For microglia, ingenuity pathway analysis (IPA) revealed significant reductions in Type I and Type II IFN signaling, T cell activation/signaling, and immune activation pathways including IL-12 and IL-1 across the top 3 microglial clusters in Rag1–/– mice primarily at day 7 after infection (Figure 7, A and B). This evidence concerns the gene IFNA1 and infection.