Methods of genome-wide gene-gene interaction analysis

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We propose utilizing a model selection strategy for an exhaustive interaction analysis in whole GWA data. Our new software, EPISIS, implements the ‘sure independence screening', which has two major parts, screening and variable selection;EPISIS can complete an exhaustive search for all possible SNP by SNP interactions innon-filtered GWA data within several days under common computing environments. Ourfast program is applied to find novel genetic components in GWA data from WTCCC (Wellcome Trust Case-Control Consortium).