Fig. 4

Classification and annotations for eQTLs identified using a conventional or an interaction model. a 2 × 2 contingency table showing the number of total eQTLs identified using either the conventional (tumor) model, or the interaction (cancer) model, which were also significant (FDR < 0.05) in GTEx LCL or fibroblast data, but not GTEx breast data (P > 0.05). b The proportions of eQTLs identified by the conventional (bulk tumor) or interaction (cancer) model that are likely to be derived from normal cells, based on a. c Bar graph of the lowest 8 P values of 3679 GO biological processes tested; P values are for the enrichment of genes whose eQTL profile changes between TCGA breast cancer (identified by the interaction model) and normal breast tissue in GTEx