A systematic eQTL study of cis-trans epistasis in 210 HapMap individuals.

ABSTRACT: We aimed at identifying transcripts whose expression is regulated by a SNP-SNP interaction. Out of 47,294 expression phenotypes we used 3107 transcripts that survived an extensive quality control and 86,613 linkage disequilibrium-pruned SNP markers that have been genotyped in 210 individuals. For each transcript we defined cis-SNPs, tested them for epistasis with all trans-SNPs, and corrected all observed cis-trans-regulated expression effects for multiple testing. We determined that the expression of about 15% of all included transcripts is regulated by a significant two-locus interaction, which is more than expected (P = 2.86 × 10(-144)). Our findings suggest further that cis-markers with so called 'marginal effects' are more likely to be involved in two-locus gene regulation than expect

SUBMITTER: Becker J 

PROVIDER: S-EPMC3234520 | biostudies-literature | 2012 Jan

REPOSITORIES: biostudies-literature