Bioinformatic Analysis of The Prognostic Value of A Panel of Six Amino Acid Transporters in Human Cancers.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37718764", "kind": "science-record", "revision": 3, "content_hash": "sha256:21a779eed0ffec1a356c290b6d3f696e83cf24aa29ee284008a12c1780575c81", "created_at": "2026-11-01T19:02:33Z", "updated_at": "2026-11-01T21:31:34Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Bioinformatic Analysis of The Prognostic Value of A Panel of Six Amino Acid Transporters in Human Cancers.", "doi": "10.22074/cellj.2023.2004011.1319", "pmid": "37718764", "authors": ["Yaqi Liu", "Haijuan Xiong", "Chenhui Yan", "Yalei Wang", "Wenfeng Cao", "Shuo Qie"], "journal": "Cell journal", "year": 2023, "abstract": "OBJECTIVE: Solid tumor cells utilize amino acid transporters (AATs) to increase amino acid uptake in response to nutrient-insufficiency. The upregulation of AATs is therefore critical for tumor development and progression. This study identifies the upregulated AATs under amino acid deprived conditions, and further determines the clinicopathological importance of these AATs in evaluating the prognosis of patients with cancers.\nMATERIALS AND METHODS: In this experimental study, the Gene Expression Omnibus (GEO) datasets (GSE62673, GSE26370, GSE125782 and GSE150874) were downloaded from the NCBI website and utilized for integrated differential expression and pathway analysis v0.96, Gene Set Enrichment Analysis (GSEA), and REACTOME analyses to identify the AATs upregulated in response to amino acid deprivation. In addition, The Cancer Genome Atlas (TCGA) datasets with prognostic information were assessed and employed to evaluate the association of identified AATs with patients' prognoses using SurvExpress analysis.\nRESULTS: Using analysis of NCBI GEO data, this study shows that amino acid deprivation leads to the upregulation of six AAT genes; SLC3A2, SLC7A5, SLC7A1, SLC1A4, SLC7A11 and SLC1A5. GSEA and REACTOME analyses identified altered signaling in cells exposed to amino acid deprivation, such as pathways related to stress responses, the cell cycle and apoptosis. In addition, Principal Component Analysis showed these six AAT genes to be well divided into two distinct clusters in relation to TCGA tumor tissues versus normal counterparts. Finally, Log-Rank analysis confirmed the upregulation of this panel of six AAT genes is correlated with poor prognosis in patients with colorectal, esophageal, kidney and lung cancers.\nCONCLUSION: The upregulation of a panel of six AATs is common in several human cancers and may provide a valuable diagnostic tool to evaluate the prognosis of patients with colorectal, esophageal, kidney and lung cancers.", "claims": [{"id": "claim-method", "statement": "Statistical analyses were performed using the Log Rank test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37718764", "locator": "sections[20] \"Distinct expression of the six AATs in human tumor and normal tissues\" paragraph 3", "quote": "Statistical analyses were performed using the Log Rank test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "MCF7 breast cancer cells in the GSE62673 dataset were first exposed to complete medium or medium without one/all amino acid(s) for 24 hours. mRNAs were then extracted and analyzed using the Affymetrix Human Genome U133A 2.0 Array.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37718764", "locator": "sections[3] \"Collection of published and open-access datasets\" paragraph 2", "quote": "MCF7 breast cancer cells in the GSE62673 dataset were first exposed to complete medium or medium without one/all amino acid(s) for 24 hours. mRNAs were then extracted and analyzed using the Affymetrix Human Genome U133A 2.0 Array."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Finally, Log-Rank analysis confirmed the upregulation of this panel of six AAT genes is correlated with poor prognosis in patients with colorectal, esophageal, kidney and lung cancers.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37718764", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Finally, Log-Rank analysis confirmed the upregulation of this panel of six AAT genes is correlated with poor prognosis in patients with colorectal, esophageal, kidney and lung cancers."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Finally, Log-Rank analysis confirmed the upregulation of this panel of six AAT genes is correlated with poor prognosis in patients with colorectal, esophageal, kidney and lung cancers.", "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:37718764"], "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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