Fig. 2

Switches between the A and B compartments were observed in pairwise comparisons between the cell populations. a The PC1 values defined using the Hi-C correlation matrices of the three conditions for chr 7 are plotted on the UCSC genome browser. Examples of local changes in the PC1 values between the three conditions are marked with red arrows. b Myogenesis is accompanied by significant changes in chromosome topology evident from the fact that 25% of the genome changed compartment status in at least one of the conditions. Comparisons are done only for bins which have detectable PC1 values in the three conditions (6284 bins in total). c Genes which changed from residing in A compartment to B compartment reduced their average expression levels, whereas genes which changed from residing in B compartment to A compartment increased their average expression levels for myotube-myoblast and AraC-treated myotube-myoblast comparisons. (p values by Wilcoxon test, outliers not plotted). Genes which have expression change of 0 are excluded from the analyses