Extended Data Fig. 3: CAT analysis of different endoderm populations.

(a) A heatmap of Euclidean distances between the clusters in our in vivo and Now-2019 dataset. (b) An example of bootstrapped distance histograms illustrating that our InterVE cluster aligns to Now-EmVE2 (in green) and not other clusters in Now-2019 dataset (red). (c-e) Sankey diagrams representing alignments between clusters in: (c) our in vivo to Now-2019 dataset (before sub-clustering); (d) Now-2019 to our in vivo dataset; (e) our in vivo dataset aligned to itself. (c-e) Thickness of the line is inversely proportional to the pairwise distance. (f) PCA of all FOXA2POS cells places the InterVE between the extra-embryonic VE and embryonic DE lineages. AVE – anterior visceral endoderm, DE1- early definitive endoderm, DE2 – later definitive endoderm, EmVE – embryonic visceral endoderm, ExVE – extra-embryonic endoderm, FP – floorplate, InterVE – intermediate visceral endoderm, PE – parietal endoderm, PS1 – early primitive streak, PS2 – later primitive streak.