We used summary-data-based Mendelian randomization (SMR)49 to identify loci with strong evidence of causality via gene expression and DNA methylation (eQTL and meQTL). SMR analysis is limited to significant cis SNP-expression (FDR < 0.05) and SNPs with MAF > 0.01 at a Bonferroni-corrected pSMR. Due to LD, multiple SNPs may be associated with the expression of a gene, and some SNPs are associated with the expression of more than one gene. Since the aim of SMR is to prioritize variants and genes for subsequent studies, a test for heterogeneity excludes regions that may harbor multiple causal loci (pHET < 0.05; a very conservative threshold). SMR analyses were conducted using eQTLs from eQTLGen Consortium (whole blood), GTEx (11 brain tissues), and Common Mind Consortium43,51 as well as meQTLs from whole blood98.
