Fig. 6: TAD dynamics from polymer simulations consistent with experiments.
From: Uniform dynamics of cohesin-mediated loop extrusion in living human cells
a,b, Contact maps (a) and distance distributions (b) from experiments and simulations. Contact maps display a 1,125-kb region centered around TAD anchors (indicated by the green and magenta spots), at 2-kb resolution. c, Anchor–anchor 3D distance time series (red) from polymer simulations. The length of the shortest 1D path (unextruded DNA length) connecting TAD anchors is shown in gray. Green and purple rectangles indicate closed states and segmented proximal states, respectively. d, Snapshots of 1D representations of extruding loops. Red curves show the shortest 1D path between TAD anchors. Black vertical dotted lines indicate the location of TAD anchors. Blue and green lines with arrowheads indicate CTCF sites as in Fig. 4b. Simulations assume a cohesin density of 12 Mb−1, a residence time of 22 min and a motor speed of 0.25 kb s−1. Panels a, c and d were created in part with BioRender.com.
