Figure 3.
Naive and Primed Populations Do Not Exhibit Lineage-Associated Structure, but Correlations between Lineage Markers and Epigenetic Regulators Are Stronger under the Naive Condition
(A and B) Gene expression of germ layer-specific marker genes in the (A) naive and (B) primed population, visualized using tSNE on the batch-corrected normalized log expression values. Each point in the scatterplot represents a cell, which is colored by the expression of respective mesoderm (SNAI1), ectoderm (ITGA6), or endoderm (PAF1) markers.
(C and D) Heatmaps of the strongest correlation values between selected pluripotency and lineage markers (rows) and epigenetic markers (columns) for the naive (C) and the primed (D) population. The correlation values were bound at [−0.5, 0.5].