Extended Data Fig. 12: Polymer simulation unveils extrusive- and cohesive-cohesin interaction pattern.
From: Extensive mutual influences of SMC complexes shape 3D genome folding
a, Schematic illustration showing the three modes (I, II and III) of interaction between extrusive- and cohesive-cohesin. b, Simulated tracks showing the distribution of CTCF, extrusive-cohesin and cohesive-cohesin for each mode of interaction. c, Cis- (upper panel) and trans- (lower panel) sister-chromatid contact maps showing the simulation of distinct modes of interaction between extrusive- and cohesive-cohesin. Cohesive-cohesin are randomly positioned (3/Mb) before extrusive-cohesin loading. In this simulation, the cohesive-cohesin resistance coefficient α is set to be 0. Example weakened and unaffected loops were marked by green and blue arrows respectively. d, Scatter plot showing that larger loops were more susceptible to cohesive-cohesin in our simulation (cohesive-cohesin density = 3/Mb and resistance coefficient α = 0). Results of mode II and mode III were plotted separately. The trend lines were generated using the geom_smooth function of ggplot2 in R software with shaded area representing 95% confidence interval of the corresponding fitted lines. e, Heatmaps showing the impacts of various cohesive-cohesin density and resistance coefficient on loop formation. Relative strength of all loops and two subsets of loops with indicated size ranges were shown.
