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Biomarkers Identification of Early Rheumatoid Arthritis via Bioinformatics Approach and Experimental Verification

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机构: [1]Department of Surgery, Dehong Zhou People Hospital, Kunming, Yunnan, China. [2]Department of Surgery, The Affiliated Guangdong Second Provincial General Hospital of Jinan University, Kunming, Yunnan, China. [3]Department of Graduate Students, Faculty of Medicine, Kunming University of Science and Technology, Kunming, Yunnan, China. [4]Department of Orthopedics, The First Affiliated Hospital of Kunming Medical University, Kunming, Yunnan, China. [5]Department of Radiology, Yunnan Cancer Hospital and The Third Affiliated Hospital of Kunming Medical University, Kunming, Yunnan, China. [6]Department of Acupuncture and Moxibustion, Yunnan Provincial Hospital of Traditional Chinese Medicine, Kunming, Yunnan, China. [7]Department of Human Anatomy and Histology and Embryology, School of Basic Medical Sciences, Kunming Medical University, Kunming, Yunnan, China zhandong@kmmu.edu.cn.
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关键词: Rheumatoid arthritis Bioinformatics Experimental verification Diagnostic biomarker

摘要:
To screen and identify potential biomarker for early rheumatoid arthritis (RA) by bioinformatic analysis and experimental investigation.Transcriptome data of RA synovium was downloaded from GEO. Differentially expressed genes (DEGs), gene ontology (GO) functional annotation, and KEGG pathway were analyzed to inspect significative target genes. The protein-protein interaction was constructed using STRING database and Cytoscape to screen hub genes with least absolute shrinkage and selection operator (LASSO). The diagnostic effectivity of screened hub genes was analyzed with receiver operating characteristic (ROC). RA synovial fibroblast (SF) was treated with TNF-α (20ng/mL for 24h). RT-qPCR and Western blotting were used to measure mRNA and protein for screened hub gene.A total of 271 DEGs were found in GEO dataset. GO analysis indicated that DEGs mainly involved in phagocytosis, recognition and complement activation, etc. KEGG analysis suggested that DEGs were mostly enriched in the cytokine-cytokine receptor interaction, regulation of lipolysis in adipocytes, PPAR signaling pathway. LASSO regression and ROC curve indicated that ADIPOQ, CIDEA, FABP4, AQP7, LOC102723407, PLIN4, LIPE, CIDEC, PLIN1, and LEP had excellent diagnostic value. The area under ROC was 0.734. The level of ADIPOQ, LEP, LIPE, PLIN1, and PLIN4 were lower in RA group rather than that of control group (p<0.01). The higher expressions of CIDEC and FABP4 were found in RA group comparing to control group (p<0.001).Identified hub genes might be valuable biomarkers for early RA diagnosis to promote precise and personal therapy.© 2024 by the Association of Clinical Scientists, Inc.

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大类 | 4 区 医学
小类 | 4 区 医学实验技术
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Q3 MEDICAL LABORATORY TECHNOLOGY

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第一作者机构: [1]Department of Surgery, Dehong Zhou People Hospital, Kunming, Yunnan, China.
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