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. Author manuscript; available in PMC: 2022 Jan 1.
Published in final edited form as: Nature. 2021 Jun 23;595(7867):438–443. doi: 10.1038/s41586-021-03674-1

Figure 3: Chromatin accessibility and nascent transcription identify a cis-element controlling Meox1 expression.

Figure 3:

a. UMAP plot of fibroblasts colored by sample identity or Meox1 expression with associated violin plots. b. Mouse Meox1 locus showing from top to bottom: scATACseq from fibroblasts in vivo; ChIPseq for BRD4 (GSE46668), H3K27ac and CTCF (ENCSR000CDF and ENCSR000CBI) in the adult heart; coverage of PROseq in Unstim and TGFβ-treated fibroblasts in vitro; and co-accessibility measures between Meox1 promoter and Peak9 region in fibroblasts. A highly transcribed region (Peak9/10) is highlighted in pink. c. Schematic showing CRISPRi targeting of 3 regions within the Meox1 enhancer (top). Meox1 expression by qPCR in Unstim or TGFβ-treated fibroblasts upon CRISPRi targeting either Peak5 (****p-val=1.82e−10), Peak9/10 or Peak13 (****p-val=1.64e−8). Values normalized to CRISPRi control line under unstim conditions (Extended Data Fig. 10e). d. Meox1 expression by qPCR in Unstim or TGFβ conditions in WT (****p-val=1.99e−8) or Peak9/10 deleted cells (****p-val=1.99e−8). e. Peak9/10 eRNA (top, **** p-val=1.76e−8 and ****P=5.29e−6) and Meox1 (bottom, **** p-val=9.80e−9 and **** p-val=1.29e−8) expression by qPCR in Unstim and TGFβ conditions with control or Smad3-targeting siRNAs.

c-e Data are means ± SEM. One-way ANOVA followed by Tukey post hoc test.