Fig. 2

Effect of cisplatin on gene expression and DNA mutations. A Boxplot of the number of indels arising in each generation for the control condition (blue), cisplatin low dose (green) and cisplatin high dose (red). Each dot represents ATACseq data from a generation in the epimutation accumulation line with control: N = 16, low dose: N = 11, high dose: N = 13. Two lineages per condition were used. A significant increase in indels number was observed in high-dose cisplatin (Kruskal–Wallis rank-sum test (p-value = 0.05) followed by the Conover-Iman test: control vs. high dose, p-value = 0.01; control vs. low dose, p-value = 0.40; low dose vs. high dose, p-value = 0.03). B Volcano plot representing the gene expression changes in low-dose cisplatin compared to control. RNAseq data of each generation of the two lineages in each condition were used as replicates in DESeq2 giving control: N = 21, low dose: N = 20. x-axis = log2FoldChange of the genes; y-axis =  − log10(adjusted p-value). Both fold change values and adjusted p-values were calculated using DESeq2. Genes in red are significantly upregulated, genes in blue are significantly downregulated and genes in black showed no change in expression. C Volcano plot representing the gene expression changes in high-dose cisplatin compared to control. RNAseq data of each generation of the two lineages in each condition were used as replicates in DESeq2 giving control: N = 21, high dose: N = 19. x-axis = log2FoldChange of the genes; y-axis =  − log10(adjusted p-value). Both fold change values and adjusted p-values were calculated using DESeq2. Genes in red are significantly upregulated, genes in blue are significantly downregulated and genes in black showed no change in expression. D Venn diagram of differentially expressed genes in high-dose cisplatin compared to control (red), differentially expressed genes in low-dose cisplatin compared to control and genes differentially expressed in both conditions (low and high dose). Six genes were differentially expressed in the low-dose condition, 1592 in the high-dose condition and 5 genes shared differentially expression in the two conditions. Supporting information is available in the Excel file: “Additional file 9”