Unveiling hub genes and biological pathways: A bioinformatics analysis of Trauma-Induced Coagulopathy (TIC).

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40300035", "kind": "science-record", "revision": 4, "content_hash": "sha256:791c77f871f5d7fa03cafe05f99ba0f8b515dd044444ec60783c208e388873a2", "created_at": "2026-11-01T20:30:27Z", "updated_at": "2026-11-01T22:56:27Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Unveiling hub genes and biological pathways: A bioinformatics analysis of Trauma-Induced Coagulopathy (TIC).", "doi": "10.1371/journal.pone.0322043", "pmid": "40300035", "authors": ["Lingang Zhang", "Bo Li", "Jing Liu", "Yan Feng Bian", "Guo Xing Lin", "Ying Zhou"], "journal": "PloS one", "year": 2025, "abstract": "BACKGROUND: Trauma-Induced Coagulopathy is a severe condition that rapidly manifests following traumatic injury and is characterized by shock, hypoperfusion, and vascular damage. This study employed bioinformatics methods to identify crucial hub genes and pathways associated with TIC.\nMETHODS: Microarray datasets (accession number GSE223245) were obtained from the Gene Expression Omnibus (GEO) database. The data were subjected analyses to identify the Differentially Expressed Genes (DEGs), which were further subjected to GO and KEGG pathway analyses. Subsequently, a Protein-Protein Interaction (PPI) network was constructed and hub DEGs closely linked to TIC were identified using CytoHubba, MCODE, and CTD scores. The diagnostic value of these hub genes was evaluated using Receiver Operating Characteristic (ROC) analysis.\nRESULTS: Among the analyzed genes, 269 were identified as DEGs, comprising 103 upregulated and 739 downregulated genes. Notably, several significant hub genes were associated with the development of TIC, as revealed by bioinformatic analyses.\nCONCLUSIONS: This study highlights the critical impact of newly discovered genes on the development and progression of TIC. Further validation through experimental research and clinical trials is required to confirm these findings.", "claims": [{"id": "claim-method", "statement": "Differentially expressed genes (DEGs) were obtained from the microarray data using the R package “limma.”", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40300035", "locator": "sections[4] \"2.2 Data Processing and Differentially Expressed Genes Identification\" paragraph 2", "quote": "Differentially expressed genes (DEGs) were obtained from the microarray data using the R package “limma.”"}], "state": "complete"}, {"id": "claim-data-access", "statement": "The dataset used in our study is publicly available in the GEO database under the accession number GSE223245. The direct link to access the dataset is: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE223245", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40300035", "locator": "sections[16] \"Data Availability\" paragraph 2", "quote": "The dataset used in our study is publicly available in the GEO database under the accession number GSE223245. The direct link to access the dataset is: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE223245"}], "state": "complete"}, {"id": "claim-target-result", "statement": "ROC analysis of the 10 identified hub genes produced AUC values ranging from 0.812 for HERC5 to 0.875 for DDX60, with DDX60 having the highest reported AUC.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:40300035", "locator": "sections[13] \"3.4 Assessing the diagnostic value of hub genes\" paragraph 2", "quote": "The AUC for OAS2, OAS3, IFIT2, IFIT1, IFIT3, HERC5, IFI44, IFI44L, RSAD2, DDX60 were 0.854,0.833, 0.854, 0.854, 0.854,0.812,0.833,0.833,0.833,0.875."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "ROC analysis of the 10 identified hub genes produced AUC values ranging from 0.812 for HERC5 to 0.875 for DDX60, with DDX60 having the highest reported AUC.", "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:40300035"], "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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