Fig. 3: scRNA-seq analysis of E13.5 wild-type (WT) and Atoh7-null (MT) retinas. | Nature Communications

Fig. 3: scRNA-seq analysis of E13.5 wild-type (WT) and Atoh7-null (MT) retinas.

From: Single cell transcriptomics reveals lineage trajectory of retinal ganglion cells in wild-type and Atoh7-null retinas

Fig. 3

a, b As indicated, uniform manifold approximation and projection (UMAP) clustering leads to the same 11 overlapping clusters (C0–C10) with both WT (a) and MT (b) retinal cells. c Expression of known markers genes as represented by a dot plot enables identity assignment of individual WT and MT clusters (see text for details). As indicated, the sizes of the dots indicate the percentage of cells expressing the gene in individual clusters and the color intensities denote average expression levels. Color scales represent natural-log transformed normalized gene expression levels as described in “Methods”. d, e Cell cycle analysis determines the cell cycle status (G1, S, and G2/M) of individual cells in the clusters. Note that largely the same cell cycle distribution is observed in the WT (d) and MT (e) retinas, and that the cell cycle statuses correlate with UMAP clustering.

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