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. Author manuscript; available in PMC: 2021 May 7.
Published in final edited form as: Nat Methods. 2020 Aug 31;17(10):991–1001. doi: 10.1038/s41592-020-0935-4

Extended Data Fig. 7. scNT-Seq reveals different stem cell states in mESC cultures.

Extended Data Fig. 7

a. UMAP visualization of 4,633 WT cells (from two biological replicates) colored by different cell-types or cell-states. Feeders are contaminating mouse embryonic fibroblasts.

b. UMAP visualization of two biological replicates in (a).

c. Violin plots showing total RNA levels (natural log transformation of (TP10K + 1)) of representative marker genes for feeders or specific stem cell states.

d. UMAP (same as in (a)) visualization of cells colored by total RNA levels (natural log transformation of (TP10K + 1)) of four representative marker genes.

e. Violin plots showing both new and old RNA levels (natural log transformation of (TP10K + 1)) of selected genes across three stem cell states.