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Proteomic analysis to identification of hypoxia related markers in spinal tuberculosis: a study based on weighted gene co-expression network analysis and machine learning

التفاصيل البيبلوغرافية
العنوان: Proteomic analysis to identification of hypoxia related markers in spinal tuberculosis: a study based on weighted gene co-expression network analysis and machine learning
المؤلفون: Shaofeng Wu, Tuo Liang, Jie Jiang, Jichong Zhu, Tianyou Chen, Chenxing Zhou, Shengsheng Huang, Yuanlin Yao, Hao Guo, Zhen Ye, Liyi Chen, Wuhua Chen, Binguang Fan, Jiahui Qin, Lu Liu, Siling Wu, Fengzhi Ma, Xinli Zhan, Chong Liu
المصدر: BMC Medical Genomics, Vol 16, Iss 1, Pp 1-17 (2023)
بيانات النشر: BMC, 2023.
سنة النشر: 2023
المجموعة: LCC:Internal medicine
LCC:Genetics
مصطلحات موضوعية: Spinal tuberculosis, WGCNA, Machine learning, ssGSEA, Pharmaco-transcriptomic analysis, Internal medicine, RC31-1245, Genetics, QH426-470
الوصف: Abstract Objective This article aims at exploring the role of hypoxia-related genes and immune cells in spinal tuberculosis and tuberculosis involving other organs. Methods In this study, label-free quantitative proteomics analysis was performed on the intervertebral discs (fibrous cartilaginous tissues) obtained from five spinal tuberculosis (TB) patients. Key proteins associated with hypoxia were identified using molecular complex detection (MCODE), weighted gene co-expression network analysis(WGCNA), least absolute shrinkage and selection operator (LASSO), and support vector machine recursive feature Elimination (SVM-REF) methods, and their diagnostic and predictive values were assessed. Immune cell correlation analysis was then performed using the Single Sample Gene Set Enrichment Analysis (ssGSEA) method. In addition, a pharmaco-transcriptomic analysis was also performed to identify targets for treatment. Results The three genes, namely proteasome 20 S subunit beta 9 (PSMB9), signal transducer and activator of transcription 1 (STAT1), and transporter 1 (TAP1), were identified in the present study. The expression of these genes was found to be particularly high in patients with spinal TB and other extrapulmonary TB, as well as in TB and multidrug-resistant TB (p-value
نوع الوثيقة: article
وصف الملف: electronic resource
اللغة: English
تدمد: 1755-8794
Relation: https://doaj.org/toc/1755-8794
DOI: 10.1186/s12920-023-01566-z
URL الوصول: https://doaj.org/article/6e70c735e3274529ab38fdba6a329b23
رقم الأكسشن: edsdoj.6e70c735e3274529ab38fdba6a329b23
قاعدة البيانات: Directory of Open Access Journals
الوصف
تدمد:17558794
DOI:10.1186/s12920-023-01566-z