MixMAP: An approach to gene level testing of association
*Andrea S Foulkes, Division of Biostatistics, UMass Amherst School of Public Health and Health Sciences Gregory Matthews, Division of Biostatistics, UMass Amherst School of Public Health and Health Sciences Muredach P Reilly, Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania Keywords: Mixed effects, Mixture modeling, Genome-wide association studies (GWAS), Single-nucleotide polymorphism (SNP), Locus, Gene, Quantitative traits, Global Lipids Gene Consortium (GLGC), Meta-Analysis of Glucose and Insulin-related Traits Consortium Mixed modeling of Meta-Analysis P-values (MixMAP) is a recently described analytic framework for using publicly-available SNP-level summary data from candidate-gene association studies to characterize gene or locus-level associations with a measured trait. The underlying premise of this approach, similar to many clustered data methods, is that SNP-level effects are influenced by latent locus or gene level variables. In this presentation, we describe MixMAP, including a formal hypothesis testing framework with appropriate error control for genome-wide association studies (GWAS). We also describe a mixture model extension for further data exploration and characterization of gene-level associations that has the advantage of providing for more flexible underlying model assumptions. Application of MixMAP and its extensions to the Global Lipids Gene Consortium (GLGC) and the Meta-Analysis of Glucose and Insulin-related Traits Consortium (MAGIC) publicly-available GWAS metadata are presented for illustration. All statistical analysis is performed using R version 2.15.2 and the open-source, publicly-available MixMAP package (http://cran.r-project.org/web/packages/MixMAP/index.html).
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Key Dates
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April 30 - May 22, 2013
Invited Abstract Submission Open -
June 4, 2013
Online Registration Opens -
August 9 - August 23, 2013
Invited Abstract Editing -
August 23, 2013
Short Course materials due from Instructors -
August 26, 2013
Housing Deadline -
September 9, 2013
Cancellation Deadline and Registration Closes @ 11:59 pm EDT -
September 16 - September 18, 2013
Marriott Wardman Park, Washington, DC