Fig. 2

Loss of CRX affects many developmentally remodeled regulatory sites. a, b Comparison of WT and Crx−/− ATAC-seq data shows highly disturbed epigenome in Crx−/− retinas where significant numbers of sites display increased (red) or decreased (blue) signal. c, e Read density heatmaps display reproducibility of ATAC experiments (WT 1 & 2 vs. Crx−/− 1 & 2), overlap of CRX binding signal, and regulatory activity as defined by DNase I in P1, 1wk, and 8wk retina, brain, and liver samples. f Scatterplot displays distribution of the subset of CRX-bound ATAC sites (black dots) relative to all WT versus Crx−/− ATAC-sensitive sites (gray). g Proportion of total sites within each ATAC class bound by CRX (black) are displayed in pie charts