Phylogenetic Quantification of Intra-tumour Heterogeneity
Figure 6
Application to a case of endometrioid cancer.
A) Evolutionary tree of the OV03-04 case reconstructed from whole genome copy-number profiles. Approximate support values indicate how often each split was observed in trees reconstructed after resampling of the distance matrix with added truncated Gaussian noise. MEDICC performs reconstruction of ancestral copy-number profiles. Here, the (compressed) ancestral profiles for chromosome 17 are given as an example and MEDICC depicts unresolved ambiguities in the form of sequence logos. A star indicates no change compared to its ancestor. B) Ordination of the samples using kPCA shows four clear clonal expansions, comprising three separate Omentum groups and the Bl/VV group. C) Circos plot of selected genomic profiles (marked in bold in the tree) shows the extent of chromosomal aberrations across the genome. The two phased parental alleles are indicated in red and blue.