Comparison of Tests for Association with Interaction of Genes Between Two Loci

• Activity Number: 418
• Type: Contributed
• Date/Time: Tuesday, August 2, 2011 : 2:00 PM to 3:50 PM
• Sponsor: IMS
• Author(s): Jie Kate Hu*+ and Xianlong Wang and Pei Wang
• Companies: University of Washington and Fred Hutchinson Cancer Research Center and Fred Hutchinson Cancer Research Center
• Keywords: Gene-Gene Interaction ; GWAS ; Linkage Disequilibrium (LD) Test

Abstract

Detection of gene-gene interaction has become a hot topic in current Genome Wide Association Studies (GWAS). Besides traditional logistic regression analysis, new methods have been developed in recent years such as comparing linkage disequilibrium (LD) in case and control groups, logistic kernel machine based test, and case-only analysis. Our interest is to compare these tests on their powers to detect either interaction effect between two genes at two unlinked loci or the overall association including both interaction and main effect. Previous comparison studies have been confused by quite different and usually unstated definition of interaction. To address this problem, we point out the differences of the assumption and definition for each gene-gene interaction test. We then investigate about ten different tests under different scenarios with the purpose to provide investigators some guidance on choosing appropriate statistical tests for various research interests and background.