higher OEE scores than those who did not (F = 31.3, p < .05, eta squared = .15); and (c) a statistically significant relationship between outcome expectations and self-efficacy expectations (r = .66). DISCUSSION: This study provides some initial support for the reliability and validity of the OEE scale. Outcome expectations for exercise were related to exercise behavior in the older adult, and the OEE scale can help identify older adults with low outcome expectations for exercise. Interventions can then be implemented to help these individuals strengthen their outcome expectations, which may subsequently improve exercise behavior.},
affiliation = {School of Nursing, University of Maryland at Baltimore 21201, USA. bresnick@umaryland.edu},
number = {6},
pages = {S352--6},
volume = {55},
year = {2000},
month = {Nov},
language = {eng},
keywords = {Treatment Outcome, Bias (Epidemiology), Female, Self Efficacy, Likelihood Functions, Health Knowledge: Attitudes: Practice, Health Behavior, Aged: 80 and over, Exercise Therapy, Attitude to Health, Aged, Questionnaires, Humans, Male, Psychometrics, Factor Analysis: Statistical},
date-added = {2010-02-12 15:53:38 +0100},
date-modified = {2010-02-12 15:53:38 +0100},
pmid = {11078112},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5620},
rating = {0}
}
@book{Someren:1994,
author = {MW van Someren and YF Barnard and JAC Sandberg},
journal = {Book},
title = {The think-aloud method: A practical guide to modelling cognitive processes},
year = {1994},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p928},
rating = {0}
}
@article{Badia:2002p6383,
author = {X Badia and L Prieto and M Roset and A D{\'\i}ez-P{\'e}rez and M Herdman},
journal = {Journal of Clinical Epidemiology},
title = {Development of a short osteoporosis quality of life questionnaire by equating items from two existing instruments},
abstract = {This study aimed to develop a short Osteoporosis-Specific Quality of Life Questionnaire based on the assemblage (equating) of the items of two existing questionnaires (OQLQ and QUALEFFO). For this purpose, each questionnaire was administered by random assignment to a different group of female patients (OQLQ, n = 172; QUALEFFO, n = 166) with vertebral fractures due to osteoporosis. A common anchor test (SF-36) was also given to both groups. Seven different sets of OQLQ-QUALEFFO common items were defined by inspecting their own correlation with the scores of the eight dimensions of the SF-36. Within each set, equating consisted in connecting the OQLQ and QUALEFFO through their link with the SF-36. Equating was carried out through the Rasch mathematical model. Quantitative (item statistics) and qualitative reductions (expert opinion) of the equated sets resulted in a 16-item questionnaire. Although the new instrument requires further empirical validation, it provides a promising alternative to currently existing longer questionnaires for use in clinical practice.},
affiliation = {Cochrane Foundation, Outcomes Research Unit, Hospital de la Santa Creu i Sant Pau, Barcelona, Spain. xbadia@hor-europe.com},
number = {1},
pages = {32--40},
volume = {55},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Middle Aged, Female, Questionnaires, Psychometrics, Aged, Activities of Daily Living, Health Status, Osteoporosis, Quality of Life, Humans},
date-added = {2010-02-23 08:23:47 +0100},
date-modified = {2010-02-23 08:23:47 +0100},
pii = {S0895435601004322},
pmid = {11781120},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Badia-2002-Journal%20of%20Clinical%20Epidemiology_Development%20of%20a%20sho.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6383},
rating = {0}
}
@article{Benjamini:2002,
author = {Y Benjamini and H Braun},
journal = {The Annals of Statistics},
title = {John W. Tukey's contributions to multiple comparisons},
number = {6},
pages = {1576--1594},
volume = {30},
year = {2002},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Benjamini-2002-The%20Annals%20of%20Statistics_John%20W.%20Tukey's%20cont.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2078},
rating = {0}
}
@article{Lau:2009p5771,
author = {Jennifer Y F Lau and David Goldman and Beata Buzas and Colin Hodgkinson and Ellen Leibenluft and Eric Nelson and Lindsey Sankin and Daniel S Pine and Monique Ernst},
journal = {Neuroimage},
title = {BDNF gene polymorphism (Val66Met) predicts amygdala and anterior hippocampus responses to emotional faces in anxious and depressed adolescents},
abstract = {A polymorphism of the human Brain Derived Neurotrophic Factor (BDNF) gene that produces a valine-to-methionine substitution at codon 66 (Val66Met) is linked to adult anxiety and mood disorders, possibly through effects on brain circuitry function. Associations between BDNF gene variants and brain activity have not been explored in anxious and depressed adolescents. The current study investigated the association between BDNF genotype and amygdala-hippocampal responses to emotional stimuli in adolescents with anxiety disorders and/or major depressive disorder (MDD) and in healthy adolescents. Twenty-seven unmedicated patients with acutely-impairing current anxiety disorders and/or MDD and 31 healthy adolescents, matched on age, gender and IQ, rated their fear of fearful, angry, neutral and happy facial expressions during collection of fMRI data on the amygdala and hippocampus. Left and right amygdala and hippocampal responses were analyzed using repeated-measures analyses of variance models, with diagnosis (patients, healthy) and genotype (Met-carriers, Val/Val homozygotes) as between-group factors and facial expression (fearful, angry, neutral, happy) as a within-subject factor. Significant effects of diagnosis and diagnosis-by-genotype interactions (F's>4, p's<0.05) characterized activations in amygdala and anterior hippocampal regions. Greater activations in patients than healthy adolescents were found. Critically, these hyperactivations were modulated by BDNF genotype: Met-carriers showed greater neural responses of emotional faces than Val/Val homozygotes in patients only. These data are first to demonstrate the contribution of BDNF gene variants to the neural correlates of adolescent anxiety and depression. Early "gene-brain" linkages may lay the foundation for longer-term patterns of neural dysfunction in affective disorders.},
affiliation = {Department of Experimental Psychology, University of Oxford, South Parks Road, Oxford OX1 3UD, UK; Mood and Anxiety Disorders Program, National Institute of Mental Health, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD 20892, USA.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-02-17 10:07:17 +0100},
date-modified = {2010-02-17 10:07:18 +0100},
doi = {10.1016/j.neuroimage.2009.11.026},
pii = {S1053-8119(09)01210-5},
pmid = {19931400},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lau-2009-Neuroimage_BDNF%20gene%20polymorphi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5771},
read = {Yes},
rating = {0}
}
@article{Chon:2006p10906,
author = {K H Chon and Y Nozawa and S Zhang},
title = {Posterior Predictive Checking of Unidimensional Item Response Theory Models},
abstract = {This study applies the posterior predictive model checking (PPMC) method (Rubin,
1984) to assess the fit of unidimensional item response theory (IRT) models for binary responses, and examines the performance of several discrepancy measures for assessing different aspects of model misfit. One dataset was generated from the three parameter logistic (3PL) model, which was then fit with the one parameter logistic (1PL), two parameter logistic (2PL), and 3PL models. The performance of the discrepancy measures examined in this study suggests that different measures detect different aspects of model misfit and that the choice of measures depends on the context and the aspects of fit to be assessed.},
year = {2006},
date-added = {2010-04-11 13:51:56 +0200},
date-modified = {2010-04-11 13:52:32 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chon-2006-_Posterior%20Predictive.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10906},
rating = {0}
}
@article{Sarkar:2003p2438,
author = {D Sarkar},
journal = {Proceedings of the 3rd International Workshop on Distributed Statistical Computing (DSC 2003)},
title = {Some Notes on lattice},
abstract = {Trellis Graphics is implemented in S-PLUS using the traditional S graph- ics engine. In contrast, lattice, the implementation of Trellis Graphics in R, uses grid graphics as the underlying mechanism. Being an independent implementation, lattice differs from the original in several other aspects as well. Most of the literature available on Trellis Graphics describes the imple- mentation in S-PLUS. This paper attempts to supplement that material by giving an overview of the major differences between the two.
In section 2 we discuss the benefits of using grid and provide some ex- amples illustrating its usefulness. In section 3 we discuss some differences between the Trellis and lattice user level API's. An elementary knowledge of Trellis Graphics is assumed.},
year = {2003},
date-added = {2010-01-11 23:47:56 +0100},
date-modified = {2010-01-11 23:48:28 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sarkar-2003-Proceedings%20of%20the%203rd%20International%20Workshop%20on%20Distributed%20Statistical%20Computing%20(DSC%202003)_Some%20Notes%20on%20lattic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2438},
rating = {0}
}
@article{Zumbo:2007p917,
author = {Bruno D Zumbo and A M Gadermann and C Zeisser},
journal = {Journal of Modern Applied Statistical Methods},
title = {Ordinal Versions of Coefficients Alpha and Theta For Likert Rating Scales},
abstract = {Two new reliability indices, ordinal coefficient alpha and ordinal coefficient theta, are introduced. A simulation study was conducted in order to compare the new ordinal reliability estimates to each other and to coefficient alpha with Likert data. Results indicate that ordinal coefficients alpha and theta are consistently suitable estimates of the theoretical reliability, regardless of the magnitude of the theoretical reliability, the number of scale points, and the skewness of the scale point distributions. In contrast, coefficient alpha is in general a negatively biased estimate of reliability. The use of ordinal coefficients alpha and theta as alternatives to coefficient alpha when estimating the reliability based on Likert response items are recommended. The choice between the two ordinal coefficients depends on whether one is assuming a factor analysis model (ordinal coefficient alpha) or a principal components analysis model (ordinal coefficient theta).},
pages = {21--29},
volume = {6},
year = {2007},
keywords = {coefficient theta, Internal consistency, reliability, coefficient alpha},
date-added = {2010-01-03 19:02:11 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zumbo-2007-Journal%20of%20Modern%20Applied%20Statistical%20Methods_Ordinal%20Versions%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p917},
rating = {3}
}
@article{Zaitlen:2007p3874,
author = {Noah Zaitlen and Hyun Min Kang and Eleazar Eskin and Eran Halperin},
journal = {Am J Hum Genet},
title = {Leveraging the HapMap correlation structure in association studies},
abstract = {Recent high-throughput genotyping technologies, such as the Affymetrix 500k array and the Illumina HumanHap 550 beadchip, have driven down the costs of association studies and have enabled the measurement of single-nucleotide polymorphism (SNP) allele frequency differences between case and control populations on a genomewide scale. A key aspect in the efficiency of association studies is the notion of "indirect association," where only a subset of SNPs are collected to serve as proxies for the uncollected SNPs, taking advantage of the correlation structure between SNPs. Recently, a new class of methods for indirect association, multimarker methods, has been proposed. Although the multimarker methods are a considerable advancement, current methods do not fully take advantage of the correlation structure between SNPs and their multimarker proxies. In this article, we propose a novel multimarker indirect-association method, WHAP, that is based on a weighted sum of the haplotype frequency differences. In contrast to traditional indirect-association methods, we show analytically that there is a considerable gain in power achieved by our method compared with both single-marker and multimarker tests, as well as traditional haplotype-based tests. Our results are supported by empirical evaluation across the HapMap reference panel data sets, and a software implementation for the Affymetrix 500k and Illumina HumanHap 550 chips is available for download.},
affiliation = {Bioinformatics Program, University of California-San Diego, La Jolla, CA, USA.},
number = {4},
pages = {683--91},
volume = {80},
year = {2007},
month = {Apr},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Genotype, Genetic Markers, Software, Gene Frequency, Databases: Genetic, Oligonucleotide Array Sequence Analysis, Humans, Models: Genetic, Genomics, Haplotypes},
date-added = {2010-01-16 21:03:30 +0100},
date-modified = {2010-01-16 21:03:30 +0100},
doi = {10.1086/513109},
pii = {S0002-9297(07)61107-0},
pmid = {17357074},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3874},
rating = {0}
}
@article{Lal:2004p3536,
author = {T N Lal and O Chapelle and J Weston and A Elisseeff},
title = {Embedded Methods},
year = {2004},
date-added = {2010-01-15 20:52:15 +0100},
date-modified = {2010-01-15 20:53:10 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lal-2004-_Embedded%20Methods.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3536},
rating = {0}
}
@article{Heeger:1997p4641,
author = {D Heeger},
title = {Signal Detection Theory},
year = {1997},
date-added = {2010-01-30 15:49:19 +0100},
date-modified = {2010-01-30 15:49:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heeger-1997-_Signal%20Detection%20The.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4641},
rating = {0}
}
@article{Zumbo:2002p4621,
author = {Bruno D Zumbo},
journal = {Journal of Modern Applied Statistical Methods},
title = {An adaptative inference strategy: The case of auditory data},
number = {1},
pages = {61--68},
volume = {1},
year = {2002},
date-added = {2010-01-30 15:29:06 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zumbo-2002-Journal%20of%20Modern%20Applied%20Statistical%20Methods_An%20adaptative%20infere.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4621},
rating = {0}
}
@article{Mathes:2009p3096,
author = {Wendy Foulds Mathes and Kimberly A Brownley and Xiaofei Mo and Cynthia M Bulik},
journal = {Appetite},
title = {The biology of binge eating},
abstract = {OBJECTIVE: To examine the literature on binge eating to gain a better understanding of its biological foundations and their role in eating disorders. METHOD: Literature review and synthesis. RESULTS: Research using animal models has revealed several factors that contribute to the development and maintenance of binge eating. These factors, including stress, food restriction, the presence of palatable foods, and environmental conditioning, parallel many of the precursory circumstances leading to binge eating in individuals with bulimia nervosa and binge eating disorder. DISCUSSION: The animal literature has opened a new avenue to aid in the understanding of the neurobiological basis of binge eating. Future endeavors examining the genetic and environmental correlates of binge eating behavior will further contribute to the understanding of the biological foundations of binge eating and assist with establishing diagnostic criteria and the development of novel treatments for eating disorders marked by binge eating.},
affiliation = {Department of Psychiatry, University of North Carolina at Chapel Hill, NC 27599-7160, United States.},
number = {3},
pages = {545--53},
volume = {52},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Humans, Bulimia, Stress: Psychological, Taste, Environment, Dopamine, Food Preferences, Behavior: Addictive, Analgesics: Opioid, Hyperphagia, Disease Models: Animal, Animals, Food Deprivation, Bulimia Nervosa},
date-added = {2010-01-14 19:55:45 +0100},
date-modified = {2010-07-29 19:15:30 +0200},
doi = {10.1016/j.appet.2009.03.005},
pii = {S0195-6663(09)00050-6},
pmid = {19501749},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3096},
rating = {0}
}
@article{Pearson:1901p4105,
author = {K Pearson},
title = {On lines and planes of closest fit to systems of points in space},
year = {1901},
date-added = {2010-01-19 23:44:11 +0100},
date-modified = {2010-01-20 22:07:19 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pearson-1901-_On%20lines%20and%20planes.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4105},
read = {Yes},
rating = {0}
}
@article{Canli:2009p5777,
author = {T Canli and J Ferri and E A Duman},
journal = {Neuroscience},
title = {Genetics of emotion regulation},
abstract = {Emotions can be powerful drivers of behavior that may be adaptive or maladaptive for the individual. Thus, the ability to alter one's emotions, to regulate them, should be beneficial to an individual's success of survival and fitness. What is the biological basis of this ability? And what are the biological mechanisms that impart individual differences in the ability to regulate emotion? In this article, we will first introduce readers to the construct of emotion regulation, and the various strategies that individuals may utilize to regulate their emotions. We will then point to evidence that suggests genetic contributions (alongside environmental contributions) to individual differences in emotion regulation. To date, efforts to identify specific genetic mechanisms involved in emotion regulation have focused on common gene variants (i.e. variants that exist in >1% of the population, referred to as polymorphisms) and their association with specific emotion regulation strategies or the neural substrate mediating these strategies. We will discuss these efforts, and conclude with a call to expand the set of experimental paradigms and putative molecular mechanisms, in order to significantly advance our understanding of the molecular mechanisms by which genes are involved in emotion regulation.},
affiliation = {Department of Psychology, Stony Brook University, Stony Brook, NY 11794-2500, USA. turhan.canli@sunysb.edu},
number = {1},
pages = {43--54},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Humans, Phenotype, Animals, Emotions, Environment},
date-added = {2010-02-17 10:08:31 +0100},
date-modified = {2010-02-17 10:08:31 +0100},
doi = {10.1016/j.neuroscience.2009.06.049},
pii = {S0306-4522(09)01074-4},
pmid = {19559759},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Canli-2009-Neuroscience_Genetics%20of%20emotion.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5777},
rating = {0}
}
@article{Smith:2004p3557,
author = {Michael W Smith and Nick Patterson and James A Lautenberger and Ann L Truelove and Gavin J McDonald and Alicja Waliszewska and Bailey D Kessing and Michael J Malasky and Charles Scafe and Ernest Le and Philip L De Jager and Andre A Mignault and Zeng Yi and Guy De The and Myron Essex and Jean-Louis Sankale and Jason H Moore and Kwabena Poku and John P Phair and James J Goedert and David Vlahov and Scott M Williams and Sarah A Tishkoff and Cheryl A Winkler and Francisco M De La Vega and Trevor Woodage and John J Sninsky and David A Hafler and David M Altshuler and Dennis A Gilbert and Stephen J O'Brien and David Reich},
journal = {Am J Hum Genet},
title = {A high-density admixture map for disease gene discovery in african americans},
abstract = {Admixture mapping (also known as "mapping by admixture linkage disequilibrium," or MALD) provides a way of localizing genes that cause disease, in admixed ethnic groups such as African Americans, with approximately 100 times fewer markers than are required for whole-genome haplotype scans. However, it has not been possible to perform powerful scans with admixture mapping because the method requires a dense map of validated markers known to have large frequency differences between Europeans and Africans. To create such a map, we screened through databases containing approximately 450000 single-nucleotide polymorphisms (SNPs) for which frequencies had been estimated in African and European population samples. We experimentally confirmed the frequencies of the most promising SNPs in a multiethnic panel of unrelated samples and identified 3011 as a MALD map (1.2 cM average spacing). We estimate that this map is approximately 70% informative in differentiating African versus European origins of chromosomal segments. This map provides a practical and powerful tool, which is freely available without restriction, for screening for disease genes in African American patient cohorts. The map is especially appropriate for those diseases that differ in incidence between the parental African and European populations.},
affiliation = {Laboratory of Genomic Diversity, National Cancer Institute, Frederick, MD, USA.},
number = {5},
pages = {1001--13},
volume = {74},
year = {2004},
month = {May},
language = {eng},
keywords = {Haplotypes, Genetics: Population, Genetic Markers, Gene Frequency, Alleles, Polymorphism: Single Nucleotide, Linkage Disequilibrium, Genetic Diseases: Inborn, African Americans, Chromosome Mapping, European Continental Ancestry Group, Microsatellite Repeats, Humans, Ethnic Groups, Genome: Human},
date-added = {2010-01-15 21:12:36 +0100},
date-modified = {2010-07-29 20:21:03 +0200},
doi = {10.1086/420856},
pii = {S0002-9297(07)64364-X},
pmid = {15088270},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-2004-Am%20J%20Hum%20Genet_A%20high-density%20admix.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3557},
rating = {0}
}
@article{Rouder:2005,
author = {J N Rouder and J Lu and P Speckman and D Sun and Y Jiang},
journal = {Psychon Bull Rev},
title = {A hierarchical model for estimating response time distributions},
number = {2},
pages = {195--223},
volume = {12},
year = {2005},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rouder-2005-Psychonomic%20Bulletin%20&%20Review_A%20hierarchical%20model.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1972},
rating = {0}
}
@article{Verstralen:2000ab,
author = {H H F M Verstralen and N D Verhelst and Timo M Bechger},
title = {A DOUBLE HAZARD MODEL FOR MENTAL SPEED},
abstract = {The administration of tests via the computer allows the registration of response times along with the actual response. This paper describes a model that combines these two kinds of data to estimate a subject latent variable usually called mental speed, but more appropriately called mental power. The model implies that the expected item score increases with invested time. Nevertheless, it allows for a decreasing expected item score with response time, which is sometimes found in experiments. This paradox is obtained by assuming that a subject not only stops working on a problem because of time pressure, but also when he has solved the problem. The model builds on a familiar framework of IRT models. An MML estimation procedure is developed, and model fit on the item level is evaluated using Lagrange multiplier tests.},
year = {2000},
month = {Mar},
date-added = {2010-01-03 19:39:03 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verstralen-2000-_A%20DOUBLE%20HAZARD%20MODE.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1201},
rating = {0}
}
@article{Prestwich:2001p4277,
author = {S Prestwich},
title = {Balanced incomplete block design as satisfiability},
year = {2001},
date-added = {2010-01-23 22:05:57 +0100},
date-modified = {2010-01-23 22:06:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prestwich-2001-_Balanced%20incomplete.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4277},
rating = {0}
}
@article{Adams:2002p13981,
author = {P Adams and M D Hurd and D McFadden and A Merrill and T Ribeiro},
journal = {Journal of Econometrics},
title = {Healthy, Wealthy, and Wise? Tests for Direct Causal Paths between Health and Socioeconomic Status},
abstract = {This paper provides statistical methods that permit the association of socioeconomic status and health to be partially unraveled in panel data by excluding some postulated causal paths, or delimiting their range of action. These methods are applied to the Asset and Health Dynamics of the Oldest Old (AHEAD) Panel to test for the absence of causal links from socioeconomic status (SES) to health innovations and mortality, and from health conditions to innovations in wealth. We conclude that in this elderly American population, where Medicare covers most acute care and pension income is not affected by ability to work, the evidence supports the hypothesis of no direct causal link from SES to mortality and to incidence of most sudden onset health conditions (accidents and some acute conditions), once initial health conditions are controlled, but there is some association of SES with incidence of gradual onset health conditions (mental conditions, and some degenerative and chronic conditions), due either to causal links or to persistent unobserved behavioral or genetic factors that have a common influence on both SES and innovations in health. There is mixed evidence for an association of health conditions and innovations in wealth. The death of a spouse appears to have a negative effect on the wealth of the survivor; this is plausibly a direct causal effect. There is evidence for some association of health conditions with increased dissaving from liquid wealth for intact couples and singles. From these findings, we conclude that there is no evidence that SES-linked therapies for acute diseases induce mortality differentials. The question of whether SES-linked preventative care influences onset of chronic and mental diseases remains open. The Appendix to this paper containing the detailed model estimates, the data, and the programs used for data preparation and estimation, can be found at http://elsa.berkeley.edu/wp/hww/hww202.html .},
year = {2002},
date-added = {2010-07-30 21:31:33 +0200},
date-modified = {2010-07-30 21:32:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Adams-2002-Journal%20of%20Econometrics_Healthy%20Wealthy%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13981},
rating = {0}
}
@article{Grice:1975p3639,
author = {H P Grice},
title = {Logic and Conversation},
year = {1975},
date-added = {2010-01-16 19:42:17 +0100},
date-modified = {2010-01-16 19:43:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Grice-1975-_Logic%20and%20Conversati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3639},
rating = {0}
}
@article{Lecoutre:2005p11763,
author = {B Lecoutre and J Poitevineau and M P Lecoutre},
journal = {Modulad},
title = {Une raison pour ne pas abandonner les tests de signification de l'hypoth{\`e}se nulle},
abstract = {On montre que l'on peut directement calculer un intervalle pour un contraste entre moyennes, ́etant donn ́e seulement la valeur observ ́ee du contraste et la statistique de test t ou F associ ́e (ou encore, de mani`ere ́equivalente le seuil observ ́e correspondant : ``p-value''). Cet intervalle peut ˆetre vu comme un intervalle de confiance fr ́equentiste ou comme un intervalle de cr ́edibilit ́e bay ́esien ou comme un intervalle fiduciaire. Cela donne aux utilisateurs des tests de signification usuels la possibilit ́e d'une transition facile vers des pratiques statistiques plus appropri ́ees. On met en avant les liens conceptuels entre les tests et les intervalles de confiance ou de cr ́edibilit ́e},
number = {33},
pages = {243--248},
year = {2005},
date-added = {2010-05-23 10:10:58 +0200},
date-modified = {2010-07-29 19:40:18 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lecoutre-2005-Modulad_Une%20raison%20pour%20ne%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11763},
rating = {0}
}
@article{Boelle:2005p3343,
author = {P Y Bo{\"e}lle},
title = {Statistical and computational methods for haplotype reconstruction},
year = {2005},
date-added = {2010-01-15 12:17:37 +0100},
date-modified = {2010-01-15 12:18:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bo%C3%ABlle-2005-_Statistical%20and%20comp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3343},
rating = {0}
}
@article{Naqvi:2007p1294,
author = {N Naqvi and B Shiv and A Bechara},
journal = {Current Directions in Psychological Science},
title = {The role of emotion in decision making. A cognitive neuroscience perspective},
abstract = {Decision making often occurs in the face of uncertainty about whether one's choices will lead to benefit or harm. The somatic-marker hypothesis is a neurobiological theory of how decisions are made in the face of uncertain outcome. This theory holds that such decisions are aided by emotions, in the form of bodily states, that are elicited during the deliberation of future consequences and that mark different options for behavior as being advantageous or disadvantageous. This process involves an interplay between neural systems that elicit emotional/ bodily states and neural systems that map these emotional/ bodily states.},
affiliation = {Division of Cognitive Neuroscience, Department of Neurology, University of Iowa College of Medicine},
number = {5},
pages = {260--264},
volume = {15},
year = {2007},
keywords = {frontal lobes, decision making, emotion, neuropsychology, neuroeconomics},
date-added = {2010-01-07 11:27:36 +0100},
date-modified = {2010-01-07 11:31:09 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Naqvi-2007-Current%20Directions%20in%20Psychological%20Science_The%20role%20of%20emotion.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1294},
rating = {0}
}
@article{Middeldorp:2007p12628,
author = {Christel M Middeldorp and Eco J C de Geus and A Leo Beem and Nico Lakenberg and Jouke-Jan Hottenga and P Eline Slagboom and Dorret I Boomsma},
journal = {Behav Genet},
title = {Family based association analyses between the serotonin transporter gene polymorphism (5-HTTLPR) and neuroticism, anxiety and depression},
abstract = {We studied the association between the short/long promotor-based length polymorphism of the serotonin transporter gene (5-HTTLPR) and neuroticism, anxiety and depression. Subjects included twins, their siblings and parents from the Netherlands Twin Register (559 parents and 1,245 offspring). Subjects had participated between one and five times in a survey study measuring neuroticism, anxiety and depression. Offspring of these families were also approached to participate in a psychiatric interview diagnosing DSM-IV major depression. Within-family and total association between 5-HTTLPR and these traits were tested. Only three of the 36 tests showed a significant effect of 5-HTTLPR (P<0.05). These effects were in opposite directions, i.e. both negative and positive regression coefficients were found for the s allele. No additive effect of the s allele was found for DSM-IV depression. Our results strongly suggest that there is no straightforward association between 5-HTTLPR and neuroticism, anxiety and depression.},
affiliation = {Department of Biological Psychology, Vrije Universiteit Amsterdam, Van der Boechorststraat 1, Amsterdam, 1081 BT, The Netherlands. cm.middeldorp@psy.vu.nl},
number = {2},
pages = {294--301},
volume = {37},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Depression, Polymorphism: Genetic, Female, Adult, Male, Anxiety, Serotonin Plasma Membrane Transport Proteins, Regression Analysis, Humans, Genotype, Family, Polymerase Chain Reaction, Longitudinal Studies, Neurotic Disorders},
date-added = {2010-06-15 22:39:21 +0200},
date-modified = {2010-07-29 20:09:07 +0200},
doi = {10.1007/s10519-006-9139-7},
pmid = {17216342},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Middeldorp-2007-Behav%20Genet_Family%20based%20associa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12628},
rating = {0}
}
@article{Storer:1993p6261,
author = {B E Storer},
journal = {Biometrics},
title = {Small-sample confidence sets for the MTD in a phase I clinical trial},
abstract = {Properties of procedures for interval estimation of the maximum tolerable dose (MTD) in a Phase I clinical trial are examined, using a two-stage stochastic sampling scheme (Storer, 1989) as a paradigm for development. Although the likelihood function for the data arising from such a scheme is identical to one arising under a conditional binomial sampling assumption, intervals based on the exact distribution of the usual large-sample statistics under this assumption do not offer improvement over unadjusted intervals. However, consideration of the distribution of these statistics based on the true stochastic sampling scheme can lead to the construction of intervals with correct coverage probabilities that do not depend on the true values of the model parameters. Membership in the confidence set can be evaluated by Monte Carlo simulation at a restricted maximum likelihood estimate of the nuisance slope parameter, despite upward bias in its estimation from the up-and-down sampling scheme. The lack of information in the small-sample setting is reflected in a large proportion of confidence intervals that include infinite values for the MTD, especially when the dose-response curve is shallow. Intervals based on a likelihood ratio criterion perform best in this regard.},
affiliation = {Department of Statistics, University of Wisconsin-Madison 53792.},
number = {4},
pages = {1117--25},
volume = {49},
year = {1993},
month = {Dec},
language = {eng},
keywords = {Humans, Neoplasms, Likelihood Functions, Confidence Intervals, Drug Tolerance, Algorithms, Clinical Trials: Phase I as Topic, Biometry, Antineoplastic Agents, Monte Carlo Method},
date-added = {2010-02-19 21:51:04 +0100},
date-modified = {2010-02-19 21:51:04 +0100},
pmid = {8117905},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6261},
rating = {0}
}
@article{Tucker:2006p11934,
author = {K L Tucker and D J Ozer and S Lyubomirsky and J K Boehm},
journal = {Social Indicators Research},
title = {Testing For Measurement Invariance In The Satisfaction With Life Scale: A Comparison Of Russians And North Americans},
abstract = {This study examined the comparability of Satisfaction With Life Scale (SWLS) [Diener, Emmons, Larsen, {\&} Griffin, 1985, Social Indicators Research, 34: 7-- 32] scores across U.S. and Russian student and community groups. Criteria for weak measurement invariance were met when comparing U.S. and Russian groups (combining student and community samples). Criteria for weak and strong mea- surement invariance were met when comparing the U.S. and Russian student sam- ples. However, when comparing the U.S. and Russian community samples, the results showed a significant statistic for a baseline model, indicating a lack of com- parability across samples. The costs of failing to meet criteria for weak, strong, and strict measurement invariance are discussed.},
pages = {341--360},
volume = {78},
year = {2006},
date-added = {2010-05-23 16:51:47 +0200},
date-modified = {2010-05-23 16:52:52 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Tucker-2006-Social%20Indicators%20Research_Testing%20For%20Measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11934},
rating = {4}
}
@misc{Honaker:2006,
author = {James Honaker and Gary King},
journal = {Miscellaneous},
title = {What to do about missing values in time series cross-section data},
year = {2006},
month = {Sep},
date-added = {2010-01-03 19:37:35 +0100},
date-modified = {2010-01-03 19:37:35 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Honaker-2006-Miscellaneous_What%20to%20do%20about%20mis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1119},
rating = {0}
}
@article{Cheung:1990p11645,
author = {Y W Cheung},
journal = {Int J Addict},
title = {Ethnicity and alcohol/drug use revisited: a framework for future research},
abstract = {Despite the large pool of research findings pertaining to ethnic and racial variations in the use of drugs (including alcohol), the relationship between ethnicity and drug use has not been thoroughly examined. This paper describes some of the major findings regarding ethnic and racial variations in drug use, and examines the methodological limitations of such studies. Moreover, this paper addresses the problem of shortage of theoretical explanations for ethnic variations in drug use. It is argued that the variable of ethnicity has not been properly conceptualized and measured in most studies. Cultural and structural aspects of ethnicity at both the individual and collective levels are examined, and their possible contributions to more rigorous research on the relationship between ethnicity and drug use are discussed.},
affiliation = {Prevention and Health Promotion Research and Development Department, Addiction Research Foundation, Toronto, Ontario, Canada.},
number = {5A-6A},
pages = {581--605},
volume = {25},
year = {1990},
month = {Jan},
language = {eng},
keywords = {Alcoholism, Risk Factors, Cross-Sectional Studies, Humans, Ethnic Groups, Cross-Cultural Comparison, Research, Canada, Incidence, Substance-Related Disorders},
date-added = {2010-05-11 22:47:30 +0200},
date-modified = {2010-05-11 22:47:30 +0200},
pmid = {2101394},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11645},
rating = {0}
}
@article{Bombardieri:2010p10980,
author = {Roberta Bombardieri and Mariangela Pinci and Romina Moavero and Caterina Cerminara and Paolo Curatolo},
journal = {Eur J Paediatr Neurol},
title = {Early control of seizures improves long-term outcome in children with tuberous sclerosis complex},
abstract = {Epilepsy associated with tuberous sclerosis complex (TSC) is characterized by early onset and intractable seizures in the majority of children. There is a solid evidence of clinical efficacy of vigabatrin in interrupting infantile spasms associated with TSC. Due to an early diagnosis we were able to start vigabatrin at the very early onset of seizures in 10 children, who subsequently underwent a long-term neurodevelopmental follow-up. At the final evaluation, a seizure free status was achieved in 50% of patients; 30% of individuals had a normal or borderline mental development, with no patients developing severe mental retardation and/or autism. Early control of seizures has a crucial role in preventing subsequent epileptic encephalopathy, and in reducing the cognitive/behavioural consequences of seizures, but does not guarantee for a normal mental outcome in children with TSC.},
affiliation = {Department of Neurosciences, Pediatric Neurology Unit, Tor Vergata University, via Montpellier 1, Rome 00133, Italy.},
number = {2},
pages = {146--9},
volume = {14},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-04-13 16:26:14 +0200},
date-modified = {2010-04-13 16:26:14 +0200},
doi = {10.1016/j.ejpn.2009.03.003},
pii = {S1090-3798(09)00056-7},
pmid = {19369101},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WF2-4W2M6V8-1&_user=2432700&_coverDate=03%252F31%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=bf2d822215b7b18246dd37a2cb166464},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bombardieri-2010-Eur%20J%20Paediatr%20Neurol_Early%20control%20of%20sei.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10980},
rating = {0}
}
@article{Earleywine:1994p6830,
author = {M Earleywine},
journal = {Addict Behav},
title = {Cognitive bias covaries with alcohol consumption},
abstract = {Cognitive models of behavior led to the prediction that ambiguous stimuli would be interpreted as alcohol-relevant in heavier drinkers. Women were asked to define words that could be interpreted as alcohol-relevant or not (e.g., shot). Two measures served as indicators of a latent construct of cognitive bias: the number of words construed to be related to alcohol, and the position of the first word in the series that was defined as alcohol-relevant. Average quantity, average frequency, and maximum number of drinks imbibed in a single episode served as indicators of a latent construct of alcohol consumption. These two constructs covaried significantly (.44) in a two-factor latent variable analysis that fit the data better than alternative models. These findings support an alcohol-related interpretive bias and suggest hypotheses concerning the types of interpretive preferences that may contribute to alcohol consumption.},
affiliation = {Department of Psychology, University of Southern California, Los Angeles 90089-1061.},
number = {5},
pages = {539--44},
volume = {19},
year = {1994},
month = {Jan},
language = {eng},
keywords = {Attention, Models: Statistical, Female, Adult, Word Association Tests, Alcoholism, Humans, Vocabulary, Alcohol Drinking, Adolescent},
date-added = {2010-03-06 09:31:25 +0100},
date-modified = {2010-07-29 19:12:35 +0200},
pii = {0306-4603(94)90009-4},
pmid = {7832012},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6830},
rating = {0}
}
@article{Steyer:1989p6235,
author = {R Steyer},
journal = {Methodica},
title = {Models of classical psychometric Test Theory as stochastic measurement models: Representation, uniqueness, meaningfulness, identifiability, and testability},
pages = {25--60},
volume = {III},
year = {1989},
date-added = {2010-02-19 21:05:17 +0100},
date-modified = {2010-02-19 21:07:52 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steyer-1989-Methodica_Models%20of%20classical.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6235},
rating = {0}
}
@article{Lubke:2003p11601,
author = {G H Lubke and C V Dolan},
journal = {Structural Equation Modeling},
title = {Can Unequal Residual Variances Across Groups Mask Differences in Residual Means in the Common Factor Model?},
abstract = {Equality of residual variances across groups is one of the necessary conditions of measurement invariance. The main argument for not applying this restriction in the analysis of empirical data is that unequal residual variances across groups are differ- ences in reliability of the observed variables rather than a violation of measurement invariance. A power study is carried out to investigate the conditions under which vi- olations of measurement invariance can be masked by unequal residual variances across groups. Increasing group differences in residual variance are combined with mean differences in the item-specific residual. Sample sizes needed for rejection of a model with free residual variances across groups are computed for different model sizes and varying group sample size ratios. Increasing group differences in residual variance decreases the power to detect differences in specific means if the residual variances are not held equal across groups. This is especially the case for small mean differences, unequal group sample sizes, and if differences in residual means are ac- companied by correlated residuals.},
number = {2},
pages = {175--192},
volume = {10},
year = {2003},
date-added = {2010-05-09 21:30:24 +0200},
date-modified = {2010-07-29 19:51:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubke-2003-Structural%20Equation%20Modeling_Can%20Unequal%20Residual.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11601},
rating = {0}
}
@article{Regier:2002p5583,
author = {Darrel A Regier and William E Narrow and Michael B First and Tina Marshall},
journal = {Psychopathology},
title = {The APA classification of mental disorders: future perspectives},
abstract = {After 8-10 years of experience with the fourth edition of the Diagnostic and Statistical Manual (DSM-IV) and the tenth edition of the International Classification of Diseases (ICD-10), it is an ideal time to begin looking at the clinical and research consequences of these diagnostic systems. The American Psychiatric Association, in conjunction with the National Institutes of Health, has initiated a research development process intended to accelerate an evaluation of existing criteria while developing and testing hypotheses that would improve the validity of our diagnostic concepts. Over the past year, a multidisciplinary, international panel has developed a series of six white papers which define research opportunities in the following broad areas: Nomenclature, Disability and Impairment, Personality Disorders, Relational Disorders, Developmental Psychopathology, Neuroscience, and Cross-Cultural aspects of Psychopathology. Recommendations for future national and international research in each of these areas will be discussed.},
affiliation = {Division of Research, American Psychiatric Association, Washington, DC 20005, USA. dregier@psych.org},
number = {2-3},
pages = {166--70},
volume = {35},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Reproducibility of Results, Psychiatric Status Rating Scales, International Classification of Diseases, Mental Disorders, Forecasting, Humans, Societies: Medical, Psychometrics, Psychiatry},
date-added = {2010-02-12 15:38:41 +0100},
date-modified = {2010-02-12 15:38:41 +0100},
pii = {psp35166},
pmid = {12145504},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5583},
rating = {0}
}
@article{Gama:2009p430,
author = {Helena Gama and Sofia Correia and Nuno Lunet},
journal = {BMC Med Res Methodol},
title = {Effect of questionnaire structure on recall of drug utilization in a population of university students},
abstract = {BACKGROUND: Self-reported data are a common source of information about drug exposure. Modes of data collection differ considerably and the questionnaire's structure may affect prevalence estimates. We compared the recall of medication use evaluated by means of two questionnaires differing in structure and length. METHODS: Drug utilization was assessed by two alternative versions of a questionnaire (A - 4 pages, including specific questions for 12 indications/pharmacological groups and one question for "other medicines"; B - 1 page, including 1 open-ended question to cover overall drug consumption). Each of 32 classes in a private University in Maputo, Mozambique, was randomly assigned questionnaire A (233 participants) or B (276 participants). Logistic regression (allowing for clustering by classroom) was used to compare the two groups in terms of socio-demographic characteristics and medication used during the previous month. RESULTS: Overall, 67.4% of the subjects had used at least one drug during the previous month. The following prevalences were greater among participants completing questionnaire A: use of drugs from two or more pharmacological groups (60.5% vs. 34.4%, p < 0.001), use of two or more drugs (66.2% vs. 43.0%, p < 0.001), and use of antibiotics (14.6% vs. 6.9%, p = 0.001), antifungals (9.4% vs. 4.0%, p = 0.013), antiparasitics (5.6% vs. 1.8%, p = 0.031) and antacids (8.6% vs. 3.6%, p = 0.024). Information about duration of treatment and medical advice was more complete with version A. CONCLUSION: The indication/drug-specific questions (questionnaire A) revealed a significantly higher prevalence of use of medicines - antibiotics, antifungals, antiparasitics and antacids - without compromising the completeness of the information.},
affiliation = {Department of Hygiene and Epidemiology, University of Porto Medical School, Porto, Portugal. helena.gama@bial.com},
pages = {45},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Universities, Male, Humans, Students, Socioeconomic Factors, Female, Young Adult, Mozambique, Logistic Models, Drug Utilization, Questionnaires, Mental Recall},
date-added = {2010-01-03 12:26:06 +0100},
date-modified = {2010-01-03 12:26:09 +0100},
doi = {10.1186/1471-2288-9-45},
pii = {1471-2288-9-45},
pmid = {19563651},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gama-2009-BMC%20Med%20Res%20Methodol_Effect%20of%20questionna.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p430},
rating = {3}
}
@article{Berman:2009p8841,
author = {Steven M Berman and Ernest P Noble and Parvaneh Mohammadian and Terry Ritchie and Mark A Mandelkern and Edythe D London},
journal = {Synapse},
title = {Laterality of cortical response to ethanol is moderated by TaqIA A1 allele},
affiliation = {Department of Psychiatry and Biobehavioral Sciences, University of California, Los Angeles, USA. sberman@ucla.edu},
number = {9},
pages = {817--21},
volume = {63},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Central Nervous System Depressants, Brain Mapping, Mood Disorders, Young Adult, DNA Mutational Analysis, Cerebral Cortex, Reward, Adult, Ethanol, Glucose, Brain Chemistry, Gene Frequency, Receptors: Dopamine D2, Dopamine, Alcohol-Induced Disorders: Nervous System, Acoustic Stimulation, Arousal, Genetic Testing, Neuropsychological Tests, Positron-Emission Tomography, Male, Genetic Predisposition to Disease, Polymorphism: Genetic, Humans, Alcoholism, Functional Laterality, Reinforcement (Psychology)},
date-added = {2010-03-22 12:36:34 +0100},
date-modified = {2010-03-22 12:36:34 +0100},
doi = {10.1002/syn.20687},
pmid = {19504620},
url = {http://www3.interscience.wiley.com/journal/122441909/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Berman-2009-Synapse_Laterality%20of%20cortic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8841},
rating = {0}
}
@article{Hirschhorn:2009p1412,
author = {Joel N Hirschhorn},
journal = {N Engl J Med},
title = {Genomewide association studies--illuminating biologic pathways},
affiliation = {Division of Genetics, Children's Hospital, Boston, MA, USA.},
number = {17},
pages = {1699--701},
volume = {360},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Genetic Variation, Disease, Genetic Predisposition to Disease, Biophysical Processes, Genome-Wide Association Study, Humans},
date-added = {2010-01-07 12:18:59 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
doi = {10.1056/NEJMp0808934},
pii = {NEJMp0808934},
pmid = {19369661},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hirschhorn-2009-N%20Engl%20J%20Med_Genomewide%20associati.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1412},
rating = {0}
}
@article{Edgell:1996p7276,
author = {E T Edgell and S J Coons and W B Carter and J D Kallich and D Mapes and T M Damush and R D Hays},
journal = {Clin Ther},
title = {A review of health-related quality-of-life measures used in end-stage renal disease},
abstract = {Health-related quality of life (HRQOL) is a critical issue in the treatment of end-stage renal disease (ESRD) patients. The variety of symptoms, comorbidities, and treatments of ESRD over the course of its chronic disease trajectory necessitate comprehensive assessment of the impact of interventions on HRQOL. A literature review of ESRD HRQOL studies was performed to provide an overview of the instruments used and to provide recommendations for HRQOL assessment in future studies. Instruments were classified based on the health domains they assess and whether they are generic or disease targeted. The instruments were judged in terms of their comprehensiveness, reliability, and validity.},
affiliation = {Eli Lilly and Company, Indianapolis, Indiana, USA.},
number = {5},
pages = {887--938},
volume = {18},
year = {1996},
month = {Jan},
language = {eng},
keywords = {Sexual Behavior, Quality of Life, Employment, Mental Health, Questionnaires, Karnofsky Performance Status, Humans, Self Concept, Depression, Affect, Kidney Failure: Chronic, Social Adjustment, Internal-External Control, Personal Satisfaction},
date-added = {2010-03-10 20:14:13 +0100},
date-modified = {2010-03-10 20:14:13 +0100},
pii = {S0149-2918(96)80049-X},
pmid = {8930432},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Edgell-1996-Clin%20Ther_A%20review%20of%20health-r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7276},
rating = {0}
}
@article{Lee:2008p4687,
author = {Jae K Lee and Paul D Williams and Sooyoung Cheon},
journal = {Clin Lab Med},
title = {Data mining in genomics},
abstract = {This article reviews important emerging statistical concepts, data mining techniques, and applications that have been recently developed and used for genomic data analysis. First, general background and some critical issues in genomic data mining are summarized. A novel concept of statistical significance is described, the so-called "false discovery rate"-the rate of false-positives among all positive findings-which has been suggested to control the error rate of numerous false-positives in large screening biological data analysis. Two recent statistical testing methods are then introduced: significance analysis of microarray and local pooled error tests. Statistical modeling in genomic data analysis is then presented, such as analysis of variance and heterogeneous error modeling approaches that have been suggested for analyzing microarray data obtained from multiple experimental or biological conditions. Two sections then describe data exploration and discovery tools largely termed as supervised learning and unsupervised learning. The former approaches include several multivariate statistical methods to investigate coexpression patterns of multiple genes, and the latter are the classification methods to discover genomic biomarker signatures for predicting important subclasses of human diseases. The last section briefly summarizes various genomic data mining approaches in biomedical pathway analysis and patient outcome or chemotherapeutic response prediction.},
affiliation = {Division of Biostatistics and Epidemiology, Department of Public Health Sciences, Box 800717, University of Virginia, Charlottesville, VA 22908, USA. jaeklee@virginia.edu},
number = {1},
pages = {145--66, viii},
volume = {28},
year = {2008},
month = {Mar},
language = {eng},
keywords = {Artificial Intelligence, Software, Computational Biology, Databases: Genetic, Pattern Recognition: Automated, Data Interpretation: Statistical, Models: Genetic, Genomics},
date-added = {2010-01-30 16:13:14 +0100},
date-modified = {2010-01-30 16:13:14 +0100},
doi = {10.1016/j.cll.2007.10.010},
pii = {S0272-2712(07)00119-9},
pmid = {18194724},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4687},
rating = {0}
}
@article{Lin:2005p3361,
author = {D Y Lin},
journal = {Bioinformatics},
title = {An efficient Monte Carlo approach to assessing statistical significance in genomic studies},
abstract = {MOTIVATION: Multiple hypothesis testing is a common problem in genome research, particularly in microarray experiments and genomewide association studies. Failure to account for the effects of multiple comparisons would result in an abundance of false positive results. The Bonferroni correction and Holm's step-down procedure are overly conservative, whereas the permutation test is time-consuming and is restricted to simple problems. RESULTS: We developed an efficient Monte Carlo approach to approximating the joint distribution of the test statistics along the genome. We then used the Monte Carlo distribution to evaluate the commonly used criteria for error control, such as familywise error rates and positive false discovery rates. This approach is applicable to any data structures and test statistics. Applications to simulated and real data demonstrate that the proposed approach provides accurate error control, and can be substantially more powerful than the Bonferroni and Holm methods, especially when the test statistics are highly correlated.},
affiliation = {Department of Biostatistics, University of North Carolina, McGavran-Greenberg Hall, CB {\#}7420, Chapel Hill, NC 27599-7420, USA. lin@bios.unc.edu},
number = {6},
pages = {781--7},
volume = {21},
year = {2005},
month = {Mar},
language = {eng},
keywords = {Sensitivity and Specificity, Genomics, Humans, Algorithms, Sequence Analysis: DNA, Data Interpretation: Statistical, Reproducibility of Results, Chromosome Mapping, Neoplasm Proteins, Models: Genetic, Oligonucleotide Array Sequence Analysis, Tumor Markers: Biological, Lung Neoplasms, Models: Statistical, Monte Carlo Method, Gene Expression Profiling},
date-added = {2010-01-15 14:38:45 +0100},
date-modified = {2010-01-15 14:38:45 +0100},
doi = {10.1093/bioinformatics/bti053},
pii = {bti053},
pmid = {15454414},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3361},
rating = {0}
}
@article{Gutteling:2007p4533,
author = {J J Gutteling and R A de Man and J J V Busschbach and A-S E Darlington},
journal = {Neth J Med},
title = {Overview of research on health-related quality of life in patients with chronic liver disease},
abstract = {Health-related quality of life (HRQoL) has become an important outcome measure in patients with chronic liver disease (CLD). In this article, an overview is given of the most common measurement instruments of HRQoL, determinants of HRQoL in patients with CLD, and current developments in the implementation of routine measurement of HRQoL in daily clinical practice. Well-developed generic instruments of HRQoL are the Short Form-36 (SF-36), the Nottingham Health Profile (NHP) and the Sickness Impact Profile (SIP). Well-developed liver disease-specific HRQoL instruments are the Hepatitis Quality of Life Questionnaire (HQLQ), the Chronic Liver Disease Questionnaire (CLDQ), the Liver Disease Quality Of Life Questionnaire (LDQOL ), and the Liver Disease Symptom Index 2.0 (LDSI 2.0). Commonly used HRQoL measures in cost-effectiveness studies are the Health Utilities Index (HUI), Short Form-6D (SF-6D) and the EuroQol-5D (EQ-5D). HRQoL of patients with chronic liver disease has been shown to be impaired, with patients with hepatitis C showing the worst HRQoL. Disease severity, pruritus, joint pain, abdominal pain, muscle cramps, fatigue, depression and anxiety have been associated with HRQoL in patients with CLD. Recently, studies assessing the feasibility and effectiveness of measuring HRQoL in daily clinical practice have been performed, generally showing positive results regarding the discussion of HRQoL-related topics, but mixed results regarding the added value of actual improvement in HRQoL. Furthermore, logistic and attitudinal barriers seem to impede successful implementation. Nevertheless, given the importance of HRQoL in liver patients, we should persist in measuring and subsequently improving HRQoL in clinical practice.},
affiliation = {Department of Gastroenterology and Hepatology, Erasmus Medical Centre, Rotterdam, the Netherlands. j.gutteling@erasmusmc.nl},
number = {7},
pages = {227--34},
volume = {65},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Liver Diseases, Chronic Disease, Humans, Psychometrics, Sickness Impact Profile, Quality of Life, Outcome Assessment (Health Care), Questionnaires},
date-added = {2010-01-29 22:16:46 +0100},
date-modified = {2010-01-29 22:16:46 +0100},
pmid = {17656809},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gutteling-2007-Neth%20J%20Med_Overview%20of%20research.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4533},
rating = {0}
}
@article{Carey:2003p5239,
author = {G Carey},
title = {Cholesky Problems},
abstract = {Behavioral geneticists commonly parameterize a genetic or environmental covariance matrix as the product of a nonsingular, lower diagonal matrix postmultiplied by its transpose---a technique commonly referred to as ``fitting a Cholesky.'' Here, simulations demonstrate that this procedure: (1) may not produce likelihood ratio test statistics that are distributed as a c2; or (2) if the distribution of the test statistic appears to be c2, then the degrees of freedom (df) are not always the difference between the number of parameters in the general model less the number of parameters in the constrained model. It is hypothesized that the problem is related to the fact that the Cholesky parameterization requires that the covariance matrix formed by its product be positive definite. Even though a population covariance matrix may be positive definite, the combination of sampling error and the derived---as opposed to directly observed---nature of some matrices in behavioral genetics allow matrices that are not positive definite. Hence, fitting a Cholesky constrains the area of search and may compromise maximum likelihood theory. Until the reason for this phenomenon is understood and a satisfactory solution is developed, the Cholesky parameterization should be used with caution. An alternate strategy of fitting a lower diagonal matrix to data that avoids the Cholelsky problem is proposed.},
year = {2003},
date-added = {2010-02-08 20:13:44 +0100},
date-modified = {2010-02-08 20:14:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Carey-2003-_Cholesky%20Problems.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5239},
rating = {0}
}
@article{Meijer:2004p6590,
author = {Rob R Meijer and Joost J Baneke},
journal = {Psychological Methods},
title = {Analyzing psychopathology items: a case for nonparametric item response theory modeling},
abstract = {The authors discuss the applicability of nonparametric item response theory (IRT) models to the construction and psychometric analysis of personality and psychopathology scales, and they contrast these models with parametric IRT models. They describe the fit of nonparametric IRT to the Depression content scale of the Minnesota Multiphasic Personality Inventory--2 (J. N. Butcher, W. G. Dahlstrom, J. R. Graham, A. Tellegen, {\&} B. Kaemmer, 1989). They also show how nonparametric IRT models can easily be applied and how misleading results from parametric IRT models can be avoided. They recommend the use of nonparametric IRT modeling prior to using parametric logistic models when investigating personality data.},
affiliation = {Department of Research Methodology, Measurement and Data Analysis, University of Twente, Enschede, the Netherlands. r.r.meijer@utwente.nl},
number = {3},
pages = {354--68},
volume = {9},
year = {2004},
month = {Sep},
language = {eng},
keywords = {Personality Tests, Male, MMPI, Psychometrics, Models: Statistical, Psychopathology, Reproducibility of Results, Female, Algorithms, Analysis of Variance, Adult, Depressive Disorder, Humans, Mathematical Computing, Statistics: Nonparametric},
date-added = {2010-02-24 20:38:11 +0100},
date-modified = {2010-03-07 11:07:47 +0100},
doi = {10.1037/1082-989X.9.3.354},
pii = {2004-17801-005},
pmid = {15355153},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meijer-2004-Psychological%20Methods_Analyzing%20psychopath.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6590},
rating = {4}
}
@article{Elkan:2003p4623,
author = {C Elkan},
journal = {Proceedings of the Twentieth International Conference on Machine Learning (ICML-2003)},
title = {Using the Triangle Inequality to Accelerate k-Means},
year = {2003},
date-added = {2010-01-30 15:31:39 +0100},
date-modified = {2010-01-30 15:32:17 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Elkan-2003-Proceedings%20of%20the%20Twentieth%20International%20Conference%20on%20Machine%20Learning%20(ICML-2003)_Using%20the%20Triangle%20I.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4623},
rating = {0}
}
@article{Smith:1996p9559,
author = {M Y Smith and J Feldman and P Kelly and J A DeHovitz and K Chirgwin and H Minkoff},
journal = {Qual Life Res},
title = {Health-related quality of life of HIV-infected women: evidence for the reliability, validity and responsiveness of the Medical Outcomes Study Short-Form 20},
abstract = {The purpose of this study was to assess the reliability, validity and responsiveness of a health-related quality of life (HRQOL) instrument, the Medical Outcomes Short-Form 20-Item General Health Survey (MOS SF-20), in a sample of women with the human immunodeficiency virus (HIV). Longitudinal data were collected on 202 HIV-infected women without AIDS who were receiving care at Kings County Hospital or SUNY Health Sciences Center, Brooklyn, New York. Internal consistency results showed acceptable reliability for the four multi-item MOS scales (role function, physical function, general health perceptions and mental health). Symptomatic patients and patients with lower Karnofsky Performance Status (KPS) ratings reported lower HRQOL than those who were asymptomatic or who had higher KPS scores. Patients who were older, unemployed or who had a history of injection drug use (IDU) also reported lower HRQOL than those who were younger, employed or who had no drug use history. Adjusted mean scores on the MOS role and physical functioning scales proved sensitive to differences in clinical status over time. The MOS SF-20 is a reliable and valid instrument of HRQOL for women with HIV infection. Its sensitivity to differences in clinical status over time suggest that it may be useful as an HRQOL indicator for HIV/AIDS clinical trials.},
affiliation = {Memorial Sloan-Kettering Cancer Centre, New York, New York, 10021, USA.},
number = {1},
pages = {47--55},
volume = {5},
year = {1996},
month = {Feb},
language = {eng},
keywords = {Quality of Life, Longitudinal Studies, Female, New York, Adult, Health Surveys, Reproducibility of Results, Humans, Psychometrics, HIV Infections},
date-added = {2010-03-23 20:53:46 +0100},
date-modified = {2010-07-29 19:48:31 +0200},
pmid = {8901366},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9559},
rating = {0}
}
@article{Gennaro:2010p10866,
author = {Leonarda Gennaro and Luigi Russo and Luciana Losito and Alessia Zaccaria and Marta De Rinaldis and Antonio Trabacca},
journal = {Res Dev Disabil},
title = {Movement disorders in a twins pair: a casual expression or genetic determination?},
abstract = {A twin study is an excellent means of assessing the contribution of heritability to motor behaviour. We present a movement video-analysis of a monozygotic twins pair with a motor repertoire which is almost totally constituted by persistent and subcontinuous motor stereotypies. PURPOSE: The specific aim of this study is to verify the heritable quantum of motor behaviour and to determine which among the motor patterns we analysed are more likely to be conditioned by inheritance. METHODS: Stereotyped movements were videotaped in two standardized sessions: at rest and in relation to preordained sensory stimulations. We estimated the concordance index (CI) between the observers to evaluate the reliability of the observations. The validity was accepted as being CI>0.80. RESULTS: The results showed a very high concordance rate (>90%) for all the stereotypies analysed. An almost superimposable trend of the stereotyped movements was found both at rest and in relation to the sensory stimulations. CONCLUSIONS: Such strong data suggest that genetic factors have a primary influence on all the movement disorders analysed. This study contributes to a better understanding of the complex relationships between genes and functions.},
affiliation = {Unit of Neurorehabilitation I-Developmental Neurology and Functional Rehabilitation, I.R.C.C.S. E. Medea Scientific Institute-La Nostra Famiglia Association, Ostuni, Brindisi, Italy.},
number = {3},
pages = {692--7},
volume = {31},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-04-10 03:35:32 +0200},
date-modified = {2010-04-10 03:35:32 +0200},
doi = {10.1016/j.ridd.2010.01.009},
pii = {S0891-4222(10)00010-7},
pmid = {20153949},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gennaro-2010-Res%20Dev%20Disabil_Movement%20disorders%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10866},
rating = {0}
}
@article{Lyles:2007p6954,
author = {Robert H Lyles and Hung-Mo Lin and John M Williamson},
journal = {Stat Med},
title = {A practical approach to computing power for generalized linear models with nominal, count, or ordinal responses},
abstract = {Data analysts facing study design questions on a regular basis could derive substantial benefit from a straightforward and unified approach to power calculations for generalized linear models. Many current proposals for dealing with binary, ordinal, or count outcomes are conceptually or computationally demanding, limited in terms of accommodating covariates, and/or have not been extensively assessed for accuracy assuming moderate sample sizes. Here, we present a simple method for estimating conditional power that requires only standard software for fitting the desired generalized linear model for a non-continuous outcome. The model is fit to an appropriate expanded data set using easily calculated weights that represent response probabilities given the assumed values of the parameters. The variance-covariance matrix resulting from this fit is then used in conjunction with an established non-central chi square approximation to the distribution of the Wald statistic. Alternatively, the model can be re-fit under the null hypothesis to approximate power based on the likelihood ratio statistic. We provide guidelines for constructing a representative expanded data set to allow close approximation of unconditional power based on the assumed joint distribution of the covariates. Relative to prior proposals, the approach proves particularly flexible for handling one or more continuous covariates without any need for discretizing. We illustrate the method for a variety of outcome types and covariate patterns, using simulations to demonstrate its accuracy for realistic sample sizes.},
affiliation = {Department of Biostatistics, The Rollins School of Public Health of Emory University, 1518 Clifton Rd. N.E., Atlanta, GA 30322, USA. rlyles@sph.emory.edu},
number = {7},
pages = {1632--48},
volume = {26},
year = {2007},
month = {Mar},
language = {eng},
keywords = {Humans, Linear Models, Data Interpretation: Statistical, Sample Size, Computer Simulation},
date-added = {2010-03-06 12:24:27 +0100},
date-modified = {2010-03-06 12:24:27 +0100},
doi = {10.1002/sim.2617},
pmid = {16817148},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lyles-2007-Stat%20Med_A%20practical%20approach.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6954},
rating = {0}
}
@article{Lehtonen:2002p4103,
author = {R Lehtonen and K Djerf and T H{\"a}rk{\"a}nen and J Laiho},
title = {M{\'e}thodes d'analyse des donn{\'e}es d'enqu{\^e}tes complexes sur la sant{\'e} bas{\'e}es sur le plan d'{\'e}chantillonnage ou sur un mod{\`e}le : Une {\'e}tude de cas},
abstract = {Le pr{\'e}sent article traite de l'analyse des donn{\'e}es d'enqu{\^e}tes complexes sur la sant{\'e} par des m{\'e}thodes multivari{\'e}es de mod{\'e}lisation. Nous nous concentrons sur les m{\'e}thodes bas{\'e}es sur le plan d'{\'e}chantillonnage et celles bas{\'e}es sur un mod{\`e}le qui visent {\`a} tenir compte des effets de la mise en grappes, de la stratification et de la pond{\'e}ration. Nous nous int{\'e}ressons avant tout aux effets de la mise en grappes. Les m{\'e}thodes {\'e}tudi{\'e}es incluent la mod{\'e}lisation lin{\'e}aire g{\'e}n{\'e}ralis{\'e}e fond{\'e}e sur la pseudo-vraisemblance et les {\'e}quations d'estimation g{\'e}n{\'e}ralis{\'e}es, les mod{\`e}les lin{\'e}aires mixtes estim{\'e}s par le maximum de vraisemblance restreints et les techniques hi{\'e}rarchiques bay{\'e}siennes bas{\'e}es sur les m{\'e}thodes de Monte Carlo par cha{\^\i}ne de Markov (MCCM). Nous comparons empiriquement ces m{\'e}thodes sur des donn{\'e}es provenant d'une enqu{\^e}te comprenant une entrevue sur la sant{\'e} et un examen physique r{\'e}alis{\'e}e en Finlande en 2000 (Health-2000 Study). Les donn{\'e}es de la Health-2000 Study ont {\'e}t{\'e} recueillies au moyen d'entrevues personnelles, de questionnaires et d'examens cliniques. L'enqu{\^e}te a {\'e}t{\'e} r{\'e}alis{\'e}e aupr{\`e}s d'un {\'e}chantillon en grappes stratifi{\'e} {\`a} deux degr{\'e}s. Le plan d'{\'e}chantillonnage a produit des corr{\'e}lations intra-grappes positives pour nombre de variables {\'e}tudi{\'e}es. Nous avons s{\'e}lectionn{\'e} en vue d'une {\'e}tude plus approfondie les variables pression sanguine systolique et morbidit{\'e} chronique, tir{\'e}es des volets de l'entrevue sur la sant{\'e} et de l'examen clinique. Dans de nombreux cas, les diverses m{\'e}thodes ont produit des r{\'e}sultats num{\'e}riques comparables et appuy{\'e} des conclusions statistiques similaires. Celles qui ne tenaient pas compte de la complexit{\'e} du plan d'{\'e}chantillonnage ont parfois produit des conclusions contradictoires. Nous discutons aussi de l'application des m{\'e}thodes lors de l'utilisation de logiciels statistiques standards.},
year = {2002},
date-added = {2010-01-19 23:38:52 +0100},
date-modified = {2010-07-11 09:54:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lehtonen-2002-_Me%CC%81thodes%20d%E2%80%99analyse-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4103},
rating = {0}
}
@article{Stitziel:2003p3525,
author = {Nathan O Stitziel and Yan Yuan Tseng and Dimitri Pervouchine and David Goddeau and Simon Kasif and Jie Liang},
journal = {J Mol Biol},
title = {Structural location of disease-associated single-nucleotide polymorphisms},
abstract = {Non-synonymous single-nucleotide polymorphism (nsSNP) of genes introduces amino acid changes to proteins, and plays an important role in providing genetic functional diversity. To understand the structural characteristics of disease-associated SNPs, we have mapped a set of nsSNPs derived from the online mendelian inheritance in man (OMIM) database to the structural surfaces of encoded proteins. These nsSNPs are disease-associated or have distinctive phenotypes. As a control dataset, we mapped a set of nsSNPs derived from SNP database dbSNP to the structural surfaces of those encoded proteins. Using the alpha shape method from computational geometry, we examine the geometric locations of the structural sites of these nsSNPs. We classify each nsSNP site into one of three categories of geometric locations: those in a pocket or a void (type P); those on a convex region or a shallow depressed region (type S); and those that are buried completely in the interior (type I). We find that the majority (88%) of disease-associated nsSNPs are located in voids or pockets, and they are infrequently observed in the interior of proteins (3.2% in the data set). We find that nsSNPs mapped from dbSNP are less likely to be located in pockets or voids (68%). We further introduce a novel application of hidden Markov models (HMM) for analyzing sequence homology of SNPs on various geometric sites. For SNPs on surface pocket or void, we find that there is no strong tendency for them to occur on conserved residues. For SNPs buried in the interior, we find that disease-associated mutations are more likely to be conserved. The approach of classifying nsSNPs with alpha shape and HMM developed in this study can be integrated with additional methods to improve the accuracy of predictions of whether a given nsSNP is likely to be disease-associated.},
affiliation = {Department of Bioengineering SEO, MC-063, University of Illinois at Chicago, Room 218, 851, S. Morgan Street, Chicago, IL 60607-7052, USA.},
number = {5},
pages = {1021--30},
volume = {327},
year = {2003},
month = {Apr},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Models: Molecular, Disease, Humans},
date-added = {2010-01-15 15:47:53 +0100},
date-modified = {2010-01-15 15:47:53 +0100},
pii = {S0022283603002407},
pmid = {12662927},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stitziel-2003-J%20Mol%20Biol_Structural%20location.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3525},
rating = {0}
}
@article{Maris:2008p7761,
author = {G Maris},
journal = {Psychometrika},
title = {A NOTE ON ``CONSTANT LATENT ODDS-RATIOS MODELS AND THE MANTEL--HAENSZEL NULL HYPOTHESIS'' HESSEN, 2005},
abstract = {In a recent paper, Hessen (Psychometrika 70(3):497--516, 2005) introduces the class of constant latent odds-ratios models as an extension of the Rasch model for which the sum score is still the sufficient statistic for ability. In this paper the relation between both the general and the general parametric constant latent odds-ratios model and the Rasch model is considered.},
number = {1},
pages = {153--157},
volume = {73},
year = {2008},
date-added = {2010-03-17 20:56:25 +0100},
date-modified = {2010-03-17 20:57:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2008-Psychometrika_A%20NOTE%20ON%20%E2%80%9CCONSTANT.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7761},
rating = {0}
}
@article{Song:2004p2349,
author = {J Song and H X Barnhart and R H Lyles},
journal = {Journal of Data Science},
title = {A GEE Approach for Estimating Correlation Coefficients Involving Left-censored Variables},
abstract = {HIV (Human Immunodeficiency Virus) researchers are often con- cerned with the correlation between HIV viral load measurements and CD4+ lymphocyte counts. Due to the lower limits of detection (LOD) of the avail- able assays, HIV viral load measurements are subject to left-censoring. Mo- tivated by these considerations, the maximum likelihood (ML) method under normality assumptions was recently proposed for estimating the correlation between two continuous variables that are subject to left-censoring. In this paper, we propose a generalized estimating equations (GEE) approach as an alternative to estimate such a correlation coefficient. We investigate the robustness to the normality assumption of the ML and the GEE approaches via simulations. An actual HIV data example is used for illustration.},
pages = {245--257},
volume = {2},
year = {2004},
date-added = {2010-01-10 13:32:34 +0100},
date-modified = {2010-01-10 13:33:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Song-2004-Journal%20of%20Data%20Science_A%20GEE%20Approach%20for%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2349},
rating = {0}
}
@article{Bureau2005,
author = {A Bureau and J Dupuis and K Falls and K Lunetta and B Hayward and T Keith and P Van Eerdewegh},
journal = {Genet Epidemiol},
title = {Identifying SNPs predictive of phenotype using random forests},
pages = {171--182},
volume = {28},
year = {2005},
date-added = {2010-01-12 14:26:52 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2543},
rating = {0}
}
@article{Dorn:2006,
author = {S Dorn},
journal = {Educationa Policy Analysis Archives},
title = {No More Aggregate NAEP Studies?},
number = {31},
volume = {14},
year = {2006},
date-added = {2010-01-10 11:33:09 +0100},
date-modified = {2010-07-29 19:25:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dorn-2006-Educationa%20Policy%20Analysis%20Archives_No%20More%20Aggregate%20NA.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1905},
rating = {0}
}
@article{Guillemin:2007p3996,
author = {Francis Guillemin},
journal = {Nature clinical practice Rheumatology},
title = {Primer: the fallacy of subgroup analysis},
abstract = {The identification of subgroups of patients from randomized clinical trials that are of specific interest for guiding clinical decisions can be an attractive idea; however, since such trials are designed for the comparison of groups of patients, performing subgroup analyses can result in misinterpretation of the data. Such analyses must, therefore, be performed and evaluated with caution: these should be pre-planned and included in the design of a suitably powered trial. Data obtained should be analyzed using formal statistical tests of interaction on proper subgroups rather than improper subgroups of patients, the results obtained should be delineated carefully, and details of how these analyses were performed, and how the data should be interpreted, should be reported in the trial paper. The caveats associated with this approach, such as the occurrence of false positive or false negative effects, chance differences in observed effects, lack of power to perform the analysis, floor or ceiling effects, issues relating to multiple statistical testing, and over-reporting and under-reporting are discussed in this review. Subgroup analyses can, however, provide valuable, albeit predominantly exploratory, information on which to base clinical decisions if they are performed in accordance with recommendations and guidelines, and do, therefore, have a legitimate place in rheumatology clinical trials.},
affiliation = {School of Public Health, Nancy University, and Clinical Epidemiology Centre Inserm CIE6, Nancy-University Hospital, France. francis.guillemin@medecine.uhp-nancy.fr},
number = {7},
pages = {407--13},
volume = {3},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Rheumatology, Sample Size, Reproducibility of Results, Data Interpretation: Statistical, Sensitivity and Specificity, Humans, Randomized Controlled Trials as Topic, Treatment Outcome, Selection Bias, Research Design},
date-added = {2010-01-17 23:24:20 +0100},
date-modified = {2010-01-17 23:24:20 +0100},
doi = {10.1038/ncprheum0528},
pii = {ncprheum0528},
pmid = {17599075},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3996},
rating = {0}
}
@article{State:2000p10344,
author = {M W State and P J Lombroso and D L Pauls and J F Leckman},
journal = {J Am Acad Child Adolesc Psychiatry},
title = {The genetics of childhood psychiatric disorders: a decade of progress},
abstract = {OBJECTIVE: To review the literature over the past decade on the genetics of childhood neuropsychiatric disorders. METHOD: A computerized search was performed for articles published in the past decade, and selected papers were highlighted. RESULTS: The past decade of research has illuminated the complex genetics of early-onset mental disorders. Advances in statistical methodologies and laboratory-based gene-hunting techniques are laying the foundation for a deeper understanding of both the biological and environmental factors that contribute to mental illness. Researchers are on the verge of identifying and characterizing genetic vulnerabilities involved in common childhood psychiatric syndromes. CONCLUSIONS: Although the study of the genetics of childhood psychiatric disorders has advanced significantly over the past decade, considerable work remains. The identification of genes conferring vulnerability to psychiatric illnesses will have the potential to transform the field by providing insight into both biological and environmental determinants that contribute to serious developmental and psychiatric disorders in children and adolescents. These advances promise new understanding and new avenues for prevention and treatment. They will also present physicians and families with significant clinical and ethical challenges.},
affiliation = {Department of Genetics, Yale University School of Medicine, New Haven, CT 06520-7900, USA.},
number = {8},
pages = {946--62},
volume = {39},
year = {2000},
month = {Aug},
language = {eng},
keywords = {Gene Expression Regulation, Chromosome Mapping, Humans, Genotype, Mental Disorders, Genetic Predisposition to Disease, Syndrome, Phenotype, Child, Mutation},
date-added = {2010-04-02 18:18:40 +0200},
date-modified = {2010-04-02 18:18:40 +0200},
pmid = {10939224},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10344},
rating = {0}
}
@article{Prieto:2004p8398,
author = {Luis Prieto and Jos{\'e} A Sacrist{\'a}n},
journal = {BMC Med Res Methodol},
title = {What is the value of social values? The uselessness of assessing health-related quality of life through preference measures},
abstract = {BACKGROUND: The use of preference-based measures in the evaluation of health outcomes has extended considerably over the last decade. Their alleged advantage over other types of general instruments in the evaluation of health related quality of life (HRQOL), supposedly lies in the fact that preference measures incorporate values or utilities that reflects the value of social preferences through health states. The objective of this study was to determine whether the use of social preference weights or utilities makes any real difference when calculating scores for the Euroqol (EQ5-D) questionnaire, a HRQOL preference-based measure. METHODS: Responses to the EQ5-D of a sample of 10,972 patients from 10 countries enrolled in an observational study of the treatment of schizophrenia in Europe were used for this purpose. Two different methods of scoring the EQ-5D where compared: 'weighting the items' of the questionnaire through the UK official weight coefficients, and 'non-weighting the items'. Pearson's, Spearman's, and two-way mixed parametric intraclass correlation coefficients were used to estimate the association of the scores obtained in both ways. RESULTS: The association between weighted and unweighted Euroqol scores was extremely high (Pearson's r = 0.91), as was the association between their ranks (Spearman's rho = 0.93). The intraclass correlation coefficient obtained (0.89) also suggested that the concordance between the score distributions was prominent. CONCLUSIONS: A non-weighted approach to score the EQ5-D is enough to explain a high proportion of variance in scores obtained through the use of utilities. The differential contribution of weights based on population preference values is therefore minimal and, in our opinion, negligible.},
affiliation = {Health Outcomes Research Unit, Eli Lilly {\&} Co, Spain, Av, de la Industria, 30, 28108 Alcobendas, SPAIN. prieto_luis@lilly.com},
pages = {10},
volume = {4},
year = {2004},
month = {Apr},
language = {eng},
keywords = {Humans, Questionnaires, Health Status Indicators, Social Values, Quality of Life, Data Interpretation: Statistical},
date-added = {2010-03-21 13:36:24 +0100},
date-modified = {2010-03-21 13:36:24 +0100},
doi = {10.1186/1471-2288-4-10},
pii = {1471-2288-4-10},
pmid = {15117417},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prieto-2004-BMC%20Med%20Res%20Methodol_What%20is%20the%20value%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8398},
rating = {0}
}
@article{Csardi:2010p12805,
author = {G Csardi and T Nepusz},
title = {The igraph software package for complex network research},
date-added = {2010-06-18 22:49:36 +0200},
date-modified = {2010-06-18 22:50:09 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Csardi--_The%20igraph%20software.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12805},
rating = {0}
}
@article{Savitz:2009p5838,
author = {J B Savitz and W C Drevets},
journal = {Neuroscience},
title = {Imaging phenotypes of major depressive disorder: genetic correlates},
abstract = {Imaging techniques are a potentially powerful method of identifying phenotypes that are associated with, or are indicative of, a vulnerability to developing major depressive disorder (MDD). Here we identify seven promising MDD-associated traits identified by magnetic resonance imaging (MRI) or positron emission tomography (PET). We evaluate whether these traits are state-independent, heritable endophenotypes, or state-dependent phenotypes that may be useful markers of treatment efficacy. In MDD, increased activity of the amygdala in response to negative stimuli appears to be a mood-congruent phenomenon, and is likely moderated by the 5-HT transporter gene (SLC6A4) promoter polymorphism (5-HTTLPR). Hippocampal volume loss is characteristic of elderly or chronically-ill samples and may be impacted by the val66met brain-derived neurotrophic factor (BDNF) gene variant and the 5-HTTLPR SLC6A4 polymorphism. White matter pathology is salient in elderly MDD cohorts but is associated with cerebrovascular disease, and is unlikely to be a useful marker of a latent MDD diathesis. Increased blood flow or metabolism of the subgenual anterior cingulate cortex (sgACC), together with gray matter volume loss in this region, is a well-replicated finding in MDD. An attenuation of the usual pattern of fronto-limbic connectivity, particularly a decreased temporal correlation in amygdala-anterior cingulate cortex (ACC) activity, is another MDD-associated trait. Concerning neuroreceptor PET imaging, decreased 5-HT(1A) binding potential in the raphe, medial temporal lobe, and medial prefrontal cortex (mPFC) has been strongly associated with MDD, and may be impacted by a functional single nucleotide polymorphism in the promoter region of the 5-HT(1A) gene (HTR1A: -1019 C/G; rs6295). Potentially indicative of inter-study variation in MDD etiology or mood state, both increased and decreased binding potential of the 5-HT transporter has been reported. Challenges facing the field include the problem of phenotypic and etiological heterogeneity, technological limitations, the confounding effects of medication, and non-disease related inter-individual variation in brain morphology and function. Further advances are likely as epigenetic, copy-number variant, gene-gene interaction, and genome-wide association (GWA) approaches are brought to bear on imaging data.},
affiliation = {Mood and Anxiety Disorders Program, NIH/NIMH, Bethesda, MD 20892, USA. savitzj@mail.nih.gov},
number = {1},
pages = {300--30},
volume = {164},
year = {2009},
month = {Nov},
language = {eng},
keywords = {Animals, Brain Mapping, Phenotype, Humans, Depressive Disorder: Major, Models: Genetic, Brain},
date-added = {2010-02-17 10:12:59 +0100},
date-modified = {2010-02-17 10:12:59 +0100},
doi = {10.1016/j.neuroscience.2009.03.082},
pii = {S0306-4522(09)00579-X},
pmid = {19358877},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Savitz-2009-Neuroscience_Imaging%20phenotypes%20o.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5838},
rating = {0}
}
@article{Moore:2010p3106,
author = {Jason H Moore and Folkert W Asselbergs and Scott M Williams},
journal = {Bioinformatics},
title = {Bioinformatics Challenges for Genome-Wide Association Studies},
abstract = {MOTIVATION: The sequencing of the human genome has made it possible to identify an informative set of more than one million single nucleotide polymorphisms (SNPs) across the genome that can be used to carry out genome-wide association studies (GWAS). The availability of massive amounts of GWAS data has necessitated the development of new biostatistical methods for quality control, imputation, and analysis issues including multiple testing. This work has been successful and has enabled the discovery of new associations that have been replicated in multiple studies. However, it is now recognized that most SNPs discovered via GWAS have small effects on disease susceptibility and thus may not be suitable for improving healthcare through genetic testing. One likely explanation for the mixed results of GWAS is that the current biostatistical analysis paradigm is by design agnostic or unbiased in that it ignores all prior knowledge about disease pathobiology. Further, the linear modeling framework that is employed in GWAS often considers only one SNP at a time thus ignoring their genomic and environmental context. There is now a shift away from the biostatistical approach toward a more holistic approach that recognizes the complexity of the genotype-phenotype relationship that is characterized by significant heterogeneity and gene-gene and gene-environment interaction. We argue here that bioinformatics has an important role to play in addressing the complexity of the underlying genetic basis of common human diseases. The goal of this review is to identify and discuss those GWAS challenges that will require computational methods.},
affiliation = {Departments of Genetics and Community and Family Medicine, Dartmouth Medical School, Lebanon, NH 03756.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-14 20:21:18 +0100},
date-modified = {2010-01-14 20:21:18 +0100},
doi = {10.1093/bioinformatics/btp713},
pii = {btp713},
pmid = {20053841},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moore-2010-Bioinformatics_Bioinformatics%20Chall.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3106},
read = {Yes},
rating = {3}
}
@article{deLeeuw:1982p4263,
author = {Jan de Leeuw},
journal = {COMPSTAT 1982},
title = {Nonlinear principal component analysis},
abstract = {Two quite different forms of nonlinear principal component analysis have been proposed in the literature. The first one is associated with the names of Guttman, Burt, Hayashi, Benz{\'e}cri, McDonald, De Leeuw, Hill, Nishisato. We call it multiple correspondence analysis. The second form has been discussed by Kruskal, Shepard, Roskam, Takane, Young, De Leeuw, Winsberg, Ramsay. We call it nonmetric principal component analysis. The two forms have been related and combined, both geometrically and computationally, by Albert Gifi. In this paper we discuss the relationships in more detail, and propose an alternative algorithm for nonlinear principal component analysis which combines features of both previous approaches.},
pages = {77--86},
year = {1982},
date-added = {2010-01-23 21:21:50 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-1982-COMPSTAT%201982_Nonlinear%20principal.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4263},
rating = {0}
}
@article{Zhao:2003p1777,
author = {L Zhao and K Chan},
journal = {CJIM},
title = {Quality of Life Assessment: An Outcome Estimation of Chinese Medical Treatment},
number = {4},
pages = {299--301},
volume = {9},
year = {2003},
date-added = {2010-01-09 21:44:49 +0100},
date-modified = {2010-01-09 21:45:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhao-2003-CJIM_Quality%20of%20Life%20Asse.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1777},
rating = {0}
}
@article{Hand:2010p4220,
author = {David J Hand},
journal = {Stat Med},
title = {Evaluating diagnostic tests: The area under the ROC curve and the balance of errors},
abstract = {Because accurate diagnosis lies at the heart of medicine, it is important to be able to evaluate the effectiveness of diagnostic tests. A variety of accuracy measures are used. One particularly widely used measure is the AUC, the area under the receiver operating characteristic (ROC) curve. This measure has a well-understood weakness when comparing ROC curves which cross. However, it also has the more fundamental weakness of failing to balance different kinds of misdiagnoses effectively. This is not merely an aspect of the inevitable arbitrariness in choosing a performance measure, but is a core property of the way the AUC is defined. This property is explored, and an alternative, the H measure, is described. Copyright (c) 2010 John Wiley {\&} Sons, Ltd.},
affiliation = {Imperial College, London.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-01-21 10:58:26 +0100},
date-modified = {2010-01-21 10:58:26 +0100},
doi = {10.1002/sim.3859},
pmid = {20087877},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hand-2010-Stat%20Med_Evaluating%20diagnosti.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4220},
rating = {0}
}
@article{Houseman:2007,
author = {E Andres Houseman and Carmen Marsit and Margaret Karagas and Louise M Ryan},
journal = {Biometrics},
title = {Penalized item response theory models: application to epigenetic alterations in bladder cancer.},
abstract = {Increasingly used in health-related applications, latent variable models provide an appealing framework for handling high-dimensional exposure and response data. Item response theory (IRT) models, which have gained widespread popularity, were originally developed for use in the context of educational testing, where extremely large sample sizes permitted the estimation of a moderate-to-large number of parameters. In the context of public health applications, smaller sample sizes preclude large parameter spaces. Therefore, we propose a penalized likelihood approach to reduce mean square error and improve numerical stability. We present a continuous family of models, indexed by a tuning parameter, that range between the Rasch model and the IRT model. The tuning parameter is selected by cross validation or approximations such as Akaike Information Criterion. While our approach can be placed easily in a Bayesian context, we find that our frequentist approach is more computationally efficient. We demonstrate our methodology on a study of methylation silencing of gene expression in bladder tumors. We obtain similar results using both frequentist and Bayesian approaches, although the frequentist approach is less computationally demanding. In particular, we find high correlation of methylation silencing among 16 loci in bladder tumors, that methylation is associated with smoking and also with patient survival.},
affiliation = {Department of Work Environment, University of Massachusetts Lowell, Kitson Hall, 202E, One University Ave., Lowell, Massachusetts 01854, USA. andres_houseman@uml.edu},
number = {4},
pages = {1269--1277},
volume = {63},
year = {2007},
month = {Dec},
language = {eng},
date-added = {2010-01-03 19:38:22 +0100},
date-modified = {2010-01-03 19:38:22 +0100},
doi = {10.1111/j.1541-0420.2007.00806.x},
pii = {BIOM806},
pmid = {17484774},
url = {http://dx.doi.org/10.1111/j.1541-0420.2007.00806.x},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1171},
rating = {0}
}
@article{Agresti:1992p6265,
author = {Alan Agresti},
journal = {Statistical Science},
title = {A Survey of Exact Inference for Contingency Tables},
abstract = {The past decade has seen substantial research on exact infer- ence for contingency tables, both in terms of developing new analyses and developing efficient algorithms for computations. Coupled with concomitant improvements in computer power, this research has re- sulted in a greater variety of exact procedures becoming feasible for practical use and a considerable increase in the size of data sets to which the procedures can be applied. For some basic analyses of contin- gency tables, it is unnecessary to use large-sample approximations to sampling distributions when their adequacy is in doubt. This article surveys the current theoretical and computational developments of exact methods for contingency tables. Primary attention is given to the exact conditional approach, which eliminates nuisance parameters by conditioning on their sflicient statistics. The presentation of various exact inferences is unified by expressing them in terms of parameters and their sufficient statistics in loglinear models. Exact approaches for many inferences are not yet addressed in the literature, particularly for multidimensional contingency tables, and this article also suggests additional research for the next decade that would make exact methods yet more widely applicable.},
number = {1},
pages = {131--153},
volume = {7},
year = {1992},
date-added = {2010-02-19 21:55:51 +0100},
date-modified = {2010-07-29 20:17:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Agresti-1992-Statistical%20Science_A%20Survey%20of%20Exact%20In.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6265},
rating = {0}
}
@article{Yu:2005p3537,
author = {S Yu and K Yu and V Tresp and H P Kriegel},
title = {A Probabilistic Clustering-Projection Model for Discrete Data},
abstract = {For discrete co-occurrence data like documents and words, calculating optimal projections and clustering are two different but re- lated tasks. The goal of projection is to find a low-dimensional latent space for words, and clustering aims at grouping documents based on their feature representations. In general projection and clustering are studied independently, but they both represent the intrinsic structure of data and should reinforce each other. In this paper we introduce a probabilistic clustering-projection (PCP) model for discrete data, where they are both represented in a unified framework. Clustering is seen to be performed in the projected space, and projection explicitly considers clustering structure. Iterating the two operations turns out to be exactly the variational EM algorithm under Bayesian model inference, and thus is guaranteed to improve the data likelihood. The model is evaluated on two text data sets, both showing very encouraging results.},
year = {2005},
date-added = {2010-01-15 20:53:22 +0100},
date-modified = {2010-01-15 20:54:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2005-_A%20Probabilistic%20Clus.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3537},
rating = {0}
}
@article{Lubinski:2009p7608,
author = {David Lubinski},
journal = {Behav Genet},
title = {Exceptional cognitive ability: the phenotype},
abstract = {Characterizing the outcomes related to the phenotype of exceptional cognitive abilities has been feasible in recent years due to the availability of large samples of intellectually precocious adolescents identified by modern talent searches that have been followed-up longitudinally over multiple decades. The level and pattern of cognitive abilities, even among participants within the top 1% of general intellectual ability, are related to differential developmental trajectories and important life accomplishments: The likelihood of earning a doctorate, earning exceptional compensation, publishing novels, securing patents, and earning tenure at a top university (and the academic disciplines within which tenure is most likely to occur) all vary as a function of individual differences in cognitive abilities assessed decades earlier. Individual differences that distinguish the able (top 1 in 100) from the exceptionally able (top 1 in 10,000) during early adolescence matter in life, and, given the heritability of general intelligence, they suggest that understanding the genetic and environmental origins of exceptional abilities should be a high priority for behavior genetic research, especially because the results for extreme groups could differ from the rest of the population. In addition to enhancing our understanding of the etiology of general intelligence at the extreme, such inquiry may also reveal fundamental determinants of specific abilities, like mathematical versus verbal reasoning, and the distinctive phenotypes that contrasting ability patterns are most likely to eventuate in at extraordinary levels.},
affiliation = {Department of Psychology and Human Development, Vanderbilt University, Nashville, TN 37203, USA. david.lubinski@vanderbilt.edu},
number = {4},
pages = {350--8},
volume = {39},
year = {2009},
month = {Jul},
language = {eng},
keywords = {Adolescent, Child, Concept Formation, Intelligence, Cognition, Achievement, Adult, Humans, Aptitude Tests, Longitudinal Studies, Creativeness, Aptitude, Child: Gifted, Phenotype},
date-added = {2010-03-15 23:10:11 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9273-0},
pmid = {19424784},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lubinski-2009-Behav%20Genet_Exceptional%20cognitiv.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7608},
rating = {0}
}
@article{Guyon2002,
author = {I Guyon and J Weston and S Barnhill and V N Vapnik},
journal = {Machine Learning},
title = {Gene selection for cancer classification using Support Vector Machines},
number = {1-3},
pages = {389--422},
volume = {46},
year = {2002},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-07-29 19:38:49 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2530},
rating = {0}
}
@article{Bruggink:2010p7932,
author = {J L M Bruggink and K Van Braeckel and A F Bos},
title = {In children born preterm the quality of the motor repertoire during early infancy is associated with intelligence at school age},
abstract = {Background: The quality of general movements (GMs) during early infancy has consistently been found to be a powerful predictor of motor disorders in later childhood. The question arises whether the quality of GMs is also associated with later cognition. Aim: To determine whether quality of GMs in preterm children has predictive value for cognitive development at school age.
Study design: Prospective cohort study. Subjects: The study group consisted of 60 preterm infants (36 boys, 24 girls) without cerebral palsy. The median gestational age was 30.0 weeks (range 25-33 weeks), median birth weight was 1130 grams (595-1800g). The educational level of both parents ranged from elementary to tertiary level (mothers: median 10 years, range 6-17 years, fathers: median 11 years, range 8-17 years). The quality of GMs was prospectively assessed as normal or abnormal from video- recordings that were made at regular intervals: at preterm age, term, three to eight weeks' post-term, and at eleven to seventeen weeks' post-term age. Outcome measures: At seven to eleven years of age, the children's intelligence was tested using the WISC-IIINL. The total (TIQ), verbal (VIQ) and performance (PIQ) intelligence quotient scores were calculated. Results: The median TIQ was 93 (67-113), VIQ 96 (68-117), and PIQ 92 (65-119). Fifteen children (25%) had a low TIQ (<85). The longitudinal course of the quality of GMs was associated with TIQ, VIQ, and PIQ. If the quality of GMs had normalised before eight weeks' post-term, TIQ, VIQ, and PIQ fell within the normal range. A consistently abnormal quality of GMs before eight weeks' post-term was associated with a lower TIQ, VIQ, and PIQ. The likelihood ratio of consistently abnormal GMs up to eight weeks post-term for a low TIQ was 4.9 (95%CI: 1.4-17.2). The educational levels of the parents were not associated with IQ scores. Conclusions: The quality of GMs during the early post-term period is a predictor for intelligence at school age. Abnormal quality of GMs during the early post-term period may reflect injury or developmental disruptions of brain areas involved in cognitive development. It may also reflect the crucial role of motor activity in normal cognitive development.},
date-added = {2010-03-20 19:23:36 +0100},
date-modified = {2010-03-20 19:24:54 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bruggink--_In%20children%20born%20pre.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7932},
rating = {5}
}
@article{Boeck:2005,
author = {Paul De Boeck and M Wilson and G Scott Acton},
journal = {Psychological Review},
title = {Conceptual and psychometric framework for distinguishing categories and dimensions},
number = {1},
pages = {129--158},
volume = {112},
year = {2005},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/De%20Boeck-2005-Psychological%20Review_Conceptual%20and%20psych.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1986},
rating = {0}
}
@article{Clark:1991p5441,
author = {L A Clark and D Watson},
journal = {J Abnorm Psychol},
title = {Tripartite model of anxiety and depression: psychometric evidence and taxonomic implications},
abstract = {We review psychometric and other evidence relevant to mixed anxiety-depression. Properties of anxiety and depression measures, including the convergent and discriminant validity of self- and clinical ratings, and interrater reliability, are examined in patient and normal samples. Results suggest that anxiety and depression can be reliably and validly assessed; moreover, although these disorders share a substantial component of general affective distress, they can be differentiated on the basis of factors specific to each syndrome. We also review evidence for these specific factors, examining the influence of context and scale content on ratings, factor analytic studies, and the role of low positive affect in depression. With these data, we argue for a tripartite structure consisting of general distress, physiological hyperarousal (specific anxiety), and anhedonia (specific depression), and we propose a diagnosis of mixed anxiety-depression.},
affiliation = {Department of Psychology, Southern Methodist University, Dallas, Texas 75275-0442.},
number = {3},
pages = {316--36},
volume = {100},
year = {1991},
month = {Aug},
language = {eng},
keywords = {Syndrome, Depressive Disorder, Psychometrics, Diagnosis: Differential, Humans, Psychiatric Status Rating Scales, Anxiety Disorders},
date-added = {2010-02-11 17:23:52 +0100},
date-modified = {2010-02-11 17:23:52 +0100},
pmid = {1918611},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5441},
rating = {0}
}
@article{Lesch:1996p11599,
author = {K P Lesch and D Bengel and A Heils and S Z Sabol and B D Greenberg and S Petri and J Benjamin and C R M{\"u}ller and D H Hamer and D L Murphy},
journal = {Science},
title = {Association of anxiety-related traits with a polymorphism in the serotonin transporter gene regulatory region},
abstract = {Transporter-facilitated uptake of serotonin (5-hydroxytryptamine or 5-HT) has been implicated in anxiety in humans and animal models and is the site of action of widely used uptake-inhibiting antidepressant and antianxiety drugs. Human 5-HT transporter (5-HTT) gene transcription is modulated by a common polymorphism in its upstream regulatory region. The short variant of the polymorphism reduces the transcriptional efficiency of the 5-HTT gene promoter, resulting in decreased 5-HTT expression and 5-HT uptake in lymphoblasts. Association studies in two independent samples totaling 505 individuals revealed that the 5-HTT polymorphism accounts for 3 to 4 percent of total variation and 7 to 9 percent of inherited variance in anxiety-related personality traits in individuals as well as sibships.},
affiliation = {Department of Psychiatry, University of W{\"u}rzburg, F{\"u}chsleinstrasse 15, 97080 W{\"u}rzburg, Germany. kplesch@rzbox.uni-wuerzburg.de},
number = {5292},
pages = {1527--31},
volume = {274},
year = {1996},
month = {Nov},
language = {eng},
keywords = {Polymorphism: Genetic, Membrane Transport Proteins, Neurotic Disorders, Phenotype, Genetic Markers, Male, Adult, Humans, Cell Line, Anxiety Disorders, Nuclear Family, Promoter Regions: Genetic, Personality Tests, Membrane Glycoproteins, Serotonin, Female, Transfection, Nerve Tissue Proteins, Serotonin Plasma Membrane Transport Proteins, Carrier Proteins, Genotype, Alleles, Middle Aged, Adolescent},
date-added = {2010-05-09 21:23:41 +0200},
date-modified = {2010-07-29 19:50:10 +0200},
pmid = {8929413},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lesch-1996-Science_Association%20of%20anxie.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11599},
rating = {4}
}
@article{Drieling:2006p11470,
author = {Tobias Drieling and Dietrich van Calker and Heidemarie Hecht},
journal = {J Affect Disord},
title = {Stress, personality and depressive symptoms in a 6.5 year follow-up of subjects at familial risk for affective disorders and controls},
abstract = {BACKGROUND: The aim of the study was to identify risk factors in subjects at risk for depressive disorders and controls. METHODS: In a 6.5 year follow-up study we examined the effects of personality (neuroticism, frustration intolerance, rigidity, melancholic type), adverse life events and chronic difficulties on depressive symptoms in 89 high-risk subjects (HRS, siblings and children of patients suffering from an affective disorder), without any mental illness at wave 1 (T1), and 49 controls without any personal and family history of psychiatric disorder at T1. To this end, regression analysis and path analysis using a structural equation model (only for HRS) were performed. RESULTS: Risk factors for depressive symptoms at wave 2 (T2) in HRS comprised acute adverse life events, frustration intolerance (T1) and depressive symptoms (T1). Risk factors for depressive symptoms in controls included chronic difficulties, neuroticism and rigidity. HRS had less stressful life events and the same risk for chronic difficulties, but perceived adverse events as more stressful. LIMITATION: The sample size of the control group is too small for identifying slight effects. CONCLUSION: Our results indicate that the impact on the emergence of depressive symptoms of various risk factors is different in high-risk subjects and controls. High-risk subjects are more sensitive to the depressogenic effects of acute stress and thus avoid potential stressful changes in their life to a higher extent. On the other hand, the influence of persistent factors such as personality traits (neuroticism, rigidity) and chronic difficulties on subsequent depressive symptoms was less pronounced in HRS as compared to controls.},
affiliation = {Department of Psychiatry and Psychotherapy, University of Freiburg, Hauptstr. 5, 79104 Freiburg, Germany. toias_drieling@psyallg.ukl.uni-freiburg.de},
number = {2-3},
pages = {195--203},
volume = {91},
year = {2006},
month = {Apr},
language = {eng},
keywords = {Male, Genetic Predisposition to Disease, Mood Disorders, Risk Factors, Female, Follow-Up Studies, Questionnaires, Adult, Stress: Psychological, Depression, Personality, Humans},
date-added = {2010-05-01 17:24:28 +0200},
date-modified = {2010-05-01 17:24:28 +0200},
doi = {10.1016/j.jad.2006.01.004},
pii = {S0165-0327(06)00005-X},
pmid = {16488022},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11470},
rating = {0}
}
@article{Zhao:2008p2286,
author = {Zhenming Zhao and Nadia Timofeev and Stephen W Hartley and David Hk Chui and Supan Fucharoen and Thomas T Perls and Martin H Steinberg and Clinton T Baldwin and Paola Sebastiani},
journal = {BMC Genet},
title = {Imputation of missing genotypes: an empirical evaluation of IMPUTE},
abstract = {BACKGROUND: Imputation of missing genotypes is becoming a very popular solution for synchronizing genotype data collected with different microarray platforms but the effect of ethnic background, subject ascertainment, and amount of missing data on the accuracy of imputation are not well understood. RESULTS: We evaluated the accuracy of the program IMPUTE to generate the genotype data of partially or fully untyped single nucleotide polymorphisms (SNPs). The program uses a model-based approach to imputation that reconstructs the genotype distribution given a set of referent haplotypes and the observed data, and uses this distribution to compute the marginal probability of each missing genotype for each individual subject that is used to impute the missing data. We assembled genome-wide data from five different studies and three different ethnic groups comprising Caucasians, African Americans and Asians. We randomly removed genotype data and then compared the observed genotypes with those generated by IMPUTE. Our analysis shows 97% median accuracy in Caucasian subjects when less than 10% of the SNPs are untyped and missing genotypes are accepted regardless of their posterior probability. The median accuracy increases to 99% when we require 0.95 minimum posterior probability for an imputed genotype to be acceptable. The accuracy decreases to 86% or 94% when subjects are African Americans or Asians. We propose a strategy to improve the accuracy by leveraging the level of admixture in African Americans. CONCLUSION: Our analysis suggests that IMPUTE is very accurate in samples of Caucasians origin, it is slightly less accurate in samples of Asians background, but substantially less accurate in samples of admixed background such as African Americans. Sample size and ascertainment do not seem to affect the accuracy of imputation.},
affiliation = {Department of Biostatistics, Boston University School of Public Health, 801 Massachusetts Avenue, Boston MA 02118, USA.},
pages = {85},
volume = {9},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Genotype, African Americans, Humans, Computational Biology, Models: Genetic, Sensitivity and Specificity, Polymorphism: Single Nucleotide, Genome-Wide Association Study, Software, Mathematical Computing, European Continental Ancestry Group, Asian Continental Ancestry Group},
date-added = {2010-01-10 12:02:20 +0100},
date-modified = {2010-01-10 12:02:20 +0100},
doi = {10.1186/1471-2156-9-85},
pii = {1471-2156-9-85},
pmid = {19077279},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zhao-2008-BMC%20Genet_Imputation%20of%20missin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2286},
rating = {0}
}
@article{Dome:2010p5267,
author = {Peter Dome and Judit Lazary and Miklos Peter Kalapos and Zoltan Rihmer},
journal = {Neurosci Biobehav Rev},
title = {Smoking, nicotine and neuropsychiatric disorders},
abstract = {Tobacco smoking is an extremely addictive and harmful form of nicotine (NIC) consumption, but unfortunately also the most prevalent. Although disproportionately high frequencies of smoking and its health consequences among psychiatric patients are widely known, the neurobiological background of this epidemiological association is still obscure. The diverse neuroactive effects of NIC and some other major tobacco smoke constituents in the central nervous system may underlie this association. This present paper summarizes the pharmacology of NIC and its receptors (nAChR) based on a systematic review of the literature. The role of the brain's reward system(s) in NIC addiction and the results of functional and structural neuroimaging studies on smoking-related states and behaviors (i.e. dependence, craving, withdrawal) are also discussed. In addition, the epidemiological, neurobiological, and genetic aspects of smoking in several specific neuropsychiatric disorders are reviewed and the clinical relevance of smoking in these disease states addressed.},
affiliation = {Department of Clinical and Theoretical Mental Health, Kutvolgyi Clinical Center, Semmelweis University, Faculty of Medicine, Kutvolgyi ut 4, 1125 Budapest, Hungary. dome_peter@yahoo.co.uk},
number = {3},
pages = {295--342},
volume = {34},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-02-09 22:27:51 +0100},
date-modified = {2010-02-09 22:27:51 +0100},
doi = {10.1016/j.neubiorev.2009.07.013},
pii = {S0149-7634(09)00111-0},
pmid = {19665479},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5267},
rating = {0}
}
@article{Palmer:2005p3275,
author = {Lyle J Palmer and Lon R Cardon},
journal = {Lancet},
title = {Shaking the tree: mapping complex disease genes with linkage disequilibrium},
abstract = {Much effort and expense are being spent internationally to detect genetic polymorphisms contributing to susceptibility to complex human disease. Concomitantly, the technology for detecting and genotyping single nucleotide polymorphisms (SNPs) has undergone rapid development, yielding extensive catalogues of these polymorphisms across the genome. Population-based maps of the correlations amongst SNPs (linkage disequilibrium) are now being developed to accelerate the discovery of genes for complex human diseases. These genomic advances coincide with an increasing recognition of the importance of very large sample sizes for studying genetic effects. Together, these new genetic and epidemiological data hold renewed promise for the identification of susceptibility genes for complex traits. We review the state of knowledge about the structure of the human genome as related to SNPs and linkage disequilibrium, discuss the potential applications of this knowledge to mapping complex disease genes, and consider the issues facing whole genome association scanning using SNPs.},
affiliation = {Western Australian Institute for Medical Research and University of Western Australia Centre for Medical Research, University of Western Australia. lyle.palmer@cyllene.uwa.edu.au},
number = {9492},
pages = {1223--34},
volume = {366},
year = {2005},
month = {Oct},
language = {eng},
keywords = {Haplotypes, Humans, Genetics: Population, Polymorphism: Single Nucleotide, Genotype, Gene Frequency, Linkage Disequilibrium, Chromosome Mapping},
date-added = {2010-01-14 21:08:47 +0100},
date-modified = {2010-07-29 19:38:44 +0200},
doi = {10.1016/S0140-6736(05)67485-5},
pii = {S0140-6736(05)67485-5},
pmid = {16198771},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Palmer-2005-Lancet_Shaking%20the%20tree%20ma.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3275},
read = {Yes},
rating = {0}
}
@article{Hwang:2006p2721,
author = {H Hwang and W S DeSarbo and Y Takane},
title = {Fuzzy Clusterwise Generalized Structured Component Analysis},
abstract = {Generalized Structured Component Analysis (GSCA) was recently introduced by Hwang and Takane (2004) as a component-based approach to path analysis with latent variables. The parameters of GSCA are estimated by pooling data across respondents under the implicit assumption that they all come from a single, homogenous group. However, as has been empirically demonstrated by various researchers across a number of areas of inquiry, such aggregate analyses can often mask the true structure in data when respondent heterogeneity is present. In this paper, GSCA is generalized to a fuzzy clustering framework so as to account for potential group-level respondent heterogeneity. An alternating least-squares procedure is developed and technically described for parameter estimation. A small-scale Monte Carlo study involving synthetic data is carried out to compare the performance between the proposed method and an extant approach. In addition, an empirical application concerning alcohol use among adolescents from US northwestern urban areas is presented to illustrate the usefulness of the proposed method. Finally, a number of directions for future research are provided.},
year = {2006},
date-added = {2010-01-13 14:10:53 +0100},
date-modified = {2010-07-24 11:35:04 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hwang-2006-_Fuzzy%20Clusterwise%20Ge.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2721},
read = {Yes},
rating = {4}
}
@article{Liu:2009p13158,
author = {Qingzhong Liu and Andrew H Sung and Zhongxue Chen and Jianzhong Liu and Xudong Huang and Youping Deng},
journal = {PLoS ONE},
title = {Feature selection and classification of MAQC-II breast cancer and multiple myeloma microarray gene expression data},
abstract = {Microarray data has a high dimension of variables but available datasets usually have only a small number of samples, thereby making the study of such datasets interesting and challenging. In the task of analyzing microarray data for the purpose of, e.g., predicting gene-disease association, feature selection is very important because it provides a way to handle the high dimensionality by exploiting information redundancy induced by associations among genetic markers. Judicious feature selection in microarray data analysis can result in significant reduction of cost while maintaining or improving the classification or prediction accuracy of learning machines that are employed to sort out the datasets. In this paper, we propose a gene selection method called Recursive Feature Addition (RFA), which combines supervised learning and statistical similarity measures. We compare our method with the following gene selection methods: Support Vector Machine Recursive Feature Elimination (SVMRFE), Leave-One-Out Calculation Sequential Forward Selection (LOOCSFS), Gradient based Leave-one-out Gene Selection (GLGS). To evaluate the performance of these gene selection methods, we employ several popular learning classifiers on the MicroArray Quality Control phase II on predictive modeling (MAQC-II) breast cancer dataset and the MAQC-II multiple myeloma dataset. Experimental results show that gene selection is strictly paired with learning classifier. Overall, our approach outperforms other compared methods. The biological functional analysis based on the MAQC-II breast cancer dataset convinced us to apply our method for phenotype prediction. Additionally, learning classifiers also play important roles in the classification of microarray data and our experimental results indicate that the Nearest Mean Scale Classifier (NMSC) is a good choice due to its prediction reliability and its stability across the three performance measurements: Testing accuracy, MCC values, and AUC errors.},
affiliation = {Department of Computer Science and Institute for Complex Additive Systems Analysis, New Mexico Tech, Socorro, New Mexico, United States of America.},
number = {12},
pages = {e8250},
volume = {4},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Multiple Myeloma, Receptors: Estrogen, Databases: Genetic, Gene Expression Profiling, Genes: Neoplasm, Treatment Outcome, Female, Quality Control, Breast Neoplasms, Humans, Oligonucleotide Array Sequence Analysis, Gene Expression Regulation: Neoplastic},
date-added = {2010-06-26 11:17:17 +0200},
date-modified = {2010-06-26 11:17:18 +0200},
doi = {10.1371/journal.pone.0008250},
pmid = {20011240},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Liu-2009-PLoS%20ONE_Feature%20selection%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13158},
rating = {0}
}
@article{Hu:2007p6891,
author = {Yongjian Hu and Sarah Stewart-Brown and Liz Twigg and Scott Weich},
journal = {Psychol Med},
title = {Can the 12-item General Health Questionnaire be used to measure positive mental health?},
abstract = {BACKGROUND: Well-being is an important determinant of health and social outcomes. Measures of positive mental health states are needed for population-based research. The 12-item General Health Questionnaire (GHQ-12) has been widely used in many settings and languages, and includes positively and negatively worded items. Our aim was to test the hypothesis that the GHQ-12 assesses both positive and negative mental health and that these domains are independent of one another. METHOD: Exploratory (EFA) and confirmatory (CFA) factor analyses were conducted using data from the British Household Panel Survey (BHPS) and the Health Survey for England (HSE). Regression models were used to assess whether associations with individual and household characteristics varied across positive and negative mental health dimensions. We also explored higher-level variance in these measures, between electoral wards. RESULTS: We found a consistent, replicable factor structure in both datasets. EFA results indicated a two-factor solution, and CFA demonstrated that this was superior to a one-factor model. These factors correspond to 'symptoms of mental disorder' and 'positive mental health'. Further analyses demonstrated independence of these factors in associations with age, gender, employment status, poor housing and household composition. Statistically significant ward-level variance was found for symptoms of mental disorder but not positive mental health. CONCLUSIONS: The GHQ-12 measures both positive and negative aspects of mental health, and although correlated, these dimensions have some independence. The GHQ-12 could be used to measure positive mental health in population-based research.},
affiliation = {Health Sciences Research Institute, Warwick Medical School, University of Warwick, Coventry, UK.},
number = {7},
pages = {1005--13},
volume = {37},
year = {2007},
month = {Jul},
language = {eng},
keywords = {Female, Male, Factor Analysis: Statistical, Great Britain, Adult, Humans, Research Design, Mental Health, Models: Psychological, Reproducibility of Results, Questionnaires, Health Status, Risk Factors},
date-added = {2010-03-06 10:56:32 +0100},
date-modified = {2010-03-06 10:56:35 +0100},
doi = {10.1017/S0033291707009993},
pii = {S0033291707009993},
pmid = {17274855},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hu-2007-Psychol%20Med_Can%20the%2012-item%20Gene.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6891},
rating = {3}
}
@article{Robert:2010p13307,
author = {Christian P Robert and Judith Rousseau},
journal = {arXiv},
title = {On Bayesian Data Analysis},
abstract = { This introduction to Bayesian statistics presents the main concepts as well as the principal reasons advocated in favour of a Bayesian modelling. We cover the various approaches to prior determination as well as the basis asymptotic arguments in favour of using Bayes estimators. The testing aspects of Bayesian inference are also examined in details. },
annote = {16 pages, 2 figures, 2 tables, chapter of the contributed volume
"Bayesian Methods and Expert Elicitation", Risk Book, London},
eprint = {1001.4656v2},
volume = {stat.ME},
year = {2010},
month = {Jan},
keywords = {stat.ME},
date-added = {2010-07-01 18:25:47 +0200},
date-modified = {2010-07-01 18:25:47 +0200},
pmid = {1001.4656v2},
url = {http://arxiv.org/abs/1001.4656v2},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Robert-2010-arXiv_On%20Bayesian%20Data%20Ana.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13307},
rating = {0}
}
@misc{Ark:1998,
author = {L Andries van der Ark and P G M van der Heijden},
journal = {Miscellaneous},
title = {Graphical Display of Latent Budget Analysis and Latent Class Analysis, with Special Reference to Correspondence Analysis},
year = {1998},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andries%20van%20der%20Ark-1998-Miscellaneous_Graphical%20Display%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2045},
rating = {0}
}
@article{Wainwright:2006p12318,
author = {M J Wainwright and P Ravikumar and J D Lafferty},
journal = {NIPS},
title = {High-Dimensional Graphical Model Selection Using l1-Regularized Logistic Regression},
abstract = {We focus on the problem of estimating the graph structure associated with a discrete Markov random field. We describe a method based on l1- regularized logistic regression, in which the neighborhood of any given node is estimated by performing logistic regression subject to an l1-constraint. Our framework applies to the high-dimensional setting, in which both the number of nodes p and maximum neighborhood sizes d are allowed to grow as a function of the number of observations n. Our main result is to estab- lish sufficient conditions on the triple (n, p, d) for the method to succeed in consistently estimating the neighborhood of every node in the graph simul- taneously. Under certain mutual incoherence conditions analogous to those imposed in previous work on linear regression, we prove that consistent neighborhood selection can be obtained as long as the number of observa- tions n grows more quickly than 6d6 log d + 2d5 log p, thereby establishing that logarithmic growth in the number of samples n relative to graph size p is sufficient to achieve neighborhood consistency.},
year = {2006},
date-added = {2010-06-12 09:36:46 +0200},
date-modified = {2010-07-29 19:41:58 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wainwright-2006-NIPS_High-Dimensional%20Gra.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12318},
rating = {0}
}
@article{Kremen:2010p7647,
author = {William S Kremen and Kristen C Jacobson},
journal = {Behav Genet},
title = {Introduction to the special issue, pathways between genes, brain, and behavior},
abstract = {In the past 10 years or so, with the sequencing of the human genome and rapid advances in the development of high throughput techniques, the field of behavior genetics has increasingly moved toward the detection of actual genes and environmental factors. However, the field is still in the relatively early stages of understanding some of the basic facts about the complex genetic underpinnings of brain structure and function and their relationship to behavior. The 15 articles in this special issue were selected to represent the diversity of methodologies applied to the complexity of pathways linking genes, brain, and behavior. While providing strong evidence for the role of genes in individual differences in brain structure and function, these papers also demonstrate that environmental experiences alter neurobiological pathways, and that genetic factors may further moderate the impact of environmental experience. Most importantly, the breadth of studies proves that in order to be able to trace the pathways between genes, brain, and behavior, we need experts in genetics, neuroscience, psychology, and psychiatry.},
affiliation = {Department of Psychiatry, University of California, San Diego, La Jolla, CA, USA.},
number = {2},
pages = {111--3},
volume = {40},
year = {2010},
month = {Mar},
language = {eng},
date-added = {2010-03-15 23:18:15 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9342-4},
pmid = {20155393},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kremen-2010-Behav%20Genet_Introduction%20to%20the.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7647},
rating = {0}
}
@article{Orlando:2002p7863,
author = {Maria Orlando and Grant N Marshall},
journal = {Psychol Assess},
title = {Differential item functioning in a Spanish translation of the PTSD checklist: detection and evaluation of impact},
abstract = {This study demonstrated the application of an innovative item response theory (IRT) based approach to evaluating measurement equivalence, comparing a newly developed Spanish version of the Posttraumatic Stress Disorder Checklist-Civilian Version (PCL-C) with the established English version. Basic principles and practical issues faced in the application of IRT methods for instrument evaluation are discussed. Data were derived from a study of the mental health consequences of community violence in both Spanish speakers (n = 102) and English speakers (n = 284). Results of differential item functioning (DIF) analyses revealed that the 2 versions were not fully equivalent on an item-by-item basis in that 6 of the 17 items displayed uniform DIF. No bias was observed, however, at the composite PCL-C scale score, indicating that the 2 language versions can be combined for scale-level analyses.},
affiliation = {RAND, 1700 Main Street, P.O. Box 2138, Santa Monica, California 90407-2138, USA. orlando@rand.org},
number = {1},
pages = {50--9},
volume = {14},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Adult, Hispanic Americans, Longitudinal Studies, Translations, Reproducibility of Results, Psychiatric Status Rating Scales, Language, Female, Stress Disorders: Post-Traumatic, Bias (Epidemiology), Adolescent, Male, Humans},
date-added = {2010-03-20 19:02:01 +0100},
date-modified = {2010-07-29 19:45:39 +0200},
pmid = {11911049},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Orlando-2002-Psychol%20Assess_Differential%20item%20fu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7863},
rating = {4}
}
@article{Thomas:2007p883,
author = {D Roland Thomas and PengCheng Zhu and Yves J Decady},
journal = {Journal of Educational and Behavioral Statistics},
title = {Point Estimates and Confidence Intervals for Variable Importance in Multiple Linear Regression},
abstract = {The topic of variable importance in linear regression is reviewed, and a mea- sure first justified theoretically by Pratt (1987) is examined in detail. Asymptotic variance estimates are used to construct individual and simultaneous confidence intervals for these importance measures. A simulation study of their coverage properties is reported, and an example is provided.},
affiliation = {Carleton University},
number = {1},
pages = {61--91},
volume = {32},
year = {2007},
keywords = {relative importance, asymptotic variances, simultaneous confidence intervals, normalized Pratt measures, Bonferroni intervals},
date-added = {2010-01-03 18:15:55 +0100},
date-modified = {2010-01-03 18:17:53 +0100},
doi = {10.3102/1076998606298037},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thomas-2007-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Point%20Estimates%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p883},
rating = {0}
}
@article{Rijmen:2002p8186,
author = {F Rijmen and Paul De Boeck},
journal = {Applied Psychological Measurement},
title = {The Random Weights Linear Logistic Test Model},
abstract = {A generalization of the linear logistic test model of G. H. Fischer (1973), the random weights linear logistic test model, is presented. The generalization consists of a random coefficient contribution of item stimulus features to the item difficulties, with the coefficients varying over persons. Whereas in the common linear logistic test model, only the intercept (ability) is considered random over persons, in the random weights linear logistic test model, also some
or all of the item stimulus features are considered as having random coefficients. It turns out that the random weights linear logistic test model is a special case of the multidimensional random coefficient multinomial logit model of Adams, Wilson, and Wang (1997). The model is applied to a deductive reasoning task.},
number = {3},
pages = {271--285},
volume = {26},
year = {2002},
date-added = {2010-03-20 19:50:45 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rijmen-2002-Applied%20Psychological%20Measurement_The%20Random%20Weights%20L.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8186},
rating = {5}
}
@article{Moonesinghe:2010p10032,
author = {Ramal Moonesinghe and Tiebin Liu and Muin J Khoury},
journal = {Eur J Hum Genet},
title = {Evaluation of the discriminative accuracy of genomic profiling in the prediction of common complex diseases},
abstract = {Genetic testing for susceptibility to common diseases based on a combination of genetic markers may be needed because the effect size associated with each genetic marker is small. Whether or not a genome profile based on a combination of markers could yield a useful test can be evaluated by assessing the discriminative accuracy. The authors present a simple method to calculate the clinical discriminative accuracy of a genomic profile when the relative risk and genotype frequency of each genotype are known. In addition, the clinical discriminative accuracy of a genetic test is presented for given values of the heritability and prevalence of the disease and for the population-attributable fraction of the combined genetic markers. For given values of relative risk and genotype frequency, the discriminative accuracy increases with increasing heritability but declines with increasing prevalence of the disease. For a given value of population-attributable fraction, the discriminative accuracy increases with increasing relative risks, but declines with increasing genotype frequency. On the basis of population-attributable fraction and estimates of heritability of disease, the number of risk genotypes required to have a reasonable clinical discriminative accuracy is much higher than the genome profiles available at present.},
affiliation = {Office of Minority Health and health Disparities, Centers for Disease Control and Prevention, Mailstop E-67, 1600 Clifton Road, NE, Atlanta, GA 30333, USA. rmoonesinghe@cdc.gov},
number = {4},
pages = {485--9},
volume = {18},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-03-31 20:02:33 +0200},
date-modified = {2010-07-29 19:26:28 +0200},
doi = {10.1038/ejhg.2009.209},
pii = {ejhg2009209},
pmid = {19935832},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Moonesinghe-2010-Eur%20J%20Hum%20Genet_Evaluation%20of%20the%20di.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10032},
rating = {4}
}
@article{Viswanath:2009p8920,
author = {Biju Viswanath and Y C Janardhan Reddy and Keshav J Kumar and Thennarasu Kandavel and C R Chandrashekar},
journal = {Prog Neuropsychopharmacol Biol Psychiatry},
title = {Cognitive endophenotypes in OCD: a study of unaffected siblings of probands with familial OCD},
abstract = {BACKGROUND: Impairments in executive functions and non-verbal memory are considered potential endophenotype markers of obsessive-compulsive disorder (OCD). For the neuropsychological deficits to be considered endophenotypes, they should be demonstrable in unaffected family members. AIM: To compare the neuropsychological performance in unaffected siblings of probands with familial OCD with that of individually matched healthy controls. METHODS: Twenty-five unaffected siblings of OCD probands with familial OCD, and 25 individually matched healthy controls were assessed with tests of attention, executive function, memory and intelligence. RESULTS: Unaffected siblings showed significant deficits in tests of decision making and behavioural reversal i.e., the Iowa Gambling Task (IGT) and the Delayed Alternation Test (DAT) respectively, but performed adequately in other tests. CONCLUSIONS: Our study suggests that the deficits in decision making and behavioural reversal could be potential endophenotypes in OCD. These deficits are consistent with the proposed neurobiological model of OCD involving the orbitofrontal cortex. Future studies could couple cognitive and imaging strategies to identify neurocognitive endophenotypes in homogenous samples of OCD.},
affiliation = {National Institute of Mental Health {\&} Neuro Sciences, Bangalore, India.},
number = {4},
pages = {610--5},
volume = {33},
year = {2009},
month = {Jun},
language = {eng},
keywords = {Intelligence, Siblings, Phenotype, Family Health, Young Adult, Attention, Adult, Male, Adolescent, Memory, Cognition, Retrospective Studies, Problem Solving, Neuropsychological Tests, Middle Aged, Obsessive-Compulsive Disorder, Female, Humans},
date-added = {2010-03-22 13:00:22 +0100},
date-modified = {2010-07-29 19:45:33 +0200},
doi = {10.1016/j.pnpbp.2009.02.018},
pii = {S0278-5846(09)00057-8},
pmid = {19272409},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6TBR-4VT0X86-2&_user=2432700&_coverDate=06%252F15%252F2009&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=8831a301b9eceb236ce468fcb7c18730},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Viswanath-2009-Prog%20Neuropsychopharmacol%20Biol%20Psychiatry_Cognitive%20endophenot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8920},
rating = {0}
}
@article{VanRoy:2009p1519,
author = {P Van Roy},
title = {Programming Paradigms for Dummies: What Every Programmer Should Know},
abstract = {This chapter gives an introduction to all the main programming paradigms, their underlying concepts, and the relationships between them. We give a broad view to help programmers choose the right concepts they need to solve the problems at hand. We give a taxonomy of almost 30 useful programming paradigms and how they are related. Most of them differ only in one or a few concepts, but this can make a world of difference in programming. We explain briefly how programming paradigms influence language design, and we show two sweet spots: dual-paradigm languages and a definitive language. We introduce the main concepts of programming languages: records, closures, independence (concurrency), and named state. We explain the main principles of data abstraction and how it lets us organize large programs. Finally, we conclude by focusing on concurrency, which is widely considered the hardest concept to program with. We present four little-known but important paradigms that greatly simplify concurrent programming with respect to mainstream languages: declarative concurrency (both eager and lazy), functional reactive programming, discrete synchronous programming, and constraint programming. These paradigms have no race conditions and can be used in cases where no other paradigm works. We explain why for multi-core processors and we give several examples from computer music, which often uses these paradigms.},
year = {2009},
date-added = {2010-01-07 15:45:43 +0100},
date-modified = {2010-01-07 15:49:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Van%20Roy-2009-_Programming%20Paradigm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1519},
rating = {0}
}
@article{Sugden:1984p6316,
author = {R A Sugden and T M F Smith},
journal = {Biometrika},
title = {Ignorable and Informative Designs in Survey Sampling Inference},
abstract = {The role of the sample selection mechanism in a model-based approach to finite population inference is examined. When the data analyst has only partial information on the sample design then a design which is ignorable when known fully may become informative. Conditions under which partially known designs can be ignored are established and examined for some standard designs. The results are illustrated by an example used by Scott (1977).},
number = {3},
pages = {495--506},
volume = {71},
year = {1984},
date-added = {2010-02-20 21:11:19 +0100},
date-modified = {2010-02-20 21:12:05 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sugden-1984-Biometrika_Ignorable%20and%20Inform.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6316},
rating = {0}
}
@article{Yeager:2006p7282,
author = {D M Yeager and Dana A Glei and Melanie Au and Hui-Sheng Lin and Richard P Sloan and Maxine Weinstein},
journal = {Soc Sci Med},
title = {Religious involvement and health outcomes among older persons in Taiwan},
abstract = {We use data from a nationally representative, longitudinal survey of older Taiwanese to examine the relationship between religious involvement-including religious affiliation, religious attendance, beliefs, and religious practices-and self-reported measures of overall health status, mobility limitations, depressive symptoms, and cognitive function; clinical measures of systolic and diastolic blood pressure, serum interleukin-6, and 12-h urinary cortisol; and 4-year mortality. Frequency of religious attendance shows the strongest, most consistent association with health outcomes. But, with only one exception, this relationship disappears in the presence of controls for health behaviors, social networks, and prior health status. Religious attendance remains significantly associated with lower mortality even after controlling for prior self-assessed health status, but the coefficient is substantially reduced. Other aspects of religiosity are only sporadically associated with health and, in all cases, private religious practices and stronger beliefs are associated with worse health; again, this relationship disappears after controlling for prior health status. These results suggest that reverse causality may partly account for both the positive and negative correlations between religiosity and health. We find no significant associations between religious involvement and biological markers. Notably, even after controlling for prior health, participation in social activities has a more robust effect on health than religious attendance. Consequently, we question whether the purported health benefits are attributable to religion or to social activity in general.},
affiliation = {Department of Theology, Georgetown University, Washington, DC, USA. yeagerd@georgetown.edu},
number = {8},
pages = {2228--41},
volume = {63},
year = {2006},
month = {Oct},
language = {eng},
keywords = {Aged: 80 and over, Mortality, Prospective Studies, Biological Markers, Aged, Health Surveys, Health Behavior, Female, Self Assessment (Psychology), Humans, Male, Religion and Psychology, Health Status Indicators, Aging, Survival Analysis, Taiwan, Middle Aged, Social Support},
date-added = {2010-03-10 20:14:28 +0100},
date-modified = {2010-03-10 20:14:28 +0100},
doi = {10.1016/j.socscimed.2006.05.007},
pii = {S0277-9536(06)00259-0},
pmid = {16797809},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yeager-2006-Soc%20Sci%20Med_Religious%20involvemen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7282},
rating = {0}
}
@article{deLeeuw:2003p4270,
author = {Jan de Leeuw and G Michailidis},
title = {Weber correspondence analysis: The one-dimensional case},
year = {2003},
date-added = {2010-01-23 21:37:56 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2003-_Weber%20correspondence.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4270},
rating = {0}
}
@article{deLeeuw:2005p14012,
author = {Jan de Leeuw},
journal = {Journal of Statistical Software},
title = {On Abandoning XLISP-STAT},
abstract = {In 1998 the UCLA Department of Statistics, which had been one of the major users of Lisp-Stat, and one of the main producers of Lisp-Stat code, decided to switch to S/R. This paper discusses why this decision was made, and what the pros and the cons were.},
number = {7},
volume = {13},
year = {2005},
date-added = {2010-08-04 09:37:33 +0200},
date-modified = {2010-08-04 09:38:17 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2005-Journal%20of%20Statistical%20Software_On%20Abandoning%20XLISP.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14012},
rating = {0}
}
@article{Ma:2008p14304,
author = {Shuangge Ma and Jian Huang},
journal = {Brief Bioinformatics},
title = {Penalized feature selection and classification in bioinformatics},
abstract = {In bioinformatics studies, supervised classification with high-dimensional input variables is frequently encountered. Examples routinely arise in genomic, epigenetic and proteomic studies. Feature selection can be employed along with classifier construction to avoid over-fitting, to generate more reliable classifier and to provide more insights into the underlying causal relationships. In this article, we provide a review of several recently developed penalized feature selection and classification techniques--which belong to the family of embedded feature selection methods--for bioinformatics studies with high-dimensional input. Classification objective functions, penalty functions and computational algorithms are discussed. Our goal is to make interested researchers aware of these feature selection and classification methods that are applicable to high-dimensional bioinformatics data.},
affiliation = {Department of Epidemiology and Public Health, Yale University, USA. shuangge.ma@yale.edu},
number = {5},
pages = {392--403},
volume = {9},
year = {2008},
month = {Sep},
language = {eng},
keywords = {Cluster Analysis, Artificial Intelligence, Models: Biological, Software, Algorithms, Pattern Recognition: Automated, Computer Simulation, Computational Biology},
date-added = {2010-08-24 14:22:17 +0200},
date-modified = {2010-08-24 14:22:26 +0200},
doi = {10.1093/bib/bbn027},
pii = {bbn027},
pmid = {18562478},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ma-2008-Brief%20Bioinformatics_Penalized%20feature%20se.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14304},
rating = {3}
}
@article{Luciano:2010p7664,
author = {Michelle Luciano and Lorna M Houlihan and Sarah E Harris and Alan J Gow and Caroline Hayward and John M Starr and Ian J Deary},
journal = {Behav Genet},
title = {Association of Existing and New Candidate Genes for Anxiety, Depression and Personality Traits in Older People},
abstract = {Genetic variants that have previously been associated with personality traits and/or psychological distress, or inflammatory marker levels were investigated for their relationship to self-rated personality traits, anxiety, and depression in two elderly Scottish cohorts. Ten genes (29 SNPs) were investigated in the Lothian Birth Cohort 1936 (~70 years, N = 1,091). Four of these genes and seven others (35 SNPs) were tested in the Lothian Birth Cohort 1921 who were measured on the same traits and states on two occasions (~80 years, N = 550; 87 years, N = 229). For previously investigated candidate genes, some support (at a nominal significance level of 0.05/0.01) was found for association between NOS1 and personality traits (especially extraversion), PSEN1 and depression/neuroticism, and GRIK3 and depression. Of the inflammatory marker candidate genes, TF showed some association with psychological distress. No SNPs withstood the correction to significance level for multiple testing. Nevertheless, the results will be of importance to future meta-analyses of these candidate genes in relation to psychological distress and personality.},
affiliation = {Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh, 7 George Square, Edinburgh, EH8 9JZ, Scotland, UK, michelle.luciano@ed.ac.uk.},
pages = {},
year = {2010},
month = {Jan},
language = {ENG},
date-added = {2010-03-15 23:41:35 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-009-9326-4},
pmid = {20052609},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Luciano-2010-Behav%20Genet_Association%20of%20Exist.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7664},
rating = {3}
}
@article{Fombonne:2002p6119,
author = {E Fombonne},
journal = {Mol Psychiatry},
title = {Epidemiological trends in rates of autism},
affiliation = {Division of Child Psychiatry, The Montreal Children's Hospital, McGill University, 4018 St Catherine Street West, Montreal, Quebec H3Z 1P2, Canada. eric.fombonne@mcgill.ca},
pages = {S4--6},
volume = {7 Suppl 2},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Morbidity, Child, Male, Infant, Sex Ratio, Epilepsy, Child: Preschool, Cohort Studies, Mental Retardation, Infant: Newborn, Female, Adolescent, Humans, Prevalence, Incidence, Confounding Factors (Epidemiology), Autistic Disorder},
date-added = {2010-02-19 17:07:17 +0100},
date-modified = {2010-02-19 17:07:17 +0100},
doi = {10.1038/sj.mp.4001162},
pmid = {12142931},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6119},
rating = {0}
}
@article{Curtis:2001,
author = {D D Curtis},
journal = {International Education Journal},
title = {Misfits: People and their problems. What might it all mean?},
number = {4},
pages = {91--99},
volume = {2},
year = {2001},
date-added = {2010-01-10 11:33:17 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Curtis-2001-International%20Education%20Journal_Misfits%20People%20and.PDF},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2075},
rating = {0}
}
@article{Embretson:2010p5523,
author = {S E Embretson},
title = {Issues in the measurement of cognitive abilities},
date-added = {2010-02-12 15:19:03 +0100},
date-modified = {2010-02-12 15:19:40 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Embretson--_Issues%20in%20the%20measur.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5523},
rating = {0}
}
@article{Bretz:2009p1763,
author = {Frank Bretz and Franz Koenig and Werner Brannath and Ekkehard Glimm and Martin Posch},
journal = {Stat Med},
title = {Adaptive designs for confirmatory clinical trials},
abstract = {Adaptive designs play an increasingly important role in clinical drug development. Such designs use accumulating data of an ongoing trial to decide how to modify design aspects without undermining the validity and integrity of the trial. Adaptive designs thus allow for a number of possible adaptations at midterm: Early stopping either for futility or success, sample size reassessment, change of population, etc. A particularly appealing application is the use of adaptive designs in combined phase II/III studies with treatment selection at interim. The expectation has arisen that carefully planned and conducted studies based on adaptive designs increase the efficiency of the drug development process by making better use of the observed data, thus leading to a higher information value per patient.In this paper we focus on adaptive designs for confirmatory clinical trials. We review the adaptive design methodology for a single null hypothesis and how to perform adaptive designs with multiple hypotheses using closed test procedures. We report the results of an extensive simulation study to evaluate the operational characteristics of the various methods. A case study and related numerical examples are used to illustrate the key results. In addition we provide a detailed discussion of current methods to calculate point estimates and confidence intervals for relevant parameters.},
affiliation = {Novartis Pharma AG, Lichtstrasse 35, 4002 Basel, Switzerland. franz.koeing@meduniwien.ac.at},
number = {8},
pages = {1181--217},
volume = {28},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Research Design, Clinical Trials: Phase II as Topic, Anxiety Disorders, Humans, Clinical Trials: Phase III as Topic, Sample Size, Anti-Anxiety Agents, Computer Simulation},
date-added = {2010-01-09 21:21:17 +0100},
date-modified = {2010-01-09 21:21:17 +0100},
doi = {10.1002/sim.3538},
pmid = {19206095},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bretz-2009-Stat%20Med_Adaptive%20designs%20for.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1763},
rating = {0}
}
@article{vanPareren:2004p7938,
author = {Yvonne K van Pareren and Hugo J Duivenvoorden and Froukje S M Slijper and Hans M Koot and Anita C S Hokken-Koelega},
journal = {J Clin Endocrinol Metab},
title = {Intelligence and psychosocial functioning during long-term growth hormone therapy in children born small for gestational age},
abstract = {Short stature is not the only problem faced by small for gestational age (SGA) children. Being born SGA has also been associated with lowered intelligence, poor academic performance, low social competence, and behavioral problems. Although GH treatment in short children born SGA can result in a normalization of height during childhood, the effect of GH treatment on intelligence and psychosocial functioning remains to be investigated. We show the longitudinal results of a randomized, double-blind, GH-dose response study initiated in 1991 to follow growth, intelligence quotient (IQ), and psychosocial functioning in SGA children during long-term GH treatment. Patients were assigned to one of two treatment groups (1 or 2 mg GH/m(2) body surface.d, or approximately 0.035 or 0.07 mg/kg.d). Intelligence and psychosocial functioning were evaluated at start of GH treatment (n = 74), after 2 yr of GH treatment (n = 76), and in 2001 (n = 53). IQ was assessed by a short-form Wechsler Intelligence Scale for Children-Revised or Wechsler Adult Intelligence Scale (Block-design and Vocabulary subtests). Behavioral problems were measured by the Achenbach Child Behavior Checklist or Young Adult Behavior Checklist, and self-perception was measured by the Harter Self-Perception Profile. Mean (sem) birth length sd score was -3.6 (0.2), mean age and height at start was 7.4 (0.2) yr and -3.0 (0.1) sd score, respectively, mean duration of GH treatment was 8.0 (0.2) yr, and mean age in 2001 was 16.5 (0.3) yr. After 2 yr of GH treatment, 96% of both GH groups showed a height gain sd score of 1 sd from the start of treatment or more, resulting in a normal height (i.e. height >/= -2.0 sd for age and sex) in 70% of the children. In 2001, 48 (91%) of the 53 children participating in this study had reached a normal height. Block-design s-score and the estimated total IQ significantly increased (P < 0.001 and P < 0.001, respectively) from scores significantly lower than Dutch peers at start (P < 0.001 and P < 0.001, respectively) to comparable scores in 2001. The increase over time for the Vocabulary s-score was not significant. Internalizing Behavior sd scores remained comparable to Dutch peers, whereas Externalizing Behavior sd scores and Total Problem Behavior sd scores improved significantly during GH therapy (P < 0.01 and P < 0.05, respectively) to scores comparable to Dutch peers. Self-perception sd scores improved from start of GH treatment until 2001 (P < 0.001) to scores significantly higher than Dutch peers (P < 0.05). No significant differences between the two GH dosage groups were found. Improvement in Externalizing and Total Problem Behavior sd scores over time was significantly related to change in height sd score (P < 0.05 and P < 0.01, respectively), whereas scores over time for Vocabulary, Block-design, Internalizing, or total Harter Self-Perception score were not related to change in height sd scores. In conclusion, parallel to a GH-induced catch-up growth in adolescents born SGA, IQ, behavior, and self-perception showed a significant improvement over time from scores below average to scores comparable to Dutch peers. In addition, children whose height over time became closer to that of their peers showed less problem behavior.},
affiliation = {Sophia Children's Hospital/Erasmus MC, Department of Pediatrics, Division of Endocrinology, Dr. Molewaterplein 60, 3015 GJ Rotterdam, The Netherlands.},
number = {11},
pages = {5295--302},
volume = {89},
year = {2004},
month = {Nov},
language = {eng},
keywords = {Child Behavior, Head, Infant: Small for Gestational Age, Intelligence, Human Growth Hormone, Infant: Newborn, Self Concept, Body Height, Humans, Male, Child, Female, Double-Blind Method},
date-added = {2010-03-20 19:26:46 +0100},
date-modified = {2010-03-20 19:26:46 +0100},
doi = {10.1210/jc.2003-031187},
pii = {89/11/5295},
pmid = {15531473},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20Pareren-2004-J%20Clin%20Endocrinol%20Metab_Intelligence%20and%20psy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7938},
rating = {0}
}
@article{Miller:2008p8408,
author = {Edward Alan Miller and Lon S Schneider and Arthur Zbrozek and Robert A Rosenheck},
journal = {Value Health},
title = {Sociodemographic and clinical correlates of utility scores in Alzheimer's disease},
abstract = {OBJECTIVES: To examine the relationship between psychiatric symptoms, cognitive performance, functional capacity and quality of life in Alzheimer's disease (AD), and change in the Health Utilities Index (HUI)-Mark III, a widely used generic, multiattribute preference-based health-status classification system. METHODS: Follow-up data were obtained from caregiver proxy raters at 3, to 6, and 9-months postrandom assignment concerning 421 patients with AD, living with at least one caregiver in a noninstitutional setting, who participated in the Clinical Antipsychotic Trial of Intervention Effectiveness-AD of antipsychotic medication. Spearman rank correlations, multivariate linear regression, and mixed modeling were used to examine the correlates of change in the HUI. RESULTS: HUI scores decreased by an average of -0.061 over 9 months. Analysis revealed weak bivariate, and largely, nonsignificant multivariate relationships between change in HUI scores and sociodemographic characteristics, psychiatric symptoms, and cognitive performance. There were highly significant associations between decreases in health utilities and change in the AD Cooperative Study for Activities of Daily Living scale (ADCS-ADL) and AD-Related Quality of Life (ADRQoL) (both P < 0.001), even after controlling for other factors. Adjusted R(2) values ranged from 0.14 to 0.20. CONCLUSION: In AD patients requiring antipsychotic treatment, only weak relationships were found between changes in the HUI and sociodemographic and clinical indicators. While functional capability and quality of life showed more significant associations, less than 20% of the variance in health utility could be explained. Significant cognitive impairment and the need to rely on proxy raters may limit the usefulness of utility measurement in AD patients with serious behavioral symptoms.},
affiliation = {Brown University, Providence, RI 02912-1977, USA. edward_a_miller@brown.edu},
number = {7},
pages = {1120--30},
volume = {11},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Antipsychotic Agents, Severity of Illness Index, Alzheimer Disease, Middle Aged, Psychotic Disorders, Female, Prospective Studies, Activities of Daily Living, Male, Aged, Aged: 80 and over, Humans, Brief Psychiatric Rating Scale, Quality-Adjusted Life Years},
date-added = {2010-03-21 17:49:39 +0100},
date-modified = {2010-03-21 17:49:39 +0100},
doi = {10.1111/j.1524-4733.2008.00351.x},
pii = {VHE351},
pmid = {18489496},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8408},
rating = {0}
}
@article{Bauer:2010p1716,
author = {Peter Bauer and Franz Koenig and Werner Brannath and Martin Posch},
journal = {Stat Med},
title = {Selection and bias--two hostile brothers},
abstract = {We consider the situation where in a first stage of a clinical trial several treatments are compared with a single control and the 'best' treatment(s) are selected in an interim analysis to be carried on to the second stage. We quantify the mean bias and mean square error of the conventional estimates after selection depending on the number of treatments and the selection time during the trial. The cases without or with reshuffling the planned sample size of the dropped treatments to the selected ones are investigated. The mean bias shows very different patterns depending on the selection rule and the unknown parameter values. We stress the fact that the quantification of the bias is possible only in designs with planned adaptivity where the design allows reacting to new evidence, but the decision rules are laid down in advance. Finally, we calculate the mean bias which arises in a simple but influential regulatory selection rule, to register a new medical therapy only when two pivotal trials have both proven an effect by a statistical test.},
affiliation = {Section of Medical Statistics, Core Unit for Medical Statistics and Informatics, Medical University of Vienna, Vienna, Austria.},
number = {1},
pages = {1--13},
volume = {29},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-09 19:28:35 +0100},
date-modified = {2010-01-09 19:28:35 +0100},
doi = {10.1002/sim.3716},
pmid = {19844944},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bauer-2010-Stat%20Med_Selection%20and%20bias.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1716},
rating = {0}
}
@article{Smith:1988p6313,
author = {T M F Smith},
journal = {Bayesian Statistics},
title = {To weight or not to weight, that is the question},
pages = {437--451},
volume = {3},
year = {1988},
date-added = {2010-02-20 21:08:19 +0100},
date-modified = {2010-02-20 21:09:23 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-1988-Bayesian%20Statistics_To%20weight%20or%20not%20to.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6313},
rating = {0}
}
@article{Maitra:2010p12945,
author = {R Maitra and I P Ramler},
title = {A k-mean-directions Algorithm for Fast Clustering of Data on the Sphere},
abstract = {A k-means-type algorithm is proposed for efficiently clustering data constrained to lie on the surface of a p-dimensional unit sphere, or data that are mean-zero-unit-variance standard- ized observations such as those that occur when using Euclidean distance to cluster time-series gene expression data using a correlation metric. We also provide methodology to initialize the algorithm and to estimate the number of clusters in the dataset. Results from a detailed series of experiments show excellent performance, even with very large datasets. The methodology is applied to the analysis of the mitotic cell division cycle of budding yeast dataset of Cho, Campbell, Winzeler, Steinmetz, Conway, Widicka, Wolfsberg, Gabrielian, Landsman, Lock- hart and Davis (1998). The entire dataset has not been analyzed previously, so our analysis provides an understanding for the complete set of genes acting in concert and differentially. We also use our methodology on the submitted abstracts of oral presentations made at the 2008 Joint Statistical Meetings (JSM) to identify similar topics. Our identified groups are both interpretable and distinct and the methodology provides a possible automated tool for efficient parallel scheduling of presentations at professional meetings.},
date-added = {2010-06-25 21:57:25 +0200},
date-modified = {2010-06-25 22:00:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maitra--_A%20k-mean-directions.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12945},
rating = {4}
}
@article{Devouche:2003,
author = {E Devouche},
journal = {Psychologie et Psychom{\'e}trie},
title = {Les banques d'items. Construction d'une banque pour le Test de Connaissance du Fran{\c c}ais},
pages = {57--88},
volume = {24},
year = {2003},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Devouche-2003-Psychologie%20et%20Psychom%C3%A9trie_Les%20banques%20d'items.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2125},
rating = {0}
}
@article{Monahan:2007p5157,
author = {P O Monahan and C A McHorney and T E Stump and A J Perkins},
journal = {Journal of Educational and Behavioral Statistics},
title = {Odds Ratio, Delta, ETS Classification, and Standardization Measures of DIF Magnitude for Binary Logistic Regression},
abstract = {Previous methodological and applied studies that used binary logistic regres- sion (LR) for detection of differential item functioning (DIF) in dichotomously scored items either did not report an effect size or did not employ several useful measures of DIF magnitude derived from the LR model. Equations are provided for these effect size indices. Using two large data sets, the authors demonstrate the usefulness of these effect sizes for judging practical importance: the LR adjusted odds ratio and its conversions to the delta metric, the Educational Test- ing Service (ETS) classification system, and the p metric; the LR model-based standardization indices, using various weights for averaging stratum-specific differences in fitted probabilities; and a p metric classification system. Pros and cons of these effect sizes are discussed. Recommendations are offered. These LR effect sizes will be valuable to practitioners, particularly for preventing flagging of statistically significant but practically unimportant DIF in large samples.},
number = {1},
pages = {92--109},
volume = {32},
year = {2007},
date-added = {2010-02-07 12:18:33 +0100},
date-modified = {2010-02-07 12:19:38 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Monahan-2007-Journal%20of%20Educational%20and%20Behavioral%20Statistics_Odds%20Ratio%20Delta%20E.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5157},
rating = {0}
}
@article{Sundberg:2009p6390,
author = {Tobias Sundberg and Max Petzold and Per W{\"a}ndell and Anna Ryd{\'e}n and Torkel Falkenberg},
journal = {BMC Complement Altern Med},
title = {Exploring integrative medicine for back and neck pain - a pragmatic randomised clinical pilot trial},
abstract = {BACKGROUND: A model for integrative medicine (IM) adapted to Swedish primary care was previously developed. The aim of this study was to explore the feasibility of a pragmatic randomised clinical trial to investigate the effectiveness of the IM model versus conventional primary care in the management of patients with non-specific back/neck pain. Specific objectives included the exploration of recruitment and retention rates, patient and care characteristics, clinical differences and effect sizes between groups, selected outcome measures and power calculations to inform the basis of a full-scale trial. METHODS: Eighty patients with back/neck pain of at least two weeks duration were randomised to the two types of care. Outcome measures were standardised health related quality of life (the eight domains of SF-36) complemented by a set of exploratory "IM tailored" outcomes targeting self-rated disability, stress and well-being (0-10 scales); days in pain (0-14); and the use of analgesics and health care over the last two weeks (yes/no). Data on clinical management were derived from medical records. Outcome changes from baseline to follow-up after 16 weeks were used to explore the differences between the groups. RESULTS: Seventy-five percent (80/107) of screened patients in general practice were eligible and feasible to enroll into the trial. Eighty-two percent (36/44) of the integrative and 75% (27/36) of the conventional care group completed follow-up after 16 weeks. Most patients had back/neck pain of at least three months duration. Conventional care typically comprised advice and prescription of analgesics, occasionally complemented with sick leave or a written referral to physiotherapy. IM care generally integrated seven treatment sessions from two different types of complementary therapies with conventional care over ten weeks. The study was underpowered to detect any statistically significant differences between the groups. One SF-36 domain showed a clinically relevant difference between groups that was also supported by a small distribution based effect size, i.e. vitality (-7.3 points, Cohen's d -0.34) which was in favour of IM. There was a clinical trend between groups showing that IM contributed to less use of prescription and non-prescription analgesics (-11.7 and - 9.7 percent units respectively) compared to conventional care. Exploring clinically relevant differences and the SF-36 as the basis for a main outcome measure showed that the sample sizes needed per arm to adequately power a full-scale trial depended on the target domain, i.e. ranging from 60 (vitality) to 339 (role emotion). CONCLUSION: This pilot study investigated the implementation of IM in the primary care management of non-specific back and neck pain. Recruiting patients and implementing IM in routine clinical practice was feasible. The results warrant further exploration into different perspectives and relevant combinations of outcome measures including the use of health resources, drugs and cost-effectiveness to help understand the relevance of IM in primary care. Future research should prioritize larger scale studies considering variability, pain duration and small to moderate treatment effects. TRIAL REGISTRATION: Clinical trials NCT00565942.},
affiliation = {Unit for Studies of Integrative Health Care - Karolinska Institutet, Department of Neurobiology, Care Sciences and Society, Division of Nursing, Huddinge, Sweden. tobias.sundberg@ki.se},
pages = {33},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Treatment Outcome, Adult, Back Pain, Humans, Integrative Medicine, Analgesics, Neck Pain, Pilot Projects, Female, Male, Patient Selection, Complementary Therapies, Feasibility Studies, Outcome Assessment (Health Care), Middle Aged},
date-added = {2010-02-23 08:26:24 +0100},
date-modified = {2010-02-23 08:26:24 +0100},
doi = {10.1186/1472-6882-9-33},
pii = {1472-6882-9-33},
pmid = {19735542},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6390},
rating = {0}
}
@article{Antoch:2008p12028,
author = {J Antoch},
journal = {Computer Science Review},
title = {Environment for statistical computing},
abstract = {This paper is a short exposition on the current state of art as far as statistical software is concerned. The main aims are to take a look at current tendencies in information technologies for statistics and data analysis, especially for describing selected programs and systems.
We start with statistical packages, i.e. a suite of computer programs that are specialized in statistical analysis, to enable people to obtain the results of standard statistical procedures without requiring low-level numerical programming, and to provide facilities of data management. A big surprise for many statisticians is that the most typical representative in this domain is Microsoft Excel. Aside from that, we touch upon a few commercial packages, a few general public license packages, and a few analysis packages with statistics add-ons.
An integrated environment for statistical computing and graphics is essential for developing and understanding new techniques in statistics. Such an environment must essentially be a programming language. Therefore, we take a closer look at several typical representatives of these types of programmes, and on a few general purpose languages with statistics libraries.
However, there exists quite a clear distinction between practical and theoretical approaches to most statistical work. The majority of software products for statistics are on the practical side, using numerical and graphical methods to provide the user access to existing methods. On the other hand, software packages specifically designed just for pure statistical--mathematical modelling do not exist. Nevertheless, all available computer algebra and/or mathematical systems offer tools for theoretical statistical work. Therefore, we take a look at some possibilities in this area.
Finally, we summarize several major driving forces that will influence, according to our strong belief, the statistical software development process in the near future. Due to limited space, these discussions are cursory in nature for the most part. This paper is based on the personal experience of the author as described in [J. Antoch, Series of papers on statistical software and environments for statistical computing (in Czech for the Czech Statistical Society Newsletter and other publications). [1]] and on the information available on Internet. Very good and interesting source of information is especially Google search machine [Google search machine. [12]], Wikipedia [Wikipedia, a multilingual web- based, free content encyclopedia project. [25]] and the journal Scientific Computing World [Scientific Computing World Journal. [22]].},
pages = {113--122},
volume = {2},
year = {2008},
date-added = {2010-05-24 10:21:34 +0200},
date-modified = {2010-05-24 10:22:28 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Antoch-2008-Computer%20Science%20Review_Environment%20for%20stat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12028},
rating = {5}
}
@article{Friedman:2010p14211,
author = {J H Friedman},
title = {Data Mining and Statistics: What's the connection},
date-added = {2010-08-22 20:26:05 +0200},
date-modified = {2010-08-22 20:26:57 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Friedman--_Data%20Mining%20and%20Stat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14211},
rating = {0}
}
@article{Loehlin:2010p7661,
author = {John C Loehlin},
journal = {Behav Genet},
title = {Is There an Active Gene-Environment Correlation in Adolescent Drinking Behavior?},
abstract = {A scale based on alcohol-related behaviors and an item on shared friends from the National Merit Twin Study were used in an attempt to confirm the finding of Cleveland et al. (1995, J Genet Psychol 166:153-169) of gene-environment correlation in adolescents' drinking behavior, a correlation based on the differential selection of peers. Results from samples of 490 MZ and 336 same-sex DZ pairs were consistent in direction with the hypothesis, although quantitatively modest. This consistency appeared, however, to depend entirely on the female twins in the sample.},
affiliation = {Department of Psychology, University of Texas at Austin, 1 University Station A8000, Austin, TX, 78712-0187, USA, loehlin@psy.utexas.edu.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-15 23:40:26 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/s10519-010-9347-z},
pmid = {20213348},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Loehlin-2010-Behav%20Genet_Is%20There%20an%20Active%20G.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7661},
rating = {4}
}
@article{Pyne:1997p8548,
author = {J M Pyne and T L Patterson and R M Kaplan and J C Gillin and W L Koch and I Grant},
journal = {Psychiatr Serv},
title = {Assessment of the quality of life of patients with major depression},
abstract = {OBJECTIVE: This study examined the relationship between a measure of quality of life and measures of depressive symptoms among patients with major depression. METHODS: One hundred patients with primary major depression and 61 control subjects from the San Diego Veterans Affairs Medical Center and surrounding area were compared using a variety of measures, including the Quality of Well-Being (QWB) scale, the Hamilton Rating Scale for Depression, and the Beck Depression Inventory. RESULTS: After analyses controlled for age, gender, family history of mental illness, and comorbid axis III diagnosis, subjects' scores on the QWB were significantly correlated with their scores on the Hamilton scale and Beck inventory. The severity of depressive symptoms was inversely related to quality of life as measured by the QWB, independent of the variables that were controlled for. CONCLUSIONS: The QWB is sensitive to symptoms of depression among patients diagnosed with major depression. The reduction in quality of life associated with psychiatric symptoms of depression is comparable to that observed among physically ill patients.},
affiliation = {Veterans Affairs Medical Center, Department of Psychiatry, San Diego, CA 92161, USA.},
number = {2},
pages = {224--30},
volume = {48},
year = {1997},
month = {Feb},
language = {eng},
keywords = {Quality of Life, Depressive Disorder, Middle Aged, Hospitals: Veterans, Reproducibility of Results, Ambulatory Care, Adult, California, Psychometrics, Personality Inventory, Sick Role, Aged, Humans, Veterans, Female, Male, Patient Admission},
date-added = {2010-03-21 21:26:43 +0100},
date-modified = {2010-07-29 19:45:23 +0200},
pmid = {9021855},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Pyne-1997-Psychiatr%20Serv_Assessment%20of%20the%20qu.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8548},
rating = {0}
}
@article{Hertzog:2003p5492,
author = {Christopher Hertzog and John R Nesselroade},
journal = {Psychol Aging},
title = {Assessing psychological change in adulthood: an overview of methodological issues},
abstract = {This article reviews the current status of methods available for the analysis of psychological change in adulthood and aging. Enormous progress has been made in designing statistical models that can capture key aspects of intraindividual change, as reflected in techniques such as latent growth curve models and multilevel (random-effects) models. However, the rapid evolution of statistical innovations may have obscured the critical importance of addressing rival explanations for statistical outcomes, such as cohort differences or practice effects that could influence estimates of age-related change. Choice of modeling technique and implementation of a specific modeling approach should be grounded in and reflect both the theoretical nature of the developmental phenomenon and the features of the sampling design that selected persons, variables, and contexts for empirical observation.},
affiliation = {School of Psychology, Georgia Institute of Technology, 654 Cherry Street, Atlanta, Georgia 30332-0170, USA. christopher.hertzog@psych.gatech.edu},
number = {4},
pages = {639--57},
volume = {18},
year = {2003},
month = {Dec},
language = {eng},
keywords = {Middle Aged, Adult, Aged, Longitudinal Studies, Models: Psychological, Humans, Research Design, Aging, Psychometrics},
date-added = {2010-02-12 14:45:06 +0100},
date-modified = {2010-02-12 14:45:06 +0100},
doi = {10.1037/0882-7974.18.4.639},
pii = {2003-10465-002},
pmid = {14692854},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5492},
rating = {0}
}
@article{Leyland:2010p13261,
author = {Alastair H Leyland},
journal = {Eur J Public Health},
title = {Methodological challenges in the evaluation of community interventions},
number = {3},
pages = {242--3},
volume = {20},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-01 18:20:28 +0200},
date-modified = {2010-07-01 18:20:28 +0200},
doi = {10.1093/eurpub/ckq058},
pii = {ckq058},
pmid = {20472905},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Leyland-2010-Eur%20J%20Public%20Health_Methodological%20chall.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13261},
rating = {0}
}
@article{Pedersen:1991p12187,
author = {W Pedersen},
journal = {Br J Addict},
title = {Mental health, sensation seeking and drug use patterns: a longitudinal study},
abstract = {To examine the longitudinal stability of mental health and sensation seeking, a sample of 553 adolescents aged 16-18 years, was followed over a period of 20 months. Further, the predictive power of the two constructs with regard to future drug use was investigated. The stability of reported mental health was relatively low. Accordingly, the variable was a poor predictor of future drug use. Sensation seeking, however, had a relatively high degree of stability. In addition, the different subdimensions of the trait were strong predictors of future drug use: 'Disinhibition' (DIS) was a general drug use factor in both sexes. 'Thrill and adventure seeking' (TAS) predicted moderate alcohol consumption in boys. 'Experience seeking' (ES) predicted cannabis use in boys. A separate analysis of those who seek a milieu highly exposed to cannabis, without themselves using the substance, revealed interesting sex differences: the boys in this situation had sensation seeking scores and mental health which were not different from other adolescents. However, the girls had high DIS and ES scores and also poor mental health. Possible interpretations of this finding are discussed.},
affiliation = {Department of Psychiatry, University of Oslo, Norway.},
number = {2},
pages = {195--204},
volume = {86},
year = {1991},
month = {Feb},
language = {eng},
keywords = {Longitudinal Studies, Humans, Male, Adaptation: Psychological, Norway, Arousal, Cross-Sectional Studies, Life Style, Personality Development, Incidence, Adolescent, Female, Substance-Related Disorders},
date-added = {2010-05-30 10:45:06 +0200},
date-modified = {2010-05-30 10:45:06 +0200},
pmid = {2021702},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12187},
rating = {0}
}
@article{Henderson:2003p1680,
author = {Sheila E Henderson and Leslie Henderson},
journal = {Neural Plast},
title = {Toward an understanding of developmental coordination disorder: terminological and diagnostic issues},
abstract = {Awareness of children who experience unexpected difficulty in the acquisition of motor skills has increased dramatically over the last twenty years. Although the positing of a distinct syndrome has proven seminal in provoking further questions, several basic terminological problems remain unresolved. In this paper, we conduct a component analysis of the three, principal competing labels for this disorder, two of them being elements derived from systematic diagnostic frameworks. Our preference for the DSM IV term Developmental Coordination Disorder (DCD) is stated and justified. Problems in diagnosis are discussed, especially in relation to the etiology-dominated medical model. We argue that an attempt should be made to identify (pathological) positive signs that can reliably be detected rather than relying entirely on normative evidence of a lack of skills exhibited by other children of the same age. The high degree of overlap between DCD and other developmental disorders suggests that DCD might not constitute a distinct syndrome. In this context, we emphasize the need to determine whether incoordination takes a different form when it occurs alone or whether it is combined with general developmental delay or with other specific disorders in children of normal intelligence.},
affiliation = {School of Psychology and Human Development, Institute of Education, University of London, United Kingdom.},
number = {1-2},
pages = {1--13},
volume = {10},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Developmental Disabilities, Terminology as Topic, Child, Intelligence, Humans, Motor Skills Disorders, Comorbidity, Child: Preschool},
date-added = {2010-01-08 22:26:35 +0100},
date-modified = {2010-01-08 22:26:35 +0100},
doi = {10.1155/NP.2003.1},
pmid = {14640303},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Henderson-2003-Neural%20Plast_Toward%20an%20understand.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1680},
rating = {0}
}
@article{Jones:2007p6285,
author = {L V Jones and D Thissen},
title = {A history and overview of Psychometrics},
year = {2007},
date-added = {2010-02-20 19:56:09 +0100},
date-modified = {2010-02-20 19:56:50 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jones-2007-_A%20history%20and%20overvi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6285},
rating = {0}
}
@article{Zijlstra:2004p2439,
author = {W Zijlstra},
title = {Comparing the Student's t and the ANOVA contrast procedure with five alternative procedures},
year = {2004},
date-added = {2010-01-11 23:48:51 +0100},
date-modified = {2010-01-11 23:49:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zijlstra-2004-_Comparing%20the%20Studen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2439},
rating = {0}
}
@article{Montazeri:2007p8370,
author = {Ali Montazeri and Behnaz Torkan and Sepideh Omidvari},
journal = {BMC Psychiatry},
title = {The Edinburgh Postnatal Depression Scale (EPDS): translation and validation study of the Iranian version},
abstract = {BACKGROUND: The Edinburgh Postnatal Depression Scale (EPDS) is a widely used instrument to measure postnatal depression. This study aimed to translate and to test the reliability and validity of the EPDS in Iran. METHODS: The English language version of the EPDS was translated into Persian (Iranian language) and was used in this study. The questionnaire was administered to a consecutive sample of 100 women with normal (n = 50) and caesarean section (n = 50) deliveries at two points in time: 6 to 8 weeks and 12 to 14 weeks after delivery. Statistical analysis was performed to test the reliability and validity of the EPDS. RESULTS: Overall 22% of women at time 1 and 18% at time 2 reported experiencing postpartum depression. In general, the Iranian version of the EPDS was found to be acceptable to almost all women. Cronbach's alpha coefficient (to test reliability) was found to be 0.77 at time 1 and 0.86 at time 2. In addition, test-rest reliability was performed and the intraclass correlation coefficient was found to be 0.80. Validity as performed using known groups comparison showed satisfactory results. The questionnaire discriminated well between sub-groups of women differing in mode of delivery in the expected direction. The factor analysis indicated a three-factor structure that jointly accounted for 58% of the variance. CONCLUSION: This preliminary validation study of the Iranian version of the EPDS proved that it is an acceptable, reliable and valid measure of postnatal depression. It seems that the EPDS not only measures postpartum depression but also may be measuring something more.},
affiliation = {Iranian Institute for Health Sciences Research, Tehran, Iran. ali@jdcord.jd.ac.ir},
pages = {11},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Depression: Postpartum, Reproducibility of Results, Female, Iran, Adult, Questionnaires, Humans, Psychiatric Status Rating Scales, Language},
date-added = {2010-03-21 13:02:48 +0100},
date-modified = {2010-03-21 13:02:48 +0100},
doi = {10.1186/1471-244X-7-11},
pii = {1471-244X-7-11},
pmid = {17408479},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Montazeri-2007-BMC%20Psychiatry_The%20Edinburgh%20Postna.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8370},
rating = {0}
}
@article{Rose:1985,
author = {G Rose},
journal = {Int J Epidemiol},
title = {Sick individuals and sick populations},
abstract = {Aetiology confronts two distinct issues: the determinants of individual cases, and the determinants of incidence rate. If exposure to a necessary agent is homogeneous within a population, then case/control and cohort methods will fail to detect it: they will only identify markers of susceptibility. The corresponding strategies in control are the 'high-risk' approach, which seeks to protect susceptible individuals, and the population approach, which seeks to control the causes of incidence. The two approaches are not usually in competition, but the prior concern should always be to discover and control the causes of incidence.},
pages = {32--38},
volume = {14},
year = {1985},
date-added = {2010-01-03 19:36:10 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1096},
rating = {0}
}
@article{Vacha-Haase:2002,
author = {T Vacha-Haase and R K Henson and J Caruso},
journal = {Educational and Psychological Measurement},
title = {Reliability Generalization: Moving toward improved understanding and use of score reliability},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1967},
rating = {0}
}
@article{Gutierrez:2005p11406,
author = {J L G Guti{\'e}rrez and B M Jimen{\'e}z and E G Hernandez and C P Puente},
journal = {Personality and Individual Differences},
title = {Personality and subjective well-being: big five correlates and demographic variables},
abstract = {This work examines the association between the Big Five personality dimensions, the most relevant demographic factors (sex, age and relationship status), and subjective well-being. A total of 236 nursing professionals completed the NEO Five Factor Inventory (NEO-FFI) and the Affect-Balance Scale (ABS). Regression analysis showed personality as one of the most important correlates of subjective well-being, especially through Extraversion and Neuroticism. There was a positive association between Openness to experience and the positive and negative components of affect. Likewise, the most basic demo- graphic variables (sex, age and relationship status) are found to be differentially associated with the different elements of subjective well-being, and the explanation for these associations is highly likely to be found in the links between demographic variables and personality. In the same way as control of the effect of demo- graphic variables is necessary for isolating the effect of personality on subjective well-being, control of per- sonality should permit more accurate analysis of the role of demographic variables in relation to the subjective well-being construct.},
pages = {1561--1569},
volume = {38},
year = {2005},
date-added = {2010-05-01 16:30:48 +0200},
date-modified = {2010-05-01 16:32:26 +0200},
doi = {10.1016/j.paid.2004.09.015},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guti%C3%A9rrez-2005-Personality%20and%20Individual%20Differences_Personality%20and%20subj.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11406},
rating = {0}
}
@article{Kas:2009p1303,
author = {Martien J H Kas and Walter H Kaye and Wendy Foulds Mathes and Cynthia M Bulik},
journal = {Am J Med Genet B Neuropsychiatr Genet},
title = {Interspecies genetics of eating disorder traits},
abstract = {Family and twin studies have indicated that genetic factors play a role in the development of eating disorders, such as anorexia and bulimia nervosa, but novel views and tools may enhance the identification of neurobiological mechanisms underlying these conditions. Here we propose an integrative genetic approach to reveal novel biological substrates of eating disorder traits analogous in mouse and human. For example, comparable to behavioral hyperactivity that is observed in 40-80% of anorexia nervosa patients, inbred strains of mice with different genetic backgrounds are differentially susceptible to develop behavioral hyperactivity when food restricted. In addition, a list of characteristics that are relevant to eating disorders and approaches to their measurement in humans together with potential analogous rodent models has been generated. Interspecies genetics of neurobehavioral characteristics of eating disorders has the potential to open new roads to identify and functionally test genetic pathways that influence neurocircuits relevant for these heterogeneous psychiatric disorders.},
affiliation = {Department of Neuroscience and Pharmacology, Rudolf Magnus Institute of Neuroscience, UMC Utrecht, The Netherlands.},
number = {3},
pages = {318--27},
volume = {150B},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Mice, Disease Models: Animal, Animals, Eating Disorders, Humans},
date-added = {2010-01-07 11:36:39 +0100},
date-modified = {2010-01-07 11:36:39 +0100},
doi = {10.1002/ajmg.b.30832},
pmid = {18646037},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1303},
rating = {0}
}
@inbook{Dijkstra:1988,
author = {W Dijkstra and J van der Zouwen},
journal = {Book},
title = {Data Collection and Scaling},
chapter = {Types of inadequate interviewer behavior in survey interviews},
pages = {24--35},
year = {1988},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p960},
rating = {0}
}
@article{Coolidge:2010p8970,
author = {Frederick L Coolidge and Daniel L Segal and Brian S Cahill and Jeremy T Simenson},
journal = {Psychology and psychotherapy},
title = {Psychometric properties of a brief inventory for the screening of personality disorders: The SCATI},
abstract = {The purpose of the present study was to report on the psychometric properties of a revised version of a brief inventory designed to screen and assess personality disorders. The short form of the Coolidge Axis II Inventory (SCATI) is a 70-item, self-report, form of the 250-item Coolidge Axis II Inventory (CATI). On a community sample of 588 adults (range=16-88 years), the median internal scale reliability for the 14 personality disorder scales was .66, and the median test-retest reliability (1 week) was .83. Principal components analysis (PCA) revealed a four-component structure, essentially similar to previous PCA studies of the SCATI and CATI. Good convergent validity was obtained between a five-factor model of psychopathology and the 14 SCATI personality disorder scales. Gender differences were obtained on some scales, although the effect sizes were generally small. These preliminary psychometric properties establish that the SCATI has sufficient reliability and validity to warrant further research, particularly in clinical samples.},
pages = {},
year = {2010},
month = {Mar},
language = {ENG},
date-added = {2010-03-22 13:10:30 +0100},
date-modified = {2010-03-22 13:10:31 +0100},
doi = {10.1348/147608310X486363},
pii = {pptrp517},
pmid = {20219166},
url = {http://www.ingentaconnect.com/content/bpsoc/paptrap/pre-prints/pptrp517},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8970},
rating = {0}
}
@article{Salaffi:2009p8437,
author = {Fausto Salaffi and Marina Carotti and Stefania Gasparini and Michele Intorcia and Walter Grassi},
journal = {Health Qual Life Outcomes},
title = {The health-related quality of life in rheumatoid arthritis, ankylosing spondylitis, and psoriatic arthritis: a comparison with a selected sample of healthy people},
abstract = {BACKGROUND: The health-related quality of life (HRQL) is an important indicator of the burden of musculoskeletal disease. The Medical Outcome Study Short-Term 36 (SF-36) is the most used tool that evaluates HRQL as a subjective perception about psychological and physical limitations due to an underlying illness. The purpose of this study was to compare the HRQL scores among patients with rheumatoid arthritis (RA), psoriatic arthritis (PsA) and ankylosing spondylitis (AS) and a selected sample of health people and determine their relationship with measures of clinical condition. METHODS: 799 patients (469 with RA, 164 with AS, 65 with axial PsA and 101 with peripheral PsA) accepted the invitation to participate. 1579 healthy controls were used for the comparison. We calculated scores for the eight SF-36 subscales, the Physical Component Summary (PCS) score, and the Mental Component Summary (MCS) score, according to published algorithms. Disease-related characteristics included disease duration, comorbidity, a measure for disease activity and for radiographic damage. The presence of comorbidity was ascertained through patient's self-reports by the Self-Administered Comorbidity Questionnaire (SCQ). Comparison were performed with respect to sex and age, and s-scores were calculated for comparison with the norm. Multivariate analyses were used to assess the relationship between HRQL and radiographic damage, disease activity, and socio-demographic data. RESULTS: The four inflammatory rheumatic diseases (IRD), compared to controls, significantly impaired all eight health concepts of the SF-36 (p < 0.0001) in both component PCS and MCS scores (p < 0.0001). Overall, the dimensions typically affected were physical functioning, limitations due to physical function, and bodily pain. The disease with the worst HRQL for those dimensions was RA. The multivariate analyses revealed that the physical component was influenced by a high disease activity and comorbidity. The severity of psoriatic lesions was associated with poor mental functioning in patients with PsA. CONCLUSION: Chronic IRD have a clearly detrimental effect on the HRQL in both sex and in age groups, and physical domain is more impaired than mental and social ones.},
affiliation = {Dipartimento di Patologia Molecolare e Terapie Innovative, Clinica Reumatologica - Universit{\`a} Politecnica delle Marche, Ancona, Italy. fsalaff@tin.it},
pages = {25},
volume = {7},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-21 17:56:07 +0100},
date-modified = {2010-03-21 17:56:07 +0100},
doi = {10.1186/1477-7525-7-25},
pii = {1477-7525-7-25},
pmid = {19296831},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Salaffi-2009-Health%20and%20Quality%20of%20Life%20Outcomes_The%20health-related%20q.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8437},
rating = {0}
}
@article{Bouveyron:2009p2918,
author = {C Bouveyron and C Brunet},
journal = {XIII International Conference on Applied Stochastic Models and Data Analysis},
title = {Clustering in Fisher discriminative subspaces},
abstract = {Clustering in high-dimensional spaces is nowadays a recurrent problem in many scientific domains but remains a difficult problem. This is mainly due to the fact that high-dimensional data usually live in low-dimensional subspaces hid- den in the original space. This paper presents a model-based clustering approach which models the data in a discriminative subspace with an intrinsic dimension lower than the dimension of the original space. An estimation algorithm, called Fisher-EM algorithm, is proposed for estimating both the mixture parameters and the discriminative subspace. Experiments show that the proposed approach out- performs existing clustering methods and provides a useful representation of the high-dimensional data.},
year = {2009},
date-added = {2010-01-13 21:52:46 +0100},
date-modified = {2010-01-13 21:53:22 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bouveyron-2009-XIII%20International%20Conference%20on%20Applied%20Stochastic%20Models%20and%20Data%20Analysis_Clustering%20in%20Fisher.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2918},
rating = {0}
}
@article{Cella:1993p11651,
author = {D F Cella and I Wiklund and S A Shumaker and Neil K Aaronson},
journal = {Qual Life Res},
title = {Integrating health-related quality of life into cross-national clinical trials},
abstract = {When planning to implement health-related quality of life (HRQL) assessment in a multinational clinical trial, there are at least four general considerations: the natural history of the disease or condition, the characteristics of the population, the treatment under consideration, and the structure and function of the clinical trial organization. Each of these considerations must be addressed simultaneously when planning, implementing and analysing a cross-national clinical trial. There are five relevant polar components of the natural history of a given disease or condition: (1) time frame (acute versus chronic); (2) life threat (yes versus no); (3) symptomatology (present versus absent); (4) symptom expression (episodic versus constant); and (5) functional impact (present versus absent). Differences in population characteristics, (e.g., age, conditions, co-morbidity), embedded within any cross-national trial, must be addressed conceptually prior to initiating the trial, methodologically when planning implementation, and statistically after the collection of the data. In terms of treatment, issues such as adverse and positive effects and timing of effects must be considered. The methods entailed in planning, implementing and analysing HRQL data will depend upon the degree of centralization of personnel and resources within any given clinical trial. The range of possibilities runs from complete centralization, in which all planning and coordination of data collection and transmittal is done by one office, to complete decentralization, in which the work is distributed to participating sites and interested investigators. Finally, successful implementation of HRQL data collection is enhanced by heightening awareness of the importance of, and value in, assessing HRQL in clinical trials.(ABSTRACT TRUNCATED AT 250 WORDS)},
affiliation = {Rush-Presbyterian-St Luke's Medical Center, Chicago, IL 60612.},
number = {6},
pages = {433--40},
volume = {2},
year = {1993},
month = {Dec},
language = {eng},
keywords = {Quality of Life, Humans, Cross-Cultural Comparison, Data Collection, Questionnaires, International Cooperation, Planning Techniques, Health Surveys, Reproducibility of Results, Multicenter Studies as Topic},
date-added = {2010-05-11 22:49:08 +0200},
date-modified = {2010-07-29 20:13:56 +0200},
pmid = {8161977},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11651},
rating = {0}
}
@article{Gauderman:2002p9333,
author = {W James Gauderman},
journal = {Am J Epidemiol},
title = {Sample size requirements for association studies of gene-gene interaction},
abstract = {In the study of complex diseases, it may be important to test hypotheses related to gene-gene (G x G) interaction. The success of such studies depends critically on obtaining adequate sample sizes. In this paper, the author investigates sample size requirements for studies of G x G interaction, focusing on four study designs: the matched-case-control design, the case-sibling design, the case-parent design, and the case-only design. All four designs provide an estimate of interaction on a multiplicative scale, which is used as a unifying theme in the comparison of sample size requirements. Across a variety of genetic models, the case-only and case-parent designs require fewer sampling units (cases and case-parent trios, respectively) than the case-control (pairs) or case-sibling (pairs) design. For example, the author describes an asthma study of two common recessive genes for which 270 matched case-control pairs would be required to detect a G x G interaction of moderate magnitude with 80% power. By comparison, the same study would require 319 case-sibling pairs but only 146 trios in the case-parent design or 116 cases in the case-only design. A software program that computes sample size for studies of G x G interaction and for studies of gene-environment (G x E) interaction is freely available (http://hydra.usc.edu/gxe).},
affiliation = {Department of Preventive Medicine, School of Medicine, University of Southern California, 1540 Alcazar Street, Suite 220, Los Angeles, CA 90089, USA. jimg@usc.edu},
number = {5},
pages = {478--84},
volume = {155},
year = {2002},
month = {Mar},
language = {eng},
keywords = {Female, Research Design, Humans, Genetic Predisposition to Disease, Sensitivity and Specificity, Models: Genetic, Sample Size, Male, Environment, Case-Control Studies, Pedigree, Risk Factors},
date-added = {2010-03-23 18:34:29 +0100},
date-modified = {2010-03-23 18:34:29 +0100},
pmid = {11867360},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gauderman-2002-Am%20J%20Epidemiol_Sample%20size%20requirem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9333},
rating = {0}
}
@article{Banerjee:2005p12880,
author = {A Banerjee and C Krumpelman and S Basu and R J Mooney and J Ghosh},
journal = {KDD},
title = {Model-based Overlapping Clustering},
abstract = {While the vast majority of clustering algorithms are partitional, many real world datasets have inherently overlapping clusters. Sev- eral approaches to finding overlapping clusters have come from work on analysis of biological datasets. In this paper, we inter- pret an overlapping clustering model proposed by Segal et al. [23] as a generalization of Gaussian mixture models, and we extend it to an overlapping clustering model based on mixtures of any regu- lar exponential family distribution and the corresponding Bregman divergence. We provide the necessary algorithm modifications for this extension, and present results on synthetic data as well as sub- sets of 20-Newsgroups and EachMovie datasets.},
year = {2005},
date-added = {2010-06-24 13:04:18 +0200},
date-modified = {2010-06-24 13:05:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Banerjee-2005-KDD_Model-based%20Overlapp.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12880},
rating = {0}
}
@article{Rijmen:2003,
author = {Franck Rijmen and Francis Tuerlinckx and Paul De Boeck and Peter Kuppens},
journal = {Psychological Methods},
title = {A nonlinear mixed model framework for item response theory},
abstract = {Mixed models take the dependency between observations based on the same cluster into account by introducing 1 or more random effects. Common item response theory (IRT) models introduce latent person variables to model the dependence between responses of the same participant. Assuming a distribution for the latent variables, these IRT models are formally equivalent with nonlinear mixed models. It is shown how a variety of IRT models can be formulated as particular instances of nonlinear mixed models. The unifying framework offers the advantage that relations between different IRT models become explicit and that it is rather straight- forward to see how existing IRT models can be adapted and extended. The ap- proach is illustrated with a self-report study on anger.},
number = {2},
pages = {185--205},
volume = {8},
year = {2003},
date-added = {2010-01-10 11:33:25 +0100},
date-modified = {2010-07-29 20:46:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rijmen-2003-Psychological%20Methods_A%20nonlinear%20mixed%20mo.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2202},
read = {Yes},
rating = {5}
}
@article{Shaffer:2007p4119,
author = {L B Shaffer},
title = {Examining Regression Analysis Beyond the Mean of the Distribution using Quantile Regression},
year = {2007},
date-added = {2010-01-20 00:06:51 +0100},
date-modified = {2010-01-20 00:07:12 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Shaffer-2007-_Examining%20Regression.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4119},
rating = {0}
}
@article{Cain:2003p271,
author = {Virginia S Cain and Raynard S Kington},
journal = {Am J Public Health},
title = {Investigating the role of racial/ethnic bias in health outcomes},
number = {2},
pages = {191--2},
volume = {93},
year = {2003},
month = {Feb},
language = {eng},
keywords = {United States, Public Health, Socioeconomic Factors, Humans, Ethnic Groups, Outcome Assessment (Health Care), Evaluation Studies as Topic, Health Status, Prejudice},
date-added = {2010-01-03 11:27:46 +0100},
date-modified = {2010-01-03 11:27:46 +0100},
pmid = {12554567},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cain-2003-Am%20J%20Public%20Health_Investigating%20the%20ro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p271},
rating = {0}
}
@article{Timberlake:2007p7516,
author = {David S Timberlake and Christian J Hopfer and Soo Hyun Rhee and Naomi P Friedman and Brett C Haberstick and Jeffrey M Lessem and John K Hewitt},
journal = {Alcohol Clin Exp Res},
title = {College attendance and its effect on drinking behaviors in a longitudinal study of adolescents},
abstract = {BACKGROUND: While college attendance has been shown to be associated with increased drinking behaviors, there are no studies to our knowledge that have examined whether college attendance moderates genetic influences for drinking. We first tested for changes in alcohol consumption in adolescents who did and did not subsequently attend college, and then tested for variation of the genetic and environmental determinants of drinking in these 2 groups. METHODS: Participants eligible for this study were selected from 2 samples from the National Longitudinal Study of Adolescent Health (Add Health), a national probability sample (n=7,083) and a sample of sibling pairs (n=855 pairs). Participants were assessed for measures of drinking behaviors as adolescents (wave I) and reinterviewed at 1 (wave II) and 6 years (wave III) following the initial survey. Changes in binge drinking and average quantity of alcohol consumed in the past year were estimated among 4 groups (2-year college students, 4-year college students, college withdrawers, noncollege participants) in sequential cohorts which spanned the ages of 13 to 24 across the 3 Add Health waves. Gene by environment interactions were then tested at wave III using biometrical models in the genetically informative pairs. RESULTS: Participants who did not attend college reported more binge drinking and consumed greater quantities of alcohol as adolescents than participants who subsequently attended college. However, the college students not only surpassed their noncollege peers in alcohol use as young adults, but also exhibited a greater genetic influence on quantity of alcohol consumed per drinking episode. CONCLUSIONS: Exposure to a college environment acts as an environmental moderator, supporting the hypothesis that the magnitude of genetic influence on certain aspects of alcohol consumption is greater in environments where drinking behaviors are more likely to be promoted.},
affiliation = {Institute for Behavioral Genetics, University of Colorado, Boulder, Colorado, USA. dtimberl@uci.edu},
number = {6},
pages = {1020--30},
volume = {31},
year = {2007},
month = {Jun},
language = {eng},
keywords = {Universities, Humans, Longitudinal Studies, Female, Alcohol Drinking, Adolescent, Male},
date-added = {2010-03-10 20:54:31 +0100},
date-modified = {2010-07-29 19:13:02 +0200},
doi = {10.1111/j.1530-0277.2007.00383.x},
pii = {ACER383},
pmid = {17403064},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7516},
rating = {0}
}
@article{Rose:2008p7358,
author = {M Rose and J B Bjorner and J Becker and J F Fries and J E Ware},
journal = {Journal of Clinical Epidemiology},
title = {Evaluation of a preliminary physical function item bank supported the expected advantages of the Patient-Reported Outcomes Measurement Information System (PROMIS)},
abstract = {OBJECTIVE: The Patient-Reported Outcomes Measurement Information System (PROMIS) was initiated to improve precision, reduce respondent burden, and enhance the comparability of health outcomes measures. We used item response theory (IRT) to construct and evaluate a preliminary item bank for physical function assuming four subdomains. STUDY DESIGN AND SETTING: Data from seven samples (N=17,726) using 136 items from nine questionnaires were evaluated. A generalized partial credit model was used to estimate item parameters, which were normed to a mean of 50 (SD=10) in the US population. Item bank properties were evaluated through Computerized Adaptive Test (CAT) simulations. RESULTS: IRT requirements were fulfilled by 70 items covering activities of daily living, lower extremity, and central body functions. The original item context partly affected parameter stability. Items on upper body function, and need for aid or devices did not fit the IRT model. In simulations, a 10-item CAT eliminated floor and decreased ceiling effects, achieving a small standard error (< 2.2) across scores from 20 to 50 (reliability >0.95 for a representative US sample). This precision was not achieved over a similar range by any comparable fixed length item sets. CONCLUSION: The methods of the PROMIS project are likely to substantially improve measures of physical function and to increase the efficiency of their administration using CAT.},
affiliation = {Health Assessment Lab and QualityMetric Incorporated, 275 Wyman Street, Waltham, MA 02451, USA. mrose@hal-health.org},
number = {1},
pages = {17--33},
volume = {61},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Health Status, Cross-Sectional Studies, Activities of Daily Living, Data Interpretation: Statistical, Humans, Female, Osteoarthritis, Male, Health Status Indicators, Outcome Assessment (Health Care), Disability Evaluation},
date-added = {2010-03-10 20:28:56 +0100},
date-modified = {2010-03-10 20:28:56 +0100},
doi = {10.1016/j.jclinepi.2006.06.025},
pii = {S0895-4356(07)00298-3},
pmid = {18083459},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rose-2008-Journal%20of%20Clinical%20Epidemiology_Evaluation%20of%20a%20prel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7358},
rating = {0}
}
@article{Mandelbaum:2006p8633,
author = {David E Mandelbaum and Michael Stevens and Eric Rosenberg and Max Wiznitzer and Mitchell Steinschneider and Pauline Filipek and Isabelle Rapin},
journal = {Dev Med Child Neurol},
title = {Sensorimotor performance in school-age children with autism, developmental language disorder, or low IQ},
abstract = {The purpose of the study was to determine the prevalence of 'soft' motor deficits in school-aged children with either developmental language disorder (DLD), autism (with high IQ [HiAD] or low IQ [LoAD]), or low IQ without autism (LoIQ), and to evaluate the utility of a refined neurological examination to discriminate between these groups. A total of 242 children (74% male), aged 7 or 9 years, were evaluated as part of a longitudinal, multi-institutional study, with a standardized neurological examination that included Denckla's Physical and Neurological Examination for Soft Signs. Most of the scores separated children into two groups defined by nonverbal IQ, with the DLD and HiAD groups performing better than the LoAD and LoIQ groups. Exceptions included motor impersistence and stereotypies, which were more likely in the autistic groups. The neurologists' summary clinical impressions indicated better sensory/motor skills, oromotor skills, and praxis in the HiAD than in the DLD children. Inability/unwillingness to perform tasks was much more frequent in LoAD than LoIQ children.},
affiliation = {Department of Clinical Neurosciences, Brown Medical School, Providence, RI, USA. David_Mandelbaum@brown.edu},
number = {1},
pages = {33--9},
volume = {48},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Child, Male, Prevalence, Motor Skills Disorders, Neurons: Afferent, Female, Language Development Disorders, Neuromuscular Diseases, Mental Retardation, Longitudinal Studies, Motor Skills, Motor Neurons, Neurologic Examination, Humans, Autistic Disorder},
date-added = {2010-03-22 00:26:20 +0100},
date-modified = {2010-03-22 00:26:26 +0100},
doi = {10.1017/S0012162206000089},
pii = {S0012162206000089},
pmid = {16359592},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Mandelbaum-2006-Developmental%20medicine%20and%20child%20neurology_Sensorimotor%20perform.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8633},
rating = {4}
}
@article{Keogh:2000p4874,
author = {E Keogh and J Reidy},
journal = {J Pers Assess},
title = {Exploring the factor structure of the Mood and Anxiety Symptom Questionnaire (MASQ)},
abstract = {L. A. Clark and Watson (1991) proposed a tripartite model of anxiety and depression defined in terms of common symptoms relating to general distress, anxiety-specific symptoms of hyperarousal, and depression-specific symptoms of low positive affect and loss of interest. To aid the measurement of and discrimination between anxiety and depression they developed the Mood and Anxiety Symptom Questionnaire (MASQ). Although potentially useful, the MASQ is still in an early stage of development, and there is an indication that a discrepancy exists between items and scales. Therefore, the aim of this study was to explore the items and factors of the MASQ and determine whether a pattern similar to that suggested by L. A. Clark and Watson would emerge. Factor analysis of the MASQ revealed 3 factors relating to general distress, positive affect, and anxious arousal. Inspection of the individual items indicated that some refinements are required.},
affiliation = {Department of Psychology, Goldsmiths College, University of London. e.keogh@gold.ac.uk},
number = {1},
pages = {106--25},
volume = {74},
year = {2000},
month = {Feb},
language = {eng},
keywords = {Depression, Adolescent, London, Anxiety, Female, Middle Aged, Reproducibility of Results, Adult, Humans, Factor Analysis: Statistical, Psychiatric Status Rating Scales, Psychometrics, Arousal, Male},
date-added = {2010-02-01 20:30:54 +0100},
date-modified = {2010-07-29 19:35:42 +0200},
pmid = {10779936},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4874},
rating = {0}
}
@article{Acton:2004p6236,
author = {G Scott Acton and W Revelle},
journal = {Methods of Psychological Research Online},
title = {Evaluation of Ten Psychometric Criteria for Circumplex Structure},
abstract = {This study tested for sensitivity to circumplex structure in six existing and four new psychometric criteria that assess the circumplex properties of interstitiality, equal spacing, constant radius, and no preferred rotation. Simulations showed one criterion to be sensitive to equal versus unequal axes (Fisher Test) and four to be sensitive to interstitiality versus simple structure (Gap Test, Variance Test 2, Rotation Test, and Minkowski Test). Five criteria were ineffective (Squared Loadings Index, Gap* Test, Gap Difference Test, Cosine Difference Test, and Variance Test 1). Deviation scoring improved the effectiveness of most criteria and is thus recommended for assessing cir- cumplex structure. This study provides new and effective means for discovering com- plex interrelations of variables where they exist. The circumplex, which falls in the middle of a hierarchy of models in degree of parsimony, may most accurately reflect a complex domain.},
number = {1},
volume = {9},
year = {2004},
date-added = {2010-02-19 21:08:02 +0100},
date-modified = {2010-07-29 19:40:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Acton-2004-Methods%20of%20Psychological%20Research%20Online_Evaluation%20of%20Ten%20Ps.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6236},
rating = {0}
}
@article{Vermunt:2007p1820,
author = {J K Vermunt},
title = {Multilevel mixture item response theory models: an application in education testing},
year = {2007},
date-added = {2010-01-09 22:58:18 +0100},
date-modified = {2010-01-09 22:58:44 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Vermunt-2007-_Multilevel%20mixture%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1820},
rating = {0}
}
@article{Chien:2010p13751,
author = {Tsair-Wei Chien and Shun-Jin Lin and Wen-Chung Wang and Henry Wc Leung and Wen-Pin Lai and Agnes Lf Chan},
journal = {Health Qual Life Outcomes},
title = {Reliability of 95% confidence interval revealed by expected quality-of-life scores: an example of nasopharyngeal carcinoma patients after radiotherapy using EORTC QLQ-C 30},
abstract = {ABSTRACT: BACKGROUND: Many researchers use observed questionnaire scores to evaluate score reliability and to make conclusions and inferences regarding quality-of-life outcomes. The amount of false alarms from medical diagnoses that would be avoided if observed scores were substituted with expected scores is interesting, and understanding these differences is important for the care of cancer patients. Using expected scores to estimate the reliability of 95% confidence intervals (CIs) is rarely reported in published papers. We investigated the reliability of patient responses to a quality-of-life questionnaire and made recommendations for future studies of the quality of life of patients. METHODS: A total of 115 patients completed the EORTC core questionnaire QLQ-C30 (version 3) after radiotherapy. The observed response scores, assumed to be one-dimensional, were summed and transformed into expected scores using the Rasch rating scale model with WINSTEPS software. A series of simulations was performed using a unified bootstrap procedure after manipulating scenarios with different questionnaire lengths and patient numbers to estimate the reliability at 95% confidence intervals. Skewness analyses of the 95% CIs were compared to detect different effects between groups according to the two data sets of observed and expected response scores. RESULTS: We found that (1) it is necessary to report CIs for reliability and skewness coefficients in papers; (2) data derived from expected response scores are preferable to making inferences; and (3) visual representations displaying the 95% CIs of skewness values applied to item-by-item analyses can provide a useful interpretation of quality-of-life outcomes. CONCLUSION: Reliability coefficients can be reported with 95% CIs by statistical software to evaluate the internal consistency of respondent scores on questionnaire items. The SPSS syntax procedures for estimating the reliability of the 95% CI, expected score generation and visual skewness analyses are demonstrated in this study. We recommend that effect sizes such as a 95% CI be reported along with p values reporting significant differences in quality-of-life studies.},
number = {1},
pages = {68},
volume = {8},
year = {2010},
month = {Jul},
language = {ENG},
date-added = {2010-07-24 12:42:57 +0200},
date-modified = {2010-07-24 12:42:57 +0200},
doi = {10.1186/1477-7525-8-68},
pii = {1477-7525-8-68},
pmid = {20626903},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chien-2010-Health%20and%20Quality%20of%20Life%20Outcomes_Reliability%20of%2095%25%20c-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13751},
rating = {0}
}
@article{Ball:2002p9558,
author = {Joanna Ball and Libby Tannenbaum and Lisa Armistead and Shira Maguen and Family Health Project Research Group},
journal = {Women Health},
title = {Coping and HIV infection in African-American women},
abstract = {HIV is impacting African-American women at alarming rates. Many of these women are poor and socially disadvantaged, resulting in a combination of stressors that impacts the quality of their lives. This study investigated whether coping style (i.e., problem-focused, emotion-focused) varies as a function of HIV status or stage of HIV-related illness. Secondly, we examined whether the use of a particular style is associated with three areas of functioning among HIV-infected women: general psychological distress, depressive symptomatology, and physical symptomatology. Ninety-nine HIV-infected women and 143 noninfected women completed measures assessing coping styles and functioning. No significant differences emerged in coping styles between the HIV-infected and noninfected women or for the groups when symptomatic women were examined separate from asymptomatic women. Greater emotion-focused coping was associated with less general psychological distress and depression specifically. Problem-focused coping interacted with illness stage to predict all areas of functioning. By identifying effective coping strategies among African-American women with HIV, mental health professionals can design empirical interventions that can help improve quality of life for these women.},
affiliation = {Department of Psychology, Georgia State University, Atlanta 30303, USA.},
number = {1},
pages = {17--36},
volume = {35},
year = {2002},
month = {Jan},
language = {eng},
keywords = {Socioeconomic Factors, Cross-Sectional Studies, African Americans, Humans, Urban Population, Louisiana, Data Collection, Female, HIV Infections, Regression Analysis, Questionnaires, Attitude to Health, Social Support, Longitudinal Studies, Adaptation: Psychological, Quality of Life, Middle Aged, Depressive Disorder, Women's Health, Adult},
date-added = {2010-03-23 20:53:52 +0100},
date-modified = {2010-03-23 20:53:53 +0100},
pmid = {11942467},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9558},
rating = {0}
}
@book{Breiman1984,
author = {L Breiman and R A Friedman and R A Olshen and C J Stone},
journal = {Book},
title = {Classification and Regression Trees},
year = {1984},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2520},
rating = {0}
}
@article{Kemmler:2010p11119,
author = {G Kemmler and A Zabernigg and K Gattringer and G Rumpold and J Giesinger and B Sperner-Unterweger and B Holzner},
journal = {Journal of Clinical Epidemiology},
title = {A new approach to combining clinical relevance and statistical significance for evaluation of quality of life changes in the individual patient},
abstract = {OBJECTIVE: Empirical investigation of formerly proposed criteria for relevant changes of health-related quality of life (QOL) regarding their use for monitoring changes in the individual patient. Suggestion of a new criterion trying to overcome the drawbacks of former criteria. STUDY DESIGN AND SETTING: QOL data were collected longitudinally in 160 cancer patients receiving chemotherapy at an oncological outpatient unit, giving rise to a total of 975 QOL assessments. QOL was measured using the European Organization on Research and Treatment of Cancer Quality of Life Core Questionnaire. Several formerly suggested criteria of relevant change (distribution based, anchor based) were compared in terms of both prevalence and statistical significance of the resulting relevant changes. RESULTS: When considering criteria of relevant change suggested in the literature, high proportions (average: 42.3-48.3%) of reputedly relevant changes were found. The majority of these changes (average: 55.8-62.2%) were statistically insignificant. Combination of an increased threshold for clinical relevance with the concept of statistical significance resulted in a more meaningful change criterion. CONCLUSION: Formerly recommended thresholds of relevant change in QOL appear to be unduly low when focusing on the individual patient. A modified criterion is therefore suggested for this case. However, more research is needed for validation and refinement of the proposed criterion.},
affiliation = {Department of Psychiatry and Psychotherapy, Innsbruck Medical University, Innsbruck, Tyrol 6020, Austria. georg.kemmler@uki.at},
number = {2},
pages = {171--9},
volume = {63},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Neoplasms, Psychometrics, Antineoplastic Agents, Quality of Life, Aged, Health Status Indicators, Male, Humans, Longitudinal Studies, Adult, Middle Aged, Treatment Outcome, Young Adult, Female},
date-added = {2010-04-14 13:55:03 +0200},
date-modified = {2010-04-14 13:55:08 +0200},
doi = {10.1016/j.jclinepi.2009.03.016},
pii = {S0895-4356(09)00119-X},
pmid = {19615857},
url = {http://linkinghub.elsevier.com/retrieve/pii/S0895-4356(09)00119-X},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kemmler-2010-Journal%20of%20Clinical%20Epidemiology_A%20new%20approach%20to%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11119},
rating = {4}
}
@article{Chen:2007p2908,
author = {Xiang Chen and Ching-Ti Liu and Meizhuo Zhang and Heping Zhang},
journal = {Proc Natl Acad Sci USA},
title = {A forest-based approach to identifying gene and gene gene interactions},
abstract = {Multiple genes, gene-by-gene interactions, and gene-by-environment interactions are believed to underlie most complex diseases. However, such interactions are difficult to identify. Although there have been recent successes in identifying genetic variants for complex diseases, it still remains difficult to identify gene-gene and gene-environment interactions. To overcome this difficulty, we propose a forest-based approach and a concept of variable importance. The proposed approach is demonstrated by simulation study for its validity and illustrated by a real data analysis for its use. Analyses of both real data and simulated data based on published genetic models show the effectiveness of our approach. For example, our analysis of a published data set on age-related macular degeneration (AMD) not only confirmed a known genetic variant (P value = 2E-6) for AMD, but also revealed an unreported haplotype surrounding single-nucleotide polymorphism (SNP) rs10272438 on chromosome 7 that was significantly associated with AMD (P value = 0.0024). These significance levels are obtained after the consideration for a large number of SNPs. Thus, the importance of this work is twofold: it proposes a powerful and flexible method to identify high-risk haplotypes and their interactions and reveals a potentially protective variant for AMD.},
affiliation = {Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT 06520-8034, USA.},
number = {49},
pages = {19199--203},
volume = {104},
year = {2007},
month = {Dec},
language = {eng},
keywords = {Models: Genetic, Data Interpretation: Statistical, Polymorphism: Single Nucleotide, Linkage (Genetics), Haplotypes, Genetic Predisposition to Disease, Computer Simulation, Epistasis: Genetic, Humans, Macular Degeneration, Environment},
date-added = {2010-01-13 15:02:21 +0100},
date-modified = {2010-01-13 15:02:21 +0100},
doi = {10.1073/pnas.0709868104},
pii = {0709868104},
pmid = {18048322},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chen-2007-Proc%20Natl%20Acad%20Sci%20USA_A%20forest-based%20appro.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2908},
rating = {0}
}
@article{Revelle:2008p11660,
author = {W Revelle and K R Scherer},
title = {Personality and Emotion},
year = {2008},
date-added = {2010-05-13 21:25:28 +0200},
date-modified = {2010-05-13 21:26:44 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Revelle-2008-_Personality%20and%20Emot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11660},
rating = {0}
}
@article{Griffiths:2005p14146,
author = {T L Griffiths and Z Ghahramani},
title = {Infinite Latent Feature Models and the Indian Buffet Process},
abstract = {We define a probability distribution over equivalence classes of binary ma- trices with a finite number of rows and an unbounded number of columns. This distribution is suitable for use as a prior in probabilistic models that represent objects using a potentially infinite array of features. We derive the distribution by taking the limit of a distribution over N × K binary matrices as K → ∞, a strategy inspired by the derivation of the Chinese restaurant process (Aldous, 1985; Pitman, 2002) as the limit of a Dirichlet-multinomial model. This strategy preserves the exchangeability of the rows of matrices. We define several simple generative processes that result in the same distri- bution over equivalence classes of binary matrices, one of which we call the Indian buffet process. We illustrate the use of this distribution as a prior in an infinite latent feature model, deriving a Markov chain Monte Carlo algo- rithm for inference in this model and applying this algorithm to an artificial dataset.},
year = {2005},
date-added = {2010-08-18 17:05:13 +0200},
date-modified = {2010-08-18 17:06:02 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Griffiths-2005-_Infinite%20Latent%20Feat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14146},
rating = {0}
}
@article{Spencer:2004p12087,
author = {S G Spencer},
title = {The strength of multidimensional item response theory in exploring construct space that is multidimensional and correlated},
year = {2004},
date-added = {2010-05-24 12:31:54 +0200},
date-modified = {2010-05-24 12:32:24 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Spencer-2004-_The%20strength%20of%20mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12087},
rating = {0}
}
@article{deBPereira:2010p13482,
author = {B de B Pereira and C R Rao and R L Oliveira},
journal = {Journal of Data Science},
title = {Combining Unsupervised and Supervised Neural Networks in Cluster Analysis of Gamma-Ray Burst},
abstract = {The paper proposes the use of Kohonen's Self Organizing Map (SOM), and supervised neural networks to find clusters in samples of gamma- ray burst (GRB) using the measurements given in BATSE GRB. The extent of separation between clusters obtained by SOM was examined by cross val- idation procedure using supervised neural networks for classification. A method is proposed for variable selection to reduce the ``curse of dimension- ality''. Six variables were chosen for cluster analysis. Additionally, principal components were computed using all the original variables and 6 components which accounted for a high percentage of variance was chosen for SOM anal- ysis. All these methods indicate 4 or 5 clusters. Further analysis based on the average profiles of the GRB indicated a possible reduction in the number of clusters.},
pages = {327--338},
volume = {8},
year = {2010},
date-added = {2010-07-01 22:02:21 +0200},
date-modified = {2010-07-01 22:14:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20B%20Pereira-2010-Journal%20of%20Data%20Science_Combining%20Unsupervis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13482},
rating = {0}
}
@article{Heinonen:2008p5059,
author = {Kati Heinonen and Katri R{\"a}ikk{\"o}nen and Anu-Katriina Pesonen and Eero Kajantie and Sture Andersson and Johan G Eriksson and Anja Niemel{\"a} and Timo Vartia and Juha Peltola and Aulikki Lano},
journal = {Pediatrics},
title = {Prenatal and postnatal growth and cognitive abilities at 56 months of age: a longitudinal study of infants born at term},
abstract = {OBJECTIVE: The aim of the study was to investigate whether weight, length, BMI (kilograms per meter squared), and head circumference at birth and their postnatal growth are associated with cognitive abilities at 56 months of age among infants born at term. PATIENTS AND METHODS: Our sample was composed of 1056 Finnish children born at term, (37 to 41 weeks) free of any major impairments. Weight, length, and head circumference were measured at birth and at 5, 20, and 56 months of age, and BMI was calculated. We assessed cognitive abilities by conducting tests of general reasoning, visual-motor integration, verbal competence, and language comprehension at 56 months of age. RESULTS: Firstly, for every 1 SD lower in weight or BMI at birth, general reasoning and/or visual-motor integration was >1.20 points lower, and for every 1 SD lower in length or head circumference at birth, abilities across all of the cognitive domains were >1.31 points lower. Second, for every 1 SD slower gain in weight or BMI from birth to 5 months, general reasoning and visual-motor integration decreased by >0.97 points; for every 1 SD slower gain in length from 5 to 20 months and from 20 to 56 months, respectively, visual-motor integration, and verbal competence and language comprehension decreased by >1.03 points; and for every 1 SD slower increase in head circumference from birth to 5 months and from 5 to 20 months, respectively, visual-motor integration and language comprehension decreased by >1.17 points. Third, tests for nonlinear relationships revealed that, in some cases, large body size and faster growth were also associated with lower scores in cognitive tests. CONCLUSIONS: Our findings suggest that, even within the range of children born at term, prenatal and postnatal growth in body size are associated with individual differences in cognitive abilities.},
affiliation = {Department of Psychology, PO Box 9, FI-00014 University of Helsinki, Helsinki, Finland. kati.heinonen@helsinki.fi},
number = {5},
pages = {e1325--33},
volume = {121},
year = {2008},
month = {May},
language = {eng},
keywords = {Term Birth, Infant: Newborn, Longitudinal Studies, Birth Weight, Cognition, Humans, Growth, Child: Preschool, Body Weight, Cohort Studies, Body Height, Cephalometry, Infant, Body Mass Index},
date-added = {2010-02-05 20:05:09 +0100},
date-modified = {2010-02-05 20:05:09 +0100},
doi = {10.1542/peds.2007-1172},
pii = {121/5/e1325},
pmid = {18450875},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Heinonen-2008-Pediatrics_Prenatal%20and%20postnat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5059},
rating = {0}
}
@article{Bradlow:1997p6664,
author = {E T Bradlow and A M Zaslavsky},
title = {A hirearchical latent variable model for ordinal data with "no answer" responses},
year = {1997},
date-added = {2010-03-05 22:05:56 +0100},
date-modified = {2010-03-05 22:06:46 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bradlow-1997-_A%20hirearchical%20laten.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6664},
rating = {0}
}
@article{Greenwood:2010p14221,
author = {M C Greenwood and G Gordon},
title = {An assessment of full cross-validation},
abstract = {Full cross-validation was promoted as an alternative to regular cross-validation for nonlinear regression model selection in Bunke et al. (1998, 1999). In Droge (1995), simulations were performed to explore its performance for model selection in a polynomial regression context, finding mixed results at best. The poor performance of the method was not highlighted in later publications related to the method. In this work, we explore its performance for nonlinear regression models, which has not been evaluated previously. The method is attractive for use in situations where cross-validation methods are desired but estimation algorithms are not easily modified for missing observations or estimation can easily diverge when design points are removed, such as nonlinear regression. A simulation study is used to reinforce the poor performance of FCV for model selection in linear regression and to demonstrate that its problems extend into nonlinear regression models as well. For moderate sample sizes in linear regression, the problems with FCV seem to diminish but the protection of a larger sample size seems to disappear for the nonlinear regression models explored. This suggests caution in using FCV for model selection in general.},
year = {2010},
date-added = {2010-08-22 21:01:06 +0200},
date-modified = {2010-08-22 21:03:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Greenwood-2010-_An%20assessment%20of%20ful.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14221},
rating = {0}
}
@article{Hasher:1978,
author = {L Hasher and M Griffin},
journal = {Journal of Experimental Psychology: Human Learning and Memory},
title = {Reconstructive and reproductive processes in forgetting},
abstract = {Current views of prose memory argue that memory inaccuracies in the retelling of a complex event occur in part as the result of a storage deficit induced by the abstractive and assimilative aspects of prose processing. This view appears to contradict a large portion of the memory literature that shows, over long intervals, remarkably accurate recall. A perspective, based on an elaboration of Underwood's attributes model of memory, is advanced which proposes that for all types of information both detailed and thematic attributes are stored. Consequently, the type of recall one sees, whether reconstructive or reproductive in nature, depends in part upon events that occur at the time of the request for recall. Two experiments using prose passages as stimulus materials with retention tested by free recall support this perspective. Subjects were treated identically until the test of recall, when two sets of procedures were introduced, one that led subjects to reconstruct the story and one that led subjects to reproduce the story.},
pages = {318--330},
volume = {4},
year = {1978},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p962},
rating = {0}
}
@article{Robbers:2010p8193,
author = {Sylvana C C Robbers and Meike Bartels and Floor V A van Oort and C E M Toos van Beijsterveldt and Jan van der Ende and Frank C Verhulst and Dorret I Boomsma and Anja C Huizink},
journal = {Twin research and human genetics : the official journal of the International Society for Twin Studies},
title = {A twin-singleton comparison of developmental trajectories of externalizing and internalizing problems in 6- to 12-year-old children},
abstract = {Abstract Research on twin-singleton differences in externalizing and internalizing problems in childhood is largely cross-sectional and yields contrasting results. The goal of this study was to compare developmental trajectories of externalizing and internalizing problems in 6- to 12-year-old twins and singletons. Child Behavior Checklist (CBCL) maternal reports of externalizing and internalizing problems were obtained for a sample of 9651 twins from the Netherlands Twin Register and for a representative general population sample of 1351 singletons. Latent growth modeling was applied to estimate growth curves for twins and singletons. Twin-singleton differences in the intercepts and slopes of the growth curves were examined. The developmental trajectories of externalizing problems showed a linear decrease over time, and were not significantly different for twins and singletons. Internalizing problems seem to develop similarly for twins and singletons up to age 9. After this age twins' internalizing symptoms start to decrease in comparison to those of singletons, resulting in less internalizing problems than singletons by the age of 12 years. Our findings confirm the generalizability of twin studies to singleton populations with regard to externalizing problems in middle and late childhood. The generalizability of studies on internalizing problems in early adolescence in twin samples should be addressed with care. Twinship may be a protective factor in the development of internalizing problems during early adolescence.},
affiliation = {1 Department of Child and Adolescent Psychiatry, Erasmus University Medical Center, Sophia Children's Hospital, Rotterdam, the Netherlands; Department of Biological Psychology, VU University Amsterdam, The Netherlands.},
number = {1},
pages = {79--87},
volume = {13},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-03-20 19:54:18 +0100},
date-modified = {2010-03-20 19:54:19 +0100},
doi = {10.1375/twin.13.1.79},
pii = {10.1375/twin.13.1.79},
pmid = {20158310},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8193},
rating = {0}
}
@article{Guo:2008p4355,
author = {Wenge Guo and M. Bhaskara Rao},
journal = {arXiv},
title = {On Stepwise Control of the Generalized Familywise Error Rate},
abstract = { A classical approach for dealing with the multiple testing problem is to restrict attention to procedures that control the familywise error rate (FWER), the probability of at least one false rejection. In many applications, one might be willing to tolerate more than one false rejection provided the number of such cases is controlled, thereby increasing the ability of the procedure to detect false null hypotheses. This suggests replacing control of the FWER by controlling the probability of {\$}k{\$} or more false rejections, which is called the {\$}k{\$}-FWER. In this article, a unified approach is presented for deriving the {\$}k{\$}-FWER controlling procedures. We first generalize the well-known closure principle in the context of the FWER to the case of controlling the {\$}k{\$}-FWER. Then, we discuss how to derive the {\$}k{\$}-FWER controlling stepwise (stepdown or stepup) procedures based on marginal {\$}p{\$}-values using this principle. We show that, under certain conditions, generalized closed testing procedures can be reduced to stepwise procedures, and any stepwise procedure is equivalent to a generalized closed testing procedure. Finally, we generalize the well-known Hommel procedure in two directions, and show that any generalized Hommel procedure is equivalent to a generalized closed testing procedure with the same critical values. },
annote = {Submitted to the Electronic Journal of Statistics
(http://www.i-journals.org/ejs/) by the Institute of Mathematical Statistics
(http://www.imstat.org)},
eprint = {0810.5004v1},
volume = {math.ST},
year = {2008},
month = {Jan},
keywords = {62J15 (Primary) 62G10 (Secondary), stat.TH, math.ST},
date-added = {2010-01-27 18:28:45 +0100},
date-modified = {2010-01-27 18:28:45 +0100},
pmid = {0810.5004v1},
url = {http://arxiv.org/abs/0810.5004v1},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Guo-2008-arXiv_On%20Stepwise%20Control.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4355},
rating = {0}
}
@article{Gamazon:2010p3108,
author = {Eric R Gamazon and Wei Zhang and Anuar Konkashbaev and Shiwei Duan and Emily O Kistner and Dan L Nicolae and M Eileen Dolan and Nancy J Cox},
journal = {Bioinformatics},
title = {SCAN: SNP and copy number annotation},
abstract = {MOTIVATION: Genome-wide association studies (GWAS) generate relationships between hundreds of thousands of single nucleotide polymorphisms (SNPs) and complex phenotypes. The contribution of the traditionally overlooked copy number variations (CNVs) to complex traits is also being actively studied. To facilitate the interpretation of the data and the designing of follow-up experimental validations, we have developed a database that enables the sensible prioritization of these variants by combining several approaches, involving not only publicly available physical and functional annotations but also multilocus linkage disequilibrium (LD) annotations as well as annotations of expression quantitative trait loci (eQTLs). RESULTS: For each SNP, the SCAN database provides: (i) summary information from eQTL mapping of HapMap SNPs to gene expression (evaluated by the Affymetrix exon array) in the full set of HapMap CEU (Caucasians from UT, USA) and YRI (Yoruba people from Ibadan, Nigeria) samples; (ii) LD information, in the case of a HapMap SNP, including what genes have variation in strong LD (pairwise or multilocus LD) with the variant and how well the SNP is covered by different high-throughput platforms; (iii) summary information available from public databases (e.g. physical and functional annotations); and (iv) summary information from other GWAS. For each gene, SCAN provides annotations on: (i) eQTLs for the gene (both local and distant SNPs) and (ii) the coverage of all variants in the HapMap at that gene on each high-throughput platform. For each genomic region, SCAN provides annotations on: (i) physical and functional annotations of all SNPs, genes and known CNVs within the region and (ii) all genes regulated by the eQTLs within the region. AVAILABILITY: http://www.scandb.org. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.},
affiliation = {Department of Medicine, The University of Chicago, Chicago, IL, USA.},
number = {2},
pages = {259--62},
volume = {26},
year = {2010},
month = {Jan},
language = {eng},
date-added = {2010-01-14 20:21:03 +0100},
date-modified = {2010-01-14 20:21:03 +0100},
doi = {10.1093/bioinformatics/btp644},
pii = {btp644},
pmid = {19933162},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3108},
rating = {0}
}
@article{Fleiss:1978p9835,
author = {J L Fleiss and P E Shrout},
journal = {Psychometrika},
title = {APPROXIMATE INTERVAL ESTIMATION FOR A CERTAIN INTRACLASS CORRELATION COEFFICIENT},
abstract = {When the raters participating in a reliability study are a random sample from a larger population of raters, inferences about the intraclass correlation coefficient must be based on the three mean squares from the analysis of variance table summarizing the results: between subjects, between raters, and error. An approximate confidence interval for the parameter is presented as a function of these three mean squares.},
number = {2},
pages = {259--262},
volume = {43},
year = {1978},
date-added = {2010-03-26 19:24:39 +0100},
date-modified = {2010-03-26 19:25:36 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fleiss-1978-Psychometrika_APPROXIMATE%20INTERVAL.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9835},
rating = {0}
}
@article{Klin:2009p11018,
author = {Ami Klin and David J Lin and Phillip Gorrindo and Gordon Ramsay and Warren Jones},
journal = {Nature},
title = {Two-year-olds with autism orient to non-social contingencies rather than biological motion},
abstract = {Typically developing human infants preferentially attend to biological motion within the first days of life. This ability is highly conserved across species and is believed to be critical for filial attachment and for detection of predators. The neural underpinnings of biological motion perception are overlapping with brain regions involved in perception of basic social signals such as facial expression and gaze direction, and preferential attention to biological motion is seen as a precursor to the capacity for attributing intentions to others. However, in a serendipitous observation, we recently found that an infant with autism failed to recognize point-light displays of biological motion, but was instead highly sensitive to the presence of a non-social, physical contingency that occurred within the stimuli by chance. This observation raised the possibility that perception of biological motion may be altered in children with autism from a very early age, with cascading consequences for both social development and the lifelong impairments in social interaction that are a hallmark of autism spectrum disorders. Here we show that two-year-olds with autism fail to orient towards point-light displays of biological motion, and their viewing behaviour when watching these point-light displays can be explained instead as a response to non-social, physical contingencies--physical contingencies that are disregarded by control children. This observation has far-reaching implications for understanding the altered neurodevelopmental trajectory of brain specialization in autism.},
affiliation = {Yale Child Study Center, Yale University School of Medicine, New Haven, Connecticut 06519-1124, USA. ami.klin@yale.edu},
number = {7244},
pages = {257--61},
volume = {459},
year = {2009},
month = {May},
language = {eng},
keywords = {Computers, Child: Preschool, Photic Stimulation, Calibration, Attention, Movement, Humans, Fixation: Ocular, Autistic Disorder, Video Recording, Social Behavior, Light, Motion Pictures as Topic, Acoustic Stimulation, Motion},
date-added = {2010-04-14 13:34:27 +0200},
date-modified = {2010-04-14 13:34:27 +0200},
doi = {10.1038/nature07868},
pii = {nature07868},
pmid = {19329996},
url = {http://www.nature.com/nature/journal/v459/n7244/full/nature07868.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Klin-2009-Nature_Two-year-olds%20with%20a.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11018},
rating = {0}
}
@article{Takane:1976p13735,
author = {Y Takane},
journal = {Japanese Psychological Research},
title = {A statistical procedure for the latent profile model},
number = {2},
pages = {82--90},
volume = {18},
year = {1976},
date-added = {2010-07-24 11:40:05 +0200},
date-modified = {2010-07-24 11:41:10 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Takane-1976-Japanese%20Psychological%20Research_A%20statistical%20proced.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13735},
rating = {0}
}
@article{Jiang:2009p2905,
author = {Rui Jiang and Wanwan Tang and Xuebing Wu and Wenhui Fu},
journal = {BMC Bioinformatics},
title = {A random forest approach to the detection of epistatic interactions in case-control studies},
abstract = {BACKGROUND: The key roles of epistatic interactions between multiple genetic variants in the pathogenesis of complex diseases notwithstanding, the detection of such interactions remains a great challenge in genome-wide association studies. Although some existing multi-locus approaches have shown their successes in small-scale case-control data, the "combination explosion" course prohibits their applications to genome-wide analysis. It is therefore indispensable to develop new methods that are able to reduce the search space for epistatic interactions from an astronomic number of all possible combinations of genetic variants to a manageable set of candidates. RESULTS: We studied case-control data from the viewpoint of binary classification. More precisely, we treated single nucleotide polymorphism (SNP) markers as categorical features and adopted the random forest to discriminate cases against controls. On the basis of the gini importance given by the random forest, we designed a sliding window sequential forward feature selection (SWSFS) algorithm to select a small set of candidate SNPs that could minimize the classification error and then statistically tested up to three-way interactions of the candidates. We compared this approach with three existing methods on three simulated disease models and showed that our approach is comparable to, sometimes more powerful than, the other methods. We applied our approach to a genome-wide case-control dataset for Age-related Macular Degeneration (AMD) and successfully identified two SNPs that were reported to be associated with this disease. CONCLUSION: Besides existing pure statistical approaches, we demonstrated the feasibility of incorporating machine learning methods into genome-wide case-control studies. The gini importance offers yet another measure for the associations between SNPs and complex diseases, thereby complementing existing statistical measures to facilitate the identification of epistatic interactions and the understanding of epistasis in the pathogenesis of complex diseases.},
affiliation = {MOE Key Laboratory of Bioinformatics and Bioinformatics Division, TNLIST/Department of Automation, Tsinghua University, Beijing 100084, PR China. ruijiang@tsinghua.edu.cn},
pages = {S65},
volume = {10 Suppl 1},
year = {2009},
month = {Jan},
language = {eng},
keywords = {Selection: Genetic, Artificial Intelligence, Genomics, Genetic Predisposition to Disease, Epistasis: Genetic, Humans, Case-Control Studies, Genome: Human, Polymorphism: Single Nucleotide},
date-added = {2010-01-13 15:01:29 +0100},
date-modified = {2010-01-13 15:01:29 +0100},
doi = {10.1186/1471-2105-10-S1-S65},
pii = {1471-2105-10-S1-S65},
pmid = {19208169},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Jiang-2009-BMC%20Bioinformatics_A%20random%20forest%20appr.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2905},
rating = {0}
}
@article{Frodsham:2007p9157,
author = {Angela J Frodsham and Julian P T Higgins},
journal = {BMC Med Res Methodol},
title = {Online genetic databases informing human genome epidemiology},
abstract = {BACKGROUND: With the advent of high throughput genotyping technology and the information available via projects such as the human genome sequencing and the HapMap project, more and more data relevant to the study of genetics and disease risk will be produced. Systematic reviews and meta-analyses of human genome epidemiology studies rely on the ability to identify relevant studies and to obtain suitable data from these studies. A first port of call for most such reviews is a search of MEDLINE. We examined whether this could be usefully supplemented by identifying databases on the World Wide Web that contain genetic epidemiological information. METHODS: We conducted a systematic search for online databases containing genetic epidemiological information on gene prevalence or gene-disease association. In those containing information on genetic association studies, we examined what additional information could be obtained to supplement a MEDLINE literature search. RESULTS: We identified 111 databases containing prevalence data, 67 databases specific to a single gene and only 13 that contained information on gene-disease associations. Most of the latter 13 databases were linked to MEDLINE, although five contained information that may not be available from other sources. CONCLUSION: There is no single resource of structured data from genetic association studies covering multiple diseases, and in relation to the number of studies being conducted there is very little information specific to gene-disease association studies currently available on the World Wide Web. Until comprehensive data repositories are created and utilized regularly, new data will remain largely inaccessible to many systematic review authors and meta-analysts.},
affiliation = {Public Health Genetics Unit, Strangeways Research Laboratory, Cambridge, UK. angelaf@mrc-bsu.cam.ac.uk},
pages = {31},
volume = {7},
year = {2007},
month = {Jan},
language = {eng},
keywords = {Internet, Phenotype, Epidemiologic Studies, Meta-Analysis as Topic, Information Storage and Retrieval, Databases: Genetic, Genome: Human, Genetic Variation, Genotype, MEDLINE, Prevalence, Humans},
date-added = {2010-03-22 13:34:03 +0100},
date-modified = {2010-03-22 13:34:03 +0100},
doi = {10.1186/1471-2288-7-31},
pii = {1471-2288-7-31},
pmid = {17610726},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Frodsham-2007-BMC%20Med%20Res%20Methodol_Online%20genetic%20datab.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9157},
read = {Yes},
rating = {0}
}
@article{Kankaras:2009p6241,
author = {M Kankaras and G Moors and J K Vermunt},
title = {Testing for Measurement Invariance with Latent Class Analysis},
abstract = {Testing for measurement invariance can be done within the context of multigroup latent class analysis. Latent class analysis can model any type of discrete level data, which makes it an obvious choice when nominal indicators are used or when a researcher's aim is at classifying respondents in latent classes. The multigroup latent class (LC) model can be specified in three different ways, i.e. by adopting a probabilistic, a log-linear or a logistic parameterization. We define and compare these different forms of parameterization. The starting point is the standard LC model in which indicators and latent variables are defined at the nominal level. Additionally, we focus on LC models with ordinal indicators as well as LC factor models with ordinal indicators. Testing for measurement invariance involves estimating LC models
with different degrees of homogeneity. We explain the procedure for investigating measurement invariance at both the scale as well as the item level. We illustrate the approach with two examples. The first example is a multigroup LC analysis with nominal indicators; the second a multigroup LC factor analysis with ordinal indicators.},
year = {2009},
date-added = {2010-02-19 21:18:03 +0100},
date-modified = {2010-02-19 21:18:39 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kankaras-2009-_Testing%20for%20Measurem.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6241},
rating = {0}
}
@article{Fairclough:1997p6019,
author = {D L Fairclough},
journal = {Stat Med},
title = {Summary measures and statistics for comparison of quality of life in a clinical trial of cancer therapy},
abstract = {Assessment of health related quality of life (QOL) has become an important endpoint in many clinical trials of cancer therapy. Most of these studies entail multiple QOL scales that are assessed repeatedly over time. As a result, the problem of multiple comparisons is a primary analytic challenge with these trials. The use of summary measures and statistics both reduces the number of hypotheses tested and facilitates the interpretation of trial results where the primary question is 'Does the overall QOL differ between treatment arms?' I present two classes of summary measures that are sensitive to consistent trends in the same direction across multiple assessment times or multiple QOL scales. Missing data strongly influences the choice between the two classes, where one class handles missing data on an individual basis, while the other class uses model-based strategies. I present the results from a clinical trial of adjuvant therapy for breast cancer that use summary measures with a focus on the practical issues that affect these analysis strategies, such as missing data and integration of QOL with efficacy endpoints such as survival.},
affiliation = {Division of Biostatistics, Dana Farber Cancer Institute, Boston, MA, USA.},
number = {11},
pages = {1197--209},
volume = {16},
year = {1997},
month = {Jun},
language = {eng},
keywords = {Randomized Controlled Trials as Topic, Breast Neoplasms, Reproducibility of Results, Quality-Adjusted Life Years, Humans, Bias (Epidemiology), Survival Analysis, Female, Time Factors, Sensitivity and Specificity, Analysis of Variance},
date-added = {2010-02-18 23:35:56 +0100},
date-modified = {2010-02-18 23:35:56 +0100},
pii = {10.1002/(SICI)1097-0258(19970615)16:11<1197::AID-SIM531>3.0.CO;2-9},
pmid = {9194267},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fairclough-1997-Stat%20Med_Summary%20measures%20and.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6019},
rating = {0}
}
@article{Laurell:2006p1728,
author = {Henrik Laurell and Michele Bouisson and Philippe Berthelemy and Philippe Rochaix and Sebastien Dejean and Philippe Besse and Christiane Susini and Lucien Pradayrol and Nicole Vaysse and Louis Buscail},
journal = {World J Gastroenterol},
title = {Identification of biomarkers of human pancreatic adenocarcinomas by expression profiling and validation with gene expression analysis in endoscopic ultrasound-guided fine needle aspiration samples},
abstract = {AIM: To compare gene expression profiles of pancreatic adenocarcinoma tissue specimens, human pancreatic and colon adenocarcinoma and leukemia cell lines and normal pancreas samples in order to distinguish differentially expressed genes and to validate the differential expression of a subset of genes by quantitative real-time RT-PCR (RT-QPCR) in endoscopic ultrasound-guided fine needle aspiration (EUS-guided FNA) specimens. METHODS: Commercially dedicated cancer cDNA macroarrays (Atlas Human Cancer 1.2) containing 1176 genes were used. Different statistical approaches (hierarchical clustering, principal component analysis (PCA) and SAM) were used to analyze the expression data. RT-QPCR and immunohistochemical studies were used for validation of results. RESULTS: RT-QPCR validated the increased expression of LCN2 (lipocalin 2) and for the first time PLAT (tissue-type plasminogen activator or tPA) in malignant pancreas as compared with normal pancreas. Immunohistochemical analysis confirmed the increased expression of LCN2 protein localized in epithelial cells of ducts invaded by carcinoma. The analysis of PLAT and LCN2 transcripts in 12 samples obtained through EUS-guided FNA from patients with pancreatic adenocarcinoma showed significantly increased expression levels in comparison with those found in normal tissues, indicating that a sufficient amount of high quality RNA can be obtained with this technique. CONCLUSION: Expression profiling is a useful method to identify biomarkers and potential target genes. Molecular analysis of EUS-guided FNA samples in pancreatic cancer appears as a valuable strategy for the diagnosis of pancreatic adenocarcinomas.},
affiliation = {INSERM U531, IFR31, Institut Louis Bugnard, Toulouse, France.},
number = {21},
pages = {3344--51},
volume = {12},
year = {2006},
month = {Jun},
language = {eng},
keywords = {Keratins, Gene Expression Regulation: Neoplastic, Proto-Oncogene Proteins, Tissue Plasminogen Activator, Humans, Gene Expression Profiling, Endosonography, Lipocalins, Leukemia, Keratin-7, Cell Line: Tumor, Adenocarcinoma, Prognosis, Reproducibility of Results, Pancreatic Neoplasms, Acute-Phase Proteins, Tumor Markers: Biological, Reverse Transcriptase Polymerase Chain Reaction, Colonic Neoplasms, Genes: Neoplasm, Biopsy: Fine-Needle},
date-added = {2010-01-09 20:34:48 +0100},
date-modified = {2010-01-09 20:34:49 +0100},
pmid = {16733850},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Laurell-2006-World%20J%20Gastroenterol_Identification%20of%20bi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1728},
rating = {0}
}
@article{Woicik:2009p1445,
author = {Patricia A Woicik and Sherry H Stewart and Robert O Pihl and Patricia J Conrod},
journal = {Addict Behav},
title = {The Substance Use Risk Profile Scale: a scale measuring traits linked to reinforcement-specific substance use profiles},
abstract = {The Substance Use Risk Profile Scale (SURPS) is based on a model of personality risk for substance abuse in which four personality dimensions (hopelessness, anxiety sensitivity, impulsivity, and sensation seeking) are hypothesized to differentially relate to specific patterns of substance use. The current series of studies is a preliminary exploration of the psychometric properties of the SURPS in two populations (undergraduate and high school students). In study 1, an analysis of the internal structure of two versions of the SURPS shows that the abbreviated version best reflects the 4-factor structure. Concurrent, discriminant, and incremental validity of the SURPS is supported by convergent/divergent relationships between the SURPS subscales and other theoretically relevant personality and drug use criterion measures. In Study 2, the factorial structure of the SURPS is confirmed and evidence is provided for its test-retest reliability and validity with respect to measuring personality vulnerability to reinforcement-specific substance use patterns. In Study 3, the SURPS was administered in a more youthful population to test its sensitivity in identifying younger problematic drinkers. The results from the current series of studies demonstrate support for the reliability and construct validity of the SURPS, and suggest that four personality dimensions may be linked to substance-related behavior through different reinforcement processes. This brief assessment tool may have important implications for clinicians and future research.},
affiliation = {Department of Psychology, State University of New York at Stony Brook, Stony Brook, NY, USA. pwoicik@bnl.gov},
number = {12},
pages = {1042--55},
volume = {34},
year = {2009},
month = {Dec},
language = {eng},
date-added = {2010-01-07 12:21:41 +0100},
date-modified = {2010-01-07 12:21:41 +0100},
doi = {10.1016/j.addbeh.2009.07.001},
pii = {S0306-4603(09)00171-3},
pmid = {19683400},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Woicik-2009-Addictive%20Behaviors_The%20Substance%20Use%20Ri.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1445},
read = {Yes},
rating = {0}
}
@article{Wu:2009p1829,
author = {Li-Tzy Wu and Jeng-Jong Pan and Dan G Blazer and Betty Tai and Robert K Brooner and Maxine L Stitzer and Ashwin A Patkar and Jack D Blaine},
journal = {Drug Alcohol Depend},
title = {The construct and measurement equivalence of cocaine and opioid dependences: a National Drug Abuse Treatment Clinical Trials Network (CTN) study},
abstract = {INTRODUCTION: Although DSM-IV criteria are widely used in making diagnoses of substance use disorders, gaps exist regarding diagnosis classification, use of dependence criteria, and effects of measurement bias on diagnosis assessment. We examined the construct and measurement equivalence of diagnostic criteria for cocaine and opioid dependences, including whether each criterion maps onto the dependence construct, how well each criterion performs, how much information each contributes to a diagnosis, and whether symptom-endorsing is equivalent between demographic groups. METHODS: Item response theory (IRT) and multiple indicators-multiple causes (MIMIC) modeling were performed on a sample of stimulant-using methadone maintenance patients enrolled in a multisite study of the National Drug Abuse Treatment Clinical Trials Network (CTN) (N=383). Participants were recruited from six community-based methadone maintenance treatment programs associated with the CTN and major U.S. providers. Cocaine and opioid dependences were assessed by DSM-IV Checklist. RESULTS: IRT modeling showed that symptoms of cocaine and opioid dependences, respectively, were arrayed along a continuum of severity. All symptoms had moderate to high discrimination in distinguishing drug users between severity levels. "Withdrawal" identified the most severe symptom of the cocaine dependence continuum. MIMIC modeling revealed some support for measurement equivalence. CONCLUSIONS: Study results suggest that self-reported symptoms of cocaine and opioid dependences and their underlying constructs can be measured appropriately among treatment-seeking polysubstance users.},
affiliation = {Department of Psychiatry and Behavioral Sciences, Duke University School of Medicine, Duke Clinical Research Institute, Durham, NC 27710, USA. litzy.wu@duke.edu},
number = {3},
pages = {114--23},
volume = {103},
year = {2009},
month = {Aug},
language = {eng},
keywords = {Cocaine-Related Disorders, Adult, Models: Statistical, Psychometrics, Female, Diagnostic and Statistical Manual of Mental Disorders, Randomized Controlled Trials as Topic, Male, Opioid-Related Disorders, Humans, Bias (Epidemiology), Severity of Illness Index},
date-added = {2010-01-09 23:00:34 +0100},
date-modified = {2010-01-09 23:00:34 +0100},
doi = {10.1016/j.drugalcdep.2009.01.018},
pii = {S0376-8716(09)00099-4},
pmid = {19423244},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1829},
rating = {0}
}
@article{Morolake:2009p7752,
author = {Odetoyinbo Morolake and David Stephens and Alice Welbourn},
journal = {J Int AIDS Soc},
title = {Greater involvement of people living with HIV in health care},
abstract = {ABSTRACT: Greater Involvement of People Living with HIV/AIDS represents a mobilising and an organising principle for the involvement of people living with HIV in program and policy responses. People with HIV have been at the forefront of designing and implementing effective HIV treatment, care and prevention activities. However, governments and health systems have yet to act to fully harness the potential and resources of people living with HIV in addressing the epidemic.The lives and experiences of people living with HIV highlight the need for a shift in the existing paradigm of disease management. The high prevalence of HIV amongst health care providers in many countries, exacerbated by stigma towards those with HIV in the health care professions, is seriously undermining the capacity of health systems and signals the need to change the current nature of health care delivery. Moreover, the negative experiences of many people with HIV in relation to their health care as well as in their daily social interactions, coupled with the ever-limited current investment in treatment, care and support, demonstrate that the current system is drastically failing the majority of people with HIV. Current health management systems urgently need to be more effectively maximised, to increase the quality of standards of health care systems and services in resource poor countries. An integrated approach to health care based on a human rights framework, grounded in community realities and delivered in partnership and solidarity with people living with HIV, offers the most viable approach to overcoming the crisis of HIV in the health care system.},
affiliation = {Positive Action for Treatment Access, Lagos, Nigeria. rolakeodetoyinbo@gmail.com.},
number = {1},
pages = {4},
volume = {12},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-17 20:50:24 +0100},
date-modified = {2010-03-17 20:50:24 +0100},
doi = {10.1186/1758-2652-12-4},
pii = {1758-2652-12-4},
pmid = {19284672},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Morolake-2009-J%20Int%20AIDS%20Soc_Greater%20involvement.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7752},
rating = {0}
}
@article{McCarthy:2008p1405,
author = {Mark I McCarthy and Gon{\c c}alo R Abecasis and Lon R Cardon and David B Goldstein and Julian Little and John P A Ioannidis and Joel N Hirschhorn},
journal = {Nat Rev Genet},
title = {Genome-wide association studies for complex traits: consensus, uncertainty and challenges},
abstract = {The past year has witnessed substantial advances in understanding the genetic basis of many common phenotypes of biomedical importance. These advances have been the result of systematic, well-powered, genome-wide surveys exploring the relationships between common sequence variation and disease predisposition. This approach has revealed over 50 disease-susceptibility loci and has provided insights into the allelic architecture of multifactorial traits. At the same time, much has been learned about the successful prosecution of association studies on such a scale. This Review highlights the knowledge gained, defines areas of emerging consensus, and describes the challenges that remain as researchers seek to obtain more complete descriptions of the susceptibility architecture of biomedical traits of interest and to translate the information gathered into improvements in clinical management.},
affiliation = {Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK. mark.mccarthy@drl.ox.ac.uk},
number = {5},
pages = {356--69},
volume = {9},
year = {2008},
month = {May},
language = {eng},
keywords = {Alleles, Genetic Predisposition to Disease, Quantitative Trait Loci, Genome: Human, Genetic Variation, Humans, Genetic Diseases: Inborn, Quantitative Trait: Heritable, Animals},
date-added = {2010-01-07 12:17:05 +0100},
date-modified = {2010-01-07 12:17:05 +0100},
doi = {10.1038/nrg2344},
pii = {nrg2344},
pmid = {18398418},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McCarthy-2008-Nat%20Rev%20Genet_Genome-wide%20associat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1405},
read = {Yes},
rating = {0}
}
@article{Li:2004p4067,
author = {Lang Li and Jeffrey Huang and Sharon Sun and Jianzhao Shen and Frederick W Unverzagt and Sujuan Gao and Hugh H Hendrie and Kathleen Hall and Siu L Hui},
journal = {Stat Med},
title = {Selecting pre-screening items for early intervention trials of dementia--a case study},
abstract = {Our goal was to review and extend statistical methods for discriminating between normal subjects and those with dementia or cognitive impairment. We compared six different methods to one constructed by expert opinion, in their brevity and predictive power. The methods include logistic regression and neural networks, with standard and least absolute shrinkage and selection operator (LASSO) variable selection, as well as decision trees with and without boosting. These methods were applied to the baseline data of a subgroup of subjects in a dementia study, using their screening interview items to predict their clinical diagnosis of normal or non-normal (cognitively impaired or demented). The derived models were then validated on a different subgroup of subjects in the same study who had the screening and clinical diagnosis two to five years later. Performance of different models was compared based on their sensitivity and specificity in the validation sample. Generally, the six statistical methods performed slightly to moderately better than the expert-opinion model. Neural networks generally performed better than the logistic and decision tree models. LASSO improved the performance of logistic and neural network models, but it eliminated few input variables in the neural network. The single decision tree performed at least as well as the standard logistic model, and with fewer items, making it an attractive pre-screening tool. Using the boosting option for decision trees did not substantially improve the performance. We recommend that for each situation, different methods of classification should be attempted to obtain optimal results for a given purpose.},
affiliation = {Division of Biostatistics, Indiana University School of Medicine, 1050 Wishard Boulevard, RG4, Indianapolis, IN 46202, USA.},
number = {2},
pages = {271--83},
volume = {23},
year = {2004},
month = {Jan},
language = {eng},
keywords = {Indiana, Dementia, Logistic Models, Decision Making, Prejudice, Models: Statistical, Clinical Trials as Topic, Humans, African Americans, Patient Selection, Aged},
date-added = {2010-01-19 15:49:16 +0100},
date-modified = {2010-01-19 15:49:16 +0100},
doi = {10.1002/sim.1715},
pmid = {14716728},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Li-2004-Stat%20Med_Selecting%20pre-screen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4067},
rating = {0}
}
@article{Falush:2007p4351,
author = {Daniel Falush and Matthew Stephens and Jonathan K Pritchard},
journal = {Mol Ecol Notes},
title = {Inference of population structure using multilocus genotype data: dominant markers and null alleles},
abstract = {Dominant markers such as amplified fragment length polymorphisms (AFLPs) provide an economical way of surveying variation at many loci. However, the uncertainty about the underlying genotypes presents a problem for statistical analysis. Similarly, the presence of null alleles and the limitations of genotype calling in polyploids mean that many conventional analysis methods are invalid for many organisms. Here we present a simple approach for accounting for genotypic ambiguity in studies of population structure and apply it to AFLP data from whitefish. The approach is implemented in the program structure version 2.2, which is available from http://pritch.bsd.uchicago.edu/structure.html.},
number = {4},
pages = {574--578},
volume = {7},
year = {2007},
month = {Jul},
language = {ENG},
date-added = {2010-01-26 13:57:11 +0100},
date-modified = {2010-01-26 13:57:11 +0100},
doi = {10.1111/j.1471-8286.2007.01758.x},
pmid = {18784791},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Falush-2007-Mol%20Ecol%20Notes_Inference%20of%20populat.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4351},
read = {Yes},
rating = {0}
}
@article{McDowell:2004p9366,
author = {Ian McDowell and Robert A Spasoff and Betsy Kristjansson},
journal = {Am J Public Health},
title = {On the classification of population health measurements},
abstract = {Summary measures of population health, such as health-adjusted life expectancy, are increasingly being used to monitor the health status of regions and to evaluate public health interventions. Such measures are based on aggregated indicators of individual health and summarize health in a population. They describe population health status but have limitations in analytic studies of population health. We propose a broader framework for population health measurement. This classifies indicators according to their application (descriptive, prognostic, or explanatory), according to the conception of population (as an aggregate or a dynamic entity), and according to the underlying model of health. This approach extends the measurement repertoire to include indicators of the health of a population.},
affiliation = {Department of Epidemiology and Community Medicine and Institute for Population Health, University of Ottawa, Ontario, Canada. mcdowell@uottawa.ca},
number = {3},
pages = {388--93},
volume = {94},
year = {2004},
month = {Mar},
language = {eng},
keywords = {Health Status Indicators, Public Health, Holistic Health, Health Status, Population Surveillance, Life Expectancy, Models: Theoretical, Chronic Disease, Intervention Studies, Health Promotion, Humans},
date-added = {2010-03-23 18:40:43 +0100},
date-modified = {2010-07-29 19:14:25 +0200},
pmid = {14998801},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McDowell-2004-Am%20J%20Public%20Health_On%20the%20classificatio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9366},
rating = {0}
}
@article{Neale:1999p1666,
author = {M C Neale and S S Cherny and P C Sham and J B Whitfield and A C Heath and A J Birley and N G Martin},
journal = {Behav Genet},
title = {Distinguishing Population Stratification from Genuine Allelic Effects with MX:Association of ADH2 with Alcohol Consumption},
abstract = {A universal problem in genetic association studies is to distinguish associations due to genuine effects of the locus under investigation, or linkage disequilibrium with a nearby locus that has a genuine effect, from associations due to population stratification or other artifacts. Fulker et al. (1999) have suggested a test using unselected sib pairs to distinguish these two causes of association. The test is readily implemented within a standard maximum-likelihood framework using the MXpackage. The approach is applied to data on ADH2 genotypes and a measure of alcohol consumption from an Australian DZ twin pair sample. Results indicate that the association of the ADH2*2 allele with lower alcohol consumption cannot be explained by simple admixture and that there may be genuine allelic effects of the locus on alcohol consumption. Power calculations are provided to show that these results are plausible for the sample size in this study and con- sider the effects of genetic architecture and sample structure on required sample sizes for the Fulker et al. test.},
number = {4},
pages = {233--243},
volume = {29},
year = {1999},
keywords = {admixture, linkage disequilibrium, Mx, Linkage, Twins, identical by descent (IBD), ADH2, alcohol consumption, genetic association, statistical model, population stratification},
date-added = {2010-01-08 22:02:03 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Neale-1999-Behav%20Genet_Distinguishing%20Popul.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1666},
rating = {0}
}
@article{Moore:1991,
author = {M K Moore and R A Neimeyer},
journal = {J Pers Soc Psychol},
title = {A confirmatory factor analysis of the Threat Index},
abstract = {The Threat Index (TI), a measure of death concern grounded in personal construct theory, was submitted to psychometric refinement. The factorability of the TI using the traditional split-match scoring was compared with methods based on Manhattan, Euclidian, standardized Euclidian, and Mahalanobis distance formulas. Statistical and substantive interpretability were enhanced with the standardized Euclidian factor structure. The LISREL VI program was used to determine the best model for the scale in an exploratory factor analysis. A nonhierarchical, G + 3 model met the criterion of goodness of fit >0.9 for the 1st subsample (n = 405). In a confirmatory factor analysis with a 2nd subsample (n = 405), the model was confirmed. Internal consistency and test-retest reliability were acceptable for Global Threat and 3 subfactors--Threat to Well-Being, Uncertainty, and Fatalism--and all subfactors were found to be independent of social desirability.},
number = {1},
pages = {122--129},
volume = {60},
year = {1991},
date-added = {2010-01-10 11:33:22 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2231},
rating = {0}
}
@article{Rost:2007p11581,
author = {J Rost and C Carstensen and M von Davier},
title = {Applying the Mixed Rasch Model to Personality Questionnaires},
year = {2007},
date-added = {2010-05-09 18:25:26 +0200},
date-modified = {2010-05-09 18:26:01 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rost-2007-_Applying%20the%20Mixed%20R.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11581},
rating = {0}
}
@article{Sutter:2002p3409,
author = {Thomas R Sutter and Xiao-Rui He and Peter Dimitrov and Lijing Xu and Giri Narasimhan and E Olusegun George and Carrie Hayes Sutter and Clinton Grubbs and Richard Savory and Markus Stephan-Gueldner and Dirk Kreder and Michael J Taylor and Ronald Lubet and Tricia A Patterson and Thomas W Kensler},
journal = {Mol Cancer Ther},
title = {Multiple comparisons model-based clustering and ternary pattern tree numerical display of gene response to treatment: procedure and application to the preclinical evaluation of chemopreventive agents},
abstract = {Microarray technology has greatly aided the identification of genes that are expressed differentially. Statistical analysis of such data by multiple comparisons procedures has been slow to develop, in part, because methods to cluster the results of such comparisons in biologically meaningful ways have not been available. We isolated and analyzed, by Northern blot and GeneChip, replicate liver RNA samples (n = 4/group) from rats fed with control diet or diet containing one of three chemopreventive compounds, selected because their pharmacological activities, including RNA expression response, are relatively well understood. We report on a classification tree, based on the results of nonparametric multiple comparisons, which results in the bipolar hierarchical clustering of genes in relation to their response to treatment. In addition to identifying treatment-responsive genes, application of this procedure to our test study identified the known pharmacological relationships among the treatment groups without supervision. Also, small treatment-specific subsets of genes were identified that may be indicative of additional pharmacophores present in the test compounds.},
affiliation = {W. Harry Feinstone Center for Genomic Research, University of Memphis, Memphis, Tennessee 38152, USA. tsutter@memphis.edu},
number = {14},
pages = {1283--92},
volume = {1},
year = {2002},
month = {Dec},
language = {eng},
keywords = {RNA, Rats: Sprague-Dawley, Models: Chemical, Animals, Statistics as Topic, Neoplasms, Anticarcinogenic Agents, Rats, Down-Regulation, Software, Female, Up-Regulation, Models: Statistical, Humans, Oligonucleotide Array Sequence Analysis},
date-added = {2010-01-15 14:46:56 +0100},
date-modified = {2010-01-15 14:46:57 +0100},
pmid = {12516961},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sutter-2002-Mol%20Cancer%20Ther_Multiple%20comparisons.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3409},
rating = {0}
}
@article{deJong:2010p12914,
author = {M de Jong and J B E M Steenkamp},
journal = {Psychometrika},
title = {Finite mixture multilevel multidimensional ordinal IRT models for large scale cross-cultural research},
abstract = {We present a class of finite mixture multilevel multidimensional ordinal IRT models for large scale cross-cultural research. Our model is proposed for confirmatory research settings. Our prior for item pa- rameters is a mixture distribution to accommodate situations where different groups of countries have different measurement operations, while countries within these groups are still allowed to be heteroge- neous. A simulation study is conducted that shows that all parameters can be recovered. We also apply the model to real data on the two components of affective subjective well-being: positive affect and negative affect. The psychometric behavior of these two scales is studied in 28 countries across four continents.},
number = {1},
pages = {3--32},
volume = {75},
year = {2010},
date-added = {2010-06-24 17:47:12 +0200},
date-modified = {2010-06-24 17:48:37 +0200},
doi = {10.1007/S11336-009-9134-Z},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Jong-2010-Psychometrika_Finite%20mixture%20multi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12914},
rating = {5}
}
@article{Alvarez:1995p2593,
author = {Rodrigo Alvarez and J Nagler},
title = {The spatial model and specification of choice models},
year = {1995},
date-added = {2010-01-12 22:38:34 +0100},
date-modified = {2010-07-29 20:21:12 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Alvarez-1995-_The%20spatial%20model%20an.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2593},
rating = {0}
}
@article{Herman:2007p13727,
author = {Keith C Herman and Rick Ostrander and John T Walkup and Susan G Silva and John S March},
journal = {Journal of Consulting and Clinical Psychology},
title = {Empirically derived subtypes of adolescent depression: latent profile analysis of co-occurring symptoms in the Treatment for Adolescents with Depression Study (TADS)},
abstract = {A latent profile analysis was conducted on the co-occurring symptoms of 423 adolescents diagnosed with major depressive disorder as part of the Treatment for Adolescents with Depression Study (TADS), a multisite, randomized treatment trial. The participants had a mean (SD) age of 14.6 (1.5) years; of the sample, 45.6% was male and 73.8% was white. Scores on the primary subscales of Conners' Parent Rating Scale--Revised were used as indicators in the analysis. Five classes of symptoms best described the clinical presentation of adolescents enrolled in the TADS. Of the adolescents in the sample, 80% were assigned to classes with clinically significant elevations on 1 or more subscales of the Children's Depression Rating Scale--Revised. The 5 classes met empirical criteria for distinctiveness and were validated against clinical diagnoses, child-rated symptoms, and clinician-rated functional impairment. The findings are consistent with prior studies that showed a high rate of co-occurring symptoms among depressed adolescents. The discussion focuses on understanding subtypes and comorbidity in adolescent depression as well as the implications for treatment and for prevention.},
affiliation = {Division of Child and Adolescent Psychiatry, Department of Psychiatry and Behavioral Sciences, Johns Hopkins University School of Medicine, Baltimore, MD 21287-3325, USA. kherman6@jhmi.edu},
number = {5},
pages = {716--28},
volume = {75},
year = {2007},
month = {Oct},
language = {eng},
keywords = {Depressive Disorder: Major, Humans, Combined Modality Therapy, Antidepressive Agents: Second-Generation, Attention Deficit Disorder with Hyperactivity, Fluoxetine, Comorbidity, Internal-External Control, Adolescent, Personality Assessment, Follow-Up Studies, Cognitive Therapy},
date-added = {2010-07-24 11:22:07 +0200},
date-modified = {2010-07-24 11:22:19 +0200},
doi = {10.1037/0022-006X.75.5.716},
pii = {2007-13640-005},
pmid = {17907854},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Herman-2007-Journal%20of%20Consulting%20and%20Clinical%20Psychology_Empirically%20derived.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13727},
rating = {4}
}
@article{Cooper:2010p13762,
author = {P Cooper and L Murray and S Halligan},
title = {Traitement de la d{\'e}pression post-partum},
year = {2010},
date-added = {2010-07-28 23:03:50 +0200},
date-modified = {2010-07-28 23:04:36 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cooper-2010-_Traitement%20de%20la%20de%CC%81.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13762},
rating = {0}
}
@article{Gormley:2010p12852,
author = {I C Gormley and T B Murphy},
journal = {Statistical Methodology},
title = {A mixture of experts latent position cluster model for social network data},
abstract = {Social network data represent the interactions between a group of social actors. Interactions between colleagues and friendship networks are typical examples of such data.
The latent space model for social network data locates each actor in a network in a latent (social) space and models the probability of an interaction between two actors as a function of their locations. The latent position cluster model extends the latent space model to deal with network data in which clusters of actors exist --- actor locations are drawn from a finite mixture model, each component of which represents a cluster of actors.
A mixture of experts model builds on the structure of a mixture model by taking account of both observations and associated covariates when modeling a heterogeneous population. Herein, a mixture of experts extension of the latent position cluster model is developed. The mixture of experts framework allows covariates to enter the latent position cluster model in a number of ways, yielding different model interpretations.
Estimates of the model parameters are derived in a Bayesian framework using a Markov Chain Monte Carlo algorithm. The algorithm is generally computationally expensive --- surrogate proposal distributions which shadow the target distributions are derived, reducing the computational burden.
The methodology is demonstrated through an illustrative example detailing relationships between a group of lawyers in the USA.},
pages = {385--405},
volume = {7},
year = {2010},
date-added = {2010-06-21 20:16:50 +0200},
date-modified = {2010-07-29 20:06:22 +0200},
doi = {10.1016/j.stamet.2010.01.002},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gormley-2010-Statistical%20Methodology_A%20mixture%20of%20experts.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12852},
rating = {0}
}
@article{Erhart:2009p8344,
author = {Michael Erhart and Ralf M Wetzel and Andr{\'e} Kr{\"u}gel and Ulrike Ravens-Sieberer},
journal = {BMC Public Health},
title = {Effects of phone versus mail survey methods on the measurement of health-related quality of life and emotional and behavioural problems in adolescents},
abstract = {BACKGROUND: Telephone interviews have become established as an alternative to traditional mail surveys for collecting epidemiological data in public health research. However, the use of telephone and mail surveys raises the question of to what extent the results of different data collection methods deviate from one another. We therefore set out to study possible differences in using telephone and mail survey methods to measure health-related quality of life and emotional and behavioural problems in children and adolescents. METHODS: A total of 1700 German children aged 8-18 years and their parents were interviewed randomly either by telephone or by mail. Health-related Quality of Life (HRQoL) and mental health problems (MHP) were assessed using the KINDL-R Quality of Life instrument and the Strengths and Difficulties Questionnaire (SDQ) children's self-report and parent proxy report versions. Mean Differences ("d" effect size) and differences in Cronbach alpha were examined across modes of administration. Pearson correlation between children's and parents' scores was calculated within a multi-trait-multi-method (MTMM) analysis and compared across survey modes using Fisher-Z transformation. RESULTS: Telephone and mail survey methods resulted in similar completion rates and similar socio-demographic and socio-economic makeups of the samples. Telephone methods resulted in more positive self- and parent proxy reports of children's HRQoL (SMD < or = 0.27) and MHP (SMD < or = 0.32) on many scales. For the phone administered KINDL, lower Cronbach alpha values (self/proxy Total: 0.79/0.84) were observed (mail survey self/proxy Total: 0.84/0.87). KINDL MTMM results were weaker for the phone surveys: mono-trait-multi-method mean r = 0.31 (mail: r = 0.45); multi-trait-mono-method mean (self/parents) r = 0.29/0.36 (mail: r = 0.34/0.40); multi-trait-multi-method mean r = 0.14 (mail: r = 0.21). Weaker MTMM results were also observed for the phone administered SDQ: mono-trait-multi-method mean r = 0.32 (mail: r = 0.40); multi-trait-mono-method mean (self/parents) r = 0.24/0.30 (mail: r = 0.20/0.32); multi-trait-multi-method mean r = 0.14 (mail = 0.14). The SDQ classification into borderline and abnormal for some scales was affected by the method (OR = 0.36-1.55). CONCLUSIONS: The observed differences between phone and mail surveys are small but should be regarded as relevant in certain settings. Therefore, while both methods are valid, some changes are necessary. The weaker reliability and MTMM validity associated with phone methods necessitates improved phone adaptations of paper and pencil questionnaires. The effects of phone versus mail survey modes are partly different across constructs/measures.},
affiliation = {Department of Psychosomatics in Children, Center for Obstetrics and Pediatrics, University Medical Center Hamburg-Eppendorf, Building W 29, Martinistr 52, D-20246 Hamburg, Germany. m.erhart@uke.de},
pages = {491},
volume = {9},
year = {2009},
month = {Jan},
language = {eng},
date-added = {2010-03-21 12:48:01 +0100},
date-modified = {2010-03-21 12:48:01 +0100},
doi = {10.1186/1471-2458-9-491},
pii = {1471-2458-9-491},
pmid = {20042099},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Erhart-2009-BMC%20Public%20Health_Effects%20of%20phone%20ver.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8344},
rating = {4}
}
@inproceedings{Thomas:2002b,
author = {D R Thomas and I R R Lu and Bruno D Zumbo},
journal = {Proceedings},
title = {Embedding irt in structural equation models: A comparison with regression based on irt scores},
year = {2002},
date-added = {2010-01-10 11:33:18 +0100},
date-modified = {2010-07-29 20:46:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thomas-2002-Proceedings_Embedding%20irt%20in%20str-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1939},
read = {Yes},
rating = {0}
}
@article{Yu:2008p1691,
author = {Zhaoxia Yu and Liewei Wang and Michelle A T Hildebrandt and Daniel J Schaid},
journal = {Stat Med},
title = {Testing whether genetic variation explains correlation of quantitative measures of gene expression, and application to genetic network analysis},
abstract = {Genetic networks for gene expression data are often built by graphical models, which in turn are built from pair-wise correlations of gene expression levels. A key feature of building graphical models is the evaluation of conditional independence of two traits, given other traits. When conditional independence can be assumed, the traits that are conditioned on are considered to 'explain' the correlation of a pair of traits, allowing efficient building and interpretation of a network. Overlaying genetic polymorphisms, such as single nucleotide polymorphisms (SNPs), on quantitative measures of gene expression provides a much richer set of data to build a genetic network, because it is possible to evaluate whether sets of SNPs 'explain' the correlation of gene expression levels. However, there is strong evidence that gene expression levels are controlled by multiple interacting genes, suggesting that it will be difficult to reduce the partial correlation completely to zero. Ignoring the fact that some sets of SNPs can explain at least part of the correlation between gene expression levels, if not all, might result in missing important clues on the genetic control of gene expression. To enrich the assessment of the causes of correlation between gene expression levels, we develop methods to evaluate whether a set of covariates (e.g. SNPs, or even a set of quantitative expression transcripts) explains at least some of the correlation of gene expression levels. These methods can be used to assist the interpretation of regulation of gene expression and the construction of gene regulatory networks.},
affiliation = {Division of Biostatistics, Department of Health Sciences Research, Mayo Clinic College of Medicine, Rochester, MN, USA.},
number = {19},
pages = {3847--67},
volume = {27},
year = {2008},
month = {Aug},
language = {eng},
keywords = {Models: Genetic, Multivariate Analysis, Gene Expression Profiling, Humans, Systems Biology, Polymorphism: Single Nucleotide, Computer Simulation, Gene Regulatory Networks},
date-added = {2010-01-09 18:34:24 +0100},
date-modified = {2010-01-09 18:34:24 +0100},
doi = {10.1002/sim.3274},
pmid = {18444230},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Yu-2008-Stat%20Med_Testing%20whether%20gene.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1691},
read = {Yes},
rating = {0}
}
@article{Cook:1999p6386,
author = {K F Cook and L Rabeneck and C J Campbell and N P Wray},
journal = {Journal of Clinical Epidemiology},
title = {Evaluation of a multidimensional measure of dyspepsia-related health for use in a randomized clinical trial},
abstract = {In previous work, we developed a multidimensional measure of dyspepsia-related health. To evaluate the adequacy of this instrument as an outcome measure for a large-scale, multicenter, randomized clinical trial, we used Rasch analysis to address three questions: (1) Are the scales interval-level? (2) Do the scales measure precisely across the entire range of dyspepsia outcomes? (3) Do the scales' items have an optimal number of response categories? We found that the scales were not interval-level and that they did not measure effectively at low or high levels of the dyspepsia-related outcomes. Our results also suggest that patients were capable of discriminating among only four- to seven-item response categories. Further studies are needed to identify items that effectively measure high and low levels of dyspepsia-related outcomes and to validate that decreasing the number of response categories improves the psychometric properties of these scales.},
affiliation = {Department of Veterans Affairs Health Services Research and Development Field Program, Veterans Affairs Medical Center, Houston, TX 77030, USA.},
number = {5},
pages = {381--92},
volume = {52},
year = {1999},
month = {May},
language = {eng},
keywords = {Treatment Outcome, Adult, Texas, Humans, Multicenter Studies as Topic, Severity of Illness Index, Dyspepsia, Hospitals: Veterans, Psychometrics, Outpatient Clinics: Hospital, Health Status Indicators, Randomized Controlled Trials as Topic, Male, Female, Outcome Assessment (Health Care), Questionnaires, Middle Aged},
date-added = {2010-02-23 08:24:12 +0100},
date-modified = {2010-02-23 08:24:12 +0100},
pii = {S0895-4356(99)00018-9},
pmid = {10360332},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cook-1999-Journal%20of%20Clinical%20Epidemiology_Evaluation%20of%20a%20mult.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6386},
rating = {0}
}
@article{deLeeuw:2005p4002,
author = {Jan de Leeuw},
title = {PRINCIPAL COMPONENT ANALYSIS OF SENATE VOTING PATTERNS},
year = {2005},
date-added = {2010-01-17 23:25:32 +0100},
date-modified = {2010-07-29 20:45:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/de%20Leeuw-2005-_PRINCIPAL%20COMPONENT.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4002},
read = {Yes},
rating = {0}
}
@article{Beal:2006p6304,
author = {M J Beal and Z Ghahramani},
journal = {Bayesian Analysis},
title = {Variational Bayesian Learning of Directed Graphical Models with Hidden Variables},
abstract = {A key problem in statistics and machine learning is inferring suitable structure of a model given some observed data. A Bayesian approach to model comparison makes use of the marginal likelihood of each candidate model to form a posterior distribution over models; unfortunately for most models of interest, notably those containing hidden or latent variables, the marginal likelihood is intractable to compute.
We present the variational Bayesian (VB) algorithm for directed graphical mod- els, which optimises a lower bound approximation to the marginal likelihood in a procedure similar to the standard EM algorithm. We show that for a large class of models, which we call conjugate exponential, the VB algorithm is a straightfor- ward generalisation of the EM algorithm that incorporates uncertainty over model parameters. In a thorough case study using a small class of bipartite DAGs con- taining hidden variables, we compare the accuracy of the VB approximation to existing asymptotic-data approximations such as the Bayesian Information Crite- rion (BIC) and the Cheeseman-Stutz (CS) criterion, and also to a sampling based gold standard, Annealed Importance Sampling (AIS). We find that the VB algo- rithm is empirically superior to CS and BIC, and much faster than AIS. Moreover, we prove that a VB approximation can always be constructed in such a way that guarantees it to be more accurate than the CS approximation.},
number = {4},
pages = {793--832},
volume = {1},
year = {2006},
date-added = {2010-02-20 20:17:04 +0100},
date-modified = {2010-02-20 20:17:48 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Beal-2006-Bayesian%20Analysis_Variational%20Bayesian.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6304},
rating = {0}
}
@article{Doros:2005p7077,
author = {Gheorghe Doros and Andrew B Geier},
journal = {Psychol Sci},
title = {Probability of replication revisited: comment on "An alternative to Null-Hypothesis Significance Tests."},
affiliation = {University of Pennsylvania, Philadelphia, PA 19104-6241, USA.},
number = {12},
pages = {1005--6},
volume = {16},
year = {2005},
month = {Dec},
language = {eng},
keywords = {Psychology, Research Design, Models: Statistical, Humans},
date-added = {2010-03-06 20:29:11 +0100},
date-modified = {2010-07-29 19:46:15 +0200},
doi = {10.1111/j.1467-9280.2005.01651.x},
pii = {PSCI1651},
pmid = {16313667},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Doros-2005-Psychol%20Sci_Probability%20of%20repli.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7077},
rating = {0}
}
@article{Hayward:2006p8594,
author = {Richard Hayward},
journal = {Dev Med Child Neurol},
title = {Balancing certainty and uncertainty in clinical medicine},
abstract = {Nothing in clinical medicine is one hundred per cent certain. Part of a doctor's education involves learning how to cope with the anxiety that uncertainty in decisions affecting life and death inevitably produces. This paper examines: (1) the role of anxiety -- both rational and irrational -- in the provision of health care; (2) the effects of uncertainty upon the doctor-patient relationship; (3) the threat uncertainty poses to medical authority (and the assumption of infallibility that props it up); (4) the contribution of clinical uncertainty to the rising popularity of alternative therapies; and (5) the clash between the medical and the legal understanding of how certainty should be defined, particularly as it affects the paediatric community. It concludes by suggesting some strategies that might facilitate successful navigation between the opposing and ever-present forces of certainty and uncertainty.},
affiliation = {Great Ormond Street Hospital for Children NHS Trust, London, UK. haywar@gosh.nhs.uk},
number = {1},
pages = {74--7},
volume = {48},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Humans, Anxiety, Child, Attitude of Health Personnel, Physician-Patient Relations, Pediatrics},
date-added = {2010-03-22 00:15:29 +0100},
date-modified = {2010-03-22 00:15:29 +0100},
doi = {10.1017/S0012162206000144},
pii = {S0012162206000144},
pmid = {16359598},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hayward-2006-Developmental%20medicine%20and%20child%20neurology_Balancing%20certainty.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8594},
rating = {0}
}
@article{Westreich:2010p12839,
author = {D Westreich and J Lessler and M J Funk},
journal = {Journal of Clinical Epidemiology},
title = {Propensity score estimation: neural networks, support vector machines, decision trees (CART), and meta-classifiers as alternatives to logistic regression},
abstract = {Objective: Propensity scores for the analysis of observational data are typically estimated using logistic regression. Our objective in this review was to assess machine learning alternatives to logistic regression, which may accomplish the same goals but with fewer assump- tions or greater accuracy.
Study Design and Setting: We identified alternative methods for propensity score estimation and/or classification from the public health, biostatistics, discrete mathematics, and computer science literature, and evaluated these algorithms for applicability to the problem of propensity score estimation, potential advantages over logistic regression, and ease of use.
Results: We identified four techniques as alternatives to logistic regression: neural networks, support vector machines, decision trees (classification and regression trees [CART]), and meta-classifiers (in particular, boosting).
Conclusion: Although the assumptions of logistic regression are well understood, those assumptions are frequently ignored. All four alternatives have advantages and disadvantages compared with logistic regression. Boosting (meta-classifiers) and, to a lesser extent, decision trees (particularly CART), appear to be most promising for use in the context of propensity score analysis, but extensive simulation studies are needed to establish their utility in practice.},
pages = {826--833},
volume = {63},
year = {2010},
date-added = {2010-06-21 20:02:02 +0200},
date-modified = {2010-06-21 20:03:28 +0200},
doi = {10.1016/j.jclinepi.2009.11.020},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Westreich-2010-Journal%20of%20Clinical%20Epidemiology_Propensity%20score%20est.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12839},
rating = {0}
}
@article{vandenOord:1999p12578,
author = {E J C G van den Oord},
journal = {Behav Genet},
title = {A Comparison Between Different Designs and Tests to Detect QTLs in Association Studies},
abstract = {The availability of different designs and tests to detect QTLs in association studies raises questions about the relative merits of the various approaches. We therefore compared the power of quantitative versus categorical tests, the power in population samples versus sam- ples with subjects selected on the basis of their trait scores, and the power of tests that con- trol for population stratification using parental genotypes versus tests that do not control for stratification. In case-control samples the power of quantitative tests was clearly better than that of categorical tests especially when the control group was a population sample. In sam- ples of genotyped trios of cases and their parents, the power of quantitative tests was much poorer. Compared to population samples, selection always improved the power in case-control samples where the controls were sampled from the opposite end of the continuum and fre- quently deteriorated the power when the controls were a population sample. Mainly because subjects with at least one heterozygous parent need to be selected, the use of tests that con- trol for stratification resulted in a substantial decrease of power. In the final section our power calculations were integrated into a more general discussion about optimizing designs in association studies.},
number = {4},
pages = {245--256},
volume = {29},
year = {1999},
date-added = {2010-06-15 22:31:47 +0200},
date-modified = {2010-07-29 20:09:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/van%20den%20Oord-1999-Behav%20Genet_A%20Comparison%20Between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12578},
rating = {0}
}
@article{Wood:2009p11405,
author = {A M Wood and S Joseph and J Maltby},
journal = {Personality and Individual Differences},
title = {Gratitude predicts psychological well-being above the Big Five facets},
abstract = {This study tests whether gratitude predicts psychological well-being above both the domains and facets of the five factor model. Participants (N = 201) completed the NEO PI-R measure of the 30 facets of the Big Five, the GQ-6 measure of trait gratitude, and the scales of psychological well-being. Gratitude had small correlations with autonomy (r = .17), and medium to large correlations with environmental mastery, per- sonal growth, positive relationships, purpose in life, and self-acceptance (rs ranged from .28 to .61). After controlling for the 30 facets of the Big Five, gratitude explained a substantial amount of a unique variance in most aspects of psychological well-being (requivalent = .14 to .25). Gratitude is concluded to be uniquely important to psychological well-being, beyond the effect of the Big Five facets.},
pages = {443--447},
volume = {46},
year = {2009},
date-added = {2010-05-01 16:28:53 +0200},
date-modified = {2010-05-01 16:30:26 +0200},
doi = {10.1016/j.paid.2008.11.012},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wood-2009-Personality%20and%20Individual%20Differences_Gratitude%20predicts%20p.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11405},
rating = {0}
}
@article{Muthen:1997p11596,
author = {B O Muth{\'e}n and S H C du Toit and D Spisic},
title = {Robust inference using weighted least squares and quadratic estimating equations in latent variable modeling with categorical and continuous outcomes},
year = {1997},
date-added = {2010-05-09 21:19:28 +0200},
date-modified = {2010-05-09 21:22:45 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Muth%C3%A9n-1997-_Robust%20inference%20usi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11596},
rating = {0}
}
@article{Prenoveau:2010p8964,
author = {Jason M Prenoveau and Richard E Zinbarg and Michelle G Craske and Susan Mineka and James W Griffith and Alyssa M Epstein},
journal = {J Anxiety Disord},
title = {Testing a hierarchical model of anxiety and depression in adolescents: A tri-level model},
abstract = {The present study examined the structural relationships among anxiety and depressive symptoms in a sample of high school juniors. The best-fitting structural representation was a tri-level hierarchical arrangement with a broad general factor (general distress), two factors of intermediate breadth (anxious-misery and fears), and five conceptually meaningful, narrow group factors. In accord with the integrative hierarchical model of anxiety and depression, the results supported a structure with a symptom factor central to major depression, and other symptom factors specific to particular anxiety disorders. These group factors displayed significant, unique associations with clinician severity ratings (CSRs) for their respective DSM diagnoses. The hierarchical arrangement demonstrated temporal invariance over a one-year period and configural and partial metric invariance in females and males. Implications for DSM classification and arrangement of anxiety and depressive disorders are discussed as is how present findings help bridge existing research conducted at symptom and diagnostic levels.},
affiliation = {Department of Psychology, University of California at Los Angeles, 405 Hilgard Avenue, Los Angeles, CA 90095-1563, USA.},
number = {3},
pages = {334--344},
volume = {24},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-03-22 13:10:00 +0100},
date-modified = {2010-07-29 19:31:53 +0200},
doi = {10.1016/j.janxdis.2010.01.006},
pii = {S0887-6185(10)00023-X},
pmid = {20171054},
url = {http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6VDK-4Y95RK0-2&_user=2432700&_coverDate=04%252F30%252F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000057263&_version=1&_urlVersion=0&_userid=2432700&md5=c0d9f1dfe597db478ce248263e17b677},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prenoveau-2010-J%20Anxiety%20Disord_Testing%20a%20hierarchic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8964},
rating = {3}
}
@article{Kroonenberg:2006p12054,
author = {Pieter M Kroonenberg and Frans J Oort and Glenn T Stebbins and Sue E Leurgans and Esther Cubo and Christopher G Goetz},
journal = {BMC Med Res Methodol},
title = {Motor function in Parkinson's disease and supranuclear palsy: simultaneous factor analysis of a clinical scale in several populations},
abstract = {BACKGROUND: In order to better understand the similarities and differences in the motor behaviour of different groups of patients, their scores on the Motor Examination section of the Unified Parkinson's Disease Rating Scale (UPDRS) were analysed simultaneously. The three groups consisted, respectively, of patients with Parkinson's disease (PD) on medication, patients with Parkinson's disease withdrawn from anti-parkinsonian medication for at least 12 hours, and patients diagnosed with a specific Parkinsonism syndrome: Progressive Supranuclear Palsy (PSP). METHODS: A total of 669 consecutively sampled patients from three separate hospital-based clinics participated (294 PD on medication; 200 PD off medication: 175 PSP). The Motor Examination section of the UPDRS was administered by neurologists at the three participating clinics. The patient scores on each item were recorded. To assess similarities and differences among the components of the UPDRS in these samples, we performed simultaneous or multigroup factor analysis on the covariance matrices of the three groups. In addition, it was investigated whether a single model for the Motor Examination section of the UPDRS could be developed which would be valid for all three groups at the same time. RESULTS: A single six-dimensional factor solution was found that fitted all groups, although this was not straightforward due to differences between the tremor-at-rest variables. The factors were identified as Tremor-at-rest, Postural Tremor, Axial Dysfunctioning, Rigidity, Left Bradykinesia and Right Bradykinesia. The analysis also pointed to a somewhat lower lateralization in bradykinesia for PSP patients. The groups differed in intensity of motor impairment, especially with respect to Tremor-at-Rest, but the overall relationships between the variables were shared by the three groups. In addition, apart from the common factor structure evidence of differences in body part-specific and motor-specific variances was found. CONCLUSION: From a clinical point of view, the analyses showed that using the Motor Examination section of the UPDRS is also appropriate for patients with PSP, because the correlational structure of the items is directly comparable to that of Parkinson's patients. Methodologically, the analysis of all groups together showed that it is possible to evaluate similarities and differences between factor structures in great detail.},
affiliation = {Department of Education and Child Study, Wassenaarseweg 52, Leiden University, Leiden, The Netherlands. kroonenb@fsw.leidenuniv.nl},
pages = {26},
volume = {6},
year = {2006},
month = {Jan},
language = {eng},
keywords = {Parkinson Disease, Reference Values, Sensitivity and Specificity, Hospitals: University, Supranuclear Palsy: Progressive, Factor Analysis: Statistical, Disability Evaluation, Humans, Activities of Daily Living, Neurologic Examination, Motor Skills, Syndrome},
date-added = {2010-05-24 10:39:10 +0200},
date-modified = {2010-05-24 10:39:18 +0200},
doi = {10.1186/1471-2288-6-26},
pii = {1471-2288-6-26},
pmid = {16772027},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Kroonenberg-2006-BMC%20Med%20Res%20Methodol_Motor%20function%20in%20Pa.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12054},
rating = {5}
}
@article{Jang:1999p10332,
author = {K L Jang and M B Stein and S Taylor and W J Livesley},
journal = {J Gend Specif Med},
title = {Gender differences in the etiology of anxiety sensitivity: a twin study},
abstract = {OBJECTIVE: To estimate the magnitude of genetic and environmental factors on anxiety sensitivity by gender. DESIGN: Classic twins reared-together study design. PATIENTS: A community sample of 337 twin pairs, including 179 monozygotic (45 brother and 134 sister pairs) and 158 dizygotic (28 brother, 94 sister, and 36 brother-sister pairs). METHOD: Twin pairs completed the Anxiety Sensitivity Index (ASI) using a postal survey design. The ASI is composed of three factors: (1) fear of anxiety-related somatic sensations; (2) fear of cognitive dyscontrol due to beliefs that sensations like depersonalization are signs of mental illness (e.g., fear of concentration problems); and (3) fear of publicly observable anxiety reactions (e.g., fear of trembling). Biometrical modeling techniques were used to estimate heritability of the ASI dimensions by gender. RESULTS: ASI factors are heritable only in women, accounting for 37% to 48% of the total variance (median, 44.5%). Environmental factors accounted for all the variability in men. CONCLUSIONS: These findings have implications for understanding the etiology of panic disorder. Previous research suggests that anxiety sensitivity is a risk factor or diathesis for this disorder, and that panic disorder is more prevalent in women than men. Our findings suggest the hypothesis that the increased prevalence in women may occur because anxiety sensitivity is heritable in women.},
affiliation = {Department of Psychiatry, University of British Columbia, 2255 Wesbrook Mall, Vancouver, BC, Canada V6T 2A1. kjang@unixg.ubc.ca},
number = {2},
pages = {39--44},
volume = {2},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Questionnaires, Humans, Male, Cognition, Panic Disorder, Twins: Dizygotic, Anxiety, Attitude to Health, Female, Risk Factors, Fear, Twins: Monozygotic, Sex Characteristics},
date-added = {2010-04-02 18:15:38 +0200},
date-modified = {2010-04-02 18:15:38 +0200},
pmid = {11252860},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10332},
rating = {0}
}
@article{Forkmann:2009p5954,
author = {Thomas Forkmann and Maren Boecker and Markus Wirtz and Nicole Eberle and Martin Westhofen and Patrick Schauerte and Karl Mischke and Tilo Kircher and Siegfried Gauggel and Christine Norra},
journal = {J Behav Ther Exp Psychiatry},
title = {Development and validation of the Rasch-based Depression Screening (DESC) using Rasch analysis and structural equation modelling},
abstract = {Questionnaires for the assessment of depression benefit from modern test construction like item-response-modelling. We developed two parallel 10 item depression questionnaires, the Rasch-based Depression Screening version 1 (DESC-I) and 2 (DESC-II), by combining Rasch analysis and structural equation modelling on patient samples suffering primarily from a mental disorder or from somatic diseases. Both scales base upon a Rasch homogeneous item bank and proved unidimensionality and good model fit. Cut-off scores with good sensitivity and specificity were developed using ROC analyses. Results suggest that DESC may be appropriately used to screen for depression and may be beneficial for repeated measurements.},
affiliation = {Institute of Medical Psychology and Medical Sociology, University Hospital of the RWTH Aachen University, Aachen, Germany. tforkmann@ukaachen.de},
number = {3},
pages = {468--78},
volume = {40},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Mass Screening, Logistic Models, Depression, Male, Sensitivity and Specificity, Interview: Psychological, Models: Statistical, Psychiatric Status Rating Scales, Middle Aged, Adult, ROC Curve, Humans, Female, Questionnaires},
date-added = {2010-02-18 23:23:54 +0100},
date-modified = {2010-02-18 23:23:57 +0100},
doi = {10.1016/j.jbtep.2009.06.003},
pii = {S0005-7916(09)00029-9},
pmid = {19589499},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Forkmann-2009-J%20Behav%20Ther%20Exp%20Psychiatry_Development%20and%20vali.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5954},
rating = {4}
}
@article{Janssen:2008p8597,
author = {A J W M Janssen and M W G Nijhuis-van der Sanden and R P Akkermans and R A B Oostendorp and L A A Koll{\'e}e},
journal = {Dev Med Child Neurol},
title = {Influence of behaviour and risk factors on motor performance in preterm infants at age 2 to 3 years},
abstract = {The aim of this cross-sectional study was to determine the influence of test-taking behaviour and risk factors for delayed motor performance in 437 preterm infants (244 males, 193 females; < or = 32 weeks of gestation) at the corrected age of 2 to 3 years (mean 29mo [SD 3.3]). Other mean (SD) sample demographics were: postmenstrual age 29(+5) weeks (1(+5)), range 25(+0)-32(+0); birthweight 1213.7g (331.7), range 468-2350; and days in the neonatal intensive care unit 21.1 (21.3), range 1-165. Children (n=23) with a severe disability were excluded. We assessed motor performance and behaviour during testing with the Motor Scale and the Behaviour Rating Scale (BRS) of the Bayley Scales of Infant Development, 2nd edition (BSID-II). Risk factors were tested against delayed motor performance as the dependent variable in binary logistic regression analysis. Median score on the Motor Scale in terms of the BSID-II Psychomotor Developmental Index (PDI) was 86. 'Delayed' motor performance was observed in 46.5% of the children tested, and behaviour was 'not-optimal' in 31.4%. The Motor Scale and BRS scores were significantly correlated (r(s)=0.62, p<0.01). Risk factors for delayed motor performance were: neonatal convulsions (odds ratio [OR] 4.5; 95% confidence interval [CI] 1.6-12.9), low maternal educational level (OR 3.3; 95% CI 1.7-6.5), male sex (OR 2.8; 95% CI 1.8-4.3), and chronic lung disease (OR 2.1; 95% CI 1.1- 4.1). We conclude that preterm infants are at high risk of delayed motor performance and non-optimal test-taking behaviour.},
affiliation = {Department of Paediatric Physiotherapy, Radbound University Nijmegen Medical Centre, Nijmegen, The Netherlands. a.janssen@cukz.umcn.nl},
number = {12},
pages = {926--31},
volume = {50},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Reference Values, Infant: Newborn, Developmental Disabilities, Cross-Sectional Studies, Neurologic Examination, Netherlands, Infant: Low Birth Weight, Male, Follow-Up Studies, Personality Assessment, Child Behavior Disorders, Gestational Age, Infant: Premature: Diseases, Humans, Child: Preschool, Psychomotor Disorders, Female, Cohort Studies, Risk Factors, Psychometrics, Infant},
date-added = {2010-03-22 00:21:26 +0100},
date-modified = {2010-03-22 00:21:26 +0100},
doi = {10.1111/j.1469-8749.2008.03108.x},
pii = {DMCN3108},
pmid = {18811709},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Janssen-2008-Developmental%20medicine%20and%20child%20neurology_Influence%20of%20behavio.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8597},
rating = {0}
}
@article{Watkins:2006p3529,
author = {M W Watkins},
journal = {Journal of Modern Applied Statistical Methods},
title = {Determining Parallel Analysis Criteria},
abstract = {Determining the number of factors to extract is a critical decision in exploratory factor analysis. Simulation studies have found the Parallel Analysis criterion to be accurate, but it is computationally intensive. Two freeware programs that implement Parallel Analysis on Macintosh and Windows operating systems are presented.},
number = {2},
pages = {344--346},
volume = {5},
year = {2006},
date-added = {2010-01-15 15:54:31 +0100},
date-modified = {2010-01-15 15:56:13 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Watkins-2006-Journal%20of%20Modern%20Applied%20Statistical%20Methods_Determining%20Parallel.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3529},
rating = {0}
}
@article{Borsboom:2006p5504,
author = {Denny Borsboom},
journal = {Med Care},
title = {When does measurement invariance matter?},
affiliation = {Department of Psychology, Faculty of Social and Behavioral Sciences, University of Amsterdam, Amsterdam, The Netherlands. d.borsboom@uva.nl},
number = {11 Suppl 3},
pages = {S176--81},
volume = {44},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Psychological Tests, Humans, Bias (Epidemiology), Psychometrics, Research Design, Cross-Cultural Comparison},
date-added = {2010-02-12 14:48:31 +0100},
date-modified = {2010-07-29 19:39:29 +0200},
doi = {10.1097/01.mlr.0000245143.08679.cc},
pii = {00005650-200611001-00023},
pmid = {17060825},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Borsboom-2006-Med%20Care_When%20does%20measuremen.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5504},
rating = {0}
}
@article{Rossi:2007,
author = {Gina Rossi and L Andries van der Ark and Hedwig Sloore},
journal = {J Pers Assess},
title = {Factor analysis of the Dutch-Language version of the MCMI-III},
number = {2},
pages = {144--157},
volume = {88},
year = {2007},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-07-29 20:42:55 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rossi-2007-J%20Pers%20Assess_Factor%20analysis%20of%20t.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2011},
rating = {0}
}
@article{Miclaus:2009p825,
author = {Kelci Miclaus and Russ Wolfinger and Wendy Czika},
journal = {Genet Epidemiol},
title = {SNP selection and multidimensional scaling to quantify population structure},
abstract = {In the new era of large-scale collaborative Genome Wide Association Studies (GWAS), population stratification has become a critical issue that must be addressed. In order to build upon the methods developed to control the confounding effect of a structured population, it is extremely important to visualize and quantify that effect. In this work, we develop methodology for single nucleotide polymorphism (SNP) selection and subsequent population stratification visualization based on deviation from Hardy-Weinberg equilibrium in conjunction with non-metric multidimensional scaling (MDS); a distance-based multivariate technique. Through simulation, it is shown that SNP selection based on Hardy-Weinberg disequilibrium (HWD) is robust against confounding linkage disequilibrium patterns that have been problematic in past studies and methods as well as producing a differentiated SNP set. Non-metric MDS is shown to be a multivariate visualization tool preferable to principal components in conjunction with HWD SNP selection through theoretical and empirical study from HapMap samples. The proposed selection tool offers a simple and effective way to select appropriate substructure-informative markers for use in exploring the effect that population stratification may have in association studies.},
affiliation = {Department of Statistics, North Carolina State University, Raleigh, North Carolina, USA. Kelci.Miclaus@jmp.com},
number = {6},
pages = {488--96},
volume = {33},
year = {2009},
month = {Sep},
language = {eng},
keywords = {Genetic Markers, Algorithms, Humans, Genome-Wide Association Study, Genetics: Population, Selection: Genetic, Polymorphism: Single Nucleotide},
date-added = {2010-01-03 17:47:56 +0100},
date-modified = {2010-01-03 17:47:56 +0100},
doi = {10.1002/gepi.20401},
pmid = {19194989},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p825},
rating = {3}
}
@article{Herman:1985p5595,
author = {J Herman and N Webb and B Cabello},
title = {A domain-referenced approach to diagnostic testing using Generalizability Theory},
year = {1985},
date-added = {2010-02-12 15:40:25 +0100},
date-modified = {2010-02-12 15:41:14 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Herman-1985-_A%20domain-referenced.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5595},
rating = {0}
}
@article{Roset:2001p8435,
author = {M Roset and M Herdman and X Badia and E Baro},
journal = {Archives of Hellenic Medicine},
title = {Uses and applications of health-related quality of life measures. The state of play in Spain},
abstract = {The purpose of this paper is to critically review the health-related quality of life (HRQoL) studies conducted in Spain. An electronic bibliographic search was used to investigate the psychometric properties of the HRQoL studies. The data bases explored were the following: Medline, HealthStar, and IME. A specifically developed index was used the GRAQoL index, aiming at the evaluation of 11 psychometric and non-psychometric properties of the study designs. The values of the GRAQoL index range from 0 to 100. The authors conclude that the level of research in HRQoL index range from 0 to 100. The authors conclude that the level of research in HRQoL in Spain is high with a number of research teams being actively involved in many ar- eas of generic and specific quality of life instruments. Further research in HRQoL would provide interesting results for ment assessment of clinical ef- fectiveness.},
number = {2},
pages = {131--136},
volume = {18},
year = {2001},
date-added = {2010-03-21 17:53:38 +0100},
date-modified = {2010-03-21 17:54:45 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Roset-2001-Archives%20of%20Hellenic%20Medicine_Uses%20and%20application.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8435},
rating = {0}
}
@article{Joffe:2009p8926,
author = {Russell T Joffe and Justine M Gatt and Andrew H Kemp and Stuart Grieve and Carol Dobson-Stone and Stacey A Kuan and Peter R Schofield and Evian Gordon and Leanne M Williams},
journal = {Hum Brain Mapp},
title = {Brain derived neurotrophic factor Val66Met polymorphism, the five factor model of personality and hippocampal volume: Implications for depressive illness},
abstract = {Altered hippocampal volume, the brain-derived neurotrophic factor (BDNF) Val66Met polymorphism, and neuroticism have each been implicated in the etiology of psychiatric disorders, especially depression. However, the relationship between these variables is not well understood. Here, we determined the effects of the BDNF Val66met polymorphism on the five-factor personality dimensions (assessed using the NEO-FFI), trait depression (assessed with the DASS-21) in a cross-sectional cohort of 467 healthy volunteers. A large matched subset of this cohort was also assessed for grey matter volume of the hippocampus and contiguous temporal cortical regions using magnetic resonance imaging. In Met carriers, elevations in neuroticism and trait depression and stress were associated with lower mean hippocampal volume, but there were no such associations in Val homozygotes. Trait depression, in particular, was found to moderate the effects of BDNF genotypes on hippocampal volume. Met carriers with high trait depression showed a reduction in grey matter volume of the mean hippocampus compared with Val homozygotes. These findings suggest that even in otherwise healthy subjects, trait depression may contribute to the susceptibility of Met carriers to hippocampal grey matter loss.},
affiliation = {Department of Psychiatry, New Jersey Medical School, Newark, USA. rjoffe51@verizon.net},
number = {4},
pages = {1246--56},
volume = {30},
year = {2009},
month = {Apr},
language = {eng},
keywords = {Valine, Statistics as Topic, Young Adult, Brain-Derived Neurotrophic Factor, Adult, Middle Aged, Hippocampus, Personality Inventory, Cross-Sectional Studies, Depressive Disorder, Personality, Male, Female, Humans, Methionine, Analysis of Variance, Polymorphism: Genetic, Cohort Studies, Questionnaires, Magnetic Resonance Imaging},
date-added = {2010-03-22 13:02:48 +0100},
date-modified = {2010-03-22 13:02:48 +0100},
doi = {10.1002/hbm.20592},
pmid = {18548532},
url = {http://www3.interscience.wiley.com/journal/119818703/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Joffe-2009-Hum%20Brain%20Mapp_Brain%20derived%20neurot.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8926},
rating = {0}
}
@article{Gustavsson:2003p13152,
author = {J P Gustavsson and E G J{\"o}nsson and J Linder and R M Weinryb},
journal = {Personality and Individual Differences},
title = {The HP5 inventory: definition and assessment of five health-relevant personality traits from a five-factor model perspective},
abstract = {The aim of the present project was to construct a short personality inventory specifically applicable in per- sonality and health research. The development began with a demarcation of some specific constructs thought to be relevant in explaining individual differences influencing the vulnerability to illness and illness progression as well as psychosocial adaptation to illness. Factor analytic procedures were used separately in two different samples to derive the scales from an item pool. Two confirmation samples were used in addition for cross- validating the final model. In addition, scales from other personality inventories were used to further vali- date the new scales. A total of 20 items were chosen to constitute the new instrument, entitled the HP5i (H for Health-relevant; P for personality; 5 for its correspondence with the FFM taxonomy; and i for inventory). The five scales were labeled Antagonism (as a facet of Agreeableness), Impulsivity (as a facet of Con- scientiousness), Hedonic Capacity (as a facet of Extraversion), Negative Affectivity (as a facet of Neuroti- cism), and Alexithymia (as a facet of Openness). The new HP5 inventory Scales manifested a meaningful pattern of correlations with NEO PI-R Scales and with two alexithymia scales, thus suggesting some pre- liminary empirical evidence for convergent validity.},
pages = {69--89},
volume = {35},
year = {2003},
date-added = {2010-06-26 11:10:50 +0200},
date-modified = {2010-06-26 11:11:53 +0200},
pii = {S0191-8869(02)00142-3},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gustavsson-2003-Personality%20and%20Individual%20Differences_The%20HP5%20inventory%20d.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13152},
rating = {0}
}
@book{Kirk:1986,
author = {J Kirk and ML Miller},
journal = {Book},
title = {Reliability and validity in qualitative research},
year = {1986},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:21:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p947},
rating = {0}
}
@article{Meredith:1992p6289,
author = {W Meredith and R E Millsap},
journal = {Psychometrika},
title = {On the misuse of manifest variables in the detection of measurement bias},
abstract = {Measurement invariance (lack of bias) of a manifest variable Y with respect to a latent variable W is defined as invariance of the conditional distribution of Y given W over selected subpopulations. Invariance is commonly assessed by studying subpopulation differences in the conditional distribution of Ygiven a manifest variable Z, chosen to substitute for W. A unified treatment of conditions that may allow the detection of measurement bias using statistical procedures involving only observed or manifest variables is presented. Theorems are provided that give conditions for measurement invariance, and for invariance of the conditional distri- bution of Y given Z. Additional theorems and examples explore the Bayes sufficiency of Z, stochastic ordering in W, local independence of Y and Z, exponential families, and the reli- ability of Z. It is shown that when Bayes sufficiency of Z fails, the two forms of invariance will often not be equivalent in practice. Bayes sufficiency holds under Rasch model assumptions, and in long tests under certain conditions. It is concluded that bias detection procedures that rely strictly on observed variables are not in general diagnostic of measurement bias, or the lack of bias.},
number = {2},
pages = {289--311},
volume = {57},
year = {1992},
date-added = {2010-02-20 20:00:00 +0100},
date-modified = {2010-08-18 13:00:46 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meredith-1992-Psychometrika_On%20the%20misuse%20of%20man-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6289},
read = {Yes},
rating = {0}
}
@article{Lane:2002,
author = {G G Lane and A E White and R K Henson},
journal = {Educational and Psychological Measurement},
title = {Expanding reliability generalization methods with KR-21 estimates: An RG study of the Coopersmith Self-esteem Inventory},
volume = {62},
year = {2002},
date-added = {2010-01-10 11:33:21 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2192},
rating = {0}
}
@article{Hutton:2004p13999,
author = {Heidi E Hutton and Constantine G Lyketsos and Jonathan M Zenilman and Richard E Thompson and Emily J Erbelding},
journal = {Am J Psychiatry},
title = {Depression and HIV risk behaviors among patients in a sexually transmitted disease clinic},
abstract = {OBJECTIVE: The authors' goal was to investigate the relationship between depression and HIV risk behaviors or sexually transmitted disease (STD) diagnosis at an urban STD clinic. METHOD: Using audio computer-assisted self-interview, 671 STD clinic patients answered questions about HIV risk behaviors and depression in a large-scale, cross-sectional study. A subset of the patients (N=201) was evaluated for current major depressive disorder by interviewers using the nonpatient edition of the Structured Clinical Interview for DSM-IV. RESULTS: Depressed patients were more likely to have sex for money or drugs, to have had sex with an intravenous drug user, to have sex when "high" on alcohol or drugs, to have a greater number of lifetime sex partners, and to abuse alcohol or drugs than were nondepressed patients. Associations of HIV risk behaviors with depression persisted after adjustment for substance abuse. CONCLUSIONS: Depression in STD clinic patients is associated with HIV risk behaviors but not STD diagnosis. Identifying depression and developing strategies to intervene effectively may reduce HIV risk behaviors and improve health outcomes.},
affiliation = {Department of Psychiatry, Johns Hopkins School of Medicine, 550 N. Broadway, Suite 203, Baltimore, MD 21205, USA. hhutton@jhmi.edu},
number = {5},
pages = {912--4},
volume = {161},
year = {2004},
month = {May},
language = {eng},
keywords = {Sexual Behavior, Substance-Related Disorders, Middle Aged, Ambulatory Care Facilities, Risk-Taking, Depressive Disorder, Prostitution, Prevalence, Adult, Female, Sexually Transmitted Diseases, Comorbidity, Baltimore, Humans, Adolescent, Cross-Sectional Studies, HIV Infections, Health Behavior, Male, Sexual Partners},
date-added = {2010-08-04 09:26:37 +0200},
date-modified = {2010-08-04 09:26:37 +0200},
pmid = {15121659},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hutton-2004-Am%20J%20Psychiatry_Depression%20and%20HIV%20r.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13999},
rating = {0}
}
@article{Talley:2010p13426,
author = {Amelia E Talley and B Ann Bettencourt},
journal = {AIDS Behav},
title = {A relationship-oriented model of HIV-related stigma derived from a review of the HIV-affected couples literature},
abstract = {Previous research has focused on the influence of HIV-related stigma for the psychological adjustment and physical health of persons with HIV/AIDS. Few studies, however, have examined the impact of HIV-related stigma on close relationships where one or both couple members have HIV/AIDS. The current review will integrate previous research findings to substantiate a relationship-oriented theoretical model of HIV-related stigma that delineates interpersonal variables important for understanding the influence of types of HIV-related stigma on couple-level as well as relevant individual-level outcomes. In doing so, supportive evidence is presented from the extant quantitative and qualitative literature that has assessed or examined HIV-affected couple members' experiences with HIV-related stigma. Implications from this review are presented for researchers who examine issues related to HIV-related stigma.},
affiliation = {University of Missouri, Columbia, MO, USA. aetyrd@mizzou.edu},
number = {1},
pages = {72--86},
volume = {14},
year = {2010},
month = {Feb},
language = {eng},
keywords = {Psychology, Humans, Social Support, Stereotyping, Male, Interpersonal Relations, Female, HIV Infections, Sexual Partners},
date-added = {2010-07-01 19:35:47 +0200},
date-modified = {2010-07-01 19:35:47 +0200},
doi = {10.1007/s10461-008-9493-y},
pmid = {19037718},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Talley-2010-AIDS%20Behav_A%20relationship-orien.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13426},
rating = {0}
}
@article{Keng:2010p12799,
author = {L Keng and T H Ho and T A Chen and B G Dodd},
title = {A Comparison of Item and Testlet Selection Procedures in Computerized Adaptive Testing},
abstract = {Testlet response theory (TRT) is a measurement model that can capture local dependency in testlet-based tests. One of the purported advantages of TRT over the more commonly-used polytomous IRT approach to modeling testlet-based tests is that it allows for ad hoc testlet construction in a testlet-based computer adaptive test (CAT). The goal of this study was to investigate the merits of such a CAT design. Specifically, it examined the use of testlet-based CATs that not only chose each testlet adaptively, but they also adaptively selected each item within the testlet, based on the estimated examinee proficiency. This design was termed a CAT with adaptive testlets, and it was compared against a CAT whose within-testlet items were all pre-determined and fixed (termed a CAT with fixed testlets). Real data from a large-scale assessment were calibrated using the 3PL-TRT model and used in this simulation study, which compared these testlet-based CAT designs on their measurement and exposure control properties. The study found that the use of adaptive testlets improved measurement precision while achieving better pool utilization rates. The use of an item-level exposure control procedure within a CAT with adaptive testlets resulted in similar measurement precision, but only a modest gain in pool utilization rates, when compared to a CAT with adaptive testlets and no item-level exposure control. This study represented an initial examination of the properties of CATs with adaptive testlets. As such, suggestions for future research are also provided.},
date-added = {2010-06-18 21:22:31 +0200},
date-modified = {2010-06-18 21:23:22 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Keng--_A%20Comparison%20of%20Item.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12799},
rating = {0}
}
@article{Albaum:1997p5889,
author = {G Albaum},
journal = {Journal of the Market Research Society},
title = {The Likert scale revisited: an alternate version (product preference testing)},
abstract = {An investigation of the effect of alternative scale formats on intensity of attitudes report based on the Likert scales of agreement was conducted. The study utilized both a one-stage format and a two-stage alternate format in three separate experiments on sample population of college students from three different nations. The two-stage format, which generated the greatest amount of extreme-position response, was determined to be a better gauge of product preferences.},
number = {i2},
pages = {331},
volume = {39},
year = {1997},
date-added = {2010-02-17 21:01:11 +0100},
date-modified = {2010-08-19 13:42:37 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Albaum-1997-Journal%20of%20the%20Market%20Research%20Society_The%20Likert%20scale%20rev.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5889},
read = {Yes},
rating = {3}
}
@article{Krueger:2008p9129,
author = {Robert F Krueger and Susan South and Wendy Johnson and William Iacono},
journal = {J Pers},
title = {The heritability of personality is not always 50%: gene-environment interactions and correlations between personality and parenting},
abstract = {Twin studies of personality are consistent in attributing approximately half of the variance in personality to genetic effects, with the remaining variance attributed to environments that make people within the same families different. Such conclusions, however, are based on quantitative models of human individual differences that estimate genetic and environmental contributions as constants for entire populations. Recent advances in statistical modeling allow for the possibility of estimating genetic and environmental contributions contingent on other variables, allowing the quantification of phenomena that have traditionally been characterized as gene-environment interaction and correlation. We applied these newer models to understand how adolescents' descriptions of their relationships with their parents might change or moderate the impact of genetic and environmental factors on personality. We documented notable moderation in the domains of positive and negative emotionality, with parental relationships acting both to enhance and diminish both genetic and environmental effects. We discuss how genetic and environmental contributions to personality might be more richly conceptualized as dynamic systems of gene-environment interplay--systems that are not captured by classical concepts, such as the overall heritability of personality.},
affiliation = {University of Minnesota-Twin Cities, USA. rkrueger@artsci.wustl.edu},
number = {6},
pages = {1485--522},
volume = {76},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Humans, Phenotype, Young Adult, Social Environment, Personality, Male, Adolescent, Parent-Child Relations, Personality Inventory, Psychometrics, Twins, Parenting, Follow-Up Studies, Female, Minnesota, Adolescent Behavior},
date-added = {2010-03-22 13:26:17 +0100},
date-modified = {2010-07-29 19:35:22 +0200},
doi = {10.1111/j.1467-6494.2008.00529.x},
pii = {JOPY529},
pmid = {19012656},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Krueger-2008-J%20Pers_The%20heritability%20of.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9129},
read = {Yes},
rating = {0}
}
@article{Emsley:2010p13695,
author = {Richard Emsley and Graham Dunn and Ian R White},
journal = {Stat Methods Med Res},
title = {Mediation and moderation of treatment effects in randomised controlled trials of complex interventions},
abstract = {Complex intervention trials should be able to answer both pragmatic and explanatory questions in order to test the theories motivating the intervention and help understand the underlying nature of the clinical problem being tested. Key to this is the estimation of direct effects of treatment and indirect effects acting through intermediate variables which are measured post-randomisation. Using psychological treatment trials as an example of complex interventions, we review statistical methods which crucially evaluate both direct and indirect effects in the presence of hidden confounding between mediator and outcome. We review the historical literature on mediation and moderation of treatment effects. We introduce two methods from within the existing causal inference literature, principal stratification and structural mean models, and demonstrate how these can be applied in a mediation context before discussing approaches and assumptions necessary for attaining identifiability of key parameters of the basic causal model. Assuming that there is modification by baseline covariates of the effect of treatment (i.e. randomisation) on the mediator (i.e. covariate by treatment interactions), but no direct effect on the outcome of these treatment by covariate interactions leads to the use of instrumental variable methods. We describe how moderation can occur through post-randomisation variables, and extend the principal stratification approach to multiple group methods with explanatory models nested within the principal strata. We illustrate the new methodology with motivating examples of randomised trials from the mental health literature.},
affiliation = {Health Methodology Research Group, School of Community Based Medicine, University of Manchester, UK.},
number = {3},
pages = {237--70},
volume = {19},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-07-11 09:06:08 +0200},
date-modified = {2010-07-11 09:06:13 +0200},
doi = {10.1177/0962280209105014},
pii = {0962280209105014},
pmid = {19608601},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Emsley-2010-Stat%20Methods%20Med%20Res_Mediation%20and%20modera.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13695},
rating = {3}
}
@article{Prieto:2003,
author = {Luis Prieto and Jordi Alonso and Rosa Lamarca},
journal = {Health Qual Life Outcomes},
title = {Classical test theory versus Rasch analysis for quality of life questionnaire reduction},
number = {27},
volume = {1},
year = {2003},
date-added = {2010-01-10 11:33:23 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Prieto-2003-Health%20and%20Quality%20of%20Life%20Outcomes_Classical%20test%20theor.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2131},
rating = {0}
}
@article{Wang:2009p6613,
author = {C Y Wang and Ziding Feng},
journal = {Biostatistics},
title = {Boosting with missing predictors},
abstract = {Boosting is an important tool in classification methodology. It combines the performance of many weak classifiers to produce a powerful committee, and its validity can be explained by additive modeling and maximum likelihood. The method has very general applications, especially for high-dimensional predictors. For example, it can be applied to distinguish cancer samples from healthy control samples by using antibody microarray data. Microarray data are often high-dimensional and many of them are incomplete. One natural idea is to impute a missing variable based on the observed predictors. However, the calculation of imputation for high-dimensional predictors with missing data may be rather tedious. In this paper, we propose 2 conditional mean imputation methods. They can be applied to the situation even when a complete-case subset does not exist. Simulation results indicate that the proposed methods are superior than other naive methods. We apply the methods to a pancreatic cancer study in which serum protein microarrays are used for classification.},
affiliation = {Division of Public Health Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue North, M2-B500, PO Box 19024, Seattle, WA 98109-1024, USA. cywang@fhcrc.org.},
pages = {},
year = {2009},
month = {Nov},
language = {ENG},
date-added = {2010-03-03 20:23:01 +0100},
date-modified = {2010-03-03 20:23:01 +0100},
doi = {10.1093/biostatistics/kxp052},
pii = {kxp052},
pmid = {19948743},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wang-2009-Biostatistics_Boosting%20with%20missin.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p6613},
rating = {0}
}
@article{dUva:2008p423,
author = {Teresa Bago d'Uva and Owen O'Donnell and Eddy van Doorslaer},
journal = {Int J Epidemiol},
title = {Differential health reporting by education level and its impact on the measurement of health inequalities among older Europeans},
abstract = {BACKGROUND: This study aims to establish whether health reporting differs by education level and, if so, to determine the extent to which this biases the measurement of health inequalities among older Europeans. METHODS: Data are from the Survey of Health, Ageing and Retirement in Europe (SHARE) covering eight countries. Differential reporting of health by education is identified from ratings of anchoring vignettes that describe fixed health states. Ratings of own health in six domains (mobility, pain, sleep, breathing, emotional health and cognition) are corrected for differences in reporting using an extended ordered probit model. For each country and health domain, we compare the corrected with the uncorrected age-sex standardized high-to-low education rate ratio for the absence of a health problem. RESULTS: Before correction for reporting differences across the 48 combinations of country by health domain, there was no inequality in health by education (P > 0.05) in 32 of 48 cases. However, there were reporting differences by education (P < 0.05) in 29 out of 48 cases. In general, higher educated older Europeans are more likely to rate a given health state negatively (except for Spain and Sweden). Correcting for these differences generally increases health inequalities (except for Spain and Sweden) and results in the emergence of inequalities in 18 cases (P < 0.05), which may be considered 'statistically significant'. The greatest impact is in Belgium, Germany and The Netherlands, where inequalities (P < 0.05) appear only after adjustment in four of the six health domains. CONCLUSIONS: These results emphasize the need to account for differences in the reporting of health. Measured health inequalities by education are often underestimated, and even go undetected, if no account is taken of these reporting differences.},
affiliation = {Department of Applied Economics, Erasmus School of Economics, Erasmus University, Rotterdam, The Netherlands. bagoduva@few.eur.nl},
number = {6},
pages = {1375--83},
volume = {37},
year = {2008},
month = {Dec},
language = {eng},
keywords = {Male, Health Status Disparities, Humans, Educational Status, Health Surveys, Female, Likelihood Functions, Aged, Europe, Bias (Epidemiology), Middle Aged, Health Status},
date-added = {2010-01-03 12:20:56 +0100},
date-modified = {2010-01-03 12:20:56 +0100},
doi = {10.1093/ije/dyn146},
pii = {dyn146},
pmid = {18676985},
local-url = {file://localhost/Users/chl/Dropbox/Papers/d'Uva-2008-Int%20J%20Epidemiol_Differential%20health.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p423},
read = {Yes},
rating = {0}
}
@article{ThorntonWells:2004p2930,
author = {Tricia A Thornton-Wells and Jason H Moore and Jonathan L Haines},
journal = {Trends Genet},
title = {Genetics, statistics and human disease: analytical retooling for complexity},
abstract = {Molecular biologists and geneticists alike now acknowledge that most common human diseases with a genetic component are likely to have complex etiologies. Yet despite this belief, many statistical geneticists continue applying, in slightly new and different ways, methodologies that were developed to dissect much simpler etiologies. In this article, we characterize, with examples, the various factors that can complicate genetic analysis and demonstrate their shared features and how they affect genetic analysis. We describe a variety of approaches that are currently available, revealing methodological gaps and suggesting new directions for method development. Finally, we propose a comprehensive two-step approach to analysis that systemically addresses the different genetic factors that are likely to underlie complex diseases.},
affiliation = {Neuroscience Graduate Program, Vanderbilt Brain Institute, Vanderbilt University Medical Center, Nashville, TN 37240, USA.},
number = {12},
pages = {640--7},
volume = {20},
year = {2004},
month = {Dec},
language = {eng},
keywords = {Models: Genetic, Models: Statistical, Genetic Diseases: Inborn, Polymorphism: Single Nucleotide, Quantitative Trait Loci, Humans, Genetic Heterogeneity, Genetics: Medical, Phenotype},
date-added = {2010-01-13 22:17:44 +0100},
date-modified = {2010-01-13 22:17:44 +0100},
doi = {10.1016/j.tig.2004.09.007},
pii = {S0168-9525(04)00274-4},
pmid = {15522460},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Thornton-Wells-2004-Trends%20Genet_Genetics%20statistics.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2930},
rating = {0}
}
@article{Killeen:2006p7079,
author = {Peter R Killeen},
journal = {Psychon Bull Rev},
title = {Beyond statistical inference: a decision theory for science},
abstract = {Traditional null hypothesis significance testing does not yield the probability of the null or its alternative and, therefore, cannot logically ground scientific decisions. The decision theory proposed here calculates the expected utility of an effect on the basis of (1) the probability of replicating it and (2) a utility function on its size. It takes significance tests--which place all value on the replicability of an effect and none on its magnitude--as a special case, one in which the cost of a false positive is revealed to be an order of magnitude greater than the value of a true positive. More realistic utility functions credit both replicability and effect size, integrating them for a single index of merit. The analysis incorporates opportunity cost and is consistent with alternate measures of effect size, such as r2 and information transmission, and with Bayesian model selection criteria. An alternate formulation is functionally equivalent to the formal theory, transparent, and easy to compute.},
affiliation = {Department of Psychology, Arizona State University, Box 1104, Tempe, AZ 85287-1104, USA. killeen@asu.edu},
number = {4},
pages = {549--62},
volume = {13},
year = {2006},
month = {Aug},
language = {eng},
keywords = {Humans, Science, Data Interpretation: Statistical, Decision Making, Models: Statistical},
date-added = {2010-03-06 20:29:38 +0100},
date-modified = {2010-07-29 19:47:36 +0200},
pmid = {17201351},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Killeen-2006-Psychon%20Bull%20Rev_Beyond%20statistical%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7079},
rating = {4}
}
@article{Zubairi:2006,
author = {A M Zubairi and N L A Kassim},
journal = {Malaysian Journal of ELT Research},
title = {Classical And Rasch Analyses Of Dichotomously Scored Reading Comprehension Test Items},
volume = {2},
year = {2006},
date-added = {2010-01-10 11:33:19 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Zubairi-2006-Malaysian%20Journal%20of%20ELT%20Research_Classical%20And%20Rasch.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2033},
rating = {0}
}
@article{Stewart:2000p11650,
author = {A L Stewart and A N{\'a}poles-Springer},
journal = {Med Care},
title = {Health-related quality-of-life assessments in diverse population groups in the United States},
abstract = {BACKGROUND: Effectiveness research needs to represent the increasing diversity of the United States. Health-related quality-of-life (HRQOL) measures are often included as secondary treatment outcomes. Because most HRQOL measures were developed in nonminority, well-educated samples, we must determine whether such measures are conceptually and psychometrically equivalent in diverse subgroups. Without equivalence, overall findings and observed group differences may contain measurement bias. OBJECTIVES: The objectives of this work were to discuss the nature of diversity, importance of ensuring the adequacy of HRQOL measures in diverse groups, methods for assessing comparability of HRQOL measures across groups, and methodological and analytical challenges. RESULTS: Integration of qualitative and quantitative methods is needed to achieve measurement adequacy in diverse groups. Little research explores conceptual equivalence across US subgroups; of the few studies of psychometric comparability, findings are inconsistent. Evidence is needed regarding whether current measures are comparable or need modifications to meet universality assumptions, and we need to determine the best methods for evaluating this. We recommend coordinated efforts to develop guidelines for assessing measurement adequacy across diverse subgroups, allocate resources for measurement studies in diverse populations, improve reporting of and access to measurement results by subgroups, and develop strategies for optimizing the universality of HRQOL measures and resolving inadequacies. CONCLUSIONS: We advocate culturally sensitive research that involves cultural subgroups throughout the research process. Because examining the cultural equivalence of HRQOL measures within the United States is somewhat new, we have a unique opportunity to shape the direction of this work through development and dissemination of appropriate methods.},
affiliation = {University of California San Francisco, Institute for Health and Aging, 94143-0646, USA. anitast@itsa.ucsf.edu},
number = {9 Suppl},
pages = {II102--24},
volume = {38},
year = {2000},
month = {Sep},
language = {eng},
keywords = {Research Design, Psychometrics, Awareness, Outcome Assessment (Health Care), Ethnic Groups, Cultural Diversity, Humans, Health Status Indicators, Cross-Cultural Comparison, United States, Quality of Life, Self Assessment (Psychology), Treatment Outcome, Questionnaires},
date-added = {2010-05-11 22:49:05 +0200},
date-modified = {2010-07-29 19:39:29 +0200},
pmid = {10982096},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11650},
rating = {0}
}
@article{Williams:1991p12809,
author = {S M Williams},
journal = {Neuropsychology},
title = {Handedness Inventories: Edinburgh Versus Annett},
abstract = {Two handedness inventories were compared. The Edin- burgh Handedness Inventory yielded more either-hand and fewer left-hand responses than does the Annett questionnaire. Both ques- tionnaires showed high internal consistency. Ear preference in tele- phone usage seemed to be related more to bimanual coordination than to hemispheric asymmetry for speech. No sex difference was found in the incidence of left-handedness.},
number = {1},
pages = {43--48},
volume = {5},
year = {1991},
date-added = {2010-06-21 19:56:14 +0200},
date-modified = {2010-06-21 19:56:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Williams-1991-Neuropsychology_Handedness%20Inventori.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12809},
rating = {0}
}
@article{Bernhard:1998p5993,
author = {J Bernhard and D F Cella and A S Coates and L Fallowfield and P A Ganz and C M Moinpour and P Mosconi and D Osoba and J Simes and C H{\"u}rny},
journal = {Stat Med},
title = {Missing quality of life data in cancer clinical trials: serious problems and challenges},
abstract = {Measurement of quality of life (QOL) in cancer clinical trials has increased in recent years as more groups realize the importance of such endpoints. A key problem has been missing data. Some QOL data may unavoidably be missing, as for example when patients are too ill to complete forms. Other important sources are potentially avoidable and can broadly be divided into three categories: (i) methodological factors; (ii) logistic and administrative factors; (iii) patient-related factors. Logistic and administrative factors, for example, staff oversights, have proven to be most important. Since most QOL measurements require patient self-report, it is usually not possible to rectify the failure to collect baseline data or any follow-up assessments. There is strong evidence that such data are not 'missing at random', and cannot be ignored without introducing bias. Although several approaches to the analysis of partly missing data have been described, none is entirely satisfactory. Prevention of avoidable missing data is better than attempted cure. In July 1996, an international conference on missing QOL data in cancer clinical trials reported the experience of most major groups involved. This paper will serve as an introduction to the problem and provide an estimation of its magnitude, and approaches to its prevention and solution.},
affiliation = {SIAK Coordinating Center, Bern, Switzerland. jbernhard@sakk.ch},
number = {5-7},
pages = {517--32},
volume = {17},
year = {1998},
month = {Jan},
language = {eng},
keywords = {Humans, Bias (Epidemiology), Quality of Life, Neoplasms, Research Design, Clinical Trials as Topic, Data Collection},
date-added = {2010-02-18 23:31:43 +0100},
date-modified = {2010-02-18 23:31:44 +0100},
pii = {10.1002/(SICI)1097-0258(19980315/15)17:5/7<517::AID-SIM799>3.0.CO;2-S},
pmid = {9549801},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Bernhard-1998-Stat%20Med_Missing%20quality%20of%20l.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5993},
rating = {0}
}
@article{Furlanello2003,
author = {C Furlanello and M Serafini and S Merler and G Jurman},
journal = {Neural Netw},
title = {An accelerated procedure for recursive feature ranking on microarray data},
pages = {641--648},
volume = {16},
year = {2003},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-07-29 19:41:07 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2509},
rating = {0}
}
@article{Rand:2010p14047,
author = {Debbie Rand and Janice J Eng and Pei-Fang Tang and Chihya Hung and Jiann-Shing Jeng},
journal = {Health Qual Life Outcomes},
title = {Daily physical activity and its contribution to the health-related quality of life of ambulatory individuals with chronic stroke},
abstract = {ABSTRACT: BACKGROUND: Participation in daily physical activity (PA) post-stroke has not previously been investigated as a possible explanatory variable of health-related quality of life (HRQL). The aims were 1) to determine the contribution of daily PA to the HRQL of individuals with chronic stroke and 2) to assess the relationship between the functional ability of these individuals to the amount of daily PA. METHODS: The amount of daily PA of forty adults with chronic stroke (mean age 66.5+/-9.6 years) was monitored using two measures. Accelerometers (Actical) were worn on the hip for three consecutive days in conjunction with a self-report questionnaire [the Physical Activity Scale for Individuals with Physical Disabilities (PASIPD)]. The daily physical activity was measured as the mean total accelerometer activity counts/day and the PASIPD scores as the metabolic equivalent (MET) hr/day. HRQL was assessed by the Physical and Mental composite scores of the Medical Outcomes Study Short-Form 36 (SF-36) in addition to the functional ability of the participants. Correlation and regression analyses were performed. RESULTS: After controlling for the severity of the motor impairment, the amount of daily PA, as assessed by the PASIPD and accelerometers, was found to independently contribute to 10-12% of the variance of the Physical Composite Score of the SF-36. No significant relationship was found between PA and the Mental Composite Score of the SF-36. The functional ability of the participants was found to be correlated to the amount of daily PA (r= 0.33- 0.67, p<0.01). CONCLUSION: The results suggest that daily PA is associated with better HRQL (as assessed by the Physical composite score of the SF-36) for people living with stroke. Daily PA should be encouraged to potentially increase HRQL. Accelerometers in conjunction with a self-report questionnaire may provide important measures of PA which can be monitored and modified, and potentially influence HRQL.},
number = {1},
pages = {80},
volume = {8},
year = {2010},
month = {Aug},
language = {ENG},
date-added = {2010-08-10 12:44:12 +0200},
date-modified = {2010-08-10 12:44:12 +0200},
doi = {10.1186/1477-7525-8-80},
pii = {1477-7525-8-80},
pmid = {20682071},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Rand-2010-Health%20Qual%20Life%20Outcomes_Daily%20physical%20activ.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14047},
rating = {0}
}
@article{Ayers:2008p2426,
author = {E Ayers and B Junker},
journal = {Educational and Psychological Measurement},
title = {IRT Modeling of Tutor Performance To Predict End-of-year Exam Scores},
abstract = {Interest in end-of-year accountability exams has increased dramatically since the passing of the NCLB law in 2001. With this increased interest comes a desire to use student data collected throughout the year to estimate student proficiency and predict how well they will perform on end-of-year exams. In this paper we use student performance on the Assistment System, an on-line mathematics tutor, to show that replacing percent correct with an Item Response Theory (IRT) estimate of student proficiency leads to better fitting prediction models. In addition, other tutor performance metrics are used to further increase prediction accuracy. Finally we calculate prediction error bounds to attain an absolute measure to which our models can be compared.},
number = {6},
pages = {972--987},
volume = {68},
year = {2008},
keywords = {item response theory, Bayesian inference, intelligent tutoring systems, reliability, Cognitive modeling},
date-added = {2010-01-11 23:27:10 +0100},
date-modified = {2010-01-11 23:29:20 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ayers-2008-Educational%20and%20Psychological%20Measurement_IRT%20Modeling%20of%20Tuto.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2426},
rating = {0}
}
@article{Gosso:2006p10474,
author = {M F Gosso and M van Belzen and E J C de Geus and J C Polderman and P Heutink and Dorret I Boomsma and D Posthuma},
journal = {Genes Brain Behav},
title = {Association between the CHRM2 gene and intelligence in a sample of 304 Dutch families},
abstract = {The CHRM2 gene is thought to be involved in neuronal excitability, synaptic plasticity and feedback regulation of acetylcholine release and has previously been implicated in higher cognitive processing. In a sample of 667 individuals from 304 families, we genotyped three single-nucleotide polymorphisms (SNPs) in the CHRM2 gene on 7q31-35. From all individuals, standardized intelligence measures were available. Using a test of within-family association, which controls for the possible effects of population stratification, a highly significant association was found between the CHRM2 gene and intelligence. The strongest association was between rs324650 and performance IQ (PIQ), where the T allele was associated with an increase of 4.6 PIQ points. In parallel with a large family-based association, we observed an attenuated - although still significant - population-based association, illustrating that population stratification may decrease our chances of detecting allele-trait associations. Such a mechanism has been predicted earlier, and this article is one of the first to empirically show that family-based association methods are not only needed to guard against false positives, but are also invaluable in guarding against false negatives.},
affiliation = {Department of Biological Psychology, Vrije Universiteit, Amsterdam, the Netherlands. mf.gosso@vumc.nl},
number = {8},
pages = {577--84},
volume = {5},
year = {2006},
month = {Nov},
language = {eng},
keywords = {Polymorphism: Single Nucleotide, Middle Aged, Twins: Monozygotic, Pedigree, Child, Receptor: Muscarinic M2, Male, Chromosomes: Human: Pair 7, Adolescent, Intelligence, Humans, Genetic Variation, Genetics: Population, Female, Adult, Netherlands, Twins: Dizygotic},
date-added = {2010-04-07 11:08:24 +0200},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1111/j.1601-183X.2006.00211.x},
pii = {GBB211},
pmid = {17081262},
url = {http://www3.interscience.wiley.com/journal/118618277/abstract},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gosso-2006-Genes%20Brain%20Behav_Association%20between.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10474},
rating = {0}
}
@article{Meulman:2010p4021,
author = {J J Meulman},
title = {Optimal scaling methods for multivariate categorical data analysis},
date-added = {2010-01-18 15:44:45 +0100},
date-modified = {2010-01-18 15:45:27 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Meulman--_Optimal%20scaling%20meth.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4021},
rating = {0}
}
@article{Berge:2009p5486,
author = {Jerica M Berge and Melanie Wall and Katherine W Bauer and Dianne Neumark-Sztainer},
journal = {Obesity (Silver Spring)},
title = {Parenting Characteristics in the Home Environment and Adolescent Overweight: A Latent Class Analysis},
abstract = {Parenting style and parental support and modeling of physical activity and healthy dietary intake have been linked to youth weight status, although findings have been inconsistent across studies. Furthermore, little is known about how these factors co-occur, and the influence of the coexistence of these factors on adolescents' weight. This article examines the relationship between the co-occurrence of various parenting characteristics and adolescents' weight status. Data are from Project EAT (eating among teens), a population-based study of 4,746 diverse adolescents. Theoretical and latent class groupings of parenting styles and parenting practices were created. Regression analyses examined the relationship between the created variables and adolescents' BMI. Having an authoritarian mother was associated with higher BMI in sons. The co-occurrence of an authoritarian mother and neglectful father was associated with higher BMI for sons. Daughters' whose fathers did not model or encourage healthy behaviors reported higher BMIs. The co-occurrence of neither parent modeling healthy behaviors was associated with higher BMIs for sons, and incongruent parental modeling and encouraging of healthy behaviors was associated with higher BMIs in daughters. Although, further research into the complex dynamics of the home environment is needed, findings indicate that authoritarian parenting style is associated with higher adolescent weight status and incongruent parenting styles and practices between mothers and fathers are associated with higher adolescent weight status.},
affiliation = {Department of Family Medicine and Community Health, University of Minnesota Medical School, Minneapolis, Minnesota, USA.},
pages = {},
year = {2009},
month = {Oct},
language = {ENG},
date-added = {2010-02-12 14:43:35 +0100},
date-modified = {2010-02-12 14:43:35 +0100},
doi = {10.1038/oby.2009.324},
pii = {oby2009324},
pmid = {19816417},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5486},
rating = {0}
}
@article{Brookes1999,
author = {A J Brookes},
journal = {Gene},
title = {The essense of SNPs},
pages = {177--186},
volume = {234},
year = {1999},
date-added = {2010-01-12 14:26:46 +0100},
date-modified = {2010-01-12 14:26:52 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2550},
rating = {0}
}
@article{Goldsmith:2010p10903,
author = {J Goldsmith},
title = {Probability for linguists},
abstract = {This paper offers a gentle introduction to probability for linguists, as- suming little or no background beyond what one learns in high school. The most important points that we emphasize are: the conceptual difference between probability and frequency, the use of maximizing probability of an observation by considering different models, and Kullback-Leibler divergence.
Nous offrons une introduction ́el ́ementaire `a la th ́eorie des probabilit ́es pour les linguistes. En tirant nos exemples de domaines linguistiques, nous essayons de mettre en valeur l'utilit ́e de comprendre la diff ́erence entre les probabilit ́es et les fr ́equences, l' ́evaluation des analyses linguistiques par la calculation de la probabilit ́e quelles assignent aux donn ́ees observ ́ees, et la divergence Kullback-Leibler.},
date-added = {2010-04-11 13:49:20 +0200},
date-modified = {2010-04-11 13:50:05 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Goldsmith--_Probability%20for%20ling.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10903},
rating = {4}
}
@article{Walsh:2004p3612,
author = {B Walsh},
title = {Markov Chain Monte Carlo and Gibbs Sampling},
year = {2004},
date-added = {2010-01-16 18:29:39 +0100},
date-modified = {2010-01-16 18:30:06 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Walsh-2004-_Markov%20Chain%20Monte%20C.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3612},
rating = {0}
}
@article{Gladis:1999p5422,
author = {M M Gladis and E A Gosch and N M Dishuk and P Crits-Christoph},
journal = {Journal of Consulting and Clinical Psychology},
title = {Quality of life: expanding the scope of clinical significance},
abstract = {Clinical researchers have turned their attention to quality of life assessment as a means of broadening the evaluation of treatment outcomes. This article examines conceptual and methodological issues related to the use of quality of life measures in mental health. These include the lack of a good operational definition of the construct, the use of subjective versus objective quality of life indicators, and the nature of the relationship between symptoms and quality of life judgments. Of special concern is the ability of quality of life measures to detect treatment-related changes. The authors review the application of quality of life assessment across diverse patient groups and therapies and provide recommendations for developing comprehensive, psychometrically sophisticated quality of life measures.},
affiliation = {Department of Psychiatry, University of Pennsylvania, Philadelphia 19104, USA. gladisl@landru.cpr.upenn.edu},
number = {3},
pages = {320--31},
volume = {67},
year = {1999},
month = {Jun},
language = {eng},
keywords = {Outcome Assessment (Health Care), Humans, Psychotherapy, Psychometrics, Quality of Life},
date-added = {2010-02-11 10:38:03 +0100},
date-modified = {2010-02-11 10:38:03 +0100},
pmid = {10369052},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5422},
rating = {0}
}
@article{Olweus:1997,
author = {D Olweus},
journal = {European Journal of Psychology of Education},
title = {Bully/Victim problems within school; facts and intervention},
abstract = {Les probl{\`e}mes de brutalit{\'e} entre enfants et jeunes {\`a} l'{\'e}cole sont particuli{\`e}rement pr{\'e}occupants dans les pays Scandinaves et, de plus en plus, dans d'autres pays {\'e}galement. Des larges enqu{\^e}tes r{\'e}alis{\'e}es par l'auteur, il ressort que du premier au neuvi{\`e}me grade, pr{\`e}s de 9% des {\'e}l{\`e}ves sont tr{\`e}s r{\'e}guli{\`e}rement victimes de brutalit{\'e}s et que 6-7% des {\'e}l{\`e}ves en agressent d' autres r{\'e}guli{\`e}rement. En d{\'e}mocratie, c'est un droit fondamental des enfants que d'{\^e}tre prot{\'e}g{\'e}s contre l'oppression et les humiliations r{\'e}p{\'e}t{\'e}es impliqu{\'e}es par ces pratiques. L'auteur a mis au point un programme d'intervention scolaire contre les brutalit{\'e}s, dont les effets ont {\'e}t{\'e} {\'e}valu{\'e}s dans 42 {\'e}coles pendant deux ans. Les r{\'e}sultats montrent que la fr{\'e}quence des probl{\`e}mes de violence a diminu{\'e} de 50-70%. En outre, l'importance des comportements antisociaux en g{\'e}n{\'e}ral, tels que le vandalisme, le vol, l'alcoolisme et les absences non autoris{\'e}es, a notablement diminu{\'e}. Les principaux contenus du programme et ses principes-cl{\'e}s sont pr{\'e}sent{\'e}s. L'objectif primordial du programme peut {\^e}tre d{\'e}crit comme une restructuration de l'environnement social. Le programme met l'accent sur les comportements et les attitudes caract{\'e}ris{\'e}s par l'association d'engagements positifs des enseignants et des parents, des limites strictes aux comportements inacceptables (nous n'acceptons pas la brutalit{\'e} dans notre classe/{\'e}cole), et l'utilisation coh{\'e}rente de sanctions elles-m{\^e}mes non brutales en cas de violation des r{\`e}gles. Les r{\'e}sultats positifs obtenus sont mis sur le compte de changements structuraux relatifs aux occasions et aux b{\'e}n{\'e}fices des comportements de brutalit{\'e}.},
pages = {495--510},
volume = {12},
year = {1997},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-07-29 19:26:41 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1045},
rating = {0}
}
@article{Kendler:2007p2901,
author = {Kenneth S Kendler and John Myers and Carol A Prescott},
journal = {Arch Gen Psychiatry},
title = {Specificity of genetic and environmental risk factors for symptoms of cannabis, cocaine, alcohol, caffeine, and nicotine dependence},
abstract = {CONTEXT: Although genetic risk factors have been found to contribute to dependence on both licit and illicit psychoactive substances, we know little of how these risk factors interrelate. OBJECTIVE: To clarify the structure of genetic and environmental risk factors for symptoms of dependence on cannabis, cocaine, alcohol, caffeine, and nicotine in males and females. DESIGN: Lifetime history by structured clinical interview. SETTING: General community. PARTICIPANTS: Four thousand eight hundred sixty-five members of male-male and female-female pairs from the Virginia Adult Twin Study of Psychiatric and Substance Use Disorders. Main Outcome Measure Lifetime symptoms of abuse of and dependence on cannabis, cocaine, alcohol, caffeine, and nicotine. RESULTS: Controlling for greater symptom prevalence in males, genetic and environmental parameters could be equated across sexes. Two models explained the data well. The best-fit exploratory model contained 2 genetic factors and 1 individual environmental factor contributing to all substances. The first genetic factor loaded strongly on cocaine and cannabis dependence; the second, on alcohol and nicotine dependence. Nicotine and caffeine had high substance-specific genetic effects. A confirmatory model, which also fit well, contained 1 illicit drug genetic factor--loading only on cannabis and cocaine--and 1 licit drug genetic factor loading on alcohol, caffeine, and nicotine. However, these factors were highly intercorrelated (r = + 0.82). Large substance-specific genetic effects remained for nicotine and caffeine. CONCLUSIONS: The pattern of genetic and environmental risk factors for psychoactive substance dependence was similar in males and females. Genetic risk factors for dependence on common psychoactive substances cannot be explained by a single factor. Rather, 2 genetic factors-one predisposing largely to illicit drug dependence, the other primarily to licit drug dependence-are needed. Furthermore, a large proportion of the genetic influences on nicotine and particularly caffeine dependence appear to be specific to those substances.},
affiliation = {Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University Medical School, Richmond, VA 23298-0126, USA. kendler@vcu.edu},
number = {11},
pages = {1313--20},
volume = {64},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Sex Factors, Female, Substance-Related Disorders, Virginia, Adult, Environment, Genetic Predisposition to Disease, Cross-Sectional Studies, Male, Humans, Risk Factors},
date-added = {2010-01-13 15:00:39 +0100},
date-modified = {2010-01-13 15:00:39 +0100},
doi = {10.1001/archpsyc.64.11.1313},
pii = {64/11/1313},
pmid = {17984400},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2901},
rating = {0}
}
@article{Allen:2003p8759,
author = {P Finbarr Allen},
journal = {Health Qual Life Outcomes},
title = {Assessment of oral health related quality of life},
abstract = {In Dentistry, as in other branches of Medicine, it has been recognised that objective measures of disease provide little insight into the impact of oral disorders on daily living and quality of life. A significant body of development work has been undertaken to provide health status measures for use as outcome measures in dentistry. In descriptive population studies, poor oral health related quality of life is associated with tooth loss. There is a less extensive literature of longitudinal clinical trials, and measurement of change and interpretation of change scores continues to pose a challenge. This paper reviews the literature regarding the development and use of these oral health related QoL measures and includes an appraisal of future research needs in this area.},
affiliation = {Department of Restorative Dentistry, University Dental School {\&} Hospital, Wilton, Cork, Ireland. f.allen@ucc.ie},
pages = {40},
volume = {1},
year = {2003},
month = {Jan},
language = {eng},
keywords = {Quality Indicators: Health Care, Quality of Life, Health Status, Oral Health, Outcome Assessment (Health Care), Health Services Research, Humans, Questionnaires},
date-added = {2010-03-22 12:06:04 +0100},
date-modified = {2010-03-22 12:06:04 +0100},
doi = {10.1186/1477-7525-1-40},
pii = {1477-7525-1-40},
pmid = {14514355},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Allen-2003-Health%20and%20Quality%20of%20Life%20Outcomes_Assessment%20of%20oral%20h.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p8759},
rating = {0}
}
@article{Sellke:2001p7070,
author = {T Sellke and M J Bayarri and J O Berger},
journal = {The American Statistician},
title = {Calibration of p Values for Testing Precise Null Hypotheses},
number = {1},
pages = {62--71},
volume = {55},
year = {2001},
date-added = {2010-03-06 20:12:52 +0100},
date-modified = {2010-07-29 19:51:39 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sellke-2001-The%20American%20Statistician_Calibration%20of%20p%20Val.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7070},
rating = {3}
}
@article{Pocock:1987p3998,
author = {S J Pocock and M D Hughes and R J Lee},
journal = {N Engl J Med},
title = {Statistical problems in the reporting of clinical trials. A survey of three medical journals},
abstract = {Reports of clinical trials often contain a wealth of data comparing treatments. This can lead to problems in interpretation, particularly when significance testing is used extensively. We examined 45 reports of comparative trials published in the British Medical Journal, the Lancet, or the New England Journal of Medicine to illustrate these statistical problems. The issues we considered included the analysis of multiple end points, the analysis of repeated measurements over time, subgroup analyses, trials of multiple treatments, and the overall number of significance tests in a trial report. Interpretation of large amounts of data is complicated by the common failure to specify in advance the intended size of a trial or statistical stopping rules for interim analyses. In addition, summaries or abstracts of trials tend to emphasize the more statistically significant end points. Overall, the reporting of clinical trials appears to be biased toward an exaggeration of treatment differences. Trials should have a clearer predefined policy for data analysis and reporting. In particular, a limited number of primary treatment comparisons should be specified in advance. The overuse of arbitrary significance levels (for example, P less than 0.05) is detrimental to good scientific reporting, and more emphasis should be given to the magnitude of treatment differences and to estimation methods such as confidence intervals.},
number = {7},
pages = {426--32},
volume = {317},
year = {1987},
month = {Aug},
language = {eng},
keywords = {Research Design, Clinical Trials as Topic, Statistics as Topic, Periodicals as Topic},
date-added = {2010-01-17 23:24:42 +0100},
date-modified = {2010-07-29 19:53:14 +0200},
pmid = {3614286},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3998},
rating = {0}
}
@article{Illig:2010p4889,
author = {Thomas Illig and Christian Gieger and Guangju Zhai and Werner R{\"o}misch-Margl and Rui Wang-Sattler and Cornelia Prehn and Elisabeth Altmaier and Gabi Kastenm{\"u}ller and Bernet S Kato and Hans-Werner Mewes and Thomas Meitinger and Martin Hrab{\'e} de Angelis and Florian Kronenberg and Nicole Soranzo and H-Erich Wichmann and Tim D Spector and Jerzy Adamski and Karsten Suhre},
journal = {Nat Genet},
title = {A genome-wide perspective of genetic variation in human metabolism},
abstract = {Serum metabolite concentrations provide a direct readout of biological processes in the human body, and they are associated with disorders such as cardiovascular and metabolic diseases. We present a genome-wide association study (GWAS) of 163 metabolic traits measured in human blood from 1,809 participants from the KORA population, with replication in 422 participants of the TwinsUK cohort. For eight out of nine replicated loci (FADS1, ELOVL2, ACADS, ACADM, ACADL, SPTLC3, ETFDH and SLC16A9), the genetic variant is located in or near genes encoding enzymes or solute carriers whose functions match the associating metabolic traits. In our study, the use of metabolite concentration ratios as proxies for enzymatic reaction rates reduced the variance and yielded robust statistical associations with P values ranging from 3 x 10(-24) to 6.5 x 10(-179). These loci explained 5.6%-36.3% of the observed variance in metabolite concentrations. For several loci, associations with clinically relevant parameters have been reported previously.},
affiliation = {Institute of Epidemiology, Helmholtz Zentrum M{\"u}nchen, German Research Center for Environmental Health, Neuherberg, Germany.},
number = {2},
pages = {137--41},
volume = {42},
year = {2010},
month = {Feb},
language = {eng},
date-added = {2010-02-02 11:25:42 +0100},
date-modified = {2010-02-02 11:25:42 +0100},
doi = {10.1038/ng.507},
pii = {ng.507},
pmid = {20037589},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Illig-2010-Nat%20Genet_A%20genome-wide%20perspe.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4889},
read = {Yes},
rating = {0}
}
@article{Rutter:1999p5940,
author = {M Rutter and J Silberg and T O'Connor and E Simonoff},
journal = {J Child Psychol Psychiatry},
title = {Genetics and child psychiatry: I Advances in quantitative and molecular genetics},
abstract = {Advances in quantitative psychiatric genetics as a whole are reviewed with respect to conceptual and methodological issues in relation to statistical model fitting, new genetic designs, twin and adoptee studies, definition of the phenotype, pervasiveness of genetic influences, pervasiveness of environmental influences, shared and nonshared environmental effects, and nature-nurture interplay. Advances in molecular genetics are discussed in relation to the shifts in research strategies to investigate multifactorial disorders (affected relative linkage designs, association strategies, and quantitative trait loci studies); new techniques and identified genetic mechanisms (expansion of trinucleotide repeats, genomic imprinting, mitochondrial DNA, fluorescent in-situ hybridisation, behavioural phenotypes, and animal models); and the successful localisation of genes.},
affiliation = {Institute of Psychiatry, London, UK.},
number = {1},
pages = {3--18},
volume = {40},
year = {1999},
month = {Jan},
language = {eng},
keywords = {Humans, Child: Preschool, Adolescent, Epidemiologic Methods, Child Psychiatry, Socioeconomic Factors, Genetics: Medical, Research Design, Models: Statistical, Adoption, Genetic Predisposition to Disease, Molecular Biology, Twin Studies as Topic, Mental Disorders, Male, Child, Social Environment, Female, Genetic Techniques},
date-added = {2010-02-18 23:16:32 +0100},
date-modified = {2010-07-29 19:32:47 +0200},
pmid = {10102724},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5940},
rating = {0}
}
@article{Chou:2009p9772,
author = {Yi-Yu Chou and Natasha Lepor{\'e} and Ming-Chang Chiang and Christina Avedissian and Marina Barysheva and Katie L McMahon and Greig I de Zubicaray and Matthew Meredith and Margaret J Wright and Arthur W Toga and Paul M Thompson},
journal = {Neuroimage},
title = {Mapping genetic influences on ventricular structure in twins},
abstract = {Despite substantial progress in measuring the anatomical and functional variability of the human brain, little is known about the genetic and environmental causes of these variations. Here we developed an automated system to visualize genetic and environmental effects on brain structure in large brain MRI databases. We applied our multi-template segmentation approach termed "Multi-Atlas Fluid Image Alignment" to fluidly propagate hand-labeled parameterized surface meshes, labeling the lateral ventricles, in 3D volumetric MRI scans of 76 identical (monozygotic, MZ) twins (38 pairs; mean age=24.6 (SD=1.7)); and 56 same-sex fraternal (dizygotic, DZ) twins (28 pairs; mean age=23.0 (SD=1.8)), scanned as part of a 5-year research study that will eventually study over 1000 subjects. Mesh surfaces were averaged within subjects to minimize segmentation error. We fitted quantitative genetic models at each of 30,000 surface points to measure the proportion of shape variance attributable to (1) genetic differences among subjects, (2) environmental influences unique to each individual, and (3) shared environmental effects. Surface-based statistical maps, derived from path analysis, revealed patterns of heritability, and their significance, in 3D. Path coefficients for the 'ACE' model that best fitted the data indicated significant contributions from genetic factors (A=7.3%), common environment (C=38.9%) and unique environment (E=53.8%) to lateral ventricular volume. Earlier-maturing occipital horn regions may also be more genetically influenced than later-maturing frontal regions. Maps visualized spatially-varying profiles of environmental versus genetic influences. The approach shows promise for automatically measuring gene-environment effects in large image databases.},
affiliation = {Department of Neurology, UCLA School of Medicine, Laboratory of Neuro Imaging, Los Angeles, CA 90095-7332, USA.},
number = {4},
pages = {1312--23},
volume = {44},
year = {2009},
month = {Feb},
language = {eng},
keywords = {Humans, Reproducibility of Results, Sensitivity and Specificity, Male, Twins, Cerebral Ventricles, Magnetic Resonance Imaging, Pilot Projects, Young Adult, Female},
date-added = {2010-03-26 19:18:13 +0100},
date-modified = {2010-03-26 19:18:13 +0100},
doi = {10.1016/j.neuroimage.2008.10.036},
pii = {S1053-8119(08)01152-X},
pmid = {19041405},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Chou-2009-Neuroimage_Mapping%20genetic%20infl.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9772},
rating = {0}
}
@article{Dahlman:2002p5299,
author = {Ingrid Dahlman and Iain A Eaves and Roman Kosoy and V Anne Morrison and Joanne Heward and Stephen C L Gough and Amit Allahabadia and Jayne A Franklyn and Jaakko Tuomilehto and Eva Tuomilehto-Wolf and Francesco Cucca and Cristian Guja and Constantin Ionescu-Tirgoviste and Helen Stevens and Philippa Carr and Sarah Nutland and Patricia McKinney and Julian P Shield and William Wang and Heather J Cordell and Neil Walker and John A Todd and Patrick Concannon},
journal = {Nat Genet},
title = {Parameters for reliable results in genetic association studies in common disease},
abstract = {It is increasingly apparent that the identification of true genetic associations in common multifactorial disease will require studies comprising thousands rather than the hundreds of individuals employed to date. Using 2,873 families, we were unable to confirm a recently published association of the interleukin 12B gene in 422 type I diabetic families. These results emphasize the need for large datasets, small P values and independent replication if results are to be reliable.},
affiliation = {JDRF/WT Diabetes and Inflammation Laboratory, Cambridge Institute for Medical Research, University of Cambridge, Wellcome Trust/MRC Building, Hills Road, Cambridge CB2 2XY, UK.},
number = {2},
pages = {149--50},
volume = {30},
year = {2002},
month = {Feb},
language = {eng},
keywords = {Genetics: Population, 3' Untranslated Regions, Databases: Genetic, Humans, Interleukin-12, Linkage Disequilibrium, Diabetes Mellitus: Type 1, Polymorphism: Single Nucleotide},
date-added = {2010-02-09 22:29:21 +0100},
date-modified = {2010-02-09 22:29:22 +0100},
doi = {10.1038/ng825},
pii = {ng825},
pmid = {11799396},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5299},
rating = {0}
}
@article{Raevuori:2007p10255,
author = {Anu Raevuori and Danielle M Dick and Anna Keski-Rahkonen and Lea Pulkkinen and Richard J Rose and Aila Rissanen and Jaakko Kaprio and Richard J Viken and Karri Silventoinen},
journal = {Psychol Med},
title = {Genetic and environmental factors affecting self-esteem from age 14 to 17: a longitudinal study of Finnish twins},
abstract = {BACKGROUND: We analysed genetic and environmental influences on self-esteem and its stability in adolescence. METHOD: Finnish twins born in 1983-1987 were assessed by questionnaire at ages 14 (n = 4132 twin individuals) and 17 years (n = 3841 twin individuals). Self-esteem was measured using the Rosenberg global self-esteem scale and analyzed using quantitative genetic methods for twin data in the Mx statistical package. RESULTS: The heritability of self-esteem was 0.62 [95% confidence interval (CI) 0.56-0.68] in 14-year-old boys and 0.40 (95% CI 0.26-0.54) in 14-year-old girls, while the corresponding estimates at age 17 were 0.48 (95% CI 0.39-0.56) and 0.29 (95% CI 0.11-0.45). Rosenberg self-esteem scores at ages 14 and 17 were modestly correlated (r = 0.44 in boys, r = 0.46 in girls). In boys, the correlation was mainly (82%) due to genetic factors, with residual co-variation due to unique environment. In girls, genetic (31%) and common environmental (61%) factors largely explained the correlation. CONCLUSIONS: In adolescence, self-esteem seems to be differently regulated in boys versus girls. A key challenge for future research is to identify environmental influences contributing to self-esteem during adolescence and determine how these factors interact with genetic influences.},
affiliation = {Department of Public Health, University of Helsinki, Finland. anu.raevuori@helsinki.fi},
number = {11},
pages = {1625--33},
volume = {37},
year = {2007},
month = {Nov},
language = {eng},
keywords = {Age Factors, Adolescent, Sex Factors, Female, Longitudinal Studies, Self Concept, Twins, Male, Personality Assessment, Adolescent Psychology, Questionnaires, Social Environment, Personality, Humans, Finland, Family},
date-added = {2010-04-02 10:59:06 +0200},
date-modified = {2010-04-02 10:59:06 +0200},
doi = {10.1017/S0033291707000840},
pii = {S0033291707000840},
pmid = {17537282},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Raevuori-2007-Psychol%20Med_Genetic%20and%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10255},
rating = {0}
}
@article{Verweij:2010p5661,
author = {K J Verweij and B P Zietsch and M T Lynskey and S E Medland and M C Neale and N G Martin and Dorret I Boomsma and J M Vink},
journal = {Addiction},
title = {Genetic and environmental influences on cannabis use initiation and problematic use: a meta-analysis of twin studies},
abstract = {Background Because cannabis use is associated with social, physical and psychological problems, it is important to know what causes some individuals to initiate cannabis use and a subset of those to become problematic users. Previous twin studies found evidence for both genetic and environmental influences on vulnerability, but due to considerable variation in the results it is difficult to draw clear conclusions regarding the relative magnitude of these influences. Methods A systematic literature search identified 28 twin studies on cannabis use initiation and 24 studies on problematic cannabis use. The proportion of total variance accounted for by genes (A), shared environment (C) and unshared environment (E) in (i) initiation of cannabis use and (ii) problematic cannabis use was calculated by averaging corresponding A, C and E estimates across studies from independent cohorts and weighting by sample size. Results For cannabis use initiation, A, C and E estimates were 48%, 25% and 27% in males and 40%, 39% and 21% in females. For problematic cannabis use A, C and E estimates were 51%, 20% and 29% for males and 59%, 15% and 26% for females. Confidence intervals of these estimates are considerably narrower than those in the source studies. Conclusions Our results indicate that vulnerability to both cannabis use initiation and problematic use was influ- enced significantly by A, C and E. There was a trend for a greater C and lesser A component for cannabis use initiation compared to problematic use for females.},
pages = {417--430},
volume = {105},
year = {2010},
date-added = {2010-02-12 20:23:59 +0100},
date-modified = {2010-07-29 20:25:51 +0200},
doi = {10.1111/j.1360-0443.2009.02831.x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Verweij-2010-Addiction_Genetic%20and%20environm.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p5661},
rating = {0}
}
@article{Salvadore:2009p4421,
author = {Giacomo Salvadore and Allison C Nugent and Guang Chen and Nirmala Akula and Peixiong Yuan and Dara M Cannon and Carlos A Zarate and Francis J McMahon and Husseini K Manji and Wayne C Drevets},
journal = {Biol Psychiatry},
title = {Bcl-2 polymorphism influences gray matter volume in the ventral striatum in healthy humans},
abstract = {BACKGROUND: Bcl-2 is a major regulator of neural plasticity and cellular resilience. A single nucleotide polymorphism (SNP) in the Bcl-2 gene, Bcl-2 rs956572, significantly modulates the expression of Bcl-2 protein and cellular vulnerability to apoptosis. We tested the hypothesis that this SNP would modulate gray matter (GM) volume in the limbic-cortical-striatal-pallidal-thalamic circuitry that plays major roles in mood regulation. METHODS: Forty-seven healthy subjects participated in this study (30 A carriers, 17 G homozygotes). Neuromorphometric differences between G homozygotes and A carriers were investigated using optimized voxel-based morphometry (VBM). Statistical significance was set at p < .05, corrected for multiple comparisons. RESULTS: A carriers showed less GM volume than G homozygotes in the left ventral striatum (p(corrected) < .05). CONCLUSIONS: Genetic variation in the Bcl-2 gene modulates GM volume in areas known to play key roles in the neurobiology of reward processes and emotion regulation and in the pathophysiology of mood disorders. Thus, the findings from the current study are noteworthy insofar as they converge with preclinical findings that Bcl-2 functions to enhance neuronal viability and might indirectly extend this evidence to humans.},
affiliation = {Mood and Anxiety Disorders Program, National Institute of Mental Health, Department of Health and Human Services, Bethesda, Maryland 20892, USA. salvadoreg@mail.nih.gov},
number = {8},
pages = {804--7},
volume = {66},
year = {2009},
month = {Oct},
language = {eng},
keywords = {Adult, Alleles, Brain, Genes: bcl-2, Brain Mapping, Neural Pathways, Female, Genotype, Male, Humans, Middle Aged, Magnetic Resonance Imaging, Polymorphism: Single Nucleotide, Basal Ganglia, Organ Size},
date-added = {2010-01-29 10:29:11 +0100},
date-modified = {2010-01-29 10:29:11 +0100},
doi = {10.1016/j.biopsych.2009.05.025},
pii = {S0006-3223(09)00643-X},
pmid = {19589501},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4421},
rating = {0}
}
@article{Thornberry:1987,
author = {O T Jr Thornberry},
journal = {Vital Health Stat 2},
title = {An experimental comparison of telephone and personal health interview surveys.},
affiliation = {US Department of Health and Human Services, Public Health Service, National Center for Health Statistics, Division of Health Interview Statistics, Hyattsville, Maryland 20782, USA.},
number = {106},
pages = {1--4},
year = {1987},
language = {eng},
date-added = {2010-01-03 19:34:18 +0100},
date-modified = {2010-01-03 19:34:18 +0100},
pmid = {15791749},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p967},
rating = {0}
}
@article{Anonymous:2010p4640,
title = {Reliability issues and evidence},
date-added = {2010-01-30 15:47:56 +0100},
date-modified = {2010-07-24 11:42:13 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Reliability%20issues%20a-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4640},
rating = {0}
}
@article{Stein:2010p12295,
author = {Jason L Stein and Xue Hua and Jonathan H Morra and Suh Lee and Derrek P Hibar and April J Ho and Alex D Leow and Arthur W Toga and Jae Hoon Sul and Hyun Min Kang and Eleazar Eskin and Andrew J Saykin and Li Shen and Tatiana Foroud and Nathan Pankratz and Matthew J Huentelman and David W Craig and Jill D Gerber and April N Allen and Jason J Corneveaux and Dietrich A Stephan and Jennifer Webster and Bryan M Dechairo and Steven G Potkin and Clifford R Jack and Michael W Weiner and Paul M Thompson and Alzheimer's Disease Neuroimaging Initiative},
journal = {Neuroimage},
title = {Genome-wide analysis reveals novel genes influencing temporal lobe structure with relevance to neurodegeneration in Alzheimer's disease},
abstract = {In a genome-wide association study of structural brain degeneration, we mapped the 3D profile of temporal lobe volume differences in 742 brain MRI scans of Alzheimer's disease patients, mildly impaired, and healthy elderly subjects. After searching 546,314 genomic markers, 2 single nucleotide polymorphisms (SNPs) were associated with bilateral temporal lobe volume (P<5 x 10(-7)). One SNP, rs10845840, is located in the GRIN2B gene which encodes the N-methyl-d-aspartate (NMDA) glutamate receptor NR2B subunit. This protein - involved in learning and memory, and excitotoxic cell death - has age-dependent prevalence in the synapse and is already a therapeutic target in Alzheimer's disease. Risk alleles for lower temporal lobe volume at this SNP were significantly over-represented in AD and MCI subjects vs. controls (odds ratio=1.273; P=0.039) and were associated with mini-mental state exam scores (MMSE; t=-2.114; P=0.035) demonstrating a negative effect on global cognitive function. Voxelwise maps of genetic association of this SNP with regional brain volumes, revealed intense temporal lobe effects (FDR correction at q=0.05; critical P=0.0257). This study uses large-scale brain mapping for gene discovery with implications for Alzheimer's disease.},
affiliation = {Laboratory of Neuro Imaging, Department of Neurology, UCLA School of Medicine, Neuroscience Research Building 225E, 635 Charles Young Drive, Los Angeles, CA 90095-1769, USA.},
number = {2},
pages = {542--54},
volume = {51},
year = {2010},
month = {Jun},
language = {eng},
date-added = {2010-06-09 20:16:08 +0200},
date-modified = {2010-06-09 20:16:12 +0200},
doi = {10.1016/j.neuroimage.2010.02.068},
pii = {S1053-8119(10)00255-7},
pmid = {20197096},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Stein-2010-Neuroimage_Genome-wide%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12295},
rating = {5}
}
@article{Steiger:1996p2429,
author = {J H Steiger},
journal = {Multivariate Behavioral Research},
title = {Coming full circle in the history of factor indeterminacy},
number = {4},
pages = {617--630},
volume = {31},
year = {1996},
date-added = {2010-01-11 23:31:54 +0100},
date-modified = {2010-01-11 23:33:00 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Steiger-1996-Multivariate%20Behavioral%20Research_Coming%20full%20circle%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2429},
rating = {0}
}
@article{Warnat:2005p13480,
author = {Patrick Warnat and Roland Eils and Benedikt Brors},
journal = {BMC Bioinformatics},
title = {Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes},
abstract = {BACKGROUND: The extensive use of DNA microarray technology in the characterization of the cell transcriptome is leading to an ever increasing amount of microarray data from cancer studies. Although similar questions for the same type of cancer are addressed in these different studies, a comparative analysis of their results is hampered by the use of heterogeneous microarray platforms and analysis methods. RESULTS: In contrast to a meta-analysis approach where results of different studies are combined on an interpretative level, we investigate here how to directly integrate raw microarray data from different studies for the purpose of supervised classification analysis. We use median rank scores and quantile discretization to derive numerically comparable measures of gene expression from different platforms. These transformed data are then used for training of classifiers based on support vector machines. We apply this approach to six publicly available cancer microarray gene expression data sets, which consist of three pairs of studies, each examining the same type of cancer, i.e. breast cancer, prostate cancer or acute myeloid leukemia. For each pair, one study was performed by means of cDNA microarrays and the other by means of oligonucleotide microarrays. In each pair, high classification accuracies (> 85%) were achieved with training and testing on data instances randomly chosen from both data sets in a cross-validation analysis. To exemplify the potential of this cross-platform classification analysis, we use two leukemia microarray data sets to show that important genes with regard to the biology of leukemia are selected in an integrated analysis, which are missed in either single-set analysis. CONCLUSION: Cross-platform classification of multiple cancer microarray data sets yields discriminative gene expression signatures that are found and validated on a large number of microarray samples, generated by different laboratories and microarray technologies. Predictive models generated by this approach are better validated than those generated on a single data set, while showing high predictive power and improved generalization performance.},
affiliation = {Department of Theoretical Bioinformatics, German Cancer Research Center, Im Neuenheimer Feld 280, D-69120 Heidelberg, Germany. p.warnat@dkfz.de},
pages = {265},
volume = {6},
year = {2005},
month = {Jan},
language = {eng},
keywords = {Prostatic Neoplasms, Animals, Male, Humans, Breast Neoplasms, Leukemia: Myeloid, Female, Oligonucleotide Array Sequence Analysis, Gene Expression Regulation: Neoplastic, Phenotype, Gene Expression Profiling},
date-added = {2010-07-01 20:43:43 +0200},
date-modified = {2010-07-01 20:43:44 +0200},
doi = {10.1186/1471-2105-6-265},
pii = {1471-2105-6-265},
pmid = {16271137},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Warnat-2005-BMC%20Bioinformatics_Cross-platform%20analy.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13480},
rating = {0}
}
@article{Hanson:2000p11298,
author = {B Hanson},
title = {IRT Parameter Estimation using the EM Algorithm},
year = {2000},
date-added = {2010-04-26 22:32:21 +0200},
date-modified = {2010-04-26 22:32:59 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hanson-2000-_IRT%20Parameter%20Estima.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11298},
rating = {0}
}
@article{Storey2003,
author = {J Storey},
journal = {The Annals of Statistics},
title = {The positive false discovery rate: A Bayesian interpretation and the {\$}q{\$}-value},
number = {6},
pages = {2013--2035},
volume = {31},
year = {2003},
date-added = {2010-01-12 14:26:51 +0100},
date-modified = {2010-07-29 19:51:51 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2514},
rating = {0}
}
@article{Davies:2005p14222,
author = {S L Davies and AA Neath and J E Cavanaugh},
title = {Cross validation model selection criteria for linear regression based on the Kullback-Leibler discrepancy},
year = {2005},
date-added = {2010-08-22 21:04:50 +0200},
date-modified = {2010-08-22 21:06:35 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Davies-2005-_Cross%20validation%20mod.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p14222},
rating = {0}
}
@techreport{Antonietti:2003b,
author = {J-P Antonietti},
journal = {Techreport},
title = {Designs de testage incomplets et mod{\`e}le non-param{\'e}trique de la r{\'e}ponse {\`a} l'item},
affiliation = {Institut de Math{\'e}matiques Appliqu{\'e}es},
year = {2003},
month = {Sep},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-07-29 20:42:07 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Antonietti-2003-Techreport_Designs%20de%20testage%20i.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2088},
rating = {0}
}
@article{Baayen:2008p2920,
author = {R H Baayen},
title = {Analyzing Linguistic Data A practical introduction to statistics},
year = {2008},
date-added = {2010-01-13 21:55:05 +0100},
date-modified = {2010-01-13 22:05:15 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Baayen-2008-_Analyzing%20Linguistic.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2920},
rating = {0}
}
@article{Dolan:2000p3194,
author = {C V Dolan},
journal = {Multivariate Behavioral Research},
title = {Investigating Spearman's Hypothesis by Means of Multi-Group Confirmatory Factor Analysis},
abstract = {Differences between blacks and whites on cognitive ability tests have been attributed to a fundamental difference between these groups in general intelligence (or g, as it is denoted). The hypothesized difference in g gives rise to Spearman's hypothesis, which states that the differences in the means of the tests are related to the tests' factor loadings on g. Jensen has investigated this hypothesis by correlating differences in means and tests' g loadings. The aim of the present article is to investigate B-W differences using multi-group confirmatory factor analysis. The advantages of multi-group confirmatory factor analysis over Jensen's test of Spearman's hypothesis are discussed.
A published data set is analyzed. Strict factorial invariance is tested and judged to be tenable. Various models are tested, which do and do not incorporate g. It is observed that it is difficult to distinguish between several hypotheses, including and excluding g, concerning group differences. The inability to distinguish between competing models using multi-group confirmatory factor analysis makes it difficult to draw clear conclusions about the exact nature of black-white differences in cognitive abilities. The implications of the results for Jensen's test of Spearman's hypothesis are discussed.},
affiliation = {University of Amsterdam},
number = {1},
pages = {21--50},
volume = {35},
year = {2000},
date-added = {2010-01-14 20:52:41 +0100},
date-modified = {2010-01-14 20:53:34 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Dolan-2000-Multivariate%20Behavioral%20Research_Investigating%20Spearm-1.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3194},
rating = {0}
}
@article{McMichael:2000,
author = {AJ McMichael and R Beaglehole},
journal = {Lancet},
title = {The changing global context of public health},
abstract = {Future health prospects depend increasingly on globalisation processes and on the impact of global environmental change. Economic globalisation--entailng deregulated trade and investment--is a mixed blessing for health. Economic growth and the dissemination of technologies have widely enhanced life expectancy. However, aspects of globalisation are jeopardising health by eroding social and environmental conditions, exacerbating the rich-poor gap, and disseminating consumerism. Global environmental changes reflect the growth of populations and the intensity of economic activity. These changes include altered composition of the atmosphere, land degradation, depletion of terrestrial aquifers and ocean fisheries, and loss of biodiversity. This weakening of life-supporting systems poses health risks. Contemporary public health must therefore encompass the interrelated tasks of reducing social and health inequalities and achieving health-sustaining environments.},
pages = {495--499},
volume = {356},
year = {2000},
date-added = {2010-01-03 19:36:09 +0100},
date-modified = {2010-01-03 19:36:10 +0100},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1068},
rating = {0}
}
@article{Gigenrenzer:2004p3607,
author = {G Gigenrenzer and S Krauss and O Vitouch},
title = {The Null Ritual What You Always Wanted to Know About Significance Testing but Were Afraid to Ask},
annote = {No scientific worker has a fixed level of significance at which from year to year, and in all circumstances, he rejects hypotheses; he rather gives his mind to each particular case in the light of his evidence and his ideas. (Ronald A. Fisher, 1956, p. 42)},
year = {2004},
date-added = {2010-01-15 22:01:16 +0100},
date-modified = {2010-01-15 22:03:02 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Gigenrenzer-2004-_The%20Null%20Ritual%20What.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p3607},
rating = {0}
}
@article{Greimel:2010p4423,
author = {Ellen Greimel and Martin Schulte-R{\"u}ther and Tilo Kircher and Inge Kamp-Becker and Helmut Remschmidt and Gereon R Fink and Beate Herpertz-Dahlmann and Kerstin Konrad},
journal = {Neuroimage},
title = {Neural mechanisms of empathy in adolescents with autism spectrum disorder and their fathers},
abstract = {A deficit in empathy has been repeatedly described in individuals with autism spectrum disorder (ASD) and also, albeit less markedly, in their unaffected relatives. Here, we aimed to investigate the neural mechanisms of empathy in ASD, and to explore familial contributions to empathy correlates. Using functional magnetic resonance imaging, 15 boys with ASD, 11 fathers of adolescents with ASD, and two control groups comparable for age and IQ (n=15 typically developing boys and their fathers (n=9)) were investigated during an empathy task. Emotional faces were presented and participants were either asked to infer the emotional state from the face (other-task) or to judge their own emotional response to the face (self-task). When attributing emotions to self and other, the ASD group showed diminished fusiform gyrus activation compared to controls. Neural activity in the fusiform gyrus was inversely related to social deficits in ASD subjects. Moreover, when ASD subjects inferred their own emotional response to faces, they showed less congruent reactions and inferior frontal gyrus activity was decreased. Although fathers of ASD children scored higher on a self-rating scale for autistic symptoms compared to control fathers, their task performance was unimpaired. However, neurally, fathers of affected children also showed reduced fusiform gyrus activation when inferring others' emotions. Shared abnormalities in fusiform gyrus activation in affected adolescents and first-degree relatives suggest that this dysfunction constitutes a fundamental deviation in ASD. Moreover, the findings provide evidence that both aberrant neural face and mirroring mechanisms are implicated in empathy impairments in ASD.},
affiliation = {Child Neuropsychology Section, Department of Child and Adolescent Psychiatry and Psychotherapy, University Hospital of the RWTH Aachen, Neuenhofer Weg 21, Germany. egreimel@ukaachen.de},
number = {1},
pages = {1055--65},
volume = {49},
year = {2010},
month = {Jan},
language = {eng},
keywords = {Behavior, Adolescent, Functional Laterality, Adult, Psychomotor Performance, Frontal Lobe, Executive Function, Neuropsychological Tests, Expressed Emotion, Data Interpretation: Statistical, Male, Humans, Photic Stimulation, Magnetic Resonance Imaging, Image Processing: Computer-Assisted, Autistic Disorder, Reaction Time, Empathy},
date-added = {2010-01-29 10:29:05 +0100},
date-modified = {2010-01-29 10:29:06 +0100},
doi = {10.1016/j.neuroimage.2009.07.057},
pii = {S1053-8119(09)00847-7},
pmid = {19647799},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4423},
rating = {0}
}
@article{Culhane:2002p11929,
author = {Aed{\'\i}n C Culhane and Guy Perri{\`e}re and Elizabeth C Considine and Thomas G Cotter and Desmond G Higgins},
journal = {Bioinformatics},
title = {Between-group analysis of microarray data},
abstract = {MOTIVATION: Most supervised classification methods are limited by the requirement for more cases than variables. In microarray data the number of variables (genes) far exceeds the number of cases (arrays), and thus filtering and pre-selection of genes is required. We describe the application of Between Group Analysis (BGA) to the analysis of microarray data. A feature of BGA is that it can be used when the number of variables (genes) exceeds the number of cases (arrays). BGA is based on carrying out an ordination of groups of samples, using a standard method such as Correspondence Analysis (COA), rather than an ordination of the individual microarray samples. As such, it can be viewed as a method of carrying out COA with grouped data. RESULTS: We illustrate the power of the method using two cancer data sets. In both cases, we can quickly and accurately classify test samples from any number of specified a priori groups and identify the genes which characterize these groups. We obtained very high rates of correct classification, as determined by jack-knife or validation experiments with training and test sets. The results are comparable to those from other methods in terms of accuracy but the power and flexibility of BGA make it an especially attractive method for the analysis of microarray cancer data.},
affiliation = {Department of Biochemistry, University College Cork, Cork, Ireland. A.Culhane@ucc.ie},
number = {12},
pages = {1600--8},
volume = {18},
year = {2002},
month = {Dec},
language = {eng},
keywords = {Gene Expression, Gene Expression Regulation, Sensitivity and Specificity, Precursor Cell Lymphoblastic Leukemia-Lymphoma, Bone Neoplasms, Gene Expression Profiling, Transcription: Genetic, Models: Genetic, Oligonucleotide Array Sequence Analysis, Cluster Analysis, Leukemia: Myeloid: Acute, Models: Statistical, Reproducibility of Results, Software, Quality Control, Humans, Algorithms},
date-added = {2010-05-23 16:44:33 +0200},
date-modified = {2010-05-23 16:44:33 +0200},
pmid = {12490444},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Culhane-2002-Bioinformatics_Between-group%20analys.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11929},
rating = {0}
}
@article{Glynn:2010p12850,
author = {A N Glynn and J Wakefield},
journal = {Statistical Methodology},
title = {Ecological inference in the social sciences},
abstract = {Ecological inference is a problem of partial identification, and therefore precise conclusions are rarely possible without the col- lection of individual level (identifying) data. Without such data, sensitivity analyses provide the only recourse. In this paper we re- view and critique recent approaches to ecological inference in the social sciences, and describe in detail hierarchical models, which allow both sensitivity analysis and the incorporation of individual level data into an ecological analysis. A crucial element of a sensi- tivity analysis in such models is prior specification, and we detail how this may be carried out. Furthermore, we demonstrate how the inclusion of a small amount of individual level data from a small number of ecological areas can dramatically improve the properties of such estimates.},
pages = {307--322},
volume = {7},
year = {2010},
date-added = {2010-06-21 20:14:42 +0200},
date-modified = {2010-07-29 20:06:22 +0200},
doi = {10.1016/j.stamet.2009.09.003},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Glynn-2010-Statistical%20Methodology_Ecological%20inference.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12850},
rating = {0}
}
@article{Teresi:2006p11935,
author = {J A Teresi and A L Stewart and L S Morales and S M Stahl},
journal = {Med Care},
title = {Measurement in a Multi-Ethnic Society: Overview to the Special Issue},
number = {11},
pages = {S3--S4},
volume = {44},
year = {2006},
date-added = {2010-05-23 16:53:01 +0200},
date-modified = {2010-07-29 19:39:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Teresi-2006-Med%20Care_Measurement%20in%20a%20Mul.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11935},
rating = {4}
}
@article{Crane:2007p1825,
author = {Paul K Crane and Karynsa Cetin and Karon F Cook and Kurt Johnson and Richard Deyo and Dagmar Amtmann},
journal = {Qual Life Res},
title = {Differential item functioning impact in a modified version of the Roland-Morris Disability Questionnaire},
abstract = {OBJECTIVE: To evaluate a modified version of the Roland-Morris Disability Questionnaire for differential item functioning (DIF) related to several covariates. BACKGROUND: DIF occurs in an item when, after controlling for the underlying trait measured by the test, the probability of endorsing the item varies across groups. METHODS: Secondary data analysis of two studies of participants with back pain (total n = 875). We used a hybrid item response theory/ logistic regression approach for detecting DIF. We obtained scores that accounted for DIF. We evaluated the impact of DIF on individual and group scores, and compared scores that ignored or accounted for DIF in terms of the strength of association with SF-36 subscale scores. RESULTS: DIF was found in 18/23 items. Salient scale-level differential functioning was found related to age, education, and employment. Overall 24 participants (3%) had salient scale-level differential functioning. Mean scores across demographic groups differed minimally when accounting for DIF. The strength of association of scores with SF-36 scores was similar for scores that ignored and scores that accounted for DIF. CONCLUSIONS: The modified version of the Roland-Morris Disability Questionnaire appears to have largely negligible DIF related to the covariates assessed here.},
affiliation = {Department of Medicine, University of Washington, Harborview Medical Center, 325 Ninth Avenue, Box 359780, Seattle, WA 98104, USA. pcrane@u.washington.edu},
number = {6},
pages = {981--90},
volume = {16},
year = {2007},
month = {Aug},
language = {eng},
keywords = {Adolescent, Back Pain, Adult, Factor Analysis: Statistical, Questionnaires, Prospective Studies, Female, Sickness Impact Profile, Discriminant Analysis, Middle Aged, Psychometrics, Randomized Controlled Trials as Topic, Activities of Daily Living, Quality of Life, Male, Logistic Models, Outcome Assessment (Health Care), Disability Evaluation, Socioeconomic Factors, Humans},
date-added = {2010-01-09 22:59:57 +0100},
date-modified = {2010-07-29 19:48:28 +0200},
doi = {10.1007/s11136-007-9200-x},
pmid = {17443419},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1825},
rating = {0}
}
@article{Neale:1994p901,
author = {M C Neale and L J Eaves and K S Kendler},
journal = {Behav Genet},
title = {The power of the classical twin study to resolve variation in threshold traits},
abstract = {We explore the power of the twin study to resolve sources of familial resemblance when the data are measured at the binary or ordinal level. Four components of variance were examined: additive genetic, nonadditive genetic, and common and specific environment. Curves are presented to compare the power of the continuous case with those of threshold models corresponding to different prevalences in the population: 1, 5, 10, 25, and 50%. Approximately three times the sample size is needed for equivalent power to the continuous case when the threshold is at the optimal 50%, and this ratio increases to about 10 times when 10% are above threshold. Some power may be recovered by subdividing those above threshold to form three or more ordered classes, but power is determined largely by the lowest threshold. Non-random ascertainment of twins (i) through affected twins and examining their cotwins or (ii) through ascertainment of all pairs in which at least one twin is affected increases power. In most cases, strategy i is more efficient than strategy ii. Though powerful for the rarer disorders, these methods suffer the disadvantage that they rely on prior knowledge of the population prevalence. Furthermore, sampling from hospital cases may introduce biases, reducing their value. A useful approach may be to assess the population with a screening instrument; the power calculations indicate that sampling all concordant and half of the discordant pairs would be efficient, as along as the cost of screening is not too high.},
affiliation = {Department of Psychiatry, Medical College of Virginia, Box 710, 23298-0710 Richmond, Virginia},
number = {3},
pages = {239--258},
volume = {24},
year = {1994},
keywords = {sampling, research design, threshold traits, ascertainment, Twin study, selection, variance power},
date-added = {2010-01-03 18:30:10 +0100},
date-modified = {2010-07-29 20:09:06 +0200},
doi = {10.1007/BF01067191},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Neale-1994-Behav%20Genet_The%20power%20of%20the%20cla.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p901},
rating = {0}
}
@article{Ruiz:2007p9563,
author = {Lidia Ruiz and Roger Paredes and Guadalupe G{\'o}mez and Joan Romeu and Pere Domingo and Nuria P{\'e}rez-Alvarez and Giuseppe Tambussi and Josep Maria Llibre and Javier Mart{\'\i}nez-Picado and Francesc Vidal and Carmina R Fumaz and Bonaventura Clotet and TIBET Study Group},
journal = {AIDS},
title = {Antiretroviral therapy interruption guided by CD4 cell counts and plasma HIV-1 RNA levels in chronically HIV-1-infected patients},
abstract = {OBJECTIVE: We evaluated the safety of CD4 cell count and plasma HIV-1 RNA (pVL)-guided treatment interruptions (GTI) and determined predictors of duration of treatment interruption. METHODS: Chronically HIV-1-infected adults with sustained CD4 cell counts > 500 cells/microl and pVL < 50 copies/ml were randomly assigned to either continue with standard antiretroviral therapy (control group, n = 101) or to interrupt therapy aimed at maintaining CD4 cell counts > 350 cells/microl and pVL < 100,000 copies/ml (GTI group, n = 100). Both groups were followed for 2 years. RESULTS: There were no AIDS-defining illnesses or deaths in either group. Compared to controls, subjects interrupting therapy reduced treatment exposure by 67%, but suffered significantly more adverse events related to the intake of medication or to therapy interruption [relative hazard, 2.71; 95% confidence interval (CI), 1.64-4.49; P < 0.001), mainly due to an excess in mononucleosis-like symptoms. While GTI subjects demonstrated improvements in the psychosocial spheres of quality of life and pain reporting, GTI had no effect on the physical aspects of quality of life. Although both groups had a similar hazard for developing CD4 cell count < 200 cells/microl; at least 10% of subjects on GTI had CD4 cell counts < 350 cells/microl at every time point. Drug resistance mutations were detected in 36% of subjects but were selected de novo only in subjects interrupting non-nucleoside reverse transcriptase inhibitor therapy. Lower CD4 cell count nadir, higher set-point pVL and prior exposure to suboptimal regimens were all independent predictors of the need to reinitiate treatment. CONCLUSIONS: Overall, GTI were not as safe as continuing therapy. Despite achieving some improvements in quality of life, GTI did not reduce the overall rate of management-related adverse events.},
affiliation = {Fundaci{\'o} IrsiCaixa and HIV Clinical Unit, Hospital Universitari Germans Trias i Pujol, Universitat Auton{\`o}ma de Barcelona, Badalona, Spain.},
number = {2},
pages = {169--78},
volume = {21},
year = {2007},
month = {Jan},
language = {eng},
keywords = {HIV Infections, Viral Load, Female, Quality of Life, Middle Aged, Epidemiologic Methods, Adult, RNA: Viral, Aged, Humans, Patient Compliance, Anti-HIV Agents, Antiretroviral Therapy: Highly Active, Drug Administration Schedule, CD4 Lymphocyte Count, HIV-1, Male, Disease Progression, Chronic Disease},
date-added = {2010-03-23 20:55:06 +0100},
date-modified = {2010-07-29 19:12:25 +0200},
doi = {10.1097/QAD.0b013e328011033a},
pii = {00002030-200701110-00006},
pmid = {17197807},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Ruiz-2007-AIDS_Antiretroviral%20thera.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p9563},
rating = {0}
}
@article{McMillan:2005p4645,
author = {G McMillan and T Hanson},
journal = {Journal of Statistical Software},
title = {SAS Macro BDM for Fitting the Dale Regression Model to Bivariate Ordinal Response Data},
abstract = {A SAS macro for fitting an extension of the Dale (1986) regression model to bivariate ordinal data is provided. The macro is described in detail and examples from Dale (1986) and McMillan, Hanson, Bedrick, and Lapham (2005) are discussed.},
number = {2},
volume = {14},
year = {2005},
date-added = {2010-01-30 15:55:52 +0100},
date-modified = {2010-01-30 15:56:30 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/McMillan-2005-Journal%20of%20Statistical%20Software_SAS%20Macro%20BDM%20for%20Fi.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4645},
rating = {0}
}
@article{Hung:2009p7758,
author = {H M James Hung and Sue-Jane Wang},
journal = {J Biopharm Stat},
title = {Some controversial multiple testing problems in regulatory applications},
abstract = {Multiple testing problems in regulatory applications are often more challenging than the problems of handling a set of mathematical symbols representing multiple null hypotheses under testing. In the union-intersection setting, it is important to define a family of null hypotheses relevant to the clinical questions at issue. The distinction between primary endpoint and secondary endpoint needs to be considered properly in different clinical applications. Without proper consideration, the widely used sequential gate keeping strategies often impose too many logical restrictions to make sense, particularly to deal with the problem of testing multiple doses and multiple endpoints, the problem of testing a composite endpoint and its component endpoints, and the problem of testing superiority and noninferiority in the presence of multiple endpoints. Partitioning the null hypotheses involved in closed testing into clinical relevant orderings or sets can be a viable alternative to resolving the illogical problems requiring more attention from clinical trialists in defining the clinical hypotheses or clinical question(s) at the design stage. In the intersection-union setting there is little room for alleviating the stringency of the requirement that each endpoint must meet the same intended alpha level, unless the parameter space under the null hypothesis can be substantially restricted. Such restriction often requires insurmountable justification and usually cannot be supported by the internal data. Thus, a possible remedial approach to alleviate the possible conservatism as a result of this requirement is a group-sequential design strategy that starts with a conservative sample size planning and then utilizes an alpha spending function to possibly reach the conclusion early.},
affiliation = {Division of Biometrics I, OB/OTS/CDER, FDA, Silver Spring, Maryland 20993-0002, USA. hsienming.hung@fda.hhs.gov},
number = {1},
pages = {1-11; discussion 12--41},
volume = {19},
year = {2009},
month = {Jan},
language = {eng},
keywords = {United States Food and Drug Administration, Drug Approval, Clinical Trials as Topic, Humans, Models: Statistical, Research Design, Probability, Endpoint Determination, Algorithms, United States, Sample Size, Treatment Outcome, Pharmaceutical Preparations},
date-added = {2010-03-17 20:53:31 +0100},
date-modified = {2010-07-29 19:32:23 +0200},
doi = {10.1080/10543400802541693},
pii = {907426452},
pmid = {19127460},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p7758},
rating = {0}
}
@article{Sakai:2009p2500,
author = {Joseph T Sakai and Michael C Stallings and Thomas J Crowley and Heather L Gelhorn and Matthew B McQueen and Marissa A Ehringer},
journal = {Drug Alcohol Depend},
title = {Test of association between GABRA2 (SNP rs279871) and adolescent conduct/alcohol use disorders utilizing a sample of clinic referred youth with serious substance and conduct problems, controls and available first degree relatives},
abstract = {Recent findings have linked the GABRA2 gene with antisocial personality disorder and alcohol dependence (AD) in adults and conduct disorder (CD), but not AD symptoms, in children and adolescents. We sought to replicate previous findings and test for an association between a single nucleotide polymorphism (SNP) in the GABRA2 gene (rs279871) and CD among adolescents. METHODS: Adolescent patients (n=371), 13-18 years old, were recruited from a university substance abuse treatment program. Patient siblings (n=245), parents of patients (n=355), adolescent controls (n=185), siblings of controls (n=163) and parents of controls (n=263) were included in these analyses (total sample n=1582). Case-control (using only Caucasian and Hispanic probands) and family-based association tests were completed to test for association between rs279871 and several a priori CD and AD phenotypes. RESULTS: For case-control association tests, rs279871 was significantly associated with CD (p=0.02) but not AD phenotypes; the result did not survive strict correction for multiple testing. All family-based association tests were non-significant (CD p=0.48; CD symptom count age corrected within sex p=0.91; AD p=0.84; alcohol use disorder p=0.52). CONCLUSIONS: Consistent with previous findings, the results do not support the association between GABRA2 SNP rs279871 and AD in adolescents. Our results also do not support an association between rs279871 and CD; the study limitations are reviewed.},
affiliation = {Division of Substance Dependence, University of Colorado Denver School of Medicine, Aurora, CO, United States.},
pages = {},
year = {2009},
month = {Sep},
language = {ENG},
date-added = {2010-01-12 13:35:44 +0100},
date-modified = {2010-01-12 13:35:45 +0100},
doi = {10.1016/j.drugalcdep.2009.08.015},
pii = {S0376-8716(09)00348-2},
pmid = {19783384},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sakai-2009-Drug%20Alcohol%20Depend_Test%20of%20association.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p2500},
rating = {0}
}
@article{Parsad:2010p4274,
author = {R Parsad},
title = {Nested block design},
date-added = {2010-01-23 22:01:34 +0100},
date-modified = {2010-01-23 22:01:58 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Parsad--_Nested%20block%20design.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4274},
rating = {0}
}
@article{Wickham:2007p10898,
author = {H Wickham},
journal = {Journal of Statistical Software},
title = {Reshaping Data with the reshape Package},
abstract = {This paper presents the reshape package for R, which provides a common framework for many types of data reshaping and aggregation. It uses a paradigm of `melting' and `casting', where the data are `melted' into a form which distinguishes measured and iden- tifying variables, and then `cast' into a new shape, whether it be a data frame, list, or high dimensional array. The paper includes an introduction to the conceptual framework, practical advice for melting and casting, and a case study.},
number = {12},
volume = {21},
year = {2007},
date-added = {2010-04-11 13:45:59 +0200},
date-modified = {2010-04-11 13:46:43 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Wickham-2007-Journal%20of%20Statistical%20Software_Reshaping%20Data%20with.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10898},
rating = {0}
}
@article{Sweeting:2008p383,
author = {M J Sweeting and D De Angelis and M Hickman and A E Ades},
journal = {Biostatistics},
title = {Estimating hepatitis C prevalence in England and Wales by synthesizing evidence from multiple data sources. Assessing data conflict and model fit},
abstract = {Multiparameter evidence synthesis is becoming widely used as a way of combining evidence from multiple and often disparate sources of information concerning a number of parameters. Synthesizing data in one encompassing model allows propagation of evidence and learning. We demonstrate the use of such an approach in estimating the number of people infected with the hepatitis C virus (HCV) in England and Wales. Data are obtained from seroprevalence studies conducted in different subpopulations. Each subpopulation is modeled as a composition of 3 main HCV risk groups (current injecting drug users (IDUs), ex-IDUs, and non-IDUs). Further, data obtained on the prevalence (size) of each risk group provide an estimate of the prevalence of HCV in the whole population. We simultaneously estimate all model parameters through the use of Bayesian Markov chain Monte Carlo techniques. The main emphasis of this paper is the assessment of evidence consistency and investigation of the main drivers for model inferences. We consider a cross-validation technique to reveal data conflict and leverage when each data source is in turn removed from the model.},
affiliation = {MRC Biostatistics Unit, Institute of Public Health, Cambridge, UK. michael.sweeting@mrc-bsu.cam.ac.uk},
number = {4},
pages = {715--34},
volume = {9},
year = {2008},
month = {Oct},
language = {eng},
keywords = {Odds Ratio, Female, Markov Chains, Regression Analysis, Substance Abuse: Intravenous, Models: Statistical, Likelihood Functions, Databases: Factual, Monte Carlo Method, Sex Factors, Prevalence, Seroepidemiologic Studies, Bias (Epidemiology), Male, Algorithms, Hepatitis C, Bayes Theorem, Humans, Blood Donors, England, Pregnancy, Models: Biological, Age Factors, Wales},
date-added = {2010-01-03 11:51:59 +0100},
date-modified = {2010-01-03 11:51:59 +0100},
doi = {10.1093/biostatistics/kxn004},
pii = {kxn004},
pmid = {18349037},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Sweeting-2008-Biostatistics_Estimating%20hepatitis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p383},
rating = {0}
}
@article{Cleves:2005p1551,
author = {M A Cleves},
journal = {The Stata Joumal},
title = {Exploratory analysis of single nucleotide polymorphism (SNP) for quantitative traits},
abstract = {With the decreasing cost and the increasing ability to quickly genotype single nucleotide polymorphisms (SNP) across the human genome, large databases containing possibly hundreds of typed SNPs are becoming common in population- based studies of quantitative traits. Testing for association between individual SNPs and the quantitative trait is an important first step in the discovery of disease susceptibility SNPs. This task, however, could be time-consuming and tedious if a large number of SNPs is involved. In this article, I introduce two new commands designed to facilitate the screening and testing of multiple SNPs for possible association with quantitative traits.},
affiliation = {UAMS College of Medicine, Department of Pediatrics 11219 Financial Centre Parkway, Suite 250, Little Rock, AR 72211},
number = {2},
pages = {141--153},
volume = {5},
year = {2005},
date-added = {2010-01-07 16:36:44 +0100},
date-modified = {2010-07-29 19:53:40 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Cleves-2005-The%20Stata%20Joumal_Exploratory%20analysis.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1551},
read = {Yes},
rating = {0}
}
@article{Lee:2006p12325,
author = {S-I Lee and V Ganapathi and D Koller},
journal = {NIPS},
title = {Efficient Structure Learning of Markov Networks using L1-Regularization},
abstract = {Markov networks are commonly used in a wide variety of applications, ranging from computer vision, to natural language, to computational biology. In most current applications, even those that rely heavily on learned models, the structure of the Markov network is constructed by hand, due to the lack of effective algo- rithms for learning Markov network structure from data. In this paper, we provide a computationally efficient method for learning Markov network structure from data. Our method is based on the use of L1 regularization on the weights of the log-linear model, which has the effect of biasing the model towards solutions where many of the parameters are zero. This formulation converts the Markov net- work learning problem into a convex optimization problem in a continuous space, which can be solved using efficient gradient methods. A key issue in this setting is the (unavoidable) use of approximate inference, which can lead to errors in the gradient computation when the network structure is dense. Thus, we explore the use of different feature introduction schemes and compare their performance. We provide results for our method on synthetic data, and on two real world data sets: pixel values in the MNIST data, and genetic sequence variations in the human HapMap data. We show that our L1-based method achieves considerably higher generalization performance than the more standard L2-based method (a Gaussian parameter prior) or pure maximum-likelihood learning. We also show that we can learn MRF network structure at a computational cost that is not much greater than learning parameters alone, demonstrating the existence of a feasible method for this important problem.},
year = {2006},
date-added = {2010-06-12 09:44:02 +0200},
date-modified = {2010-07-29 19:41:58 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Lee-2006-NIPS_Efficient%20Structure.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12325},
rating = {0}
}
@article{Munafo:2005p10528,
author = {M R Munaf{\`o} and T Clark and J Flint},
journal = {Mol Psychiatry},
title = {Does measurement instrument moderate the association between the serotonin transporter gene and anxiety-related personality traits? A meta-analysis},
abstract = {We attempted to replicate the findings of two recent meta-analyses that personality inventory moderates the association between the serotonin transporter gene and anxiety-related traits. A total of 24 studies contributed to the meta-analysis, of which three reported genotype frequencies that deviated from Hardy-Weinberg (HW) equilibrium. We found some support for the view that results depend on the type of questionnaire used, although in a direction opposite to that previously reported. Contrasts between the S/S and L/L groups were significant for TCI/TPQ harm avoidance studies (P=0.0024) but not NEO neuroticism (P=0.9757). When studies not in HW equilibrium were excluded the TCI/TPQ result for the S/S genotype still exceeded our 5% threshold, although with reduced significance (P=0.0082), and the NEO result remained nonsignificant (P=0.9109). While we cannot rule out an association between the 5HTT gene and anxiety-related traits, particularly for TCI/TPQ harm avoidance, our findings do indicate that the effect, if present, is small. Our results emphasise the importance of complete ascertainment of studies and the identification of relevant sources of heterogeneity.},
affiliation = {Cancer Research UK GPRG, Department of Clinical Pharmacology, University of Oxford, Oxford PX2 6HE, UK. marcus.munafo@clinpharm.ox.ac.uk},
number = {4},
pages = {415--9},
volume = {10},
year = {2005},
month = {Apr},
language = {eng},
keywords = {Reproducibility of Results, Middle Aged, Humans, Personality, Male, Aged, Anxiety, Linkage (Genetics), Adolescent, Genetic Heterogeneity, Serotonin Plasma Membrane Transport Proteins, Research Design, Questionnaires, Membrane Transport Proteins, Female, Nerve Tissue Proteins, Adult, Personality Inventory, Membrane Glycoproteins},
date-added = {2010-04-07 11:27:12 +0200},
date-modified = {2010-04-07 11:27:18 +0200},
doi = {10.1038/sj.mp.4001627},
pii = {4001627},
pmid = {15599377},
url = {http://www.nature.com/mp/journal/v10/n4/abs/4001627a.html},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Munaf%C3%B2-2005-Mol%20Psychiatry_Does%20measurement%20ins.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10528},
rating = {5}
}
@article{Schmidberger:2009p922,
author = {Markus Schmidberger and Martin Morgan and Dirk Eddelbuettel and Hao Yu and Luke Tierney and Ulrich Mansmann},
journal = {Journal of Statistical Software},
title = {State of the Art in Parallel Computing with R},
abstract = {R is a mature open-source programming language for statistical computing and graphics. Many areas of statistical research are experiencing rapid growth in the size of data sets. Methodological advances drive increased use of simulations. A common approach is to use parallel computing.
This paper presents an overview of techniques for parallel computing with R on com- puter clusters, on multi-core systems, and in grid computing. It reviews sixteen different packages, comparing them on their state of development, the parallel technology used, as well as on usability, acceptance, and performance.
Two packages (snow, Rmpi) stand out as particularly suited to general use on computer clusters. Packages for grid computing are still in development, with only one package currently available to the end user. For multi-core systems five different packages exist, but a number of issues pose challenges to early adopters. The paper concludes with ideas for further developments in high performance computing with R. Example code is available in the appendix.},
affiliation = {Ludwig-Maximilians-Universita ̈t Mu ̈nchen},
number = {1},
pages = {1--27},
volume = {31},
year = {2009},
keywords = {grid computing, multi-core systems, computer cluster, parallel computing, high performance computing, R, benchmark},
date-added = {2010-01-03 19:12:28 +0100},
date-modified = {2010-01-03 19:15:05 +0100},
url = {http://www.jstatsoft.org/},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Schmidberger-2009-Journal%20of%20Statistical%20Software_State%20of%20the%20Art%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p922},
rating = {0}
}
@article{Maris:2003ab,
author = {Gunter Maris and Timo M Bechger},
title = {Equivalent mirid models},
year = {2003},
month = {Mar},
date-added = {2010-01-03 19:39:02 +0100},
date-modified = {2010-07-29 20:43:29 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Maris-2003-_Equivalent%20mirid%20mod.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1221},
rating = {0}
}
@article{Collins:2003,
author = {D Collins},
journal = {Qual Life Res},
title = {Pretesting survey instruments: An overview of cognitive methods},
abstract = {This article puts forward the case that survey questionnaires, which are a type of measuring instrument, can and should be tested to ensure they meet their purpose. Traditionally survey researchers have been pre-occupied with 'standardising' data collection instruments and procedures such as question wording and have assumed that experience in questionnaire design, coupled with pilot testing of questionnaires, will then ensure valid and reliable results. However, implicit in the notion of standardisation are the assumptions that respondents are able to understand the questions being asked, that questions are understood in the same way by all respondents, and that respondents are willing and able to answer such questions. The development of cognitive question testing methods has provided social researchers with a number of theories and tools to test these assumptions, and to develop better survey instruments and questionnaires. This paper describes some of these theories and tools, and argues that cognitive testing should be a standard part of the development process of any survey instrument.},
number = {3},
pages = {229--238},
volume = {12},
year = {2003},
date-added = {2010-01-03 19:34:17 +0100},
date-modified = {2010-07-29 19:48:29 +0200},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p978},
rating = {0}
}
@article{Andridge:2010p13494,
author = {R R Andridge and R J A Little},
journal = {International Statistical Review},
title = {A Review of Hot Deck Imputation for Survey Non-response},
abstract = {Hot deck imputation is a method for handling missing data in which each missing value is replaced with an observed response from a ``similar'' unit. Despite being used extensively in practice, the theory is not as well developed as that of other imputation methods. We have found that no consensus exists as to the best way to apply the hot deck and obtain inferences from the completed data set. Here we review different forms of the hot deck and existing research on its statistical properties. We describe applications of the hot deck currently in use, including the U.S. Census Bureau's hot deck for the Current Population Survey (CPS). We also provide an extended example of variations of the hot deck applied to the third National Health and Nutrition Examination Survey (NHANES III). Some potential areas for future research are highlighted.},
number = {1},
pages = {40--64},
volume = {78},
year = {2010},
date-added = {2010-07-07 20:32:19 +0200},
date-modified = {2010-07-07 20:33:19 +0200},
doi = {10.1111/j.1751-5823.2010.00103.x},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Andridge-2010-International%20Statistical%20Review_A%20Review%20of%20Hot%20Deck.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p13494},
rating = {0}
}
@article{Balidis:2002,
author = {M O Balidis and C Bunce and K Boboridis and J Salzman and R P L Wormald and M H Miller},
journal = {Eye},
title = {Intraobserver and interobserver reliability of the R/D score for evaluation of iris configuration by ultrasound biomicroscopy, in patients with pigment dispersion syndrome},
pages = {722--726},
volume = {16},
year = {2002},
date-added = {2010-01-10 11:33:20 +0100},
date-modified = {2010-01-10 11:33:25 +0100},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Balidis-2002-Eye_Intraobserver%20and%20in.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p1879},
rating = {0}
}
@article{Volk:2009p4603,
author = {Michael L Volk and Rachel Tocco and Sameer Saini and Anna S F Lok},
journal = {Hepatology},
title = {Public health impact of antiviral therapy for hepatitis C in the United States},
abstract = {Despite dramatic improvements in antiviral therapy for hepatitis C, there is reason to believe that the uptake of antiviral therapy remains limited. The aims of this study were to determine the number of patients being treated with antiviral therapy in the U.S., to estimate the public health impact of these treatment patterns, and to identify barriers to treatment for patients with hepatitis C. Data on the number of new patient pegylated interferon prescriptions each year, from 2002-2007, was obtained from Wolters Kluwer Inc., which maintains an electronic audit of pharmacies nationwide. A Markov model was created of the population with chronic hepatitis C in the U.S. from 2002 to 2030, and was used to estimate the number of liver-related deaths caused by hepatitis C that will be prevented by current treatment patterns. The National Health and Nutrition Evaluation Survey (NHANES) Hepatitis C Follow-Up Questionnaire was used to investigate reasons for lack of treatment and to identify strategies for improving access. Approximately 663,000 patients received antiviral therapy between 2002 and 2007, and treatment rates appear to be declining. If this trend continues, only 14.5% of liver-related deaths caused by hepatitis C from 2002-2030 will be prevented by antiviral therapy. Results from the NHANES questionnaire suggest that the primary barrier to treatment is lack of diagnosis, with 69/133 (adjusted proportion 49%) of respondents previously unaware that they had hepatitis C. CONCLUSION: Efforts to improve rates of diagnosis and treatment will be required if the future public health burden of hepatitis C is to be ameliorated.},
affiliation = {Division of Gastroenterology and Hepatology, University of Michigan, Ann Arbor, MI 48109, USA. mvolk@med.umich.edu},
number = {6},
pages = {1750--5},
volume = {50},
year = {2009},
month = {Dec},
language = {eng},
keywords = {Humans, Cost of Illness, United States, Antiviral Agents, Markov Chains, Female, Public Health, Male, Hepatitis C},
date-added = {2010-01-29 22:36:23 +0100},
date-modified = {2010-07-29 20:00:05 +0200},
doi = {10.1002/hep.23220},
pmid = {19824079},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Volk-2009-Hepatology_Public%20health%20impact.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4603},
rating = {0}
}
@article{Raichle:2010p11281,
author = {Marcus E Raichle},
journal = {Trends Cogn Sci (Regul Ed)},
title = {Two views of brain function},
abstract = {Traditionally studies of brain function have focused on task-evoked responses. By their very nature, such experiments tacitly encourage a reflexive view of brain function. Although such an approach has been remarkably productive, it ignores the alternative possibility that brain functions are mainly intrinsic, involving information processing for interpreting, responding to and predicting environmental demands. Here I argue that the latter view best captures the essence of brain function, a position that accords well with the allocation of the brain's energy resources. Recognizing the importance of intrinsic activity will require integrating knowledge from cognitive and systems neuroscience with cellular and molecular neuroscience where ion channels, receptors, components of signal transduction and metabolic pathways are all in a constant state of flux.},
affiliation = {Departments of Radiology, Neurology, Neurobiology and Biomedical Engineering, Washington University School of Medicine, 4525 Scott Avenue, Room 2116, St Louis, MO 63110, USA. marc@npg.wustl.edu },
number = {4},
pages = {180--90},
volume = {14},
year = {2010},
month = {Apr},
language = {eng},
date-added = {2010-04-25 21:33:07 +0200},
date-modified = {2010-07-29 19:54:31 +0200},
doi = {10.1016/j.tics.2010.01.008},
pii = {S1364-6613(10)00029-X},
pmid = {20206576},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p11281},
rating = {0}
}
@article{Hochreiter:2010p12296,
author = {Sepp Hochreiter and Ulrich Bodenhofer and Martin Heusel and Andreas Mayr and Andreas Mitterecker and Adetayo Kasim and Tatsiana Khamiakova and Suzy Van Sanden and Dan Lin and Willem Talloen and Luc Bijnens and Hinrich W H G{\"o}hlmann and Ziv Shkedy and Djork-Arn{\'e} Clevert},
journal = {Bioinformatics},
title = {FABIA: Factor Analysis for Bicluster Acquisition},
abstract = {MOTIVATION: Biclustering of transcriptomic data groups genes and samples simultaneously. It is emerging as a standard tool for extracting knowledge from gene expression measurements. We propose a novel generative approach for biclustering called "FABIA: Factor Analysis for Bicluster Acquisition". FABIA is based on a multiplicative model, which accounts for linear dependencies between gene expression and conditions, and also captures heavy-tailed distributions as observed in real-world transcriptomic data. The generative framework allows to utilize well-founded model selection methods and to apply Bayesian techniques. RESULTS: On 100 simulated data sets with known true, artificially implanted biclusters, FABIA clearly outperformed all 11 competitors. On these data sets, FABIA was able to separate spurious biclusters from true biclusters by ranking biclusters according to their information content. FABIA was tested on three microarray data sets with known sub-clusters, where it was two times the best and once the second best method among the compared biclustering approaches. AVAILABILITY: FABIA is available as an R package on Bioconductor (http://www.bioconductor.org). All data sets, results, and software are available at http://www.bioinf.jku.at/software/fabia/fabia.html. CONTACT: hochreit@bioinf.jku.at.},
affiliation = {Institute of Bioinformatics, Johannes Kepler University, Linz, Austria.},
pages = {},
year = {2010},
month = {Apr},
language = {ENG},
date-added = {2010-06-09 20:16:55 +0200},
date-modified = {2010-06-09 20:17:20 +0200},
doi = {10.1093/bioinformatics/btq227},
pii = {btq227},
pmid = {20418340},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Hochreiter-2010-Bioinformatics_FABIA%20Factor%20Analys.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p12296},
rating = {4}
}
@article{Fodor:1988p10817,
author = {J A Fodor and Z W Pylyshyn},
journal = {Cognition},
title = {Connectionism and cognitive architecture: a critical analysis},
number = {1-2},
pages = {3--71},
volume = {28},
year = {1988},
month = {Mar},
language = {eng},
keywords = {Humans, Symbolism, Linguistics, Semantics, Models: Psychological, Brain, Cognition},
date-added = {2010-04-10 03:28:09 +0200},
date-modified = {2010-07-29 19:23:44 +0200},
pii = {0010-0277(88)90031-5},
pmid = {2450716},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Fodor-1988-Cognition_Connectionism%20and%20co.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p10817},
rating = {0}
}
@article{Madsen:2006p4104,
author = {L Madsen},
journal = {The PracTEX Journal},
title = {Avoid eqnarray!},
abstract = {Whenever the eqnarray environment appears in a question or an example of a problem on comp.text.tex or the TEXhax mailing list there is a large chance that someone will tell the poster not to use eqnarray. This article will provide some examples of why many of us consider eqnarray to be harmful and why it should not be used.},
volume = {4},
year = {2006},
date-added = {2010-01-19 23:40:16 +0100},
date-modified = {2010-07-29 19:52:56 +0200},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Madsen-2006-The%20PracTEX%20Journal_Avoid%20eqnarray!.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p4104},
rating = {0}
}
@article{Smith:2008p532,
author = {Adam B Smith and Robert Rush and Lesley J Fallowfield and Galina Velikova and Michael Sharpe},
journal = {BMC Med Res Methodol},
title = {Rasch fit statistics and sample size considerations for polytomous data},
abstract = {BACKGROUND: Previous research on educational data has demonstrated that Rasch fit statistics (mean squares and t-statistics) are highly susceptible to sample size variation for dichotomously scored rating data, although little is known about this relationship for polytomous data. These statistics help inform researchers about how well items fit to a unidimensional latent trait, and are an important adjunct to modern psychometrics. Given the increasing use of Rasch models in health research the purpose of this study was therefore to explore the relationship between fit statistics and sample size for polytomous data. METHODS: Data were collated from a heterogeneous sample of cancer patients (n = 4072) who had completed both the Patient Health Questionnaire - 9 and the Hospital Anxiety and Depression Scale. Ten samples were drawn with replacement for each of eight sample sizes (n = 25 to n = 3200). The Rating and Partial Credit Models were applied and the mean square and t-fit statistics (infit/outfit) derived for each model. RESULTS: The results demonstrated that t-statistics were highly sensitive to sample size, whereas mean square statistics remained relatively stable for polytomous data. CONCLUSION: It was concluded that mean square statistics were relatively independent of sample size for polytomous data and that misfit to the model could be identified using published recommended ranges.},
affiliation = {Cancer Research UK - Clinical Centre, St, James's University Hospital, Leeds, UK. a.b.smith@leeds.ac.uk},
pages = {33},
volume = {8},
year = {2008},
month = {Jan},
language = {eng},
keywords = {Male, Severity of Illness Index, Humans, Data Interpretation: Statistical, Female, Anxiety, Psychometrics, Depressive Disorder, Bias (Epidemiology), Sample Size, Great Britain, Reproducibility of Results, Middle Aged, Hospitalization, Questionnaires, Models: Statistical, Neoplasms},
date-added = {2010-01-03 13:45:14 +0100},
date-modified = {2010-01-03 13:45:14 +0100},
doi = {10.1186/1471-2288-8-33},
pii = {1471-2288-8-33},
pmid = {18510722},
local-url = {file://localhost/Users/chl/Dropbox/Papers/Smith-2008-BMC%20Med%20Res%20Methodol_Rasch%20fit%20statistics.pdf},
uri = {papers://58407365-8DEB-4C7D-995B-6322E39C7022/Paper/p532},
rating = {3}
}
@article{Kuramae:2007p3411,
author = {Eiko E Kuramae and Vincent Robert and Carlos Echavarri-Erasun and Teun Boekhout},
journal = {BMC Evol Biol},
title = {Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom},
abstract = {BACKGROUND: The construction of robust and well resolved phylogenetic trees is important for our understanding of many, if not all biological processes, including speciation and origin of higher taxa, genome evolution, metabolic diversification, multicellularity, origin of life styles, pathogenicity and so on. Many older phylogenies were not well supported due to insufficient phylogenetic signal present in the single or few genes used in phylogenetic reconstructions. Importantly, single gene phylogenies were not always found to be congruent. The phylogenetic signal may, therefore, be increased by enlarging the number