Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion [RNA-seq]

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 RNA-seq to profile gene expression in ESCs and EpiLCs. Overall design: RNA-seq to identify transcriptional changes upon RAD21 depletion or CBP/p300 inhibition in ESCs and EpiLCs.