HYST: a hybrid set-based test for genome-wide association studies, with application to protein-protein interaction-based association analysis.

ABSTRACT: The extended Simes' test (known as GATES) and scaled chi-square test were proposed to combine a set of dependent genome-wide association signals at multiple single-nucleotide polymorphisms (SNPs) for assessing the overall significance of association at the gene or pathway levels. The two tests use different strategies to combine association p values and can outperform each other when the number of and linkage disequilibrium between SNPs vary. In this paper, we introduce a hybrid set-based test (HYST) combining the two tests for genome-wide association studies (GWASs). We describe how HYST can be used to evaluate statistical significance for association at the protein-protein interaction (PPI) level in order to increase power for detecting disease-susceptibility genes of moderate effect siz

SUBMITTER: Li MX 

PROVIDER: S-EPMC3511992 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature