Figure 5—figure supplement 1. | Epigenomic landscapes of retinal rods and cones

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Epigenomic landscapes of retinal rods and cones

Figure 5—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 5—figure supplement 1.
Download figureOpen in new tabFigure 5—figure supplement 1. Retinal k-mers.

(A) For regions used in the k-mer analysis, WT-specific ATAC-seq peaks (left) are distributed near the TSS of rod-enriched (>2 fold) genes, whereas Nrl KO-specific ATAC-seq peaks (right) are closer to the TSS of cone-enriched genes. (B) Boxplots showing the log-transformed, normalized ATAC-seq signal (left two columns) and TF ChIP-seq signal (right four columns) in different classes of ATAC-seq peaks. (C) Lists of the most predictive sequence features for distinguishing ATAC-seq peaks. The largest gkm-SVM weights for Nrl KO-specific peaks (+) versus random regions (-) (left), shared peaks (+) versus random regions (-) (middle), and Nrl KO-specific (+) versus shared peaks (-) (right) are listed.

DOI: http://dx.doi.org/10.7554/eLife.11613.016