Fig. 6: The SD but not SI domains on the X chromosomes frequently contact other chromosomes in WT and SmcHD1-mutant NSCs.
From: Replication dynamics identifies the folding principles of the inactive X chromosome
a,b, Circos plots are shown, which show interactions of 4C-seq viewpoints (red arrowheads) with the rest of the genome in NSCs (a) and mESCs (b) (representative results from replicate 2). Each line represents a significant interchromosomal interaction. c, Using a published allele-specific Hi-C data11, we created virtual 4C-seq profiles of WT and SmcHD1-mutant (KO) NPCs from 417 viewpoints (VPs) (400-kb bins) and plotted the number of significant interchromosomal interactions for each bin on the cas-Xa and the mus-Xi, as well as the KO–WT differential. Escapee positions are shown17. A similar plot was generated for the Xa in mESCs without allelic separation11. Blue lines show Dxz4 position. d, Boxplots showing the number of significant interchromosomal interactions of virtual 4C-seq viewpoints in SD, SI, CL and CE domains on the Xs in WT NPCs and mESCs. P values were obtained from a one-sided Wilcoxon signed-rank test with the Bonferroni correction. e, Boxplots as in d comparing WT versus SmcHD1-KO Xa or Xi in NPCs. P values were obtained from one-sided paired Wilcoxon signed-rank test. f, Comparison of BrdU-IP RT values of SD and SI domains on the Xi during mESC differentiation. P values were obtained from one-sided Wilcoxon signed-rank test. N, the number of genomic bins in each class in d and e.
