14,366 genes were derived from individual-level data in dorsolateral prefrontal cortex of 467 subjects, 209 of which were schizophrenia patients. We accessed the ROSMAP eQTL summary statistics of ~6.4 million SNPs for 12,979 genes, which were derived from individual-level data in dorsolateral prefrontal cortex of 494 subjects. We accessed the Braineac eQTL summary statistics of ~6.2 million SNPs for 25,490 genes, which were derived from data in 10 brain regions of 134 subjects free of neurodegenerative disorders20. The gene expression levels in Braineac were measured by Affymetrix Human Exon 1.0 ST Arrays. For blood eQTL data, we used eQTL summary data from CAGE9 (38,624 gene expression probes and ~8 million SNPs on 2765 subjects) and eQTLGen (44,556 gene expression probes and ~10 million SNPs on 14,115 subjects). Gene expression levels in CAGE and eQTLGen were measured by Illumina gene expression arrays. We mapped the probes to genes based on the annotations provided by Illumina. The eQTL summary data available in GTEx, CAGE, and eQTLGen were from previous analyses of standardized gene expression levels with mean 0 and variance 1, whereas expression levels in the other data sets (i.e., CMC, ROSMAP, and Braineac) were not standardized. To harmonize the units across
