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. Author manuscript; available in PMC: 2023 Dec 12.
Published in final edited form as: Nat Genet. 2023 Jul 10;55(8):1370–1380. doi: 10.1038/s41588-023-01442-7

Figure 4. NELFB depletion and recovery correlates with changes in enhancer-promoter contacts.

Figure 4.

(A) Illustration of the NELFB-dTAG system and the corresponding effect on the NELF complex. Following NELFB depletion with dTAG, the NELF complex dissociates and is no longer found bound to chromatin84 (B) Heatmaps showing PRO-seq signal in untreated (control) mESCs (left) and 30–60min of treatment with dTAG as well as the fold-change in PRO-seq signal following 30 minutes of dTAG treatment and after 60 minutes of dTAG treatment near TSSs and the fold change in PRO-seq signal at 30 minutes and 60 minutes of dTAG treatment compared to untreated control and at 60 minutes compared to 30 minutes of dTAG treatment. (C) A line plot showing the median enhancer-promoter contacts over background ratio change relative to the untreated (T=0) control. Gray shadow represents the 95% confidence interval for the median, based on 1000 bootstrap iterations. (D) Dot and error plot demonstrating the median contact change and the 95% confidence interval of the median based on 1000 bootstrap iterations, after 60 minutes of NELFB depletion, for enhancer-promoter (purple) and transcriptionally inactive bound CTCF motif contacts in mESCs (gray).