Identification of novel prognostic indicators for oral squamous cell carcinoma based on proteomics and metabolomics.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37084685", "kind": "science-record", "revision": 2, "content_hash": "sha256:562152628c464c194db4b0dd1445fb39fe02f534c2a5a2bd810146e092a30881", "created_at": "2026-11-01T19:01:44Z", "updated_at": "2026-11-01T21:30:35Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of novel prognostic indicators for oral squamous cell carcinoma based on proteomics and metabolomics.", "doi": "10.1016/j.tranon.2023.101672", "pmid": "37084685", "authors": ["Zhitao Yao", "Wei An", "Maimaitituxun Tuerdi", "Jin Zhao"], "journal": "Translational oncology", "year": 2023, "abstract": "BACKGROUND: The low 5-year survival rate of oral squamous cell carcinoma (OSCC) suggests that new prognostic indicators need to be identified to aid the clinical management of patients.\nMETHODS: Saliva samples from OSCC patients and healthy controls were collected for proteomic and metabolomic sequencing. Gene expressed profiling was downloaded from TCGA and GEO databases. After the differential analysis, proteins with a significant impact on the prognosis of OSCC patients were screened. Correlation analysis was performed with metabolites and core proteins were identified. Cox regression analysis was utilized to stratify OSCC samples based on core proteins. The prognostic predictive ability of the core protein was then evaluated. Differences in infiltration of immune cells between the different strata were identified.\nRESULTS: There were 678 differentially expressed proteins (DEPs), 94 intersected DEPs among them by intersecting with differentially expressed genes in TCGA and GSE30784 dataset. Seven core proteins were identified that significantly affected OSCC patient survival and strongly correlated with differential metabolites (R2 > 0.8). The samples were divided into high- and low-risk groups according to median risk score. The risk score and core proteins were well prognostic factor in OSCC patients. Genes in high-risk group were enriched in Notch signaling pathway, epithelial mesenchymal transition (EMT), and angiogenesis. Core proteins were strongly associated with the immune status of OSCC patients.\nCONCLUSIONS: The results established a 7-protein signatures with the hope of early detection and the capacity for risk assessment of OSCC patient prognosis. Further providing more potential targets for the treatment of OSCC.", "claims": [{"id": "claim-method", "statement": "A multivariate Cox regression analysis was performed based on the 7 core proteins, and a risk score was calculated.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37084685", "locator": "sections[14] \"Functional evaluation of core proteins\" paragraph 2", "quote": "A multivariate Cox regression analysis was performed based on the 7 core proteins, and a risk score was calculated."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier PXD033080.\nThe codes used in the manuscript were provided in the supplementary file 1.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37084685", "locator": "sections[19] \"Data availability\" paragraphs 1-3", "quote": "The proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier PXD033080.\nThe codes used in the manuscript were provided in the supplementary file 1."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Seven core proteins were identified that significantly affected OSCC patient survival and strongly correlated with differential metabolites (R2 > 0.8).", "kind": "quantitative", "target": {"value": 2.0, "unit": "correlation coefficient", "tolerance": null, "source": "Seven core proteins were identified that significantly affected OSCC patient survival and strongly correlated with differential metabolites (R2 > 0.8)."}, "evidence": [{"asset": "source:pmid:37084685", "locator": "sections[0] \"Abstract\" paragraph 7", "quote": "Seven core proteins were identified that significantly affected OSCC patient survival and strongly correlated with differential metabolites (R2 > 0.8)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Seven core proteins were identified that significantly affected OSCC patient survival and strongly correlated with differential metabolites (R2 > 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:37084685"], "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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