Identification of key genes in osteoarthritis development: biomarker discovery and therapeutic targets.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40672822", "kind": "science-record", "revision": 4, "content_hash": "sha256:fe3558b8dd9f7d234c821a7dc0cd49c0a922a08eded97eaee2766ba3fdfb93cf", "created_at": "2026-11-01T20:30:46Z", "updated_at": "2026-11-01T22:56:51Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of key genes in osteoarthritis development: biomarker discovery and therapeutic targets.", "doi": "10.3389/fmed.2025.1518580", "pmid": "40672822", "authors": ["Liming Wu", "Disheng Wen", "Weizhou Wang", "Yanghao Wang", "Li Zhang"], "journal": "Frontiers in medicine", "year": 2025, "abstract": "Introduction: Osteoarthritis (OA) is the most common joint disorder and a leading cause of disability in the older adult. Early diagnosis and treatment are crucial for effective disease management and improved outcomes. This study aims to identify key genes involved in OA progression using bioinformatics, which may serve as diagnostic biomarkers and therapeutic targets.\nMethods: Synovial tissue sequencing data (GSE1919, GSE55235, GSE82107) were retrieved from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were analyzed using Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and protein-protein interaction (PPI) network analysis. ROC curve analysis was used to assess diagnostic potential, and results were validated using the GSE29746 dataset and synovial tissues from five OA patients and controls.\nResults: A total of 33 common DEGs were identified across three datasets. Four hub genes (CXCL8, CXCL2, DUSP5, TNFSF11) showed high diagnostic potential [area under the receiver operating characteristic curve (AUC) > 0.8]. These genes were also linked to potential therapeutic agents, including lipopolysaccharide and acetaminophen.\nConclusion: CXCL8, CXCL2, DUSP5, and TNFSF11 represent novel multi-functional biomarkers that advance OA research by addressing two critical limitations of prior biomarker studies: (1) overcoming the diagnostic inadequacy of single-biomarker approaches through synergistic clusters, and (2) revealing an unreported integrative mechanism linking inflammatory pathways (CXCL8/2) and bone remodeling processes (TNFSF11/DUSP5). This dual diagnostic-therapeutic potential significantly expands the clinical applicability of OA biomarkers.", "claims": [{"id": "claim-method", "statement": "Differential gene expression analysis between OA and control groups was conducted using the limma [3.52.2] package in R (version 4.2.1).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40672822", "locator": "sections[4] \"Analysis of differentially expressed genes\" paragraph 2", "quote": "Differential gene expression analysis between OA and control groups was conducted using the limma [3.52.2] package in R (version 4.2.1)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40672822", "locator": "sections[19] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Four hub genes (CXCL8, CXCL2, DUSP5, TNFSF11) showed high diagnostic potential [area under the receiver operating characteristic curve (AUC) > 0.8].", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:40672822", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Four hub genes (CXCL8, CXCL2, DUSP5, TNFSF11) showed high diagnostic potential [area under the receiver operating characteristic curve (AUC) > 0.8]."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Four hub genes (CXCL8, CXCL2, DUSP5, TNFSF11) showed high diagnostic potential [area under the receiver operating characteristic curve (AUC) > 0.8].", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:40672822"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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