Extended Data Fig. 2: Substitution analysis.
From: Intra-tumour diversification in colorectal cancer at the single-cell level
a, Comparison of phylogeny reconstructions from WGS analysis of clonal organoids (left) and subclonal analysis of the original tissue biopsies (right) from individuals P1–P3. The analysis of clonal organoids allows a very detailed phylogeny, exact placement of driver mutations and analysis of cell-to-cell differences. b, Venn diagrams depicting overlap between substitutions identified by the organoid approach and the tissue biopsy approach. c, Venn diagrams depicting overlaps between clones P2.N3 and P2.T6.2 and their respective subclones (see Methods). Only a small proportion of the total mutations is added during culturing in both normal and tumour organoids. d, New signature identified in this study in tumour organoid samples from P3, characterized by T > G, T > A and T > C mutations at NTA and NTT trinucleotides (mutated bases underlined). e, Contribution of each of the identified mutation signatures to individual samples. Top (by_sample), results of signature extraction from all substitutions identified in each sample (Supplementary Notes). Bottom, proportion in each sample derived by adding up proportions in the branches of the phylogenetic tree that make up that sample (identical to Fig. 1). f, Numbers of C > T mutations by CpG context. g, Signature analysis of substitutions identified in the original tissue biopsies.
