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pmid:31571913
MicroRNA-424 regulates cisplatin resistance of gastric cancer by targeting SMURF1 based on GEO database and primary validation in human gastric cancer tissues.
Li Lu · Menglin Wu · Yaoheng Lu · Zhicheng Zhao · Tong Liu · Weihua Fu · Weidong Li
OncoTargets and therapy · 2019 doi:10.2147/OTT.S208275
Paper
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Experiment
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Data
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Analysis
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Execution
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Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31571913", "kind": "science-record", "revision": 7, "content_hash": "sha256:4d7f9dcaf8deffb6c4e058f56dc7e01f36e0182bac15daa9a3188a5707081725", "created_at": "2026-11-01T15:40:50Z", "updated_at": "2026-11-01T21:22:31Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "MicroRNA-424 regulates cisplatin resistance of gastric cancer by targeting SMURF1 based on GEO database and primary validation in human gastric cancer tissues.", "doi": "10.2147/OTT.S208275", "pmid": "31571913", "authors": ["Li Lu", "Menglin Wu", "Yaoheng Lu", "Zhicheng Zhao", "Tong Liu", "Weihua Fu", "Weidong Li"], "journal": "OncoTargets and therapy", "year": 2019, "abstract": "PURPOSE: Cisplatin (DDP) based chemotherapy regimens are widely used in advanced gastric cancer (GC). Drug resistance often limited the clinical benefits of cisplatin regimen. The mechanisms of cisplatin resistance have not been fully revealed. Therefore, further exploration of the relevant molecular mechanisms is urgently needed.\nPATIENTS AND METHODS: DDP resistance associated miRNA of GC microarray dataset GSE86195 was obtained from the National Center for Biotechnology Information (NCBI) GEO database, GEO2R was applied to compare the samples in two different groups under the same experimental conditions. |log2(Fold Change) | (log2(FC)) was selected as the criteria to screen the statistically significant DE-miRNAs. StarBaseV3.0 was used to predict the target genes of the DE-miRNAs. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses of target genes of DE-miRNAs were carried out using DAVID. The STRING database was applied to estimate the correlations between target genes. Analysis of hubgenes by coremine and The Human Protein Atlas (THPA). Initial expression validations of miR-424 and miR-491-5p, SMURF1 and BCL2L1 were carried out using clinical pathological specimens by RT-PCR.\nRESULTS: A total of 13 Differential expression-miRNAs (DE-miRNAs) were identified in DDP chemoresistant cells, including 9 upregulated miRNAs and 4 downregulated miRNAs. SMURF1 and BCL2L1 were screened as the critical genes in DDP-resistant GC, which were regulated by miR-424 and miR-491-5p respectively. The results of validation of hub genes expression in GC tissues indicated that in DFS<1-year group, the expression of miR-424 decreased significantly, notably upregulated expression of SMURF1 was also detected.\nCONCLUSION: Our results implied that miR-424, as a tumor suppressor, could deregulate SMURF1 in DDP-resistant GC cells.", "claims": [{"id": "claim-method", "statement": "Pearson correlation analysis was performed to explore the relationship between miRNA and target genes in clinicopathologic specimen.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31571913", "locator": "sections[11] \"Statistical analysis\" paragraph 2", "quote": "Pearson correlation analysis was performed to explore the relationship between miRNA and target genes in clinicopathologic specimen."}], "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:31571913"], "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:GSE86195"], "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:GSE86195"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:31571913", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.2147/OTT.S208275", "sha256": "sha256:1926e3d9489bc5fde5449ac712cde33a3b24e734c9a6617cfe43d10c6c8334c7", "bytes": 43555, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.2147/OTT.S208275", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC6756437", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE86195", "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=GSE86195", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE86195", "version": null, "note": "\"The miRNA expression profiles of GSE86195 were downloaded from GEO. The platform for GSE86195 was GPL14613 [miRNA-2] Affymetrix Multispecies miRNA-2 Array. GSE86195 included 2 kinds of GC cell lines, SGC7901 and BGC-823. The miRNA differences between Cisplatin (DDP)-sensitive cell lines and DDP-resistant cell lines were detected using the following datasets: GSM2297586 SGC-7901, parent; GSM2297587 SGC-7901/DDP, resistance; GSM2297588 BGC-823, parent; GSM2297589 BGC-823/DDP, resistance.\"", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "\"The miRNA expression profiles of GSE86195 were downloaded from GEO. The platform for GSE86195 was GPL14613 [miRNA-2] Affymetrix Multispecies miRNA-2 Array. GSE86195 included 2 kinds of GC cell lines, SGC7901 and BGC-823. The miRNA differences between Cisplatin (DDP)-sensitive cell lines and DDP-resistant cell lines were detected using the following datasets: GSM2297586 SGC-7901, parent; GSM2297587 SGC-7901/DDP, resistance; GSM2297588 BGC-823, parent; GSM2297589 BGC-823/DDP, resistance.\"", "access_statement_kind": "repository_route_statement", "sample_accessions": ["GSM2297586", "GSM2297587", "GSM2297588", "GSM2297589"], "sample_count": 4, "group_sizes": null, "group_sizes_basis": null, "platform": "14613", "taxon": "synthetic construct; Homo sapiens", "title": "MiRNA Expression Profiling in Cisplatin Resistance Human Gastric Cancer Cell Lines and Their Parental Cell Lines", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:31571913:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": 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The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE86195"], "resolved_accessions": ["GSE86195"], "statements": ["\"The miRNA expression profiles of GSE86195 were downloaded from GEO. The platform for GSE86195 was GPL14613 [miRNA-2] Affymetrix Multispecies miRNA-2 Array. GSE86195 included 2 kinds of GC cell lines, SGC7901 and BGC-823. The miRNA differences between Cisplatin (DDP)-sensitive cell lines and DDP-resistant cell lines were detected using the following datasets: GSM2297586 SGC-7901, parent; GSM2297587 SGC-7901/DDP, resistance; GSM2297588 BGC-823, parent; GSM2297589 BGC-823/DDP, resistance.\""], "basis": "The paper names GSE86195 in National Center for Biotechnology Information (NCBI) GEO database and the accession resolves in the repository. 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