Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease
Purpose Chronic Obstructive Pulmonary Disease (COPD) is regarded as an accelerated aging disease. Aging-related genes in COPD are still poorly understood.Method Data set GSE76925 was obtained from the Gene Expression Omnibus (GEO) database. The “limma” package identified the differentially expressed...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2024-12-01
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| Series: | COPD |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/15412555.2024.2379811 |
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| author | Tian-Tian Li Hong-Yan Bai Jing-Hong Zhang Xiu-He Kang Yi-Qing Qu |
| author_facet | Tian-Tian Li Hong-Yan Bai Jing-Hong Zhang Xiu-He Kang Yi-Qing Qu |
| author_sort | Tian-Tian Li |
| collection | DOAJ |
| description | Purpose Chronic Obstructive Pulmonary Disease (COPD) is regarded as an accelerated aging disease. Aging-related genes in COPD are still poorly understood.Method Data set GSE76925 was obtained from the Gene Expression Omnibus (GEO) database. The “limma” package identified the differentially expressed genes. The weighted gene co-expression network analysis (WGCNA) constructes co-expression modules and detect COPD-related modules. The least absolute shrinkage and selection operator (LASSO) and the support vector machine recursive feature elimination (SVM-RFE) algorithms were chosen to identify the hub genes and the diagnostic ability. Three external datasets were used to identify differences in the expression of hub genes. Real-time reverse transcription polymerase chain reaction (RT-qPCR) was used to verify the expression of hub genes.Result We identified 15 differentially expressed genes associated with aging (ARDEGs). The SVM-RFE and LASSO algorithms pinpointed four potential diagnostic biomarkers. Analysis of external datasets confirmed significant differences in PIK3R1 expression. RT-qPCR results indicated decreased expression of hub genes. The ROC curve demonstrated that PIK3R1 exhibited strong diagnostic capability for COPD.Conclusion We identified 15 differentially expressed genes associated with aging. Among them, PIK3R1 showed differences in external data sets and RT-qPCR results. Therefore, PIK3R1 may play an essential role in regulating aging involved in COPD. |
| format | Article |
| id | doaj-art-9ea7c02a2c69436fb34dbd876ef87fd5 |
| institution | DOAJ |
| issn | 1541-2555 1541-2563 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | COPD |
| spelling | doaj-art-9ea7c02a2c69436fb34dbd876ef87fd52025-08-20T02:39:09ZengTaylor & Francis GroupCOPD1541-25551541-25632024-12-0121110.1080/15412555.2024.2379811Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary DiseaseTian-Tian Li0Hong-Yan Bai1Jing-Hong Zhang2Xiu-He Kang3Yi-Qing Qu4Department of Pulmonary and Critical Care Medicine, Shandong Key Laboratory of Infectious Respiratory Diseases, Qilu Hospital of Shandong University, Jinan, ChinaDepartment of Pulmonary and Critical Care Medicine, Shandong Key Laboratory of Infectious Respiratory Diseases, Qilu Hospital of Shandong University, Jinan, ChinaDepartment of Pulmonary and Critical Care Medicine, Shandong Key Laboratory of Infectious Respiratory Diseases, Qilu Hospital of Shandong University, Jinan, ChinaDepartment of Pulmonary and Critical Care Medicine, Shandong Key Laboratory of Infectious Respiratory Diseases, Qilu Hospital of Shandong University, Jinan, ChinaDepartment of Pulmonary and Critical Care Medicine, Shandong Key Laboratory of Infectious Respiratory Diseases, Qilu Hospital of Shandong University, Jinan, ChinaPurpose Chronic Obstructive Pulmonary Disease (COPD) is regarded as an accelerated aging disease. Aging-related genes in COPD are still poorly understood.Method Data set GSE76925 was obtained from the Gene Expression Omnibus (GEO) database. The “limma” package identified the differentially expressed genes. The weighted gene co-expression network analysis (WGCNA) constructes co-expression modules and detect COPD-related modules. The least absolute shrinkage and selection operator (LASSO) and the support vector machine recursive feature elimination (SVM-RFE) algorithms were chosen to identify the hub genes and the diagnostic ability. Three external datasets were used to identify differences in the expression of hub genes. Real-time reverse transcription polymerase chain reaction (RT-qPCR) was used to verify the expression of hub genes.Result We identified 15 differentially expressed genes associated with aging (ARDEGs). The SVM-RFE and LASSO algorithms pinpointed four potential diagnostic biomarkers. Analysis of external datasets confirmed significant differences in PIK3R1 expression. RT-qPCR results indicated decreased expression of hub genes. The ROC curve demonstrated that PIK3R1 exhibited strong diagnostic capability for COPD.Conclusion We identified 15 differentially expressed genes associated with aging. Among them, PIK3R1 showed differences in external data sets and RT-qPCR results. Therefore, PIK3R1 may play an essential role in regulating aging involved in COPD.https://www.tandfonline.com/doi/10.1080/15412555.2024.2379811COPDagingbioinformaticsPIK3R1 |
| spellingShingle | Tian-Tian Li Hong-Yan Bai Jing-Hong Zhang Xiu-He Kang Yi-Qing Qu Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease COPD COPD aging bioinformatics PIK3R1 |
| title | Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease |
| title_full | Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease |
| title_fullStr | Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease |
| title_full_unstemmed | Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease |
| title_short | Identification and Validation of Aging Related Genes Signature in Chronic Obstructive Pulmonary Disease |
| title_sort | identification and validation of aging related genes signature in chronic obstructive pulmonary disease |
| topic | COPD aging bioinformatics PIK3R1 |
| url | https://www.tandfonline.com/doi/10.1080/15412555.2024.2379811 |
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