Fig. 4. Mediator-CDK subunits control canonical CTCF-cohesin binding sites.

A Two example regions showing CTCF binding in WT, ∆MED12 and ∆CCNC cells. Gray rectangle indicates position of HCD B Venn diagram showing the overlap between CTCF and SCC1 peaks in WT, ∆MED12 and ∆CCNC cells. C Aggregate alignment of CTCF ChIPseq signal on canonical (i.e. CTCF/SCC1 co-bound sites) stratified for inside and outside a H3K9me3 domain. D Virtual loop anchorpoints were selected as intersection of CTCF and SCC1 sites that were in the top 10% with the strongest decrease in signal. Pairwise alignment of Hi-C signal (PE-SCAn) on virtual anchorpoints. E Relative enrichment of lost virtual anchorpoints inside H3K9Me3 domains versus expected based on circular permutation (shuffled).