Identification of crucial miRNAs and the targets in renal cortex of hypertensive patients by expression profiles.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27802793", "kind": "science-record", "revision": 9, "content_hash": "sha256:31206f3bd8f8ca9b5c7f7520f5e3569a35f8ed7c9bbeba8948b02eafe8236345", "created_at": "2026-11-01T15:40:21Z", "updated_at": "2026-11-01T22:42:49Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of crucial miRNAs and the targets in renal cortex of hypertensive patients by expression profiles.", "doi": "10.1080/0886022X.2016.1244083", "pmid": "27802793", "authors": ["Guohua Wang", "Lan Wu", "Zhi Chen", "Jinghui Sun"], "journal": "Renal failure", "year": 2017, "abstract": "BACKGROUNDS: Defect in kidney is one major reason of hypertension. The study aimed ao uncovering the regulatory mechanisms of miRNAs and the targets in hypertensive kidney.\nMETHODS: Gene expression profile of GSE28345 and miRNA expression profile of GSE28283 were downloaded from GEO database. After data preprocessing, differently expressed genes (DEGs) and miRNAs (DE-miRs) were identified using limma package. Then targets of miRNAs were predicted according to information in relevant databases. Function and pathway enrichment analyses were performed for DEGs using DAVID software. Furthermore, protein-protein interaction (PPI) networks were constructed for up- and down-regulated genes, respectively, using the Cytoscape. Additionally, for down-regulated DEGs, the integrated regulatory network was established combining PPI network with the miRNA-mRNA interactions.\nRESULTS: As a result, 285 DEGs were identified, including 177 up-regulated and 108 down-regulated genes. Combined with the predicted targets of miRNAs, 22 up-regulated DE-miRs were identified. In the integrated network for down-regulated DEGs, three crucial nodes were identified as ASPN, COL12A1, and SCN2A. ASPN was predicted as target of miR-21 and miR-374b, and COL12A1 was the target of miR-30e, miR-21, and miR-195, while SCN2A was the target of miR-30e, miR-374b, and miR-195. Notably, COL12A1 and ASPN were linked with each other in the network.\nCONCLUSION: Three crucial genes were identified in hypertensive kidney, such as COL12A1, ASPN, and SCN2A. ASPN might co-function with COL12A1, and they both might be the targets of miR-21. SCN2A might be a novel target of miR-30e and miR-374b. However, more experiments are needed to validate these results.", "claims": [{"id": "claim-method", "statement": "The gene expression profile GSE28345 and the miRNA expression profile GSE2828314 were all obtained from the Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo, Bethesda, MD) database. Raw data of the gene expression profile was normalized by Robust Multichip Average (RAM) algorithm,15 and the samples were divided into hypertensive group and control group. Then, Linear Models for Microarray Analysis (limma, http://www.bioconductor.org/packages/release/bioc/html/limma.html) of Bioconductor R16 was recruited to identify the differently expressed genes (DEGs).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27802793", "locator": "sections[3] \"Microarray data\" paragraph 2", "quote": "The gene expression profile GSE28345 and the miRNA expression profile GSE2828314 were all obtained from the Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo, Bethesda, MD) database."}, {"asset": "source:pmid:27802793", "locator": "sections[4] \"Preprocessing of the two profiles and selection of DEG or DE-miRs\" paragraph 2", "quote": "Raw data of the gene expression profile was normalized by Robust Multichip Average (RAM) algorithm,15 and the samples were divided into hypertensive group and control group."}, {"asset": "source:pmid:27802793", "locator": "sections[4] \"Preprocessing of the two profiles and selection of DEG or DE-miRs\" paragraph 2", "quote": "Then, Linear Models for Microarray Analysis (limma, http://www.bioconductor.org/packages/release/bioc/html/limma.html) of Bioconductor R16 was recruited to identify the differently expressed genes (DEGs)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Gene expression profile of GSE28345 and miRNA expression profile of GSE28283 were downloaded from GEO database.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27802793", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "Gene expression profile of GSE28345 and miRNA expression profile of GSE28283 were downloaded from GEO database."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study downloaded the GSE28345 gene-expression profile and GSE28283 miRNA-expression profile from GEO and used the limma package after preprocessing to identify 285 differentially expressed genes, including 177 up-regulated and 108 down-regulated genes, along with 22 up-regulated differentially expressed miRNAs.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:27802793", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "Methods: Gene expression profile of GSE28345 and miRNA expression profile of GSE28283 were downloaded from GEO database. After data preprocessing, differently expressed genes (DEGs) and miRNAs (DE-miRs) were identified using limma package."}, {"asset": "source:pmid:27802793", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "As a result, 285 DEGs were identified, including 177 up-regulated and 108 down-regulated genes."}, {"asset": "source:pmid:27802793", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Combined with the predicted targets of miRNAs, 22 up-regulated DE-miRs were identified."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The study downloaded the GSE28345 gene-expression profile and GSE28283 miRNA-expression profile from GEO and used the limma package after preprocessing to identify 285 differentially expressed genes, including 177 up-regulated and 108 down-regulated genes, along with 22 up-regulated differentially expressed miRNAs.", "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:27802793"], "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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Raw data of the gene expression profile was normalized by Robust Multichip Average (RAM) algorithm,15 and the samples were divided into hypertensive group and control group. 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Raw data of the gene expression profile was normalized by Robust Multichip Average (RAM) algorithm,15 and the samples were divided into hypertensive group and control group. Then, Linear Models for Microarray Analysis (limma, http://www.bioconductor.org/packages/release/bioc/html/limma.html) of Bioconductor R16 was recruited to identify the differently expressed genes (DEGs)."], "order_basis": "analysis_only", "id": "assay:1"}]}