Term Count1 P value2 Fold change3 Benjamini4
Biological process (ES5=9.68)
Regulation of immune system 21 1.5E-14 9.7 2.2E-11
Immune system 30 2.1E-14 5.4 1.6E-11
Molecular function (ES=10.27)
Receptor binding 28 6.4E-15 6.2 1.8E-12
Cytokine activity 12 3.4E-09 12.0 4.7E-07
Growth factor activity 11 7.3E-09 13.0 5.1E-07
Pathway (ES=3.70)
Cytokine-cytokine receptor interaction 16 6.0E-08 5.5 3.8E-06
Hematopoietic cell lineage 9 3.1E-06 9.5 9.8E-05
Jak-STAT signaling pathway 10 3.4E-05 5.9 4.4E-04
1Indicates the number of genes involved in individual GO terms. 2Defines the significance of a GO term enrichment with a modified Fisher’s exact test (EASE score), denoting if the term is over or under represented (if P ≤ 0.05, then terms are overrepresented). 3Statistical threshold for GO term selection (FC > 2). 4To globally correct enrichment P-values to control family-wide false discovery rate at Benjamini ≤ 0.0004. 5Enrichment score (ES) was used to rank overall importance (enrichment) of GO terms.
Table 3: Common host-cell biological processes, molecular functions and pathways affected by pathogenic intracellular bacteria.