Fig. 7 | Nature Communications

Fig. 7

From: A non-canonical BRD9-containing BAF chromatin remodeling complex regulates naive pluripotency in mouse embryonic stem cells

Fig. 7

BRD4 recruits GBAF to target gene sites in a BD-dependent manner. a Scatterplot of the mRNA log2 FCs in I-BRD9/DMSO and JQ1/vehicle for 664 common DEGs. Linear regression analysis was performed to calculate the R2, with the best fit shown as a pink dashed line. b Venn diagram of overlaps between BRG1, BRD9, and BRD4 ChIP binding sites in ESCs, with n representing the number of observed peaks. c ESCs were treated with either DMSO or 200 nM of HDAC inhibitor trichostatin A (TSA) for 6 h prior to nuclear lysate collection then IP experiments were performed against BRD9 with or without I-BRD9. Molecular weights from ladder are indicated. d Quantification of BRD4 signal normalized to BRD9 bait signal then normalized to untreated from two biological experiments labeled a and b. Source data are provided as Source Data file. e Scatterplot of log2-transformed BRD4 ChIP tags in DMSO- and I-BRD9-treated ESCs. Blue and red correspond to 1.5-fold decrease or increase of BRD4 tag count in I-BRD9-treated ESCs, respectively (Poisson p value < 0.0001). f As in e, but for BRD9 ChIP tags in DMSO- and JQ1-treated ESCs. g Venn diagram of the overlap between JQ1-sensitive and I-BRD9-sensitive BRD9 ChIP sites. h Pie chart showing the number of I-BRD9 DEGs that are BRD9-bound in DMSO and those that significantly lose BRD9 binding upon treatment with I-BRD9, JQ1, or both (FC 1.5, Poisson p value < 0.0001)

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