Fig. 1: MyoD regulates A/B compartment switching and contact domain boundary (CDB) formation in muscle cells.
From: MyoD is a 3D genome structure organizer for muscle cell identity
a Association of MyoD-binding peaks at promoter regions and related gene expression. Heatmaps show the MyoD-binding peaks at promoters (centralized at the TSS within 3 kb distance) and related gene expression trends in WT and MKO myoblasts (left panel). Corresponding data for WT and MKO myocytes is shown in the right panel. b Strategy for genetic investigation of the chromatin architectural roles of MyoD. c Principal Component Analysis (PCA) of the values of compartments or the relative insulation scores of contact domain boundaries (CDBs) among the four indicated sample types. Each dot represents an individual biological replicate. d Bar plots showing the percentage of A/B compartment shifts between WT and MKO myoblasts and myocytes (left panel). Bar plots showing the number of relative insulation-enhanced or -reduced CDBs between WT and MKO in proliferating and differentiating muscle stem cells (right panel). e Heatmaps of the A/B compartment-shifted regions between WT and MKO myoblasts and myocytes. f Hi-C aggregation plots centered at differential CDBs between WT and MKO myoblasts and myocytes. g Probability density of insulation score at genetic regions bound by CTCF or MyoD. Four classes were assessed: CTCF-bound; MyoD-bound; MyoD-bound; and CTCF-unbound within a 20 kb distance; and MyoD-bound and CTCF-unbound within a 40 kb distance.
