Fig. 4

Fold changes in mut/WT for cluster categories and GO terms. a Expression data of mutant and WT mice from infection with SARS-CoV were analyzed using hierarchical clustering; the functional content of these clusters was determined using functional enrichment analysis. The average direction of fold change elicited by the mutant for the cluster are shown coupled with p-values for the significance of the change. P-values were calculated using permutation tests of random gene groups having identical sizes to the gene group under test. For (b), values were calculated as in (a), except genes were grouped for fold change analysis using selected GO terms instead of gene expression clusters. General apoptosis = GO:0006915, neutrophil apoptosis = GO:0001781, GO:0033029, GO:0033030, GO:0033031, GO:0006925, inflammation = GO:0006954