Fig. 7

Principle component analysis (PCA) of H2A1H-containing nucleosomes is better correlated than of H2A2A3 with no changes in global structural chromatin organization in vivo. a (i, ii) Cross-correlation plots determining the atomic fluctuations at the protein and DNA level for H2A1H- and H2A2A3-containing nucleosome. The blue color indicates negative cross-correlation, while red color indicates positive cross-correlation. b Comparison of the PCA square fluctuations of DNA/protein amongst H2A1H- and H2A2A3-containing nucleosome. c Overlaid images of the nucleosomal DNA strands of histone H2A1H (green) and H2A2A3 (orange) isoform-containing systems at different time points during the course of simulation. The time points are indicated. d, e The accessibility of chromatin was monitored by performing micrococcal nuclease digestion assay and loading samples from the reaction at different time points on a 1.8% agarose gel. The DNA was visualized by EtBr staining. In figure d, samples from digested MNase-digested nuclei of the CL44 and CL38 cell lines at various time points were loaded. In figure e, samples from MNase-digested nuclei of ectopically overexpressing H2A1H and H2A2A3 CL38 cells were loaded