Chromatin modification domains form TADs that have compartment structure. (A,C) Active and H3K27me3 chromatin modification domains were aligned and contact map signal aggregated in the aligned regions and neighboring regions. Higher signal in the central square shows enrichment for within domain interactions, indicative of TAD structure. (B,D) All possible pairs of inter-domain contacts in the range of 50 kb to 2 M were aligned and signal aggregated as in A and C. Higher signal in the central square shows that domains interact more frequently with domains of the same type than with domains of opposite types, indicative of compartment structure. (E) Quantification of enrichment in contact frequencies (as percent differences) for domains and compartments in wild-type and met-2 set-25 mutants. For domains, the percent difference in contact frequency within domains versus neighboring regions is shown. For compartments, the percent difference in contact frequency between domains of the same type versus domains of different type is shown. See Methods for details.
