Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion [ChIP-exo]
Structural loops are known to collapse in the absence of cohesin, whereas regulatory loops largely persist with only minor transcriptional changes, leaving unresolved questions about cohesin's role in establishing regulatory interactions during cell state transitions. To investigate this, we degraded RAD21, a core cohesin subunit, in mouse embryonic stem cells (ESCs) transitioning from mitosis to G1 under self-renewal or differentiation conditions. We performed ChIP-exo for H3K4me3 to map marked regions and for CTCF and RAD21 to map binding regions in ESCs. Overall design: Characterization of H3K4me3-marked regions and CTCF and RAD21 binding regions with ChIP-exo in ESCs.