Extended Data Fig. 6: Similarity between dome and trigone.
From: Sex and smoking bias in the selection of somatic mutations in human bladder
a) Top, number of SNVs that are shared between the dome and trigone samples (or unique to each of them) of donors for which both areas were brushed. Bottom, percentage of SNVs found in the trigone sample of each individual that are shared with the dome sample of the same individual (top), of SNVs found in the dome that are shared with the trigone (middle), and Jaccard index measuring the overlap of the SNVs identified within both samples (bottom). b) Distribution of Jaccard Index values of SNVs (first at the left), missense mutations (second), truncating mutations (third), and non-protein affecting mutations (last to the right) shared between the dome and trigone samples of the same individual and pairs of samples from different donors. The Jaccard index obtained for any subset of mutations is significantly higher for the dome and trigone samples of the same donor (p-values from one-tailed Wilcoxon-Mann–Whitney test). N indicates the number of sample pairs. c) Comparison of the distribution of Pearson’s correlation coefficients comparing dN/dS values between dome and trigone samples of the same donor (as done in Extended Data Fig. 5c) or from different donors. In the first boxplot, all mutations are included in the calculation of dN/dS values, while in the second, mutations shared between dome and trigone of the same donor are excluded. The correlation is significantly higher between dome-trigone pairs of samples of the same donor than of different donors (p-values from one-tailed Wilcoxon-Mann–Whitney test). Only pairs of samples for which Omega values of at least two genes could be computed are included in the boxplots. N indicates the number of sample pairs. Box plots in b and c display the quartiles with whiskers extending to the highest and lowest data points within 1.5 times the interquartile range.
