Fig. 3: The SD domains protrude out of the Xi core and contact each other in SmcHD1-mutant NSCs.
From: Replication dynamics identifies the folding principles of the inactive X chromosome
a, Nine 4C-seq viewpoints (red arrows) on the X. BrdU-IP RT data are shown. Colors represent four distinct RT classes. The blue line shows Dxz4 position. b, Smoothed 4C-seq profiles (black) of the B6-X in WT and SmcHD1-mutant (KO) mESCs (Xa), day 9 differentiated cells (Xi) and NSCs (Xi) overlaid on the BrdU-IP RT profiles (blue, early and yellow, late). Reads from two replicates were combined and plotted in sliding windows of 201 restriction fragments (Methods). Red lines and arrowheads, viewpoints; blue lines, Dxz4; gray bars beneath each plot, significant (sig.) far-cis contacts (the number of such contacts is shown in the top right corner of each 4C plot in gray); domainogram beneath each plot, the significance of the interaction shown by the color range (window sizes are 2–200 from the bottom to the top); pink highlighted regions, SD domains; colored bars, RT classes.
