Fig. 7: Higher-order chromatin structure within mouse embryonic neural progenitors.
From: An epigenome atlas of neural progenitors within the embryonic mouse forebrain
a Hi-C 1D interaction frequency heatmaps for MGE, LGE, CGE, and CTX at MGE-restricted Nkx2-1. Black triangle denotes an MGE-specific interaction, blue arrows denote non-MGE-specific interactions. b Capture-C pileup at Nkx2-1 locus extending to vertical dashed lines in a. Y-axis represents reads from loci interacting with Nkx2-1 promoter bait. Blue line indicates gene TSS, gray bars indicate potential regulatory elements directly interacting with the Nkx2-1 promoter. c Signal tracks for single-cell assays (scRNA-Seq and snATAC-Seq) and histone modifications correlated with active promoters (H3K4me3), active enhancers (H3K27ac), and repressed genes (H3K27me3) in each tissue. VISTA track includes tested enhancers. d–f Hi-C heatmaps (d), Capture-C interactions (e), and chromatin landscape (f) of CGE-enriched Nr2f1. Black triangles in d denote MGE and CGE-enriched interactions. g–i Hi-C heatmaps (g), Capture-C interactions (h), and chromatin landscape (i) of cortex-restricted Lhx2. Black triangles in g denote CTX-enriched interactions. Black scale bars above Hi-C plots in a, d, g = 500 kb, black scale bars below MGE Capture-C tracks in b, e, h = 100 kb.
