Additional file 3: Fig. S2 . Affected regulatory sites show distinct changes in activity over normal retinal development. Plots depict average (black line, gray bars +/- SEM) of Dnase I hypersensitivity data presented in Fig. 2c–e for three ages indicated of sites increased (a) not changed (b) or decreased (c) in the Crx−/− retina compared to WT. (Two-way ANOVA with Tukey multiple comparison testing; ****p <0.000
<p><b>A.</b> Summarized microarray findings for <i>R-DCKO</i> vs. <i>Cre neg</i> retinas. Each gene ...
Heatmap showing the Z-scores comparing three biological replicates of genes determined to be enriche...
<p><b>A, C.</b> Number of TSS with different CRX (<b>A</b>) and NRL (<b>C</b>) binding for rod-speci...
Additional file 9: Fig. S7 . CRX is required to activate Dependent Group C enhancer elements and rem...
Additional file 2: Fig. S1 . ATAC-seq data show strong correlation between replicates and with Dnase...
Additional file 6: Fig. S4 . Distinct group-related genes show different expression values. Boxplots...
Additional file 1 . Analysis and quantification of ATAC-seq and ChIP-seq data. Excel sheets report; ...
Additional file 8: Fig. S6 . Dependent and Independent sites show different chromatin state dynamics...
Additional file 13: Fig. S10 . TF motifs explain nature of Independent site activation in absence of...
Additional file 12. De novo motif analysis identifies sequences enriched in different sets of CRX-bo...
Abstract Background Recent technological advances have delivered the genome-wide targets of many imp...
Quantification of normal epigenetic marks near genes in groups 1, 2, 3, and 6 distinguishes up- and ...
Crx is the principal transcription factor of the photoreceptor transcriptional network and is a key ...
Crx mutants do not abandon the developmental program, but many genes fail to reach proper expression...
Additional file 1: Figure S1. Characterization of CRX+/--ROs. A Representative bright field images o...
<p><b>A.</b> Summarized microarray findings for <i>R-DCKO</i> vs. <i>Cre neg</i> retinas. Each gene ...
Heatmap showing the Z-scores comparing three biological replicates of genes determined to be enriche...
<p><b>A, C.</b> Number of TSS with different CRX (<b>A</b>) and NRL (<b>C</b>) binding for rod-speci...
Additional file 9: Fig. S7 . CRX is required to activate Dependent Group C enhancer elements and rem...
Additional file 2: Fig. S1 . ATAC-seq data show strong correlation between replicates and with Dnase...
Additional file 6: Fig. S4 . Distinct group-related genes show different expression values. Boxplots...
Additional file 1 . Analysis and quantification of ATAC-seq and ChIP-seq data. Excel sheets report; ...
Additional file 8: Fig. S6 . Dependent and Independent sites show different chromatin state dynamics...
Additional file 13: Fig. S10 . TF motifs explain nature of Independent site activation in absence of...
Additional file 12. De novo motif analysis identifies sequences enriched in different sets of CRX-bo...
Abstract Background Recent technological advances have delivered the genome-wide targets of many imp...
Quantification of normal epigenetic marks near genes in groups 1, 2, 3, and 6 distinguishes up- and ...
Crx is the principal transcription factor of the photoreceptor transcriptional network and is a key ...
Crx mutants do not abandon the developmental program, but many genes fail to reach proper expression...
Additional file 1: Figure S1. Characterization of CRX+/--ROs. A Representative bright field images o...
<p><b>A.</b> Summarized microarray findings for <i>R-DCKO</i> vs. <i>Cre neg</i> retinas. Each gene ...
Heatmap showing the Z-scores comparing three biological replicates of genes determined to be enriche...
<p><b>A, C.</b> Number of TSS with different CRX (<b>A</b>) and NRL (<b>C</b>) binding for rod-speci...