which this contributed to the observed stimulus specificity of eQTL, we restricted our analysis to probes with detectable expression (Illumina detection score P < 0.01) in more than 90% of samples from each data set. We found that 33.4% (1702 of 5082) of these probes only had an eQTL after treatment, indicating that context-specific eQTL are identified because of both treatment-induced regulatory effects and treatment-inducing gene expression to detectable levels. We observed that the range of effect sizes (all eQTL, 6.0 to 94.7%; median, 11.3%) was markedly similar across the different conditions, although IFN-γ–associated eQTL had slightly larger effect sizes than all others (fig. S4).
