Table 3.
The Significant Biological Pathways Of The DEMs Associated With PA Colonization In Bronchiectasis Patients
| Description And ID | Ontology | Count | P value | FDR | Representative Genes |
|---|---|---|---|---|---|
| Part A: Inflammatory processes | |||||
| Leukocyte differentiation (GO: 0002521) | BP | 38 | 8.56E-05 | 2.69E-02 | mTOR, PIK3CD, MMP9, STAT3 |
| Response to oxygen levels (GO: 0070482) | BP | 31 | 1.82E-04 | 4.11E-02 | FoxO1, ATP7A |
| Cellular response to oxidative stress (GO: 0034599) | BP | 25 | 2.89E-04 | 4.38E-02 | CHUK, FoxO1, FoxO3 |
| Myeloid leukocyte differentiation (GO: 0002573) | BP | 22 | 1.12E-05 | 5.46E-03 | PARP1, VEGFA |
| NF-kappa B signaling pathway (KEGG: hsa04064) | KEGG | 11 | 1.23E-03 | 3.36E-02 | PRKCB, PARP1, ICAM1, BCL2, CHUK |
| Phosphatidylinositol signaling system (KEGG: hsa04070) | KEGG | 11 | 1.72E-03 | 3.54E-02 | PIK3CD, PRKCB, PI3K-C2α |
| Part B: Hormone response | |||||
| Insulin resistance (KEGG: hsa04931) | KEGG | 13 | 2.81E-04 | 2.30E-02 | STAT3, FoxO1 |
| Endocrine resistance (KEGG: hsa01522) | KEGG | 11 | 1.59E-03 | 3.54E-02 | IGF1R, MMP9, PIK3CD, mTOR |
| Part C: Lung aging | |||||
| Longevity regulating pathway (KEGG: hsa04211) | KEGG | 11 | 7.08E-04 | 3.36E-02 | KL, IGF1R, FoxO1, FoxO3 |
| Longevity regulating pathway – multiple species (KEGG: hsa04213) | KEGG | 11 | 2.54E-05 | 6.27E-03 | FoxO1, mTOR |
| Part D: Stem cell | |||||
| Signaling pathways regulating pluripotency of stem cells (KEGG: 04550) | KEGG | 14 | 1.13E-03 | 3.36E-02 | IL6ST, IGF1R, PIK3CD, LIF, SMAD5 |
Notes: A total of 826 targeted genes (DEGs) were predicted by DIANA-microT and TarBase databases for miR-92b-5p and miR-223-3p. Hence, we identified 59 gene ontologies by GO analysis, which included 32 biological processes related to these DEGs, 20 related to cellular component and 7 related to molecular function. Meanwhile, a total of 12 biological pathway were enriched by KEGG analysis. We selected diseases-relevant ontology items as shown above.
Abbreviations: BP, biological processes; P-adj, P-value corrected with Benjamini–Hochberg algorithm; mTOR, mammalian target of rapamycin; PIK3CD, phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit delta; MMP9, matrix metalloprotein-9; STAT3, signal transducers and activators of transcription-3; FoxO1, forkhead box protein O-1; ATP7A, Menkes’ protein; CHUK, conserved helix-loop-helix ubiquitous kinase; FoxO3, forkhead box protein O-3; PARP1, poly(ADP-ribose) polymerase 1; VEGFA, vascular endothelial growth factor A; PRKCB, protein kinase C-β; ICAM1, intercellular adhesion molecule 1; BCL2, BCL2, apoptosis regulator; PI3K-C2α, class II phosphatidylinositol 3-kinase; KL, klotho; IL6ST, interleukin 6 signal transducer; IGF1R, insulin-like growth factor-1; LIF, leukemia inhibitory factor; SMAD5, SMAD family member 5.