Fig. 6: Effects of contact QTLs on TF binding.

A Significantly enriched TFs at cQTLs using monocyte ChIP-seq peaks (ReMap catalogue and in-house CTCF, green triangles) and ATAC-seq predicted binding (union of peaks from MaxATAC and footprints from TOBIAS, per TF, purple dots). TFs with adjusted q value > 5 from Remapenrich are labelled, indicating a p value < 0.05 after adjusting for multiple testing. All ChIP-seq TFs are labelled for reference. The source data for significant TFs can be found in Supplementary Data 12. B Pie chart: cQTLs with predicted perturbations in TF binding, detected by Enformer or DeepSea. The green segment shows the number of cQTLs binding TFs. The blue and purple segments show the number of cQTLs that are further predicted to perturb the binding of those TFs, either through the union (blue) or consensus (purple) of Enfomer and DeepSea. Bar chart: histogram of the number of TFs predicted to be perturbed by cQTLs with at least one TF perturbation. C TFs whose binding was predicted to be perturbed by at least 10 cQTLs. D Top: numbers of cQTLs with predicted effects on the binding of SPI1, CEBPB and STAT3 that disrupted the known sequence binding motif for either the same (red) or other predicted perturbed TFs (grey). Bottom: TF motifs disrupted by cQTLs that were predicted by Enformer to perturb STAT3 binding jointly with other TFs but did not disrupt the known STAT3 motif. Source data for A–D are available on OSF¹⁶⁸.