Extended Data Fig. 4: Transcription factor activity and chromatin remodeling in early and late cohorts.
From: Temporal control of progenitor competence shapes maturation in GABAergic neuron development in mice
a, Overview of FT+ scATAC-seq datasets: collection stage, number of replicates, and number of embryos per replicate. b, Schematic representation of the experimental procedure to generate FT+ scATAC-seq datasets. c, UMAP depiction of gene body accessibility for marker genes. Fabp7 for APs, Ccnd2 for BPs, Dlx5 and Gad2 for postmitotic inhibitory neurons, Maf for INs and Ebf1 for PNs. d, UMAP-embedding of cells in FT+ scATAC-seq datasets. Cells are grouped and colored by broad cell state and stage. e, Barplot quantifying peak types (distal, exonic, intronic, and promoter) at e12.5, e16.5, and overlapping sites. f, Volcano plot displaying differentially accessible peaks between stages, with x-axis showing fold-change and y-axis showing –log10(p-value). Two-sided Wilcoxon rank-sum test using FDR-correction. Significant TFs are highlighted (P <= 0.1 and 1<log2FC<–1. g, Coverage plots of e12.5-enriched sites (top) and e16.5-enriched sites (bottom). Aggregated coverage was calculated for each stage separately. h, Aggregate footprint profiles of select transcription factors in FTe12.5 + 6h and FTe16.5 + 6h.
