Figure 4.

Shown are comparative interaction frequencies around chr1:60 000 000 between H1 embryonic stem cell (H1-ESC) and H1-derived mesenchymal stem cell (H1-MSC). Key features of comparative interaction visualization are comparative interaction frequency heatmap and synchronized scale. (A) Comparative interaction heatmap visualizes differential chromatin interaction frequency near the queried locus ranged from 58 000 000 to 62 000 000 of chromosome 1 between H1 embryonic stem cell and H1-derived mesenchymal stem cell. Red and blue dots indicate chromatin interactions that are H1 embryonic stem cell-specific and H1-derived mesenchymal stem cell-specific, respectively. (B) Shown are one-to-all interaction plots for two samples. Any adjustment on one plot is synchronized to the other, as well as the cut-off for distance-normalized interaction frequency for arc-representation.