Figure 3: Clonal analysis of gastric cancers.

(a) Stack plot of SNVs segregated into clonal and subclonal variants. The x-axis: tumour sample; y-axis: number of somatic variants in the 10,000s. (b) Plot of clonality and ploidy. The samples are sorted in ascending order of estimated clonality. The samples are also annotated according to Lauren classification (I: intestinal and D: diffuse subtype GC). The diffuse histological subtype samples tend to be diploid and show a lower percentage of clonal variants and lower number of variants. By contrast, the intestinal subtype samples show polyploidy and tend to be more clonal. (c) Clonal and subclonal mutation percentage counts across all tumours for selected recurrent mutated (non-silent) genes in at least three tumours. The x-axis is labelled with the sample count and gene name, and the y-axis is the tallied percentage for each classification. Potential existence of cells with homozygous deletion in some cells along with cells harbouring mutation in one gene copy with loss of other copy in the same tumour sample was labelled as subclonal-del.