Fig. 3: Correlation between cohesin redistribution and loop rewiring during RIS.

a Number of CTCF and cohesin ChIP-seq peaks with increased (green) and decreased (blue) binding in RIS relative to growing (FDR 0.05, differential binding analysis performed with THOR). b Position of CTCF and cohesin binding changes relative to the growing IMR90 loop spans (loops annotated in IMR90 cells by Rao et al.¹³); each loop is represented as a radial segment linking the two loop anchors with an extra 20 kb at each end. Each significant binding change is represented as a yellow (increased) or magenta (decreased) dot, for both CTCF and cohesin. c Differential aggregated Hi-C interactions neighbourhoods (20 kb resolution) of all IMR90 loops (1857 loops) that exhibited significantly decreased cohesin binding at one or both loop ends (left). Compare to the subset (229 loops) with significantly decreased Hi-C interactions during RIS (right). d Growing and RIS Hi-C matrices (10 kb resolution) centred on the IMR90 loop (from Rao et al.¹³) consisting of the CCNA2 gene promoter and associated enhancers, as well as the cHi-C differential log-fold change matrix (5 kb resolution) of this loop. Significantly decreased interactions between the CCNA2 gene promoter and associated enhancers are shown as blue arcs.