IFNG and gastric cancer: An illustrative example of the context-specific splicing occurring across conditions is at the gene MUC1. Alternative transcripts of MUC1, including ENST00000612778 (FDR 2.7 × 10−17) and ENST00000620103 (FDR 8.0 × 10−15), showed tQTL (but not gQTL) upon exposure to IFN-γ (Fig. 2f), mapping to rs4072037, a risk allele (rs4072037:G) for oesophageal and gastric cancer, highlighting the potential for insights into mechanisms of disease of such features (Fig. 2g)33,34.