For another comparison with genome-wide eQTL, we also used the unpublished, but publicly available HBCC microarray cohort (dbGAP ID: 000979.v1.p1) described below to generate a large set of eQTL better powered for replication of the CMC-derived eQTL. Genotypes were obtained using the HumanHap650Yv3 or Human1MDuov3 chips, and ancestry components were subsequently inferred as above for CMC. Next, eQTL were generated using N = 279 genetically-inferred Caucasian samples (76 controls, 72 SCZ, 43 BP, 88 MDD) in an analogous manner to CMC, adjusting for diagnosis and 5 ancestry components.
