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. Author manuscript; available in PMC: 2024 Dec 1.
Published in final edited form as: Gastroenterology. 2023 Aug 18;165(6):1458–1474. doi: 10.1053/j.gastro.2023.08.009

Figure 5. HIF1A binds remote super-enhancers that interact with cis-regulatory elements of the Nos1 locus in a pO2-dependent manner.

Figure 5.

(A) Upper panel: HiC heatmaps of the TAD containing Nos1 in N1E-115 cells cultured at 20% O2 or 4% O2 for 3 days. Chromosome loops detected at 5-, 10-, and 25-b resolution are displayed as red (loops unique to 20% O2), blue (loops unique to 4% O2), and gray diamonds (loops detected at both 20% and 4% O2). Lower panel: ChromHMM and ChIP-seq tracks. Anchors and unscaled arc plots are color-coded as above. CTCF motif orientations are from ref.44 Solid and dashed lines: architectural and functional/transient loops, respectively. Black rectangle: cis-regulatory elements of the Ensembl Nos1 locus. (B) Upper panel: loops in N1E-115 cells cultured at 20% O2. Arrows: CTCF motif orientations permissive to architectural loop formation (convergent, left tandem, right tandem). Dashed lines without arrows: functional/transient loops. Lower panel: 3D chromatin structure of the locus inferred from the loop data. Numbered CTCF molecules correspond to the numbering of loop anchors in the upper panel. (C) Loops, and proposed chromosome conformation in N1E-115 cells cultured at 4% O2. See legend to panel B.