GWAS enrichment analysis of significant eQTLs (P ≤ 5 × 10−8) for all genes in the top 5 modules (ranked by P value in module-trait correlation analysis), showed evidence of enrichment for SNPs associated with AD (GWAS p ≤ 0.05) in PGC-AD and alcohol consumption in UKBB-AC datasets (Table 2). The brown4 module was also enriched for GWAS association in the TAG-CPD dataset. The thistle2 module did not show enrichment of GWAS association. Surprisingly, genes in the thistle2 modules were significantly depleted for GWAS signals in the PGC-AD and UKBB-AC GWAS analyses. This finding was confirmed by permutation analysis.
