Analysis of gene network bifurcation during optic cup morphogenesis in zebrafish.

Motif enrichment analysis of the differentially open regions in the NR identified a highly significant overrepresentation of the homeobox and sox TF binding motifs (Fig. 4a ; Supplementary Data 7 ).

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When their average distance to the closest transcription start site (TSS) was examined, we observed a significant trend: both for NR and RPE peaks, activating CREs tend to occupy positions closer to the TSS than the repressing regions (Supplementary Fig. 5c ).

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