Extended Data Fig. 4: Skate chromosomes are organized in TADs flanked by convergent CTCF sites.
From: The little skate genome and the evolutionary emergence of wing-like fins
a. Hi-C interaction matrices in skate pectoral fins in either of the two replicates and the merge (25kb resolution). The TAD calling performed in the merged matrix and the associated boundary scores (BS) and insulation scores (IS) are shown below (window size of 500kb). b. Insulation score correlations between the two replicates. c. From top to bottom, enrichment around TAD boundaries (+-250kb) of ATAC-seq peaks and ATAC-seq peaks containing the CTCF motif regardless of the strand, in the plus and in the minus strand. d. Hi-C matrix around the HoxD locus showing the conserved bipartite configuration in two TADs with HoxD genes located precisely at the boundary. TADs, insulation scores and ATAC-seq peaks containing the CTCF motif are shown. The tendency of having divergent CTCF sites at insulation minima is observable.
