title: Simple f test reveals gene-gene interactions in case-control studies.
abstract: Missing heritability is still a challenge for Genome Wide Association Studies (GWAS). Gene-gene interactions may partially explain this residual genetic influence and contribute broadly to complex disease. To analyze the gene-gene interactions in case-control studies of complex disease, we propose a simple, non-parametric method that utilizes the F-statistic. This approach consists of three steps. First, we examine the joint distribution of a pair of SNPs in cases and controls separately. Second, an F-test is used to evaluate the ratio of dependence in cases to that of controls. Finally, results are adjusted for multiple tests. This method was used to evaluate gene-gene interactions that are associated with risk of Type 2 Diabetes among African Americans in the Howard University Family Study. We identified 18 gene-gene interactions (P < 0.0001). Compared with the commonly-used logistical regression method, we demonstrate that the F-ratio test is an efficient approach to measuring gene-gene interactions, especially for studies with limited sample size.
authors: Center for Research on Genomics and Global Health, NHGRI, NIH, Bethesda, Maryland, USA.
authors: Guanjie
authors: G
authors: Chen
authors: Ao
authors: A
authors: Yuan
authors: Jie
authors: J
authors: Zhou
authors: Amy R
authors: AR
authors: Bentley
authors: Adebowale
authors: A
authors: Adeyemo
authors: Charles N
authors: CN
authors: Rotimi