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Fig. 1 | Genome Medicine

Fig. 1

From: Single-cell RNA transcriptome analysis of CNS immune cells reveals CXCL16/CXCR6 as maintenance factors for tissue-resident T cells that drive synapse elimination

Fig. 1

Clustering of CNS cells following WNV infection by scRNA-seq. a Experimental design for scRNA-sequencing. Mice were infected (i.c.) with 1×104 p.f.u. WNV-NS5-E218A and harvested 25 DPI. N=2 per group, each N includes 4 mice pooled. b tSNE plot of all immune cells analyzed in both mock- and WNV-infected animals, showing 9 clusters, colored by density clustering, and annotated by cell-type identity and number of cells in parentheses. c tSNE plots of all cells analyzed in mock (left panel)- and WNV (right panel)-infected mice, separated by treatment group, colored by density clustering. d Heatmap of single cells representing the mRNA levels of the top three well-known genes used for cellular identification of each cluster. e tSNE plot of all immune cells with mRNA of Cxcr6 (left panel) and mRNA of Cxcl16 (right panel). f Violin plots showing immune cells with Cxcr6 mRNA (left panel) or Cxcl16 mRNA (right panel) in clusters 0–5. Each dot represents a cell

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Genome Medicine

ISSN: 1756-994X

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