Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis
Objective The aim of this study was to identify the key regulatory mechanisms of cartilage injury and osteoporosis through bioinformatics methods, and to provide a new theoretical basis and molecular targets for the diagnosis and treatment of the disease.Methods Microarray data for cartilage injury...
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Taylor & Francis Group
2025-12-01
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| Series: | Journal of the International Society of Sports Nutrition |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/15502783.2025.2454641 |
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| author | Muzi Liu Shiguo Gong Xin Sheng Zihong Zhang Xichun Wang |
| author_facet | Muzi Liu Shiguo Gong Xin Sheng Zihong Zhang Xichun Wang |
| author_sort | Muzi Liu |
| collection | DOAJ |
| description | Objective The aim of this study was to identify the key regulatory mechanisms of cartilage injury and osteoporosis through bioinformatics methods, and to provide a new theoretical basis and molecular targets for the diagnosis and treatment of the disease.Methods Microarray data for cartilage injury (GSE129147) and osteoporosis (GSE230665) were first downloaded from the GEO database. Differential expression analysis was applied to identify genes that were significantly up-or down-regulated in the cartilage injury and osteoporosis samples. These genes were subjected to GO enrichment analysis and KEGG pathway analysis. In addition, we employed SVA and RRA methods to merge the two sets of data, eliminating batch effects and enhancing the statistical power of the analysis. Through WGCNA, we identified gene modules that were closely associated with disease phenotypes and then screened for key genes that intersected with differentially expressed genes. The diagnostic value of these genes as potential biomarkers was evaluated by ROC analysis. Moreover, we performed an immune infiltration analysis to explore the correlation between these core genes and immune cell infiltration.Results We performed GO enrichment analysis and KEGG pathway analysis of genes significantly up-or down-regulated in cartilage injury and osteoporosis samples. Important biological processes, cellular components and molecular functions, and key metabolic or signaling pathways associated with osteoporosis and cartilage injury were identified. Through WGCNA, we identified gene modules that were closely associated with the disease phenotype, from which we then screened for key genes that intersected with differentially expressed genes. Ultimately, we focused on two identified core genes, COL1A1 and TNFRSF12A, and assessed the diagnostic value of these genes as potential biomarkers by ROC analysis. Meanwhile, GSVA provided an in-depth view of the role of these genes in disease-specific biological pathways. Immune infiltration analysis further revealed the possible key role of COL1A1 and TNFRSF12A in regulating immune cell infiltration in osteoporosis and cartilage injury.Conclusion COL1A1 and TNFRSF12A as key regulatory molecules in osteoporosis and cartilage injury. |
| format | Article |
| id | doaj-art-ddbf148fe4314671847fc9153fc9e3bb |
| institution | Kabale University |
| issn | 1550-2783 |
| language | English |
| publishDate | 2025-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Journal of the International Society of Sports Nutrition |
| spelling | doaj-art-ddbf148fe4314671847fc9153fc9e3bb2025-01-23T17:18:14ZengTaylor & Francis GroupJournal of the International Society of Sports Nutrition1550-27832025-12-0122110.1080/15502783.2025.2454641Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosisMuzi Liu0Shiguo Gong1Xin Sheng2Zihong Zhang3Xichun Wang4Jiujiang No.1 People’s Hospital, Department of Orthopedics, Jiujiang City Key Laboratory of Cell Therapy, Jiujiang, ChinaJiujiang No.1 People’s Hospital, Department of Orthopedics, Jiujiang City Key Laboratory of Cell Therapy, Jiujiang, ChinaJiujiang No.1 People’s Hospital, Department of Orthopedics, Jiujiang City Key Laboratory of Cell Therapy, Jiujiang, ChinaJiujiang No.1 People’s Hospital, Department of Orthopedics, Jiujiang City Key Laboratory of Cell Therapy, Jiujiang, ChinaJiujiang No.1 People’s Hospital, Department of Orthopedics, Jiujiang City Key Laboratory of Cell Therapy, Jiujiang, ChinaObjective The aim of this study was to identify the key regulatory mechanisms of cartilage injury and osteoporosis through bioinformatics methods, and to provide a new theoretical basis and molecular targets for the diagnosis and treatment of the disease.Methods Microarray data for cartilage injury (GSE129147) and osteoporosis (GSE230665) were first downloaded from the GEO database. Differential expression analysis was applied to identify genes that were significantly up-or down-regulated in the cartilage injury and osteoporosis samples. These genes were subjected to GO enrichment analysis and KEGG pathway analysis. In addition, we employed SVA and RRA methods to merge the two sets of data, eliminating batch effects and enhancing the statistical power of the analysis. Through WGCNA, we identified gene modules that were closely associated with disease phenotypes and then screened for key genes that intersected with differentially expressed genes. The diagnostic value of these genes as potential biomarkers was evaluated by ROC analysis. Moreover, we performed an immune infiltration analysis to explore the correlation between these core genes and immune cell infiltration.Results We performed GO enrichment analysis and KEGG pathway analysis of genes significantly up-or down-regulated in cartilage injury and osteoporosis samples. Important biological processes, cellular components and molecular functions, and key metabolic or signaling pathways associated with osteoporosis and cartilage injury were identified. Through WGCNA, we identified gene modules that were closely associated with the disease phenotype, from which we then screened for key genes that intersected with differentially expressed genes. Ultimately, we focused on two identified core genes, COL1A1 and TNFRSF12A, and assessed the diagnostic value of these genes as potential biomarkers by ROC analysis. Meanwhile, GSVA provided an in-depth view of the role of these genes in disease-specific biological pathways. Immune infiltration analysis further revealed the possible key role of COL1A1 and TNFRSF12A in regulating immune cell infiltration in osteoporosis and cartilage injury.Conclusion COL1A1 and TNFRSF12A as key regulatory molecules in osteoporosis and cartilage injury.https://www.tandfonline.com/doi/10.1080/15502783.2025.2454641Osteoporosiscartilage injurybioinformaticsWGCNAGO enrichment analysisKEGG pathway analysis |
| spellingShingle | Muzi Liu Shiguo Gong Xin Sheng Zihong Zhang Xichun Wang Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis Journal of the International Society of Sports Nutrition Osteoporosis cartilage injury bioinformatics WGCNA GO enrichment analysis KEGG pathway analysis |
| title | Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis |
| title_full | Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis |
| title_fullStr | Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis |
| title_full_unstemmed | Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis |
| title_short | Bioinformatic identification of important roles of COL1A1 and TNFRSF12A in cartilage injury and osteoporosis |
| title_sort | bioinformatic identification of important roles of col1a1 and tnfrsf12a in cartilage injury and osteoporosis |
| topic | Osteoporosis cartilage injury bioinformatics WGCNA GO enrichment analysis KEGG pathway analysis |
| url | https://www.tandfonline.com/doi/10.1080/15502783.2025.2454641 |
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