Extended Data Fig. 7: Clone-specific ART in the NSCLC dataset affects <10% of the genome on average as expected from previous studies.

The fraction of clones affected by ART was calculated by combining the fractions of clones affected across all samples (y axis) based on SPRINTER’s clone-specific results in the NSCLC dataset for either late-to-early (positive values, dark magenta) or early-to-late (negative values, dark green) ART in 50 kb genomic bins along the genome (x axis, with autosomes separated by dashed lines). ART was inferred only in high-confidence cases (that is, only ART events that were present in most clones in >2 samples). Known cancer oncogenes in late-to-early genomic regions and known cancer tumor suppressor genes in early-to-late regions (from the COSMIC Cancer Gene Census) are annotated (black text and lines), also including tumor- and metastatic-clade-specific ART events affecting genes in the expression analysis (for example, PDL1, CDK12, NCOA2 and KRAS).