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Fig. 1 | Genome Biology

Fig. 1

From: The global and promoter-centric 3D genome organization temporally resolved during a circadian cycle

Fig. 1

Chromatin compartments change during the 24 h. a Heatmap of PC1 values for OCCs (independent replicates, significant variance p value < 2e−16, one-way ANOVA). b Heatmap of PC1 values for OCCs (merged replicates, significant variance p value < 2e−16, one-way ANOVA). c RNA-seq reads coverage (log2_RPM) in all A vs all B compartments across timepoints during the circadian cycle (p < 0.0001, one-way ANOVA test). d RNA-seq reads coverage (log2_RPM) in OCCs A vs B compartments (p < 0.0001, Mann-Whitney test). e H3K4me3 and H3K4me1 RPM ChIP-seq signal in OCCs across timepoints. BABB (ZT0 = B, ZT6 = A, ZT12 = B, ZT18 = B) and AABA (ZT0 = A, ZT6 = A, ZT12 = B, ZT18 = A) (all p values < 0.001, one-way ANOVA test, Tukey post hoc test). f HDAC3 ChIPseq log2_RPM signal in OCCs at ZT0 and ZT12 (p value < 0.0001, Wilcoxon rank test). g Observed Hi-C contacts from ZT0 and ZT12 liver samples at the Antl1 circadian gene TAD genomic region. PC1 values plotted underneath. Arntl cTAD switches chromatin compartment at ZT12. H. ZT0/ZT12 differential Hi-C contact matrix of a region including the Npas2 circadian gene TAD switching chromatin compartment at ZT12. PC1 values plotted underneath

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