MiR-148a-3p attenuates apoptosis and inflammation by targeting CNTN4 in atherosclerosis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36544657", "kind": "science-record", "revision": 4, "content_hash": "sha256:94d7d4c42cd97252aa64b666e79e634ae4c14a8a2e44edc9b68bd884dd59525e", "created_at": "2026-11-01T19:01:04Z", "updated_at": "2026-11-01T22:50:53Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "MiR-148a-3p attenuates apoptosis and inflammation by targeting CNTN4 in atherosclerosis.", "doi": "10.21037/atm-22-3768", "pmid": "36544657", "authors": ["Kai Wang", "Xi-Tong Huang", "Yan-Ping Miao", "Xiao-Long Bai", "Feng Jin"], "journal": "Annals of translational medicine", "year": 2022, "abstract": "Background: Atherosclerosis (AS) seriously affects human health. The role of microRNAs (miRNAs) in the pathogenesis and progression of AS has become a focus of research. Our goal was to identify the biological effect of differentially expressed miRNAs (DE-miRNAs) in AS.\nMethods: To analyze differentially expressed genes (DEGs), including differentially expressed mRNAs (DE-mRNAs) and DE-miRNAs, in AS by using the Gene Expression Omnibus (GEO) database and limma package. DEGs protein-protein interaction (PPI) network and functional enrichment analysis were constructed by using the search tool for the retrieval of interacting genes/proteins (STRING) database, Cytoscape software and Cytoscape plugin \"ClueGO2.5.6\". We established a coexpression network of dysregulated miRNAs and mRNAs to predict the function of miRNAs by using miRWalk database and Pearson correlation coefficient (PCC) analysis. Cellular experiments were used to validate the results of bioinformatics.\nResults: First, 69 common DEGs were obtained from datasets GSE43292 and GSE97210 using the limma package in R. Next, a DEG PPI network was constructed. Functional enrichment analysis of DEGs showed that 11 functional pathways were significantly enriched, such as positive regulation of monocyte chemotaxis. Seven common DE-miRNAs were obtained from the GSE99685 dataset and DE-mRNAs predicted miRNAs through the miRWalk database. The miRNA-mRNA network constructed using Cytoscape software suggested that miR-148a-3p targeted contactin 4 (CNTN4). Quantitative real-time polymerase chain reaction (qRT-PCR) assay results indicated that miR-148a-3p was downregulated and CNTN4 was upregulated in the THP-1 + phorbol 12-myristate 13-acetate (PMA) + oxidized low-density lipoprotein (oxLDL) group compared with the THP-1 + PMA group. qRT-PCR, flow cytometry, and enzyme-linked immunosorbent assay (ELISA) found that upregulated miR-148a-3p significantly inhibited the expression of CNTN4, cell apoptosis, and interleukin-6 (IL-6) and tumor necrosis factor-alpha (TNF-α) concentrations in oxLDL-induced THP-1 macrophages. In addition, a dual-luciferase reporter assay demonstrated that CNTN4 was a target gene of miR-148a-3p.\nConclusions: Overall, these findings suggested that miR-148a-3p inhibited oxLDL-induced cell apoptosis and inflammation via targeting CNTN4 in THP-1 macrophages.", "claims": [{"id": "claim-method", "statement": "The limma package in R was used to find DEGs in AS compared with normal samples (12).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36544657", "locator": "sections[4] \"DEGs between AS and normal tissue\" paragraph 2", "quote": "The limma package in R was used to find DEGs in AS compared with normal samples (12)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data Sharing Statement: Available at https://atm.amegroups.com/article/view/10.21037/atm-22-3768/dss", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36544657", "locator": "sections[24] \"fn-group\" paragraph 1", "quote": "Data Sharing Statement: Available at https://atm.amegroups.com/article/view/10.21037/atm-22-3768/dss"}], "state": "complete"}, {"id": "claim-target-result", "statement": "First, 69 common DEGs were obtained from datasets GSE43292 and GSE97210 using the limma package in R.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36544657", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "First, 69 common DEGs were obtained from datasets GSE43292 and GSE97210 using the limma package in R."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "First, 69 common DEGs were obtained from datasets GSE43292 and GSE97210 using the limma package in R.", "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:36544657"], "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:GSE43292"], "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:GSE43292"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:36544657", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.21037/atm-22-3768", "sha256": 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