We used CMC DLPFC and 12 GTEx–derived brain tissue prediction models to impute GREX of 19,661 unique genes in cases and controls from the PGC-SCZ GWAS study22. Predicted expression levels were tested for association with schizophrenia. Additionally, we applied CMC and GTEx-derived prediction models to summary statistics from 11 PGC cohorts (for which raw genotypes were unavailable) and the CLOZUK2 cohort. Meta-analysis was carried out across all PGC-SCZ and CLOZUK2 cohorts using an inverse-variance based approach in METAL. Our final analysis included 40,299 cases and 65,264 controls (Supplementary Figure 4a).
