Postmitotic transcription and 3D regulation show locus-specific 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.