Fig. 4: Average CPD damage signatures at bound or unbound predicted TF binding sites.

a Average cell/naked damage ratios (log₂) from Capture CPD-seq at predicted SRF/CArG, ETS and NF-Y sites overlapping with ChIP peak calls (top) or outside of ChIP peaks (bottom). Individual data points are indicated and colored by strand to account for degenerate positions where a diPy may be present on either the forward or the reverse strand, which are structurally distinct situations (a CPD hotspot effect can be seen at the two bases preceding the core TTCC ETS motif when pyrimidines are present at these positions on the forward strand, as described previously^6,14). Individual predicted sites and ChIP peak calls are shown in Supplementary Fig. 10. b Average cell/naked damage ratios at consensus diPy positions for SRF/CArG, ETS and NF-Y in sparse CPD mapping data¹⁰, obtained by summarization of individual CPD detections across thousands of ChIP-supported binding sites and unbound control sites genome-wide. Sequence motifs were selected such that key informative diPy positions are non-degenerate. Source data are provided as a Source Data file.