Epithelial-Mesenchymal Transition Gene Signature Is Associated with Neoadjuvant Chemoradiotherapy Resistance and Prognosis of Esophageal Squamous Cell Carcinoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36072903", "kind": "science-record", "revision": 4, "content_hash": "sha256:b0fc7f1882c8cb3a9da5988e2f67991dbffc44c5fb62d4006cafa1d58cce12f2", "created_at": "2026-11-01T18:15:17Z", "updated_at": "2026-11-01T22:07:29Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Epithelial-Mesenchymal Transition Gene Signature Is Associated with Neoadjuvant Chemoradiotherapy Resistance and Prognosis of Esophageal Squamous Cell Carcinoma.", "doi": "10.1155/2022/3534433", "pmid": "36072903", "authors": ["Kewei Song", "Baohong Gu", "Chenhui Ma", "Bofang Wang", "Na Wang", "Rong Yu", "Hao Chen"], "journal": "Disease markers", "year": 2022, "abstract": "Background: Neoadjuvant chemoradiotherapy (neo-CRT) in combination with surgery increases survival compared to surgery alone, as indicated by the esophageal squamous cell carcinoma (ESCC) treatment recommendations. However, the benefits of neo-CRT are diverse among patients. Consequently, the development of new biomarkers that correlate with neo-CRT might be important for the treatment of ESCC.\nMethods: The differentially expressed genes (DEG) between responsive and resistant samples from the GSE45670 dataset were obtained. On the TCGA dataset, survival analysis was performed to identify prognosis-related-EMT-genes. For EMT score model construction, lasso regression analysis in the TCGA cohort was used to identify the genes. In the TCGA-ESCC cohort, age, stage, and EMT score were used to construct a nomogram.\nResults: In total, 10 prognosis-related-EMT-genes were obtained. These 10 genes consisted of 6 risky genes and 4 protective genes. Based on the lasso analysis and univariate Cox regression, an EMT score model consisting of 7 genes (CLEC18A, PIR, KCNN4, MST1R, CAPG, ALDH5A1, and COX7B) was identified. ESCC patients with a high EMT score have a worse prognosis. These genes were differentially expressed between responsive and resistant patients and had a high accuracy for distinguishing resistant and responsive patients.\nConclusions: The identified genes have the potential to function as molecular biomarkers for predicting ESCC patients' resistance to neo-CRT. This research may aid in the elucidation of the molecular processes driving resistance and the identification of targets for improving the prognosis for ESCC.", "claims": [{"id": "claim-method", "statement": "We have determined the candidate prognostic genes by applying lasso regression analysis in the TCGA-ESCC cohort by using the glmnet package [28]. We then used univariate Cox regression analysis to calculate the coefficients for each gene.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36072903", "locator": "sections[6] \"2.4. Construction of EMT Score Model\" paragraph 2", "quote": "We have determined the candidate prognostic genes by applying lasso regression analysis in the TCGA-ESCC cohort by using the glmnet package [28]. We then used univariate Cox regression analysis to calculate the coefficients for each gene."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The following information was supplied regarding data availability: data is available at the TCGA (https://portal.gdc.cancer.gov/) and GEO (https://www.ncbi.nlm.nih.gov/geo/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36072903", "locator": "sections[22] \"Data Availability\" paragraph 2", "quote": "The following information was supplied regarding data availability: data is available at the TCGA (https://portal.gdc.cancer.gov/) and GEO (https://www.ncbi.nlm.nih.gov/geo/)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "ESCC patients with a high EMT score have a worse prognosis.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36072903", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "ESCC patients with a high EMT score have a worse prognosis."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "ESCC patients with a high EMT score have a worse prognosis.", "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:36072903"], "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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