Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis
Purpose. This study is aimed at exploring the potential metabolite/gene biomarkers, as well as the differences between the molecular mechanisms, of osteoarthritis (OA) and rheumatoid arthritis (RA). Methods. Transcriptome dataset GSE100786 was downloaded to explore the differentially expressed genes...
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| Format: | Article |
| Language: | English |
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Wiley
2020-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2020/5925126 |
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| author | Ningyang Gao Li Ding Jian Pang Yuxin Zheng Yuelong Cao Hongsheng Zhan Yinyu Shi |
| author_facet | Ningyang Gao Li Ding Jian Pang Yuxin Zheng Yuelong Cao Hongsheng Zhan Yinyu Shi |
| author_sort | Ningyang Gao |
| collection | DOAJ |
| description | Purpose. This study is aimed at exploring the potential metabolite/gene biomarkers, as well as the differences between the molecular mechanisms, of osteoarthritis (OA) and rheumatoid arthritis (RA). Methods. Transcriptome dataset GSE100786 was downloaded to explore the differentially expressed genes (DEGs) between OA samples and RA samples. Meanwhile, metabolomic dataset MTBLS564 was downloaded and preprocessed to obtain metabolites. Then, the principal component analysis (PCA) and linear models were used to reveal DEG-metabolite relations. Finally, metabolic pathway enrichment analysis was performed to investigate the differences between the molecular mechanisms of OA and RA. Results. A total of 976 DEGs and 171 metabolites were explored between OA samples and RA samples. The PCA and linear module analysis investigated 186 DEG-metabolite interactions including Glycogenin 1- (GYG1-) asparagine_54, hedgehog acyltransferase- (HHAT-) glucose_70, and TNF receptor-associated factor 3- (TRAF3-) acetoacetate_35. Finally, the KEGG pathway analysis showed that these metabolites were mainly enriched in pathways like gap junction, phagosome, NF-kappa B, and IL-17 pathway. Conclusions. Genes such as HHAT, GYG1, and TRAF3, as well as metabolites including glucose, asparagine, and acetoacetate, might be implicated in the pathogenesis of OA and RA. Metabolites like ethanol and tyrosine might participate differentially in OA and RA progression via the gap junction pathway and phagosome pathway, respectively. TRAF3-acetoacetate interaction may be involved in regulating inflammation in OA and RA by the NF-kappa B and IL-17 pathway. |
| format | Article |
| id | doaj-art-0d534b45799a41789421f477da914ada |
| institution | Kabale University |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2020-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-0d534b45799a41789421f477da914ada2025-02-03T06:43:50ZengWileyInternational Journal of Genomics2314-436X2314-43782020-01-01202010.1155/2020/59251265925126Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid ArthritisNingyang Gao0Li Ding1Jian Pang2Yuxin Zheng3Yuelong Cao4Hongsheng Zhan5Yinyu Shi6Shi’s Center of Orthopedics and Traumatology, Shuguang Hospital Affiliated to Shanghai University of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaInstitute of Traumatology & Orthopedics, Shanghai Academy of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaInstitute of Traumatology & Orthopedics, Shanghai Academy of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaShi’s Center of Orthopedics and Traumatology, Shuguang Hospital Affiliated to Shanghai University of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaInstitute of Traumatology & Orthopedics, Shanghai Academy of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaShi’s Center of Orthopedics and Traumatology, Shuguang Hospital Affiliated to Shanghai University of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaShi’s Center of Orthopedics and Traumatology, Shuguang Hospital Affiliated to Shanghai University of TCM, No. 528 Zhangheng Road, Shanghai 201203, ChinaPurpose. This study is aimed at exploring the potential metabolite/gene biomarkers, as well as the differences between the molecular mechanisms, of osteoarthritis (OA) and rheumatoid arthritis (RA). Methods. Transcriptome dataset GSE100786 was downloaded to explore the differentially expressed genes (DEGs) between OA samples and RA samples. Meanwhile, metabolomic dataset MTBLS564 was downloaded and preprocessed to obtain metabolites. Then, the principal component analysis (PCA) and linear models were used to reveal DEG-metabolite relations. Finally, metabolic pathway enrichment analysis was performed to investigate the differences between the molecular mechanisms of OA and RA. Results. A total of 976 DEGs and 171 metabolites were explored between OA samples and RA samples. The PCA and linear module analysis investigated 186 DEG-metabolite interactions including Glycogenin 1- (GYG1-) asparagine_54, hedgehog acyltransferase- (HHAT-) glucose_70, and TNF receptor-associated factor 3- (TRAF3-) acetoacetate_35. Finally, the KEGG pathway analysis showed that these metabolites were mainly enriched in pathways like gap junction, phagosome, NF-kappa B, and IL-17 pathway. Conclusions. Genes such as HHAT, GYG1, and TRAF3, as well as metabolites including glucose, asparagine, and acetoacetate, might be implicated in the pathogenesis of OA and RA. Metabolites like ethanol and tyrosine might participate differentially in OA and RA progression via the gap junction pathway and phagosome pathway, respectively. TRAF3-acetoacetate interaction may be involved in regulating inflammation in OA and RA by the NF-kappa B and IL-17 pathway.http://dx.doi.org/10.1155/2020/5925126 |
| spellingShingle | Ningyang Gao Li Ding Jian Pang Yuxin Zheng Yuelong Cao Hongsheng Zhan Yinyu Shi Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis International Journal of Genomics |
| title | Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis |
| title_full | Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis |
| title_fullStr | Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis |
| title_full_unstemmed | Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis |
| title_short | Metabonomic-Transcriptome Integration Analysis on Osteoarthritis and Rheumatoid Arthritis |
| title_sort | metabonomic transcriptome integration analysis on osteoarthritis and rheumatoid arthritis |
| url | http://dx.doi.org/10.1155/2020/5925126 |
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