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Fig. 3 | Genome Biology

Fig. 3

From: Multiplexed capture of spatial configuration and temporal dynamics of locus-specific 3D chromatin by biotinylated dCas9

Fig. 3

Hierarchical organization of super-enhancers identified by multiplexed CAPTURE. a Schematic of the hierarchical structure of SEs based on constituent enhancer-mediated long-range chromatin interactions. b Identification of hierarchical SEs by the H-score computational metric. c A representative locus is shown for a hierarchical SE containing the hub enhancer. Contact profiles including the density map, interactions between enhancers, and all interactions for the dCas9-captured SE region (red bar) are shown. The identified hub and non-hub enhancers are depicted by green (hub) and red (non-hub) lines, respectively. d A representative locus is shown for a non-hierarchical SE without hub enhancer. e Chromatin landscapes at hub, non-hub enhancers, and non-hierarchical SEs in K562 cells. Spatial distribution of DHS, histone marks (H3K4me1 and H3K27ac), TFs (p300, GATA1, and TAL1), RNAPII, and chromatin structure factors (CTCF, SMC3, and RAD21) is shown in hub (N = 42) and non-hub enhancers (N = 260) and non-hierarchical SEs (N = 117). P values were calculated using the two-sample Kolmogorov-Smirnov (K-S) test. ***P < 0.001, **P < 0.01, *P < 0.05, n.s. not significant

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