Fig. 2

Differentially expressed transcripts within each individual cluster of cells isolated from RML and mock infected mice. A Number of transcripts that met differential expression criteria within each cluster when comparing cells isolated from RML and mock infected mice. Differentially expressed transcripts were defined by: FDR p values  < 0.05, |Log2 fold change|> 0.5, > 25% cell expression and 10% increased/decreased cell expression for increased/decreased transcripts respectively. B Hierarchical clustering of Log2 fold changes for all differentially expressed transcripts within each cluster. The full list of differentially expressed transcripts is provided as Additional file 8. astro—astrocytes; endo—endothelial cells; g.neu—mature glutamergic neurons; im.neu—immature neurons; micro—microglia; opc—oligodendrocyte progenitor cells; pvm—perivascular macrophages; epen—ependymal cells; lymph—lymphocytes; pos. —positive; reg. —regulation of