Figure 2

The ICM split at E3.25 into E3.25-LNC and E3.25-HNC is not due to sex, karyotype aberration or mis-assignment to ICM. (A) Heat map of the expression of the three probes targeting the long non-coding RNA Xist in the single cells from E3.25. The colour bar codifies the gene expression in log₂ scale. Higher gene expression corresponds to redder colour. (B) Heat map of the -log10(p-value_ChrEnr) of the statistical significance of the enrichment of each chromosome of the DEGs, obtained by the Jack-knife method, between each E3.25 single cell and the pool of the remaining E3.25 cells. The colour bar codifies the −log10(p-value_ChrEnr). Higher −log10(p-value_ChrEnr) corresponds to redder colour. (C) Histogram of the distributions of the -log₁₀(p-value_ChrEnr) between the E3.25-LNC (green bars) and E3.25-HNC (blue bars). Over-imposed is the p-value_KS = 0.808 for the two-sample Kolmogorov-Smirnov goodness-of-fit hypothesis test between for the two distributions. (D) PCA of all E3.25 cells of Ohnishi et al.³ and the TS cells of Kubaczka et al.¹¹ (Table 1). The E3.25 LNC, E3.25 HNC and TS cells are marked with green, blue and red spheres. (E) Heat map of the expression of the probes targeting TE markers in the single cells from E3.25 of Ohnishi et al.³, and in the TS cells of Kubaczka et al.¹¹, namely TS GS (EGFP cell line in TS medium), TS GX (TS EGFP cell line in TX medium), TS 5S (TS L5 cell line in TS medium), TS 5 × (TS L5 cell line in TX medium), TS ZS (TS LaCZ cell line in TS medium), TS ZX (TS LaCZ cell line in TX medium). The colour bar codifies the gene expression in log₂ scale. Higher gene expression corresponds to redder colour.