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- Title
Simple F Test Reveals Gene-Gene Interactions in Case-Control Studies.
- Authors
Guanjie Chen; Ao Yuan; Jie Zhou; Bentley, Amy R.; Adeyemo, Adebowale; Rotimi, Charles N.
- 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 genegene 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.
- Subjects
F-test (Mathematical statistics); CASE-control method; HERITABILITY; HOWARD University; ENVIRONMENTAL risk; ETIOLOGY of diseases; TYPE 2 diabetes
- Publication
Bioinformatics & Biology Insights, 2012, Issue 6, p169
- ISSN
1177-9322
- Publication type
Article
- DOI
10.4137/BBI.S9867