Figure 6. Differential Chromatin Accessibility at early versus late gastrulation.

A. Correlation of ATAC peaks within 1kb of TSS at stage 10 vs stage 12 (FDR < 0.05). B. Volcano plot of Log₂ fold change in ATAC promoter peaks at stage 12/stage 10 versus −Log₁₀ of false discovery rate (FDR). Dotted lines indicate the threshold for genes selected for functional annotation. C. Genes associated with ATAC peaks within 1kb of the TSS that decrease by ≥ 2 fold at stage 12 were submitted for functional annotation through DAVID, which revealed marked enrichment of DNA-templated transcription factors. Uniprot keywords are ranked according to false discovery rate with a cutoff FDR < 0.01. The horizontal axis shows −Log₁₀ of the FDR. A similar analysis of promoter peaks that increased ≥ 2 fold did not identify any enriched categories. D. Representative tracks for chordin (chrd), foxb2, and the temporal marker gs17 showing dynamic chromatin accessibility at the respective promoters.