Identification of biomarkers of venous thromboembolism by bioinformatics analyses.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:29620629", "kind": "science-record", "revision": 6, "content_hash": "sha256:6d28b9cc4e257f1c1cb8bbbc0221098cc71c61ad7dd59339721bf89aba4fe8aa", "created_at": "2026-11-01T15:40:33Z", "updated_at": "2026-11-01T21:59:47Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of biomarkers of venous thromboembolism by bioinformatics analyses.", "doi": "10.1097/MD.0000000000010152", "pmid": "29620629", "authors": ["Guiming Wang", "Wenbo Zhao", "Yudong Yang", "Gaochao Yang", "Zhigang Wei", "Jiansheng Guo"], "journal": "Medicine", "year": 2018, "abstract": "Venous thromboembolism (VTE) is a common vascular disease and a major cause of mortality. This study intended to explore the biomarkers associated with VTE by bioinformatics analyses.Based on Gene Expression Omnibus (GEO) database, the GSE19151 expression profile data were downloaded. The differentially expressed genes (DEGs) between single VTE (sVTE)/recurrent VTE (rVTE) and control were identified. Then, pathway enrichment analysis of DEGs were performed, followed by protein-protein interaction (PPI) network construction.Total 433 upregulated and 222 downregulated DEGs were obtained between sVTE and control samples. For rVTE versus control, 625 upregulated and 302 downregulated DEGs were identified. The overlap DEGs were mainly enriched in the pathways related to ribosome, cancer, and immune disease. The DEGs specific to rVTE were enriched in several pathways, such as nod-like receptor signaling pathway. In the PPI network, 2 clusters of VTE genes, including ribosomal protein family genes and NADH family-ubiquinol-cytochrome genes, were identified, such as ribosomal protein L9 (RPL9), RPL5, RPS20, RPL23, and tumor protein p53 (TP53).The nod-like receptor signaling pathway, ribosomal protein family genes, such as RPL9, RPL5, RPS20, and RPL23, and DEG of TP53 may have the potential to be used as targets for diagnosis and treatment of VTE.", "claims": [{"id": "claim-method", "statement": "The P-values regarding the significance of differences were calculated using paired-samples t test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:29620629", "locator": "sections[4] \"Data preprocessing and DEGs identification\" paragraph 3", "quote": "The P-values regarding the significance of differences were calculated using paired-samples t test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The GSE19151 gene expression profile data were downloaded from GEO, (http://www.ncbi.nlm.nih.gov/geo/), a public functional genomics database. The gene expression profile platform was Affymetrix Human Genome U133A 2.0 Array (Affymetrix Inc., Santa Clara, CA). A total of 63 healthy control, 32 sVTE, and 38 rVTE were available for analysis.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:29620629", "locator": "sections[3] \"Affymetrix microarray data\" paragraph 2", "quote": "The GSE19151 gene expression profile data were downloaded from GEO, (http://www.ncbi.nlm.nih.gov/geo/), a public functional genomics database. The gene expression profile platform was Affymetrix Human Genome U133A 2.0 Array (Affymetrix Inc., Santa Clara, CA). A total of 63 healthy control, 32 sVTE, and 38 rVTE were available for analysis."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "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:29620629"], "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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