Skip to main content
Fig. 2 | BMC Biology

Fig. 2

From: Single-cell spatial transcriptomic analysis reveals common and divergent features of developing postnatal granule cerebellar cells and medulloblastoma

Fig. 2

Identifying distinct states associated with postnatal GN development. a t-SNE visualization of 21,397 granule neuron cells (GNs) from FACS-sorted samples after re-clustering. n = 4 mice. They are Math1-GFP mice at P7 and P11, as well as Dcx-DsRed mice at P7 and P11. Cells are colored according to clusters. b t-SNE visualization of FACS-sorted sample sources including Math1-GFP+ and Dcx-DsRed+ samples. c Signature gene expression of GNPs (Math1) and differentiating/differentiated GNs (Dcx). d t-SNE visualization of cell cycle and differentiation (Rbfox3, Grin2b, and Neurod1) gene scores. e Scores of GNs (X-axis) for seven modules (Y-axis) derived from Monocle 3 module analysis. Four highly correlated modules are highlighted (modules A, B, C, and D). Cells and modules are hierarchically clustered. Scores of cell cycle genes, and expression of Math1 and Dcx are ordered as on the top. f Four cell states are defined corresponding to the four main modules in e. g Scores of the four main module genes are shown. h Heatmap depicting gene expression levels of markers in the four GN states, with color-coding for the corresponding FACS-sorted sample, clusters, cell types, and cell cycle scores. i Signature gene expression of GNPs (Math1, Srebf1, and Tead2), GNs I (Nhlh1, Ebf3, and Sox4), and GNs II (Grin2b, Cntn1, and Car10). In situ hybridization (ISH) data were obtained from the Allen Developing Mouse Brain Atlas (© 2008 Allen Institute for Brain Science. Allen Developing Mouse Brain Atlas http://developingmouse.brain-map.org). Scale bar: 100 μm. Mouse cerebellum at P4 are shown

Back to article page