Fig. 3.

FX binding–ablated virus triggers blunted transcriptional response of NFKB1-dependent genes in vivo. (A) Gene Ontology pie chart. Genes that were differentially expressed more than 1.5-fold (P < 0.05) in the spleens of WT mice challenged with HAdv5 or mock (saline) were identified. The CateGOrizer tool was used to sort these genes in Gene Ontology categories and determine percentages of differentially expressed genes for each category. (B) Heatmap representation of the averaged gene expression levels for 34-gene set (coactivated in WT and Il1r1^−/− mice with P < 0.0002) when WT and Il1r1^−/− mice were infected with either HAdv5 or TEA mutant virus. In each experimental group, n = 3 biological replicates. The yellow and blue color legend shows log₂-transformed fold changes. Heatmap was generated by using the Bioconductor gplots package (Seattle, WA). (C) z-score map of the transcription factor binding site frequencies in proximal promoters of indicated genes was generated by means of P-scan from the analysis of binding sites for 116 transcription factors (Transfac database). The five-gene set represents a subset of genes from (B) that are the most differentially inducted by HAdv5 and TEA mutant virus (1.5-fold cut off). Nr4a2, *P = 9.61 × 10⁻⁷; ATF3, *P = 6.77 × 10⁻⁶. The green and red color legend shows log₂-transformed fold z-score changes.