Chunk #60 — Methods and Materials — Test for GWAS association signals enrichment

Source

Integrating mRNA and miRNA Weighted Gene Co-Expression Networks with eQTLs in the Nucleus Accumbens of Subjects with Alcohol Dependence.

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The enrichment analysis was performed by assessing the association between AD and whole gene eQTLs SNP-set in the R package gskat. Gskat performs a set-based test for the effects of a SNP set in association studies for both quantitative and discrete phenotypes using the generalized estimation equation approach. Specifically, a Kernel Machine (KM) estimating based statistic was constructed to test for the association between an AD and other alcohol related phenotype and a SNP set.