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. Author manuscript; available in PMC: 2022 Jan 12.
Published in final edited form as: Nat Metab. 2021 Jul 12;3(8):1091–1108. doi: 10.1038/s42255-021-00422-7

Extended Data Fig. 2. Cell cycle analysis and cluster connectivity.

Extended Data Fig. 2

a, Cell cycle analysis of epiblast cells from clusters 1, 3 and 4. Cell cycle phase was predicted with cyclone algorithm58 and shows that there are cells in S and G2M phase also in the loser and intermediate clusters. b, PAGA plot showing the connectivity of the five clusters of cells from CI-treated embryos. c-d, Diffusion map analysis in all epiblast cells (from DMSO and CI-treated embryos): cells are coloured according to the condition (c) and to the cluster (d). e, The pseudo-time coordinate of the CI-treated epiblast cells obtained from the diffusion map including all epiblast cells correlates extremely well (with the pseudo-time coordinate obtained in the diffusion map calculated only from CI-treated epiblast cells (Fig. 2a). See methods for details on statistical analysis.