We validated our identified cis-regulatory effects by performing replication studies in independent expression data sets (Supplementary Table 4). Using the list of replication P-values from the different data sets we first estimated π0 which is the overall proportion of true null hypotheses among all tests performed. We could then quantify the proportion of significant replicated cis results in each study, π1, corresponding to π1≡ 1 - π0 20 and noted a high replication rate of cis-eQTLs across studies of similar size (π1= 0.7-0.76) (Supplementary Fig.3).
