Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease
Atherosclerosis is an important medical and social problem, and the keys to solving this problem are still largely unknown. A common situation in real clinical practice is the comorbid course of atherosclerosis with chronic obstructive pulmonary disease (COPD). Diseases share some common risk factor...
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| Format: | Article |
| Language: | English |
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De Gruyter
2022-02-01
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| Series: | Biomolecular Concepts |
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| Online Access: | https://doi.org/10.1515/bmc-2022-0001 |
| _version_ | 1828169962148069376 |
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| author | Kotlyarov Stanislav |
| author_facet | Kotlyarov Stanislav |
| author_sort | Kotlyarov Stanislav |
| collection | DOAJ |
| description | Atherosclerosis is an important medical and social problem, and the keys to solving this problem are still largely unknown. A common situation in real clinical practice is the comorbid course of atherosclerosis with chronic obstructive pulmonary disease (COPD). Diseases share some common risk factors and may be closely linked pathogenetically. Methods: Bioinformatics analysis of datasets from Gene Expression Omnibus (GEO) was performed to examine the gene ontology (GO) of common differentially expressed genes (DEGs) in COPD and peripheral arterial atherosclerosis. DEGs were identified using the limma R package with the settings p < 0.05, corrected using the Benjamini & Hochberg algorithm and ǀlog 2FCǀ > 1.0. The GO, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment, and the protein–protein interaction (PPI) network analysis were performed with the detected DEGs. Results: The biological processes and signaling pathways involving common DEGs from airway epithelial datasets in COPD and tissue in peripheral atherosclerosis were identified. A total of 15 DEGs were identified, comprising 12 upregulated and 3 downregulated DEGs. The GO enrichment analysis demonstrated that the upregulated hub genes were mainly involved in the inflammatory response, reactive oxygen species metabolic process, cell adhesion, lipid metabolic process, regulation of angiogenesis, icosanoid biosynthetic process, and cellular response to a chemical stimulus. The KEGG pathway enrichment analysis demonstrated that the common pathways were Toll-like receptor signaling pathway, NF-kappa B signaling pathway, lipid and atherosclerosis, and cytokine–cytokine receptor interaction. Conclusions: Biological processes and signaling pathways associated with the immune response may link the development and progression of COPD and atherosclerosis. |
| first_indexed | 2024-04-12T03:00:49Z |
| format | Article |
| id | doaj.art-7ec0275a382d434590171a2d84e1ba1c |
| institution | Directory Open Access Journal |
| issn | 1868-503X |
| language | English |
| last_indexed | 2024-04-12T03:00:49Z |
| publishDate | 2022-02-01 |
| publisher | De Gruyter |
| record_format | Article |
| series | Biomolecular Concepts |
| spelling | doaj.art-7ec0275a382d434590171a2d84e1ba1c2022-12-22T03:50:41ZengDe GruyterBiomolecular Concepts1868-503X2022-02-01131345410.1515/bmc-2022-0001Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary diseaseKotlyarov Stanislav0Department of Nursing, Ryazan State Medical University, 390026, Ryazan, Russian FederationAtherosclerosis is an important medical and social problem, and the keys to solving this problem are still largely unknown. A common situation in real clinical practice is the comorbid course of atherosclerosis with chronic obstructive pulmonary disease (COPD). Diseases share some common risk factors and may be closely linked pathogenetically. Methods: Bioinformatics analysis of datasets from Gene Expression Omnibus (GEO) was performed to examine the gene ontology (GO) of common differentially expressed genes (DEGs) in COPD and peripheral arterial atherosclerosis. DEGs were identified using the limma R package with the settings p < 0.05, corrected using the Benjamini & Hochberg algorithm and ǀlog 2FCǀ > 1.0. The GO, Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment, and the protein–protein interaction (PPI) network analysis were performed with the detected DEGs. Results: The biological processes and signaling pathways involving common DEGs from airway epithelial datasets in COPD and tissue in peripheral atherosclerosis were identified. A total of 15 DEGs were identified, comprising 12 upregulated and 3 downregulated DEGs. The GO enrichment analysis demonstrated that the upregulated hub genes were mainly involved in the inflammatory response, reactive oxygen species metabolic process, cell adhesion, lipid metabolic process, regulation of angiogenesis, icosanoid biosynthetic process, and cellular response to a chemical stimulus. The KEGG pathway enrichment analysis demonstrated that the common pathways were Toll-like receptor signaling pathway, NF-kappa B signaling pathway, lipid and atherosclerosis, and cytokine–cytokine receptor interaction. Conclusions: Biological processes and signaling pathways associated with the immune response may link the development and progression of COPD and atherosclerosis.https://doi.org/10.1515/bmc-2022-0001copdatherosclerosisbioinformatics analysisdifferentially expressed genesimmune responseinnate immune systemlipid metabolism |
| spellingShingle | Kotlyarov Stanislav Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease Biomolecular Concepts copd atherosclerosis bioinformatics analysis differentially expressed genes immune response innate immune system lipid metabolism |
| title | Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| title_full | Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| title_fullStr | Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| title_full_unstemmed | Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| title_short | Analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| title_sort | analysis of differentially expressed genes and signaling pathways involved in atherosclerosis and chronic obstructive pulmonary disease |
| topic | copd atherosclerosis bioinformatics analysis differentially expressed genes immune response innate immune system lipid metabolism |
| url | https://doi.org/10.1515/bmc-2022-0001 |
| work_keys_str_mv | AT kotlyarovstanislav analysisofdifferentiallyexpressedgenesandsignalingpathwaysinvolvedinatherosclerosisandchronicobstructivepulmonarydisease |