M5 loss.

(A) Summary of 27 M5 loss events and two M5 gain events in DFT1 biopsies. The M5 loss ID, together with tumour ID, clade group, and information about whether the sample is a cell line, a duplicate, or tetraploid (together with the tetraploid ID, S1 Table), are shown. M5 losses observed in cell lines within this set are inferred to have occurred prior to cell line establishment. M5 loss is defined as having CNVs 6BM (chromosome 2) and 11BM (chromosome 5) and at least one of the chromosome X events, 16R, 17R, 18R. CNV IDs for each event are provided (see S3 Table). Samples in which M5 loss is subclonal are tagged. In tetraploid tumours with polymorphic loss of both M5 copies within the tetraploid group, two M5 loss events are inferred. (B) Summary of 13 M5 loss events occurring exclusively in cell lines in culture or cell lines after inoculation into animals and interpreted as having occurred after cell line establishment. Tumour ID, clade group, and subclonality are indicated, as well as CNV IDs. (C) Observed and expected M5 losses and M5 losses per diploid genome in DFT1 biopsies, cell lines, diploid biopsies, and tetraploid biopsies. Only DFT1s with CNV data are included in the total counts, and duplicates are excluded. “M5 loss ID” refers to parts (A) or (B). (XLSX)