We also examined the known SNPs from GWASs of complex diseases and traits (downloaded from http://www.genome.gov/GWAStudies/ on August 15, 2012). Considering the diseases and traits with more than 10 GWAS significant SNPs (Supplemental Table 2), we found that that autoimmune disease–associated SNPs were most likely to influence eQTLs, whereas psychological and psychiatric associations showed minimal enrichment of eQTLs. This may be because our eQTLs are derived from LCL, whereas neuropsychiatric traits derive from functional variation in brain tissue. Alternatively, neuropsychiatric traits may be more often due to rare coding variants or private mutations.
