Figure 4:

Putative regulators and corresponding cis-regulatory elements during neural differentiation. (a) Regulatory network of TFs differentially expressed between Ros-E2 and Ros-L3. (b) Regulatory network of differentially expressed TFs between Ros-L3 and NPC1. (c, d) IGV screenshots of ATAC-seq and bulk RNA-seq as well as the corresponding scRNA-seq heat maps for putative neural regulator PRDM1(c) and ARID3A(d). Differential peaks in the dashed boxes possess putative TF motifs outlined in the form of sequence logo. (e, f) KEGG enrichment analysis of putative target genes under the regulation of PRDM1(e) and ARID3A(f). (g) Expression pattern of PRDM1 at indicated cell stages (left) and subsets (right) during neural differentiation. (h) Immunostaining of PRDM1 at Ros-L stage across different genetic background cell lines (H1_ESCs, H7_ESCs, H9_ESCs, iPS25, and iPS129). Scale bar represents 50 μm.