FIGURE

Fig. 5

ID

ZDB-FIG-211025-37

Publication

Franke et al., 2021 - CTCF knockout in zebrafish induces alterations in regulatory landscapes and developmental gene expression

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Fig. 5

Clusters of <italic>cis</italic>-regulatory elements around developmental genes lose accessibility upon CTCF loss.

a, b Box plots showing the TAD sizes (h) and the number of decreased DARs per Mb (i) for TADs containing developmental miss-regulated genes, TADs not containing developmental miss-regulated genes, and TADs containing only non-developmental miss-regulated genes. Boxplots represent the centerline, median; box limits, upper and lower quartiles; whiskers, 1.5× interquartile range; notches, 95% confidence interval of the median. Statistical significance was assessed using a two-sided Wilcoxon’s rank-sum test. c Top, heatmaps showing HiC signal in WT and ctcf^−/− embryos at 48 hpf in a 1.5-Mb region of chromosome 7. Bottom, zoom within the sall1a TAD showing tracks with CTCF ChIP-seq, ATAC-seq, and RNA-seq at 48 hpf in WT and ctcf^−/− embryos, as well as decreased ATAC-seq peaks. The downregulated sall1a gene is shown in red.

Expression Data

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Antibody Labeling

Phenotype Data

Phenotype Detail

Acknowledgments

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