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. Author manuscript; available in PMC: 2016 Nov 16.
Published in final edited form as: Nat Cell Biol. 2016 May 16;18(6):595–606. doi: 10.1038/ncb3354

Figure 7. Retinoic acid signalling pulse in EB haemato-vascular cells induces transcriptional programs associated with definitive haemogenic endothelium and HSC fate.

Figure 7

(A) FPKM quantification from RNA-seq for RAR-α targets RAR-β and RARA-γ and (B) HOXA genes in sorted AM580-treated and DMSO control hESC-HSPCs (mean from 2 independent experiments). (C) RNA-seq genome browser screen shot for HOXA cluster and RUNX1 in hESC- and FL-HSPCs after 6 days of AM580 treatment. (D) GO categories of biological processes significantly upregulated in hESC-HSPCs by AM580 treatment at day 6. (E) FPKM quantification values from representative genes from vasculature development and transcription GO categories from genes significantly upregulated in hESC-HSPCs by 6 day AM580 treatment (2-fold or greater change, p-value <0.05, mean from 2 independent experiments). (F) ATAC-seq genome browser shot for HOXA cluster and RUNX1 assessing change in accessibility of regulatory regions in hESC- and FL-HSPCs upon AM580 treatment. (G) Peaks significantly induced by AM580-treatment grouped based on the distance from TSS. (H) GO categories enriched among genes showing significant difference in accessibility after AM580 treatment. (I) ATAC-seq signal proximal to the TSS of genes up- or downregulated by AM580 treatment. (ATAC-seq data shows one representative data set from two independent experiments that showed comparable results). See Supplementary Table 5 and GEO database GSE76685 for values used to generate graphs in 6 B, E, G, H and I.