Replication Fork Polarity Gradients Revealed by Megabase-Sized U-Shaped Replication Timing Domains in Human Cell Lines
Figure 4
Chromatin conformation data and U-domain compartmentalization of the genome.
(A) Hi-C proximity matrix corresponding to intrachromosome interactions on the 11.4 Mb long fragment of human chromosome 10 (Fig. 1), as measured in the K562 cell line (Material and Methods). Each pixel represents all interactions between a 100 kb locus and another 100 kb locus; intensity corresponding to the total number of reads is color coded according to the colormap (right). The dashed squares correspond to replication timing U-domains detected in the K562 cell line. (B) Number of interactions between two 100 kb loci versus the distance separating them (logarithmic scales) as computed genome wide (black) or in K562 replication U-domains only, for four U-domain size categories: L0.8 Mb, 0.8 Mb
L
1.2 Mb, 1.2 Mb
L
1.8 Mb and 1.8 Mb
L
3 Mb (from light to dark red). (C) Ratio of the number of interactions between two 100 kb loci inside the same U-domain at equal distance from its center and the number of interactions between loci on opposite sides and equal distance from a U-domain border, versus the distance between them; colors as in (B).