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Fig. 2 | Genome Biology

Fig. 2

From: Enhanced chromatin accessibility contributes to X chromosome dosage compensation in mammals

Fig. 2

Chromatin Hyperaccessibility on the Xa is reversed during reprogramming to pluripotency. A Schematic representation of the experimental design used to study allele-specific chromatin accessibility changes on the X chromosomes during reprogramming of female MEFs to iPSCs. B Density plot with X-linked (red) and all autosomal (grey) regions from the Cast allele showing normalized accessibility in female iPSCs. A Wilcoxon rank-sum test was used for significance testing. C Violin plot combined with boxplot showing X chromosome normalized accessibility ratio for the Cast allele during reprogramming. Dotted line marks day 0 normalized accessibility. A Wilcoxon rank-sum test was used for significance testing. D Chromosome to autosome accessibility ratio for the Cast (red) allele and the Mus allele (blue). Continuous lines indicate the X chromosome to autosome ratio and dotted lines indicate individual autosome to all other autosomes ratio. Vertical dotted line indicates day 10 changes. E Violin plot combined with boxplot showing X chromosomes normalized accessibility for the Xa-Cast and Xa-Mus alleles in XX mESC lines (CM1 and CM2) from [56]. A Wilcoxon rank-sum test was used for significance testing. F ATAC-seq signals for allelic chromatin accessibility of Mecp2, Tfe3, Sat1, and Atp6ap2 transcript regions in XY and XX mESCs. The Mus allele is shown in blue and the Cast allele is shown in red. Reanalysis of data from [56]

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