Predictions for high COL1A1 and COL10A1 expression resulting in a poor prognosis in esophageal squamous cell carcinoma by bioinformatics analyses.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35117161", "kind": "science-record", "revision": 4, "content_hash": "sha256:ac22769d467fdb93873353d0a01a3ad3b50ab21af7f96db3283ed773fcde40da", "created_at": "2026-11-01T17:36:51Z", "updated_at": "2026-11-01T22:05:45Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Predictions for high COL1A1 and COL10A1 expression resulting in a poor prognosis in esophageal squamous cell carcinoma by bioinformatics analyses.", "doi": "10.21037/tcr.2019.11.11", "pmid": "35117161", "authors": ["Yang Li", "Xu Wang", "Liangliang Shi", "Jianming Xu", "Bin Sun"], "journal": "Translational cancer research", "year": 2020, "abstract": "BACKGROUND: Esophageal squamous cell carcinoma (ESCC) is one of the most common malignant neoplasms of the digestive tract worldwide. The lack of key molecular biomarkers is associated with the poor prognosis in ESCC patients. The present study was aimed to identify candidate genes for diagnostic, prognostic, and therapeutic applications in ESCC by bioinformatics.\nMETHODS: Two datasets of ESCC (GSE20347 and GSE70409) from gene expression omnibus (GEO) were analyzed using GEO2R online tool to identify the differentially expressed genes (DEGs). Subsequently, functions and pathways enrichment analyses of DEGs and their protein-protein interaction (PPI) network analyses were performed. When key DEGs were identified, their relationship with ESCC prognosis was further validated.\nRESULTS: There were 134 commonly changed DEGs (33 up-regulated and 101 down-regulated) from GSE20347 and GSE70409 datasets were identified using integrated bioinformatical analysis. Gene ontology (GO) and pathway enrichment analysis was performed to annotate genes and gene products, highlight biological processes (BPs) and systemic functional information. Through the PPI network and cluster analysis, two clusters containing 21 key DEGs were detected and 14 of them were validated based on TCGA and GTEx data. Among these key DEGs, COL1A1 and COL10A1 were significantly associated with the prognosis in ESCC cases.\nCONCLUSIONS: In conclusion, a total of 14 key DEGs and outcome in ESCC were identified by integrated bioinformatics analyses. COL1A1 and COL10A1 might be novel potential diagnostic and prognostic biomarkers in ESCC.", "claims": [{"id": "claim-method", "statement": "We used GEO2R (https://www.ncbi.nlm.nih.gov/geo/geo2r/), an online tool for analyzing DEGs, to compare tumor and normal samples from the two datasets in order to identify DEGs.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35117161", "locator": "sections[5] \"Identification of differential expression genes\" paragraph 2", "quote": "We used GEO2R (https://www.ncbi.nlm.nih.gov/geo/geo2r/), an online tool for analyzing DEGs, to compare tumor and normal samples from the two datasets in order to identify DEGs."}], "state": "complete"}, {"id": "claim-data-access", "statement": "In the present study, gene expression profiles GSE20347 and GSE70409 were downloaded from the GEO database. GSE20347 contains 17 tumor tissues and 17 matched normal adjacent tissues from 17 ESCC patients from a high-risk region of China.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35117161", "locator": "sections[4] \"Datasets information\" paragraph 2", "quote": "In the present study, gene expression profiles GSE20347 and GSE70409 were downloaded from the GEO database. GSE20347 contains 17 tumor tissues and 17 matched normal adjacent tissues from 17 ESCC patients from a high-risk region of China."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Through the PPI network and cluster analysis, two clusters containing 21 key DEGs were detected and 14 of them were validated based on TCGA and GTEx data.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35117161", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Through the PPI network and cluster analysis, two clusters containing 21 key DEGs were detected and 14 of them were validated based on TCGA and GTEx data."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Through the PPI network and cluster analysis, two clusters containing 21 key DEGs were detected and 14 of them were validated based on TCGA and GTEx data.", "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:35117161"], "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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