Extended Data Figure 3. Clonal cell fractions of co-occurring events generally suggest co-existence within the same cell population.

For each pair of significantly co-occurring events (Fig. 2b), we compared the clonal fractions of the two events within each individual that carried both events. Each point in the plots corresponds to an individual carrying the pair of events under consideration; individuals are color-coded by the total number of events they carry. For nearly all pairs of events, the clonal fractions of the two events were very similar in most individuals carrying both events, suggesting that the events occurred in the same clonal cell population. A few exceptions do seem to exist, e.g., 22q– vs. 13q CNN-LOH cell fraction; here, the cell fractions suggest that 13q CNN-LOH events may be present in a subclone. This observation is consistent with acquired uniparental disomy of 13q providing a second hit within a del(13q14) clonal expansion, as we see in Extended Data Fig. 8. (We did not include del(13q14) vs. 13q CNN-LOH in this plot because inference of clonal fractions is complex for these overlapping events; see Extended Data Fig. 8.)