This is a well-powered MR and co-localization analysis using brain cis-eQTLs as instruments for bipolar disease, epilepsy, frontotemporal dementia, MS, cognitive function and years of schooling GWAS outcomes. Interestingly, for SCZ, three signals for CILP2, MAU2 and TM6SF2 met our criteria that had not been reported in a recent psychiatric genomics consortium study67, further emphasizing the value of our large eQTL dataset (Supplementary Note). Our results also identify increased CYP24A1 expression to be associated with MS risk and propose excitatory neurons as the cell type most susceptible to CYP24A1 expression changes and probably active vitamin D levels. The potentially novel role of CYP24A1 in the brain could play an important role in MS etiology, as may lowered expression of CLECL1 in microglia.