Molecular analysis of Chinese oesophageal squamous cell carcinoma identifies novel subtypes associated with distinct clinical outcomes.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:32580137", "kind": "science-record", "revision": 7, "content_hash": "sha256:10151d90023d8a97e52027064d3c5cae545179ef195b7ae7ae44b148520e0ba3", "created_at": "2026-11-01T15:41:04Z", "updated_at": "2026-11-01T22:01:47Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Molecular analysis of Chinese oesophageal squamous cell carcinoma identifies novel subtypes associated with distinct clinical outcomes.", "doi": "10.1016/j.ebiom.2020.102831", "pmid": "32580137", "authors": ["Meng Liu", "Haiyin An", "Yuan Zhang", "Wei Sun", "Shujun Cheng", "Ruozheng Wang", "Xiyan Wang", "Lin Feng"], "journal": "EBioMedicine", "year": 2020, "abstract": "BACKGROUND: Oesophageal squamous cell carcinoma (ESCC) is a highly heterogeneous cancer with a distinct incidence and prognosis. Molecular events driving ESCC subtypes and prognosis have not been established, and little is known regarding Chinese ESCC patients in Xinjiang, China.\nMETHODS: Here, we first integrated the genomic and transcriptomic data of 125 Chinese ESCC patients from Xinjiang Tumor Hospital (Urumqi, China). Two independent datasets of GSE53624 and The Cancer Genome Atlas (TCGA) ESCC were used to confirm the results of this study. DNA mutation and overall survival (OS) were analysed independently in the Chinese ESCC cohorts.\nFINDINGS: Genomic analyses revealed a consistent mutation signatures and discordance among mutated genes across the different ESCC cohorts. In addition, transcriptomic profiling identified three Chinese ESCC subtypes associated with clinical and molecular attributes, including patient survival, lymph node status and genetic profile. Moreover, Chinese ESCC subtypes have distinct metabolic, inflammatory, metastatic, and cell proliferation features and unique potential therapeutics. Furthermore, the expression of cell cycle- and/or cell proliferation-related genes was higher in cyclin D1 (CCND1)-amplified tumours than in CCND1-normal tumours from Chinese ESCC patients, suggesting that CCND1 amplification promoted cell proliferation.\nINTERPRETATION: Our findings provide a framework to facilitate the rational categorization of ESCC in Chinese patients and a foundation for new therapies.\nFUNDING: This study was supported by the Research Fund of Key Laboratory of Xinjiang oncology (Grant no.2017D04006) and the Outstanding Youth Science and technology training project fund of Xinjiang, China (Grant no. 2017Q058).", "claims": [{"id": "claim-method", "statement": "Spearman's correlation coefficients and adjusted P values were calculated for all CNA-mRNA pairs for 23,109 genes (Supplementary Data 11).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32580137", "locator": "sections[15] \"Identification of copy-number alterations (CNAs) associated with mRNA abundance among the Chinese ESCC subtypes\" paragraph 2", "quote": "Spearman's correlation coefficients and adjusted P values were calculated for all CNA-mRNA pairs for 23,109 genes (Supplementary Data 11)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Genomic and transcriptomic data have been uploaded to the Genome Sequence Archive of Beijing Institute of Genomics, Chinese Academy of Sciences (http://gsa.big.as.cn/) under accession number HRA000178. Data that support the findings of this study are available from the TCGA (http://cancergenome.nib.gov) and GEO databases (http://www.ncbi.nlm.nih.gov/geo).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32580137", "locator": "sections[17] \"Data availability\" paragraph 2", "quote": "Genomic and transcriptomic data have been uploaded to the Genome Sequence Archive of Beijing Institute of Genomics, Chinese Academy of Sciences (http://gsa.big.as.cn/) under accession number HRA000178. Data that support the findings of this study are available from the TCGA (http://cancergenome.nib.gov) and GEO databases (http://www.ncbi.nlm.nih.gov/geo)."}], "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:32580137"], "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:GSE53624"], "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:GSE53624"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:32580137", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1016/j.ebiom.2020.102831", "sha256": "sha256:5dbbf7f358eb3cf5fc1598b7480ed40e56b9ce3220bb5d06e4c4781ef98b5022", "bytes": 46076, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1016/j.ebiom.2020.102831", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC7317223", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE53624", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE53624", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE53624", "version": null, "note": "Genomic and transcriptomic data have been uploaded to the Genome Sequence Archive of Beijing Institute of Genomics, Chinese Academy of Sciences (http://gsa.big.as.cn/) under accession number HRA000178. 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