Fig. 1

Co-localization of XPC and Pol II genome-wide. a Relative protein expression of XPC and α-tubulin analyzed by western blotting of whole-cell extract from XP-C^WT, XP-C^DEL, and XP-C^MUT fibroblasts, in presence or absence of ATRA. b Relative mRNA expression of RARβ2 in XP-C^WT, XP-C^DEL, and XP-C^MUT fibroblasts, after ATRA treatment in 12-h time-course experiment. Error bars represent the standard deviation of three independent experiments. c Overlapping of MACS14-determined peaks for both Pol II and XPC in XP-C^WT cells after ATRA induction. XPC and Pol II peaks correspond to recurrent peaks found in three independent ChIP-seq experiments. d HOMER annotation of the 2191 XPC peaks and proportion of promoter annotated peaks to overlap with a Pol II peak. e Expression level of XPC-bound genes identified by ChIP-seq were determined by RNA-seq by comparing both ATRA-treated XP-C^WT and XP-C^DEL cells. Differential expression analysis of these genes in XP-C^WT, compared to XP-C^DEL, was then computed using EdgeR represented as a circle plot. XPC-negatively regulated genes (upregulated in XP-C^DEL) are enlightened in green and XPC-positively regulated genes (downregulated in XP-C^DEL) in blue. f Relative mRNA expression of two genes, CCND1 as XPC-negatively regulated one and DAPK1 as XPC-positively regulated one, after ATRA treatment in XP-C^WT, XP-C^DEL, and XP-C^MUT cells. Error bars represent the standard deviation of three independent experiments. g Diagrams representing the mean tag density of Pol II ChIP-seq experiment for XPC-negatively regulated and -positively regulated genes, as they were previously determined in XP-C^WT and XP-C^DEL cells