Figure 6.

RNA-Seq Analysis and Comparison with In Vitro ESC Lines and In Vivo Single Cells

(A) Differentially expressed genes between sorted subpopulations. Adjusted p value < 0.05 with fold change (log2) > 1 or < −1.

(B) Unsupervised hierarchical clustering with previously published cell lines.

(C) PCA analysis and explained variance with previously published cell lines. Cell lines with black dots were culture in 2i/L; cell lines with yellow dots were cultured with FBS/L, with the exception of 2C^+/−, which were cultured in KSR/L.

(D) PCA analysis and explained variance with in vivo single cells from early embryonic stages.

See also Figures S4–S6.