High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion

We employed K562 CTCF MNase HiChIP to footprint CTCF & cohesin and investigate cohesin extrusion dynamics at the fragment level. We additionally re-sequenced the mouse embryonic stem cell (mESC) Region Capture Micro-C libraries from Goel et al. Nature Genetics 2023 to 150bp reads (WT, DMSO, and IAA conditions for Fbn2, Klf1, and Ppm1g loci) to verify the cohesin footprint we observed in CTCF HiChIP. K562 CTCF MNase HiChIP and mESC RCMC (Fbn2, Ppm1g, Klf1 loci) in WT, DMSO, and IAA conditions (150bp reads for all experiments).