Figure 3.

Transition from mESCs to EpiLCs Varies among Genetic Backgrounds

(A) Representative immunocytochemistry images for Otx2 after 2 days of undirected differentiation in N2B27. Number in brackets indicates specific line shown.

(B) Quantification of flow cytometry data for OTX2 after 2 days of undirected differentiation in N2B27. Data shown are from two independent differentiations for each genetic background, three lines per background. Error bars represent standard errors of the means. ^∗p < 0.05, ^∗∗p < 0.05, and ^∗∗∗p < 0.0005 (two-tailed t test).

(C) Gene expression analysis of selected markers during 2 days of undirected differentiation in N2B27. Data shown are from two independent differentiations for each genetic background, two lines per background. Error bars represent SD of the means. Table directly below each marker shows two-tailed t test (^∗p < 0.05 and ^∗∗p < 0.005).

(D) Quantification of flow cytometry data for OTX2 during 2 days of undirected differentiation in N2B27. Data shown are from two independent differentiations for each genetic background, two lines per background. Error bars represent standard errors of the means. Table to the right shows two-tailed t test (^∗p < 0.05, ^∗∗p < 0.005, and ^∗∗∗p < 0.005).

(E) PCA and Louvain clustering during 2 days of undirected differentiation in N2B27. Percentage of variance explained: 3.9% for PC1 and 2.5% for PC2.

(F) Log-normalized gene expression values of pluripotency markers.