Figure 4.

Brains of WT mice and PD-L1^−/− mice undergo dynamic and disparate changes in inflammatory transcriptomes from acute to persistent phases of infection. (A) Volcano plots representing differentially expressed genes (fold change ≥1.5 and p ≤ 0.05) of MuPyV infected WT brain samples vs. mock inoculated WT control brains and MuPyV infected PD-L1^−/− brains vs. mock inoculated PD-L1^−/− brains at 8 dpi and 35 dpi. Combined data from a total of 3 pools of 3 mice per pool. Downregulated and upregulated genes are represented in blue and red dots, respectively. Similarly, numbers in blue and red represent the number of downregulated and upregulated genes, respectively. The y-axis represents –log(p-value) for each gene in the NanoString mouse inflammation panel. (B,C) Venn diagrams showing the overlap in the differentially regulated genes between each group as indicated. (D) PCA of each pooled sample was performed using normalized counts of all genes in the array. Uninf¹ and Uninf² are two independent sets of mock infected controls samples run along with the 8 dpi and 35 dpi MuPyV-infected samples, respectively.