Identification of Hub Genes Associated With Sensitivity of 5-Fluorouracil Based Chemotherapy for Colorectal Cancer by Integrated Bioinformatics Analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:33912443", "kind": "science-record", "revision": 7, "content_hash": "sha256:ce32dafaf7b1823d9b6c87f7d03963682cefc65a76b43663fc06de7e2d9d00df", "created_at": "2026-11-01T15:41:33Z", "updated_at": "2026-11-01T22:03:38Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of Hub Genes Associated With Sensitivity of 5-Fluorouracil Based Chemotherapy for Colorectal Cancer by Integrated Bioinformatics Analysis.", "doi": "10.3389/fonc.2021.604315", "pmid": "33912443", "authors": ["Ya Wang", "Qunhui Wei", "Yuqiao Chen", "Shichao Long", "Yuanbing Yao", "Kai Fu"], "journal": "Frontiers in oncology", "year": 2021, "abstract": "Colorectal cancer (CRC) is one of the most common malignant tumors. 5-fluorouracil (5-FU) has been used for the standard first-line treatment for CRC patients for several decades. Although 5-FU based chemotherapy has increased overall survival (OS) of CRC patients, the resistance of CRC to 5-FU based chemotherapy is the principal cause for treatment failure. Thus, identifying novel biomarkers to predict response to 5-FU based chemotherapy is urgently needed. In the present study, the gene expression profile of GSE3964 from the Gene Expression Omnibus database was used to explore the potential genes related to intrinsic resistance to 5-FU. A gene module containing 81 genes was found to have the highest correlation with chemotherapy response using Weighted Gene Co-expression Network Analysis (WGCNA). Then a protein-protein interaction (PPI) network was constructed and ten hub genes (TGFBI, NID, LEPREL2, COL11A1, CYR61, PCOLCE, IGFBP7, COL4A2, CSPG2, and VTN) were identified using the CytoHubba plugin of Cytoscape. Seven of these hub genes showed significant differences in expression between chemotherapy-sensitive and chemotherapy-resistant samples. The prognostic value of these seven genes was evaluated using TCGA COAD (Colorectal Adenocarcinoma) data. The results showed that TGFBI was highly expressed in chemotherapy-sensitive patients, and patients with high TGFBI expression have better survival.", "claims": [{"id": "claim-method", "statement": "Then prognostic values of significantly differentially expressed hub genes were evaluated in CRC patients undergoing chemotherapy from TCGA COAD. Kaplan-Meier survival analysis was performed using the “survival” R package based on the median value of each gene.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33912443", "locator": "sections[7] \"Verification of the Expression Patters and Prognostic Values of Hub Genes\" paragraph 2", "quote": "Then prognostic values of significantly differentially expressed hub genes were evaluated in CRC patients undergoing chemotherapy from TCGA COAD. Kaplan-Meier survival analysis was performed using the “survival” R package based on the median value of each gene."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study. This data can be found here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3964 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19860.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33912443", "locator": "sections[20] \"Data Availability Statement\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study. This data can be found here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE3964 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19860."}], "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:33912443"], "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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