Extended Data Fig. 2: Chromatin loop changes after YY1 depletion in asynchronous cells.
From: YY1-controlled regulatory connectivity and transcription are influenced by the cell cycle
a, Venn diagram of loop calls from −auxin and +auxin contact maps. b, Bar plot of loop change counts, stratified by the condition in which the loop was called. c, Box plot of loop strengths in the −auxin contact map, stratified by loop change (two-sided Mann–Whitney U test). d, Box plot of loop strengths in the +auxin contact map, stratified by loop change (two-sided Mann–Whitney U test). e, Counts of uncategorized loops across categories of looping change and YY1 occupancy. f, Pileup plots of all H3K27ac-H3K27ac and YY1–YY1 loops detected in the −auxin condition, weakened YY1–YY1 loops and strengthened YY1–YY1 loops (1 kb resolution, ±30 kb window). g, Pileup plots of weakened YY1–YY1 loops for individual biological replicates. Loops are centered on YY1 ChIP–seq peaks (n = 555 loops, 1 kb resolution, ±30 kb window). h, Enrichment of different factor occupancy patterns in strengthened CRE loops (*padj < 0.05, two-sided Fisher’s exact test, Benjamini–Hochberg multiple testing correction).
