Fig. 8: Copy number alterations and signatures stratified by BRCA status.

A Copy number amplification rates for 18 frequently altered genes in paired samples with or without pathogenic alterations in BRCA1/2, stratified by diagnosis or relapse (n = 9, 16, 49, & n = 52, BRCA-mutant diagnosis and relapse, BRCA-wildtype diagnosis and relapse, respectively). B Copy number alteration rates for 18 frequently altered genes in paired samples alterations in BRCA or without (BRCA-mutant and wildtype, respectively), stratified by amplification or deletion event types (n = 25, & n = 101, BRCA-mutant and wildtype, respectively). C Absolute copy number state violin plots for the 18 frequently altered genes between paired BRCA and non-BRCA samples (n = 25, & n = 101, BRCA-mutant and wildtype, respectively). Individual data points are overplotted. Statistics shown is a two-sided Mann–Whitney U test, without adjustments for multiple comparisons. D Radar plot of BRCA-mutant and wildtype copy number signature exposures. The distribution for all signature exposures for each comparison group is visualised using a shaded polygon. The radial points indicate the inverse ILR transformation of beta intercept and beta intercept + beta slope for each signature generated during signature modelling, for BRCA-mutant and wildtype, respectively. Differences in global abundance of copy number signatures between BRCA-mutant and wildtype samples was significantly different (p = 0.25, two-sided Wald test; n = 49 and n = 216, BRCA-mutant and wildtype, respectively).