Fig. 2.

Effect on Xist-mediated silencing after deletion of Spen/A-repeat. a Allelic silencing across Chr3 after 1 day of Xist RNA induction in WT and Spen null (KO) iXist-Chr3 cells. Mean value of difference of allelic ratio for each gene with an informative SNP was calculated from biological replicates as detailed in Supplementary Table 4. Green line on Chr3 ideogram indicates location of Xist transgene. b Violin plot summarising data in a, p values were calculated using one-sided Wilcoxon rank-sum test. c Distribution of genes by silencing degree in relation to mESC expression levels (three equal sized quantiles, E1 < E2 < E3) in WT and Spen null (KO) iXist-Chr3 cells (left panel) and WT, XistΔA and Spen null iXist-ChrX cells (right panel). d Allelic silencing across ChrX after 1 day of Xist RNA induction in WT and Spen null (KO) iXist-ChrX cells. Mean value of difference of allelic ratio for each gene with an informative SNP was calculated from biological replicates as detailed in Supplementary Table 4. Green line on ChrX ideogram indicates location of the Xist locus. e Violin plot summarising data in d and f . P values were calculated using one-sided Wilcoxon rank-sum test. f Allelic silencing across ChrX after 1 day of Xist RNA induction in WT and XistΔA iXist-ChrX cells. Mean value of difference of allelic ratio for each gene with an informative SNP was calculated from biological replicates as detailed in Supplementary Table 4. Green line on ChrX ideogram indicates location of the Xist locus