Extended Data Figure 6: Nucleotide excision repair and mutation rate in DHS centred regions.
From: Nucleotide excision repair is impaired by binding of transcription factors to DNA
a–c, The distribution of nucleotide excision repair, for the two types of UV-light induced DNA damages, is shown for all DHS genome-wide (a), DHS regions overlapping promoters (2.5 kb from TSS) (b) and DHS regions outside promoters (c). Within b and c the first column shows the mutation rate in regions that do not contain sequences of any overlapping TFBS (noTFBS), neither predicted TFBS (from PIQ31, corresponding to 1,284 different motifs) or known TFBS (mapped from ENCODE28 ChIP-seq analysis, corresponding to 109 TFs). The second column contains only predicted TFBS (predTFBS), removing any sequences that overlap the known TFBS. The third column contains the subset of sequences that overlap with all predicted TFBS, without removing the known ones (predTFBSall). The last column contains the subset of sequences with known TFBS. The two top rows in a, b and c show the CPD repair on NHF1 and CS-B cells, respectively and the two bottom rows show the 6–4PP repair on NHF1 and CS-B cells, respectively. Here average repair levels are shown separately for the forward and reverse strands of the genome (as obtained from ref. 6). The zero coordinate in the x axis corresponds to the DHS peak mid-point, and the magenta line above it represents the average size of DHS (~150 nt).
