Figure 3
Differentially expressed genes at baseline (before infection) and over the infection time course between resistant (BALB/c) and susceptible (B6) mice. 608 mouse genes were differentially expressed prior to infection and 607 mouse genes were differentially expressed over infection (linear model, P < 0.05), with 266 differentially expressed in both categories. Left, heat maps showing significance levels at day 0 or responding to infection (Resp. Inf.), which shows whether differentially expressed genes were significantly different prior to infection, over infection or both. Middle left, log2-scale ratios of BALB/c to B6 intensity values of the 949 differentially expressed genes (in rows) grouped using cosine-angle correlation and hierarchical clustering. Samples (columns) are chronologically ordered by organ. Middle, corresponding intensities for each gene (normalized and median-subtracted) and for both mouse strains are shown. Nine major clusters are highlighted on the dendrogram with a vertical, multi-colored bar. Right, GO-gram indicating statistically significant enrichments of functional (GO-BP) annotations in the highlighted clusters. Numbers in parenthesis correspond to final digits of GO identifiers. Red bars indicate that a particular gene is annotated with the given GO-BP category and that the GO-BP category is significantly over-represented within the cluster in which the gene was placed. Blue bars indicate that a particular gene is annotated with the given GO category and that the GO category is not significantly enriched within the given cluster. Not all GO categories that displayed significant enrichment are shown. Lower panel, detailed view of representative clusters including highlighted genes of interest. Clusters of differentially expressed genes were up-regulated in resistant mice at day 0 and remained up-regulated over infection (e.g. "blue" cluster), changed over infection (orange) or were up-regulated in susceptible mice at day 0 and remained up-regulated over infection (turquoise).