Figure 5.

Cell-Type-Specific Transcriptional Changes after Intracellular Infection

(A) List of the top 34 genes manifesting significant infection response (false discovery rate, p < 0.01) in a particular cell type. The bystander response (bystanders versus unexposed) and infection response (infected versus bystanders) of each gene in its relevant cell type are shown on a red/blue color scale (signed log₁₀ p value ranging from −50 to +50; positive/negative, induced/repressed). The three bottom rows indicate membership in functional categories. Directionality of effects; enhanced induction, enhanced repression, and other dynamics are marked.

(B) Representative genes displaying significant infection response in a particular cell type. Shown are the moving averages of expression levels in bystander (yellow) and infected (brown) cells (y axis) along the antiviral trajectory (x axis) for representative gene-cell type pairs from A. See also Figure S8 and Table S6.