KIT and gastrointestinal stromal tumor: Even if we were not able to cluster SDH-deficient and KIT-mutant GISTs based on the EIIS signal of single genes (Supplementary Figures S2 and S3), we can observe a lower average EIIS score in SDH-deficient GISTs (Figure 5A,B), likely driven by few EIIS genes (including CXCL10, STAT1, and HLA-E) that are significantly down-regulated in this GIST group.