Identification of potential candidate genes for hypertensive nephropathy based on gene expression profile.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27756246", "kind": "science-record", "revision": 8, "content_hash": "sha256:64b7662eb6610a2eff27d98b4e8583f1b3a5a38fb7eaed052c571060fa826aae", "created_at": "2026-11-01T15:40:21Z", "updated_at": "2026-11-01T22:42:48Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of potential candidate genes for hypertensive nephropathy based on gene expression profile.", "doi": "10.1186/s12882-016-0366-8", "pmid": "27756246", "authors": ["Zhi Chen", "Hao Wu", "Guohua Wang", "Ye Feng"], "journal": "BMC nephrology", "year": 2016, "abstract": "BACKGROUND: This study was aimed to explore the molecular mechanisms of hypertensive nephropathy (HTN).\nMETHODS: Gene expression profile of GSE37460, which based on 27 healthy living donor samples (HTN group) and 15 hypertensive nephropathy samples (control group), were downloaded from Gene Expression Omnibus (GEO) database. The differentially expressed genes (DEGs) between two groups were identified. STRING database was used to reveal protein-protein interaction (PPI) network of DEGs, followed by the functional enrichment analysis of the PPI network. Additionally, miRNA-DEG regulatory network was constructed to reveal the validated miRNAs targeting the DEGs.\nRESULTS: In total, 51 up-regulated genes and 140 down-regulated genes were obtained. In the PPI network, cytochrome P450 3A4 (CYP3A4) and angiotensin II receptor type 1 (AGTR1) had a higher degree, and CYP3A4 interacted with CYP4A11. The DEGs in the network were significantly enriched in drug metabolism, focal adhesion and arachidonic acid metabolism. Furthermore, in the miRNA-DEG regulatory network, hsa-miR-335-5p and hsa-miR-26b-5p were the two most outstanding miRNAs. AGTR1, CYP3A4 and CYP4A11 were predicted to be regulated by hsa-miR-26b-5p.\nCONCLUSION: The DEGs, such as AGTR1, CYP3A4 and CYP4A11 may play critical roles in the development of HTN likely via the regulation by hsa-miR-26b-5p and taking part in some pathways.", "claims": [{"id": "claim-method", "statement": "The DEGs between control group and HTN group were analyzed by using the Linear Models for Microarray Data (LIMMA, http://www.bioconductor.org/packages/release/bioc/html/limma.html) package in Bioconductor software [14].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27756246", "locator": "sections[4] \"Identification of DEGs\" paragraph 2", "quote": "The DEGs between control group and HTN group were analyzed by using the Linear Models for Microarray Data (LIMMA, http://www.bioconductor.org/packages/release/bioc/html/limma.html) package in Bioconductor software [14]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The mRNA expression profile of GSE37460 was downloaded from a public functional genomics data repository GEO (Gene Expression Omnibus, http://www.ncbi.nlm.nih.gov/geo/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27756246", "locator": "sections[16] \"Availability of data and materials\" paragraph 2", "quote": "The mRNA expression profile of GSE37460 was downloaded from a public functional genomics data repository GEO (Gene Expression Omnibus, 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:27756246"], "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:GSE37460"], "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:GSE37460"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:27756246", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s12882-016-0366-8", "sha256": 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"state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[10]/table-wrap[1]#Tab1", "version": null, "note": "The up- and down-regulated differentially expressed genes in the protein-protein interaction network (degree > 50 are listed)", "structure": {"pmcid": "PMC5069870", "section_index": 10, "section_title": "PPI network investigation and functional enrichment analysis", "row_count": 11, "column_count": 3}, "table": {"label": "Table 1", "caption": "The up- and down-regulated differentially expressed genes in the protein-protein interaction network (degree > 50 are listed)", "rows": [["Gene symbol", "State", "Degree value"], ["CYP3A4", "Down-regulated", "89"], ["ALB", "Down-regulated", "71"], ["AGTR1", "Up-regulated", "64"], ["SDC1", "Down-regulated", "59"], ["PLG", "Down-regulated", "57"], ["S1PR1", "Up-regulated", "57"], ["GSTA1", "Down-regulated", "56"], ["CYP4A11", "Down-regulated", "55"], ["ISG15", "Up-regulated", "52"], ["KDR", 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