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Fig. 3 | BMC Genomics

Fig. 3

From: TAD cliques predict key features of chromatin organization

Fig. 3

TADs in cliques display less dense interaction patterns than singleton or binary-interacting TADs and are impoverished in convergent CTCF motifs. (A) Hi-C matrices for segments of chromosomes 1 and 18 (IMR90 cells); Armatus TADs are delineated by green bars. A TAD belonging to a clique is indicated by a red bar (gray otherwise). Small TADs containing dense chromosomal interactions display convergent CTCF motifs at their boundaries (blue arrows); arrowheads in matrices point to a corner interaction peak. (B) TAD size distribution in IMR90 cells as a function of TAD clique size (3 to ≥ 8). Bar, median; dot, mean. (C) Aggregation heatmaps showing mean interaction frequencies inside TADs for increasing TAD clique sizes. Each matrix shows the aggregated intra-TAD contacts patterns in the indicated TAD categories (see Methods for details). (D) Percentage of convergent CTCF motifs at the boundaries of TADs categorized as shown. The horizontal bar represents the average percentage of convergent CTCF motifs in all TADs genome-wide. *Binomial test; see Table S3 for statistics

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