Extended Data Fig. 2: Spatial transcriptomics of the mouse dentate gyrus. | Nature Neuroscience

Extended Data Fig. 2: Spatial transcriptomics of the mouse dentate gyrus.

From: Multimodal transcriptomics reveal neurogenic aging trajectories and age-related regional inflammation in the dentate gyrus

Extended Data Fig. 2

a, Upper: UMAP visualization of all spots after re-clustering according to individual ages showing concordance of their regional identity across different ages. Lower: Spatial projection of all spots into each Visium section. b, Hierarchical clustering of all spots showing distinct transcriptional structure among all 6 regional identities and concordance between different ages. c, Featured expression patterns of selected genes representing each of the six identified regions. Color gradient indicates the log-normalized gene expression level. d, Validation of selected region-specific genes using Allen Brain Atlas in situ hybridization database. e, Cell type mapping of the spatial transcriptomics data using tangram. Estimated mapping probability of each cell type (color gradient) to DG shown over the H&E images. aNSPC, active neural stem and progenitor cells, CA, cornu Ammonis, DG, dentate gyrus, GC, granule cell, H&E, Haematoxylin and eosin, NB/IMN, neuroblast and immature neuron, PN, pyramidal neuron and PVM, perivascular macrophage. Scale bars, (d) 100 μm and (e) 200 μm.

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