Fig. 3: Regional distribution of radial precursors during the early embryonic stage.

a UMAP plot with Leiden clustering of the embryonic RG cells showing the main clusters/cell-subtypes identified. Each dot represents a single cell and the colours correspond to the different clusters. b Top: heatmap of the main marker genes used to annotate the clusters in (a). Shown on the bottom panel is a bar plot showing the normalized relative fraction of the distinct clusters grouped by timepoint. Colours correspond to the clusters in (a). c In-situ hybridization staining of sagittal (columns #1-4) and transverse (columns #5, 6) slices from E13.5 mouse embryos, showing the expression of some of the markers used to identify the clusters in panel (a). In-situ hybridization images were obtained from the Allen Brain Map: Developing Mouse Brain Atlas. The coloured circles correspond to the clusters in panel (a). d Heatmap of the top 10 DE marker genes identified per cluster from analyzing the clusters in panel (a). Colour scale indicates the scaled mean expression in each cluster. e A heatmap showing the significantly enriched signaling pathways in each of the regional embryonic RG subtypes. Colour scale indicates the scaled mean AUC score. Source data are provided as a Source Data file. Abbreviations as in Fig. 1.