Screening of hub genes associated with prognosis in non-small cell lung cancer by integrated bioinformatics analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35117319", "kind": "science-record", "revision": 4, "content_hash": "sha256:460b199aacff3d7adc2fea826d345b1fcc36d27b02e76650d42834a6c9557dbf", "created_at": "2026-11-01T17:36:51Z", "updated_at": "2026-11-01T22:05:46Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Screening of hub genes associated with prognosis in non-small cell lung cancer by integrated bioinformatics analysis.", "doi": "10.21037/tcr-20-1073", "pmid": "35117319", "authors": ["Yu Zeng", "Nanhong Li", "Riken Chen", "Wang Liu", "Tao Chen", "Jinru Zhu", "Mingqing Zeng", "Junfen Cheng", "Jian Huang"], "journal": "Translational cancer research", "year": 2020, "abstract": "BACKGROUND: Lung cancer is an intractable disease and the second leading cause of cancer-related deaths and morbidity in the world. This study conducted a bioinformatics analysis to identify critical genes associated with poor prognosis in non-small cell lung cancer (NSCLC).\nMETHODS: We downloaded three datasets (GSE33532, GSE27262, and GSE18842) from the gene expression omnibus (GEO), and used the GEO2R online tools to identify the differentially expressed genes (DEGs). We then used the Search Tool for Retrieval of Interacting Genes (STRING) database to establish a protein-protein interaction (PPI) network and used the Cytoscape software to perform a module analysis of the PPI network. A Kaplan-Meier plotter was used to perform the overall survival (OS) analysis, and the Gene Expression Profiling Interactive Analysis (GEPIA) database was used for expression level analysis of hub genes. Further, the UALCAN database was used to validate the relationship between the gene expression level of each hub gene and clinical characteristics.\nRESULTS: We identified 254 DEGs, which were composed of 66 up-regulated genes and 188 down-regulated genes. Out of these, five DEGs were identified as hub genes (CDC20, BUB1, CCNB2, CCNB1, UBE2C) by constructing a PPI network. The use of a Kaplan-Meier plotter to generate patient survival curves suggested a strong relationship between the five hub genes with worse OS. Validation of the above results using the GEPIA database showed that all the hub genes were highly expressed in NSCLC tissues. Using the UALACN data mining platform, we found that the five hub genes are correlated with tumor stage and the status of node metastasis in NSCLC patients.\nCONCLUSIONS: We identified five hub DEGs that might provide perspectives in the explorations of pathogenesis and treatments for NSCLC.", "claims": [{"id": "claim-method", "statement": "Genes with an adjusted P value <0.05 and |log2 fold change| >2 were treated as DEGs and analyzed using the R software.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35117319", "locator": "sections[4] \"Data processing\" paragraph 2", "quote": "Genes with an adjusted P value <0.05 and |log2 fold change| >2 were treated as DEGs and analyzed using the R software."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The GSE33532 dataset contained gene expression information of 80 human NSCLC tissues and 20 adjacent normal lung tissues.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35117319", "locator": "sections[3] \"Information of three datasets\" paragraph 2", "quote": "The GSE33532 dataset contained gene expression information of 80 human NSCLC tissues and 20 adjacent normal lung tissues."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Out of these, five DEGs were identified as hub genes (CDC20, BUB1, CCNB2, CCNB1, UBE2C) by constructing a PPI network.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35117319", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Out of these, five DEGs were identified as hub genes (CDC20, BUB1, CCNB2, CCNB1, UBE2C) by constructing a PPI network."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Out of these, five DEGs were identified as hub genes (CDC20, BUB1, CCNB2, CCNB1, UBE2C) by constructing a PPI network.", "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:35117319"], "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:GSE18842"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "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:GSE18842"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:35117319", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.21037/tcr-20-1073", "sha256": 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