Fig. 6

Inducing Etv2 causes both chromatin relaxation and closure at Etv2 binding sites. a The dot plots compare the changes of motif associated chromatin accessibility estimated by chromVAR (x-axis) and the difference of the percent of TFBS with decreased or increased chromatin accessibility estimated by SeATAC (y-axis). \({{\varvec{z}}}_{{{\varvec{D}}{\varvec{o}}{\varvec{x}}}^{+}}\) and \({{\varvec{z}}}_{{{\varvec{D}}{\varvec{o}}{\varvec{x}}}^{-}}\) are the normalized deviation score of Dox⁺ condition (Flk1⁺ cells at 7 days post-induction for MEF reprogramming or Flk1⁺ cells at 12 h post-induction for EB differentiation) and Dox⁻ condition (undifferentiated MEFs or D2.5 EBs). \({{\varvec{p}}}_{\downarrow }\) and \({{\varvec{p}}}_{\uparrow }\) are the percent of TFBS that shows decreased or increased chromatin accessibility in Dox⁺ condition compared with the Dox⁻ condition. b The barplots show the genomic distribution of Etv2 binding sites with decreased (NFR- > NOR) or increased (NOR- > NFR) chromatin accessibility in EB differentiation or MEF reprogramming. The change of chromatin accessibility is estimated by SeATAC. c The aggregated V-plot include 3000 and 1623 Etv2 binding sites that have increased (NOR- > NFR) or decreased (NFR- > NOR) chromatin accessibility during MEF reprograming. The heatmap color indicates the estimated read density. d The heatmaps show the Etv2, Brg1, H3K27ac ChIP-seq of 3000 and 1623 Etv2 binding sites that have increased (NOR- > NFR) or decreased (NFR- > NOR) chromatin accessibility at day 2.5 EB (Brg1 and H3K27ac), 3 h post Etv2 induction (Etv2), and 12 h post Etv2 induction (Etv2, Brg1, and H3K27ac). The change of chromatin accessibility is estimated by SeATAC. e The barplots show the percent of genes that were down-regulated, up-regulated, or not changed between day 2.5 EB and 12 h post Etv2 induction. f–g Brachyury (T) and Mycn (f) are significantly down-regulated during the Etv2-induced differentiation and (g) have Etv2 motifs that become significantly less accessible during differentiation at their promoter region (− 5000 to + 1000 bp region flanking the TSS). The heatmap color indicates estimated read density