Descriptions of the data:
Genetic Analysis Workshop 15: gene expression analysis and approaches to detecting multiple functional loci
Heather Cordell, Mariza de Andrade, Marie-Claude Babron, Christopher Bartlett, Joseph Beyene, Heike Bickeböller, Robert Culverhouse, L Adrienne Cupples, E Warwick Daw, Josée Dupuis, Catherine Falk, Saurabh Ghosh, Katrina Goddard, Ellen Goode, Elizabeth Hauser, Lisa Martin, Maria Martinez, Kari North, Nancy Saccone, Silke Schmidt, William Tapper, Duncan Thomas, David Tritchler, Veronica Vieland, Ellen Wijsman, Marsha Wilcox, John Witte, Qiong Yang, Andreas Ziegler, Laura Almasy, Jean MacCluer
http://www.biomedcentral.com/1753-6561/1/S1/S1
Genetic Analysis Workshop 15: simulation of a complex genetic model for rheumatoid arthritis in nuclear families including a dense SNP map with linkage disequilibrium between marker loci and trait loci
Michael Miller, Gregg Lind, Na Li, Soon-Young Jang
http://www.biomedcentral.com/1753-6561/1/S1/S4
Contributors who analyzed Problem 3 data:
Association mapping of susceptibility loci for rheumatoid arthritis
Tai-Yue Kuo, Winston Lau, Cheng Hu, Weihua Zhang
http://www.biomedcentral.com/1753-6561/1/S1/S15
Dealing with missing phase and missing data in phylogeny-based analysis
Claire Bardel, Pascal Croiseau, Emmanuelle Génin
http://www.biomedcentral.com/1753-6561/1/S1/S22
Linkage and association analysis of GAW15 simulated data: fine-mapping of chromosome 6 region
Pimphen Charoen, Joanna Biernacka, Heather Cordell
http://www.biomedcentral.com/1753-6561/1/S1/S23
Efficiency of multiple imputation to test for association in the presence of missing data
Pascal Croiseau, Claire Bardel, Emmanuelle Génin
http://www.biomedcentral.com/1753-6561/1/S1/S24
Exhaustive screens for disease susceptibility loci incorporating statistical interaction of genotypes: a comparison of likelihood-ratio-based and Akaike and Bayesian information criteria-based methods
Fangyi Gu, Genevieve Monsees, Peter Kraft
http://www.biomedcentral.com/1753-6561/1/S1/S25
The impact of complex informative missingness on the validity of the transmission/disequilibrium test (TDT)
Chao-Yu Guo
http://www.biomedcentral.com/1753-6561/1/S1/S26
Density-based clustering in haplotype analysis for association mapping
Robert Igo, Douglas Londono, Katherine Miller, Antonio Parrado, Shannon Quade, Moumita Sinha, Sulgi Kim, Sungho Won, Jing Li, Katrina Goddard
http://www.biomedcentral.com/1753-6561/1/S1/S27
Joint analysis of case-parents trio and unrelated case-control designs in large scale association studies
Jungnam Joo, Xin Tian, Gang Zheng, Mario Stylianou, Jing-Ping Lin, Nancy Geller
http://www.biomedcentral.com/1753-6561/1/S1/S28
Case-control studies with affected sibships
Karola Köhler, Melanie Sohns, Heike Bickeböller
http://www.biomedcentral.com/1753-6561/1/S1/S29
A two-stage classification approach identifies seven susceptibility genes for a simulated complex disease
Nathan Pankratz
http://www.biomedcentral.com/1753-6561/1/S1/S30
A new transmission test for affected sib-pair families
Hongyan Xu, Varghese George
http://www.biomedcentral.com/1753-6561/1/S1/S32
Comparison of variable and model selection methods for genetic association studies using the GAW15 simulated data
Zhan Ye, Elizabeth Atkinson, Brooke Fridley, Mariza de Andrade
http://www.biomedcentral.com/1753-6561/1/S1/S34
An integrated genome-wide association analysis on rheumatoid arthritis data
Jun Zhang, Xiaofeng Zhu, Richard Cooper
http://www.biomedcentral.com/1753-6561/1/S1/S35
Joint linkage and association analysis for identification of potentially causal polymorphisms in GAW15 data
Joanna Biernacka, Pimphen Charoen, Heather Cordell
http://www.biomedcentral.com/1753-6561/1/S1/S36
Joint modeling of linkage and association using affected sib-pair data
Ming-Huei Chen, Jing Cui, Chao-Yu Guo, L Adrienne Cupples, Paul Van Eerdewegh, Josée Dupuis, Qiong Yang
http://www.biomedcentral.com/1753-6561/1/S1/S38
A new score statistic to test for association given linkage in affected sibling pair-control designs
Jeanine Houwing-Duistermaat, Hae Uh, Hans van Houwelingen
http://www.biomedcentral.com/1753-6561/1/S1/S39
Identifying single-nucleotide polymorphisms responsible for the linkage signal of rheumatoid arthritis on chromosome 6 by joint modeling of linkage and association
Wan-Yu Lin, Daniel Schaid
http://www.biomedcentral.com/1753-6561/1/S1/S40
Comparison of GIST and LAMP on the GAW15 simulated data
Xuemei Lou, Silke Schmidt, Elizabeth Hauser
http://www.biomedcentral.com/1753-6561/1/S1/S41
Linkage, case-control association, and family-based association tests for complex disorders
Brian Suarez, Robert Culverhouse, Carol Jin, Anthony Hinrichs
http://www.biomedcentral.com/1753-6561/1/S1/S43
A logistic mixture model for a family-based association study
Guan Xing, Chao Xing, Qing Lu, Robert Elston
http://www.biomedcentral.com/1753-6561/1/S1/S44
Comparison of haplotyping methods using families and unrelated individuals on simulated rheumatoid arthritis data
Xin Li, Jing Li
http://www.biomedcentral.com/1753-6561/1/S1/S55
Two-stage approach for identifying single-nucleotide polymorphisms associated with rheumatoid arthritis using random forests and Bayesian networks
Yan Meng, Qiong Yang, Karen Cuenco, L Adrienne Cupples, Anita DeStefano, Kathryn Lunetta
http://www.biomedcentral.com/1753-6561/1/S1/S56
Logistic regression trees for initial selection of interesting loci in case-control studies
Radoslav Nickolov, Valentin Milanov
http://www.biomedcentral.com/1753-6561/1/S1/S57
Stability of variable importance scores and rankings using statistical learning tools on single-nucleotide polymorphisms and risk factors involved in gene × gene and gene × environment interactions
Kristin Nicodemus, Wenyi Wang, Yin Shugart
http://www.biomedcentral.com/1753-6561/1/S1/S58
Picking single-nucleotide polymorphisms in forests
Daniel Schwarz, Silke Szymczak, Andreas Ziegler, Inke König
http://www.biomedcentral.com/1753-6561/1/S1/S59
Detecting disease-causing genes by LASSO-Patternsearch algorithm
Weiliang Shi, Kristine Lee, Grace Wahba
http://www.biomedcentral.com/1753-6561/1/S1/S60
Exploiting gene × gene interaction in linkage analysis
Yungui Huang, Christopher Bartlett, Alberto Segre, Jeffrey O'Connell, LaVonne Mangin, Veronica Vieland
http://www.biomedcentral.com/1753-6561/1/S1/S64
Power of the 2-locus TDT for testing the interaction of two susceptibility genes
Salma Kotti, Mathieu Bourgey, Françoise Clerget-Darpoux
http://www.biomedcentral.com/1753-6561/1/S1/S65
Comparison of affected sibling-pair linkage methods to identify gene × gene interaction in GAW15 simulated data
Emma Larkin, Nathan Morris, Yali Li, Nora Nock, Catherine Stein
http://www.biomedcentral.com/1753-6561/1/S1/S66
Gene × gene and gene × environment interactions for complex disorders
Robert Culverhouse, Anthony Hinrichs, Carol Jin, Brian Suarez
http://www.biomedcentral.com/1753-6561/1/S1/S72
Comparison of the power of haplotype-based versus single- and multilocus association methods for gene × environment (gene × sex) interactions and application to gene × smoking and gene × sex interactions in rheumatoid arthritis
Astrid Dempfle, Rebecca Hein, Lars Beckmann, André Scherag, Thuy Nguyen, Helmut Schäfer, Jenny Chang-Claude
http://www.biomedcentral.com/1753-6561/1/S1/S73
Power comparison of different methods to detect genetic effects and gene-environment interactions
Rémi Kazma, Marie-Hélène Dizier, Michel Guilloud-Bataille, Catherine Bonaïti-Pellié, Emmanuelle Génin
http://www.biomedcentral.com/1753-6561/1/S1/S74
An ordered subset approach to including covariates in the transmission disequilibrium test
Hervé Perdry, Brion Maher, Marie-Claude Babron, Toby McHenry, Françoise Clerget-Darpoux, Mary Marazita
http://www.biomedcentral.com/1753-6561/1/S1/S77
A nonparametric regression-based linkage scan of rheumatoid factor-IgM using sib-pair squared sums and differences
Saurabh Ghosh, P Samba Rao, Gourab De, Partha Majumder
http://www.biomedcentral.com/1753-6561/1/S1/S99
On the choice of linkage statistics
Patricia Margaritte-Jeannin, Marie-Claude Babron, Françoise Clerget-Darpoux
http://www.biomedcentral.com/1753-6561/1/S1/S102
Application of an iterative Bayesian variable selection method in a genome-wide association study of rheumatoid arthritis
Soonil Kwon, Dai Wang, Xiuqing Guo
http://www.biomedcentral.com/1753-6561/1/S1/S109
A Bayesian latent class analysis for whole-genome association analyses: an illustration using the GAW15 simulated rheumatoid arthritis dense scan data
Fredrick Schumacher, Peter Kraft
http://www.biomedcentral.com/1753-6561/1/S1/S112
The null distribution of stochastic search gene suggestion: a Bayesian approach to gene mapping
Michael Swartz, Sanjay Shete
http://www.biomedcentral.com/1753-6561/1/S1/S113
Model selection based on logistic regression in a highly correlated candidate gene region
Hae-Won Uh, Bart Mertens, Henk Jan van der Wijk, Hein Putter, Hans van Houwelingen, Jeanine Houwing-Duistermaat
http://www.biomedcentral.com/1753-6561/1/S1/S114
Rheumatoid arthritis, item response theory, Blom transformation, and mixed models
Aldi Kraja, Jon Corbett, An Ping, Rosa Lin, Petra Jacobsen, Michael Crosswhite, Ingrid Borecki, Michael Province
http://www.biomedcentral.com/1753-6561/1/S1/S116
Modeling the complex gene × environment interplay in the simulated rheumatoid arthritis GAW15 data using latent variable structural equation modeling
Nora Nock, Emma Larkin, Nathan Morris, Yali Li, Catherine Stein
http://www.biomedcentral.com/1753-6561/1/S1/S118
Association mapping via a class of haplotype-sharing statistics
Andrew Allen, Glen Satten
http://www.biomedcentral.com/1753-6561/1/S1/S123
Cladistic analysis of genotype data-application to GAW15 Problem 3
Hsuan Jung, Keyan Zhao, Paul Marjoram
http://www.biomedcentral.com/1753-6561/1/S1/S125
Comparison of measures for haplotype similarity
Vivien Marquard, Lars Beckmann, Justo Bermejo, Christine Fischer, Jenny Chang-Claude
http://www.biomedcentral.com/1753-6561/1/S1/S128
Association testing by haplotype-sharing methods applicable to whole-genome analysis
Ilja Nolte, André de Vries, Geert Spijker, Ritsert Jansen, Dumitru Brinza, Alexander Zelikovsky, Gerard te Meerman
http://www.biomedcentral.com/1753-6561/1/S1/S129
Association tests based on the principal-component analysis
Sohee Oh, Taesung Park
http://www.biomedcentral.com/1753-6561/1/S1/S130
Association mapping through heuristic evolutionary history reconstruction-application to GAW15 Problem 3
Alexander Platt
http://www.biomedcentral.com/1753-6561/1/S1/S131
Visualizing genotype × phenotype relationships in the GAW15 simulated data
Xuejun Qin, Silke Schmidt, Eden Martin, Elizabeth Hauser
http://www.biomedcentral.com/1753-6561/1/S1/S132
Fine-scale linkage disequilibrium mapping: a comparison of coalescent-based and haplotype-clustering-based methods
Sungho Won, Ritwik Sinha, Yuqun Luo
http://www.biomedcentral.com/1753-6561/1/S1/S133
A two-step multiple-marker strategy for genome-wide association studies
Hugues Aschard, Mickaël Guedj, Florence Demenais
http://www.biomedcentral.com/1753-6561/1/S1/S134
Two-stage strategies to detect gene × gene interactions in case-control data
Amina Barhdadi, Marie-Pierre Dubé
http://www.biomedcentral.com/1753-6561/1/S1/S135
Marker selection for whole-genome association studies with two-stage designs using dense single-nucleotide polymorphisms
Jing Li
http://www.biomedcentral.com/1753-6561/1/S1/S136
One-stage design is empirically more powerful than two-stage design for family-based genome-wide association studies
Rori Rohlfs, Chelsea Taylor, Lucia Mirea, Shelley Bull, Mary Corey, Amy Anderson
http://www.biomedcentral.com/1753-6561/1/S1/S137
Two-stage study designs for analyzing disease-associated covariates: linkage thresholds and case-selection strategies
Mike Schmidt, Xuejun Qin, Eden Martin, Elizabeth Hauser, Silke Schmidt
http://www.biomedcentral.com/1753-6561/1/S1/S138
Two-stage analysis strategy for identifying the IgM quantitative trait locus
Tao Wang, Qing Lu, Monica Torres-Caban, Robert Elston
http://www.biomedcentral.com/1753-6561/1/S1/S139
Genome-wide association tests by two-stage approaches with unified analysis of families and unrelated individuals
Xuexia Wang, Zhaogong Zhang, Shuanglin Zhang, Qiuying Sha
http://www.biomedcentral.com/1753-6561/1/S1/S140
Estimating the number and size of the main effects in genome-wide case-control association studies
Po-Hsiu Kuo, József Bukszár, Edwin van den Oord
http://www.biomedcentral.com/1753-6561/1/S1/S143
Two-step intermediate fine mapping with likelihood ratio test statistics: applications to Problems 2 and 3 data of GAW15
Ritwik Sinha, Yuqun Luo
http://www.biomedcentral.com/1753-6561/1/S1/S146
Genome-wide association studies using an adaptive two-stage analysis for a case-control design
Kijoung Song, Qing Lu, Xiwu Lin, Dawn Waterworth, Robert Elston
http://www.biomedcentral.com/1753-6561/1/S1/S147
Comparison of false-discovery rate for genome-wide and fine mapping regions
Meredith Tabangin, Jessica Woo, Chunyan Liu, Todd Nick, Lisa Martin
http://www.biomedcentral.com/1753-6561/1/S1/S148
Genome-wide association tests by using block information in family data
Rui Tang, Fei Wang, Qiuying Sha, Shuanglin Zhang, Huann-Sheng Chen
http://www.biomedcentral.com/1753-6561/1/S1/S149
Handling linkage disequilibrium in linkage analysis using dense single-nucleotide polymorphisms
Kelly Cho, Qiong Yang, Josée Dupuis
http://www.biomedcentral.com/1753-6561/1/S1/S161
Combining multiple family-based association studies
Hua Tang, Jie Peng, Pei Wang, Marc Coram, Li Hsu
http://www.biomedcentral.com/1753-6561/1/S1/S162
Conditional genotype analysis: detecting secondary disease loci in linkage disequilibrium with a primary disease locus
Glenys Thomson, Ana Valdes
http://www.biomedcentral.com/1753-6561/1/S1/S163
Genome-wide association mapping using mixed-models: application to GAW15 Problem 3
Keyan Zhao, Magnus Nordborg, Paul Marjoram
http://www.biomedcentral.com/1753-6561/1/S1/S164
Robust ranks of true associations in genome-wide case-control association studies
Gang Zheng, Jungnam Joo, Jing-Ping Lin, Mario Stylianou, Myron Waclawiw, Nancy Geller
http://www.biomedcentral.com/1753-6561/1/S1/S165
Impact of marker density on the accuracy of association mapping
Weihua Zhang, Winston Lau, Cheng Hu, Tai-Yue Kuo
http://www.biomedcentral.com/1753-6561/1/S1/S166