Fourth, we applied methods to integrate GWA SNP results with those from gene expression and methylation quantitative trait loci studies (eQTL and mQTL). SMR49 analysis identified 13 major depression associated SNPs with strong evidence that they control local gene expression in one or more tissues, and nine with strong evidence that they control local DNA methylation (Supplementary Table 9 and Supplementary Data 2). A transcriptome-wide association study50 applied to data from the dorsolateral prefrontal cortex51 identified 17 genes where major depression-associated SNPs influenced gene expression (Supplementary Table 10). These genes included OLFM4 (discussed above).
