Skip to main content
Fig. 1 | Genome Biology

Fig. 1

From: Evolution of mouse circadian enhancers from transposable elements

Fig. 1

Repeat-derived CR binding sites display similar CR binding but less hallmarks of enhancer activity. A Fraction of ChIP-seq peaks for each CR for which > 50% of the peak did (RABS) or did not (Non-RABS) map within repetitive elements. B CLOCK:BMAL1 ChIP-seq peaks sorted by the nascent transcriptional output of the closest gene (rhythmic in-phase or out-of-phase; Arr, Arrhythmic; NE, Not Expressed), classified as RABS or Non-RABS as in A. C Distribution of ChIP-seq signal under RABS (n = 1014) and Non-RABS (n = 7197) BMAL1 ChIP-seq peaks across circadian time (CT). Significance testing compares RABS to Non-RABS at each timepoint. See Additional file 1: Fig. S2A for heatmaps of the ChIP-seq data that underlies these boxplots at the same sets of regions. Each boxplot represents the distribution of the total ChIP-seq signal under the respective set of peaks in the indicated dataset (sets of peaks are the same across timepoints and datasets). D Distribution of DNase-seq, H3K27Ac ChIP-seq, and Pol II ChIP-seq signal in RABS (n = 1014) and Non-RABS (n = 7197) BMAL1 ChIP-seq peaks across Zeitgeber time (ZT). Significance testing compares RABS to Non-RABS at each timepoint. See Additional file 1: Fig. S2B–D for heatmaps of the ChIP-seq data that underlies these boxplots at the same sets of regions. Each boxplot represents the distribution of the total ChIP-seq signal under the respective set of peaks in the indicated dataset (sets of peaks are the same across timepoints and datasets). Boxplots in C and D show the median (center line), the 1st and 3rd quartiles (hinges), and 1.5 × IQR (whiskers). Significance values are from the Kruskal-Wallis test with Bonferroni-corrected Dunn post hoc comparison

Back to article page