Significant cis-eQTL results from this study were compared with other previously reported cis-eQTL data. These included the following tissue sources: monocytes,14 liver,16 lymphoblastoid cell lines,32 T cells,33 and fibroblasts.33 The comparative analysis focused on genes in eQTL pairs rather than eSNPs to reduce bias from different genotyping platforms used in these studies. In addition, only autosomal genes with expression that was successfully measured in ileal tissue using the Affymetrix platform were considered from the other sources. Variations of the comparative analysis based on 50-kb and 1-mb windows as well as an α level of 5% and 10% after FDR correction for multiple testing were all performed.
