ITGB5 as a Potential Diagnostic Biomarker for Osteoarthritis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40024232", "kind": "science-record", "revision": 3, "content_hash": "sha256:bd2cf4380a5206387a99d1bd513940eca17034a48049a92de558fa508a120147", "created_at": "2026-11-01T20:30:14Z", "updated_at": "2026-11-01T22:13:41Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "ITGB5 as a Potential Diagnostic Biomarker for Osteoarthritis.", "doi": "10.22540/JMNI-25-086", "pmid": "40024232", "authors": ["Shouchao Hu", "Jianxin Huang", "Wenzhi Wang"], "journal": "Journal of musculoskeletal & neuronal interactions", "year": 2025, "abstract": "OBJECTIVE: Osteoarthritis (OA) is a prevalent degenerative joint disease, especially occur in the elderly. This study aimed to uncover a novel biomarker for early diagnosis and treatment of OA.\nMETHODS: WGCNA, differential expression analysis and PPI network were used for screening hub genes-related to OA, utilizing the GSE55235 and GSE57218 datasets from GEO database.\nRESULTS: Based on the data in the GEO datasets, compared to normal tissues, ITGB5 was obviously elevated in OA cartilage and synovial samples. Additionally, ROC curve results validated the diagnostic value of ITGB5 in OA. Mechanistically, transcription factors KLF4 and KLF11 could modulate ITGB5 gene transcription via binding to its promoter region, thereby affecting ITGB5 gene expression in OA tissues. GSEA results showed that ITGB5 gene was closely related to p53, wnt, TNF and T cell receptor signaling pathways, suggesting that ITGB5 may play potential roles in affecting cell apoptosis and inflammation in OA. Moreover, ITGB5 levels in OA samples was positively correlated to T helper type 1 cells, natural killer T cells, macrophages, memory CD8 T cells, activated dendritic cells.\nCONCLUSION: In this study, we found that ITGB5 was obviously elevated in OA samples. Moreover, ITGB5 may function as a diagnostic biomarker in OA.", "claims": [{"id": "claim-method", "statement": "The R package “WGCNA” (version1.72-1) was utilized to screen OA-related gene modules in GSE57218 dataset[18]. The DEGs between normal and OA samples in the GSE55235 and GSE57218 datasets were screened by using R package “limma” (version 3.56.2) (Thresholds: |log2 FC| > 0.5 and FDR < 0.05)[19].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40024232", "locator": "sections[4] \"Identification of OA-related genes by WGCNA\" paragraph 2", "quote": "The R package “WGCNA” (version1.72-1) was utilized to screen OA-related gene modules in GSE57218 dataset[18]."}, {"asset": "source:pmid:40024232", "locator": "sections[5] \"Identification of DEGs\" paragraph 2", "quote": "The DEGs between normal and OA samples in the GSE55235 and GSE57218 datasets were screened by using R package “limma” (version 3.56.2) (Thresholds: |log2 FC| > 0.5 and FDR < 0.05)[19]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The data that support the findings of this study are openly available in Gene Expression Omnibus (GEO) at https://www.ncbi.nlm.nih.gov/geo/, reference number GSE57218, GSE114007, GSE32317, GSE143514.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40024232", "locator": "sections[24] \"Data Availability Statement\" paragraph 2", "quote": "The data that support the findings of this study are openly available in Gene Expression Omnibus (GEO) at https://www.ncbi.nlm.nih.gov/geo/, reference number GSE57218, GSE114007, GSE32317, GSE143514."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": null, "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:40024232"], "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. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE114007"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "blocked", "blocked_on": "method:group_comparison_wilcoxon", "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE114007"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:run_analysis blocked on method:group_comparison_wilcoxon"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:40024232", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": 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