For each TAD, an activity was assigned based on the dominant simplified ChromHMM state category. a, Average contact map of 300–400 kb TADs in inert, repressed and active regions of the genome. b, Average contact map of 300–700 kb peaks in inert, repressed and active regions of the genome. c, Average contact maps of most upregulated 20% (left) and most downregulated 20% (right) of 300–400 kb TADs. d, e Compartmentalization saddle plots in cis (d) and trans (e): average interaction frequencies between pairs of loci (100-kb bins) arranged by their compartment signal (eigenvector value). The interaction frequencies in cis (top row) are computed for observed and expected contact maps. Notice enrichment of AA and depletion of AB interactions in ΔNipbl cells. Histograms along the axes show the distributions of eigenvector values.