Skip to main content
[Preprint]. 2023 Dec 20:2023.12.20.570481. [Version 1] doi: 10.1101/2023.12.20.570481

Figure 4. PRDM16, NKX2-1, and PRDM3 bind to shared sites throughout the genome and at promoters.

Figure 4.

(A) Venn Diagram shows the average overlap of binding sites between PRDM16 CUT&RUN and NKX2-1 CUT&RUN observed in two experiments. (B) Genomic distributions of all called peaks from a representative PRDM16 binding experiment (left panel) and a representative NKX2-1 binding experiment (right panel). (C) HOMER motif enrichment for all called peaks across the genome of a representative PRDM16 CUT&RUN (upper panel) or NKX2-1 CUT&RUN (lower panel) experiments. (D) Venn diagram of the overlap of H3K4me3 marked peaks between PRDM16 and NKX2-1 CUT&RUN. (E) Genomic distributions of the overlap peaks bound by both PRDM16 and NKX2-1 that are marked by H3K4me3. (F) Immunoprecipitation showing co-binding of FLAG-tagged PRDM16 and NKX2-1 after co-transfection in HEK293T cells. (G and H) CUT&RUN analysis of selected genes is visualized with the UCSC Genome Browser for H3K4me3, PRDM16, PRDM3, and NKX2-1. AT1 cell and AT2 cell associated peaks from published data set (Little, et.al.,(12)). ENCODE cCRE peaks are annotated from the ENCODE database of cis-regulatory elements. Binding is seen in AT2 cell-associated genes (G) and AT1 cell-associated genes (H).