Figure 3—figure supplement 1. | Epigenomic landscapes of retinal rods and cones

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Epigenomic landscapes of retinal rods and cones

Figure 3—figure supplement 1.

Affiliation details

Johns Hopkins University School of Medicine, United States; The Salk Institute for Biological Studies, United States; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, United States; Janelia Research Campus, Howard Hughes Medical Institute, United States; University of California San Diego, United States; The University of Western Australia, Australia; Johns Hopkins University, United States
Figure 3—figure supplement 1.
Download figureOpen in new tabFigure 3—figure supplement 1. Comparisons of ATAC-seq signals between purified rod and cone nuclei.

(A) Histogram showing that rods have ~2.5-fold fewer number of enriched peaks compared to cones. (B) Similar to Figure 3C, peaks near rod genes (green; e.g., Nrl, Gnat1) generally show higher ATAC-seq signals in rods than in cones. In contrast, peaks near cone genes (purple; e.g., Pde6h, Pde6c) generally show higher ATAC-seq signals in cones than in rods. Colored points show ATAC-seq peaks which fall within 2.5 kb (triangle) or 10 kb (circle) of the TSS. Selected peaks are labeled by their associated gene. r, Pearson correlation. (C) Barplot showing the percentage of TF ChIP-seq peaks that overlap rod-enriched, cone-enriched, and shared ATAC-seq peaks. (DE) Rod-enriched ATAC-seq peaks are distributed closer to the TSS than cone-enriched and shared ATAC-seq peaks. The majority of cone-enriched ATAC-seq peaks fall >10 kb from a TSS, whereas the majority of rod-enriched ATAC-seq peaks are TSS-proximal.

DOI: http://dx.doi.org/10.7554/eLife.11613.010