Summary of significantly altered genes that overlap between the two statistical methods (Table 2 and 3).

Genes with significant z-score change and significant p value and 1.5-fold-change in response to infection with wild type Salmonella Typhimurium or an isogenic ΔsipA, sopABDE2 mutant.WT loops = wild type inoculated loops; MUT loops = ΔsipA, sopABDE2 mutant inoculated loops; Detailed gene list is provided in Table S5. For genes to be on this list, they had to be found significant based on both statistical analysis methods (t test and Bayesian statistical inference). Genes with common regulation are defined by the intersection of the sets of genes found significant for WT and for MUT conditions, whereas the genes that differ are the set of significant genes in WT that are not found in MUT condition.