Extended Data Fig. 9: Microglia and CAM transcriptomes are not affected by the loss of Notch3.
From: Specification of CNS macrophage subsets occurs postnatally in defined niches
(a) Scheme of the experimental set-up for the scRNA-seq analysis of brain macrophages from Notch3 mice. (b) UMAP plot of 1523 individual cells isolated from P14 Notch3+/+, Notch3+/– or Notch3–/– mice. Each dot represents an individual cell. Microglia and CAM clusters (0, 2, 3, 9 and 12) are framed with a dashed line. (c) Heat map of the top 10 differentially expressed genes for each cluster. (d) Feature plots depicting the expression of the typical brain macrophage genes Csf1r and Cx3cr1. (e, f) Feature plots showing the expression of microglial core genes (d) CAM core genes (e). (g–j) Re-analysis of the microglia and CAM clusters. Feature plots depicting the expression of microglial core genes (g) or CAM core genes (h). UMAP plot showing the individual clusters (i) and heat map (j) of the top 10 differentially expressed genes for each cluster. (k) Scheme of the experimental set-up for the scRNA-seq analysis of vascular smooth muscle cells from Notch3+/+SM22aCreERT2R26tdT or Notch3−/−SM22aCreERT2R26tdT mice. (l) Feature plots showing the expression of the arterial vascular smooth muscle cell core genes Acta2 and Aft3.
