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. 2022 Nov 29;2(12):100352. doi: 10.1016/j.crmeth.2022.100352

Figure 1.

Figure 1

XIST repression commonly affects the differentiation modules, but not core pluripotency, in female hPSCs

(A) Analysis scheme of single-cell RNA sequencing (scRNA-seq) analysis in 11 hPSC lines.

(B) UMAP analysis of 11 hPSC lines. Left: UMAP based on genetic background. Right: XIST expression status. The heatmap shows the expression levels.

(C) Expression ratio of X-linked genes in XIST+ and XIST– female hPSCs based on median levels. The X-linked genes expressed in at least ten cells in both XIST+ and XIST– groups were used for the analysis. The heatmap shows the ratio (XIST–/XIST+), indicating that red color is overexpressed in XIST– cells. n indicates the number of X-linked genes analyzed.

(D) Module scores related to differentiation and pluripotency. The pluripotency module was based on the expression of OCT4, SOX2, and NANOG (Wang et al., 2012). The differentiation markers previously identified were used for the module calculation (Bock et al., 2011). The comparisons of each module were based on the XIST expressions status. p values were calculated using Wilcoxon’s rank-sum test.