Fig. 6: Extensive presence of WGDs and subclonality correlates with abundance of deletions and TP53 LOH.

a Allele-specific CNAs of major tumor clones and presence/absence of WGD are inferred for 270 human and PDX samples from 54 cases of different cancer types. b Presence of WGD, deletion abundance, LOH of gene TP53, intra- and inter-sample subclonality are indicated (black) across all samples and significant correlations between pairs of these features are reported on the right side (p-values are computed from Pearson’s chi-squared statistic). c The absence/presence of a WGD (top/bottom) are supported by the presence of low/high numbers of distinct clusters of genomic regions (each point corresponds to a 250 kb genomic bin and is colored according to the corresponding allele-specific CNAs using the same color legend as in a) with different values of allelic balance and read depth in two PDX samples from two HNSC and COAD patients. d A kernel density estimate of the allelic balance is computed for all samples without (top) or with (bottom) a WGD across 250 kb bins of chromosome 17 (whole-chromosome density is shown on the right side) and in a 6 Mb genomic region surrounding gene TP53 (dashed red lines). e For a colon cancer (COAD) patient, a tree represents the relationships between the corresponding human and PDX samples (nodes), which contain four major tumor clones (violet, green, magenta, and dark orange) with different CNAs (bottom with allele-specific CNAs colored as in a). Source data are provided as a Source Data file.