Fig. 1

Changes of cell types upon JEV infection in mouse brain revealed by scRNA-Seq. A Schematic diagram showing the isolation of single cells from cerebral cortex, striatum and thalamus of mock- and JEV-infected mice for scRNA-seq. B Overview of the cell types in the integrated single-cell transcriptomes of 88,000 cells derived from mock- and JEV-infected mouse brain. C tSNE plots of cell types from different symptoms. D Proportion of different cell types in mice with different symptoms. E tSNE plot colored for gene expression in different cell types. F The marker genes used to define each cell type are illustrated in the violin plot