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. 2022 May 19;17(6):1334–1350. doi: 10.1016/j.stemcr.2022.04.016

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© 2022 The Authors

This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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scRNA-seq analysis of differentiated cells based on G1 and G2/M ESC populations

(A) Schematic illustration of the sorting and scRNA-seq experiments.

(B) UMAP visualization of ∼2,000 cells clustered into four groups using the Seurat pipeline (Stuart et al., 2019), EpiSC (marked as 1 and 3), XEN (marked as 0), and mesodermal-like cluster (marked as 2) are also represented by different colors.

(C) Violin plots representing number of genes and UMIs for each cluster.

(D) UMAP visualization of the same data colored based on the initial sorting of ESCs; G1 are in red, and G2/M are in green.

(E) Heatmap describing proportion of cells in each cluster (x axis) based on cell-cycle-initiated ESC populations (y axis). Gray to purple scale indicates normalized cell number in each cluster.

(F) Dot plot of differentially expressed genes explaining the four different clusters. Dot size indicates percentage of cells that express the gene, and gray to purple scale indicates average expression within the cluster. See also Figure S3 and Tables S2 and S3.