Overlap was assessed between genes containing DMRs (n = 94) and findings of genome-wide association studies (GWASs) of SZ, BD and major depressive disorder.14–20 Twenty-two of the DMRs identified were within the major histocompatibility complex (MHC; Fig. 3), which has been implicated in the pathogenesis of SZ through a large-scale GWAS.16 In addition, we identified DMRs within two additional genes (IGSF9B, CNTN4) that showed genome-wide association with SZ in the same study. This evidence concerns the gene CNTN4 and major depressive disorder.