Table 3. Pathway enrichment of differentially expressed genes upon measles virus stimulation using independent annotation sources.
| Effect of Viral Stimulation (in all subjects) | Interaction (high vs. low Ab responders) | |||||||
|---|---|---|---|---|---|---|---|---|
| Sourcea | Term | Mb | Nc | p-value | q-value | Nc | p-value | q-value |
| GOA | Extracellular Space | 685 | 49 | 1.9E-15 | 2.9E-11 | 23 | 7.1E-10 | 6.0E-06 |
| GOA | Cytokine Activity | 92 | 12 | 2.1E-07 | 2.2E-04 | 8 | 3.6E-07 | 1.9E-03 |
| GOA | Chemokine Mediated Signaling | 51 | 15 | 2.5E-14 | 2.0E-10 | 6 | 1.8E-06 | 4.9E-03 |
| GOA | Inflammatory Response | 263 | 27 | 1.5E-12 | 4.1E-09 | 12 | 5.0E-07 | 2.0E-03 |
| MSigDB | NABA Matrisome | 539 | 58 | 3.8E-27 | 1.7E-23 | 28 | 1.3E-16 | 1.2E-12 |
| MSigDB | Hallmark of Inflammatory Response | 181 | 29 | 1.3E-18 | 2.9E-15 | 16 | 2.7E-13 | 6.6E-10 |
| KEGG CP | Cytokine Cytokine-Receptor Interaction | 187 | 28 | 3.3E-17 | 4.6E-15 | 10 | 1.1E-06 | 1.5E-04 |
| KEGG CP | Chemokine Signaling | 164 | 16 | 1.3E-07 | 8.6E-06 | 5 | 7.1E-03 | 2.4E-01 |
| KEGG CP | Focal Adhesion | 161 | 9 | 4.2E-03 | 8.3E-02 | 6 | 1.2E-03 | 8.1E-02 |
aThe annotation source: GOA, human Gene Ontology Annotation; MSigDB genesets, excluding those derived from GO terms, genomic proximity, and cancer; KEGG CP, our filtered subset of canonical pathways (see Methods).
bThe total number of genes that are annotated with the given term.
cThe number of genes from our analysis and passing statistical significance thresholds (see Methods) that are annotated with the given term.