Analysis of the miRNA-mRNA Regulatory Network Reveals the Biomarker Genes in the Progression of Myocardial Ischemic Reperfusion.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35463659", "kind": "science-record", "revision": 4, "content_hash": "sha256:3214cb0975981e3471695e88ca684a76f4eff80bcd7a8acaf1e4339e336ffd78", "created_at": "2026-11-01T18:14:19Z", "updated_at": "2026-11-01T22:06:22Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Analysis of the miRNA-mRNA Regulatory Network Reveals the Biomarker Genes in the Progression of Myocardial Ischemic Reperfusion.", "doi": "10.1155/2022/2045619", "pmid": "35463659", "authors": ["Nini Li", "Qing Chen"], "journal": "Journal of healthcare engineering", "year": 2022, "abstract": "Objective: Cardiac injury induced by myocardial ischemic reperfusion (MI/R) is still an intractable question in clinical, and it has been confirmed as a major reason for the development of cardiovascular disease. Bioinformatics analysis has been widely used for revealing the pathogenic mechanism of diseases. This study attempted to identify the biomarkers and reveal the regulation mechanism of MI/R injury via bioinformatics analysis.\nMethods: The GSE67308 and GSE74951 were obtained from the GEO database. The datasets were analyzed with GEO2R tool, and the genes with |logFC| > 2 and p value <0.05 were identified as the differentially expressed genes (DEGs). The enrichment analysis of the DEGs was performed with the DAVID database and R language. Moreover, the protein-protein interaction (PPI) network of DEGs was performed with the STRING database and then visualized with Cytoscape.\nResult: The results showed that 195 downregulated mRNAs and 240 downregulated mRNAs were found in GSE67308, and 11 miRNAs were found in GSE7495. 152 common genes were screened in DEGs of GSE67308 and the targets of 11 miRNAs in GSE7495. Moreover, the enrichment analysis showed that the common genes were related with inflammatory response, immune response, PI3K/AKT, NF-κB, and TNF pathways. Besides, mmu-miR-92a-3p and mmu-miR-27b-3p were identified as the hubs miRNAs, and TNF, IL1B, and IFG1 were screened as the key nodes.\nConclusion: This study established a miRNA-mRNA network for cardiac injury induced by MI/R and provided the evidence concerning the molecular mechanism of MI/R injury, which provided some reference for MI/R treatment.", "claims": [{"id": "claim-method", "statement": "GSE67308 and GSE74951 were analyzed with GEO2R online tool of the GEO database, and the matrix file of the genes was obtained for subsequent analysis. Moreover, the genes with |logFC| > 2 and p < 0.05 were selected as the differentially expressed genes (DEGs).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35463659", "locator": "sections[4] \"2.2. Identification of Differentially Expressed Genes\" paragraph 2", "quote": "GSE67308 and GSE74951 were analyzed with GEO2R online tool of the GEO database, and the matrix file of the genes was obtained for subsequent analysis. Moreover, the genes with |logFC| > 2 and p < 0.05 were selected as the differentially expressed genes (DEGs)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The data used to support the findings of this study are available from the corresponding author upon request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35463659", "locator": "sections[16] \"Data Availability\" paragraph 2", "quote": "The data used to support the findings of this study are available from the corresponding author upon request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The results showed that 195 downregulated mRNAs and 240 downregulated mRNAs were found in GSE67308, and 11 miRNAs including mmu-miR-363-3p, mmu-miR-375, mmu-miR-92a-3p, mmu-miR-27b-3p, mmu-miR-27a-3p, mmu-mir-374a-5p, mmu-mir-15b-5p, mmu-miR-34a-5p, mmu-miR-370-3p, mmu-miR-30a-5p, and mmu-miR-146a-5p were found in GSE74951 (Figures 1(a)–1(c)). Moreover, 152 common genes were found in GSE67308 and the potential targets of GSE74951 (Figure 1(d)).", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35463659", "locator": "sections[9] \"3.1. Identification of DEGs\" paragraph 2", "quote": "The results showed that 195 downregulated mRNAs and 240 downregulated mRNAs were found in GSE67308, and 11 miRNAs including mmu-miR-363-3p, mmu-miR-375, mmu-miR-92a-3p, mmu-miR-27b-3p, mmu-miR-27a-3p, mmu-mir-374a-5p, mmu-mir-15b-5p, mmu-miR-34a-5p, mmu-miR-370-3p, mmu-miR-30a-5p, and mmu-miR-146a-5p were found in GSE74951 (Figures 1(a)–1(c)). Moreover, 152 common genes were found in GSE67308 and the potential targets of GSE74951 (Figure 1(d))."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The results showed that 195 downregulated mRNAs and 240 downregulated mRNAs were found in GSE67308, and 11 miRNAs including mmu-miR-363-3p, mmu-miR-375, mmu-miR-92a-3p, mmu-miR-27b-3p, mmu-miR-27a-3p, mmu-mir-374a-5p, mmu-mir-15b-5p, mmu-miR-34a-5p, mmu-miR-370-3p, mmu-miR-30a-5p, and mmu-miR-146a-5p were found in GSE74951 (Figures 1(a)–1(c)). Moreover, 152 common genes were found in GSE67308 and the potential targets of GSE74951 (Figure 1(d)).", "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:35463659"], "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:GSE67308"], "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:GSE67308"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:35463659", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1155/2022/2045619", "sha256": "sha256:4147d7c225b4d0585b9c96aa662992edbd9a0fcf772e78c341e3b690b53c4526", "bytes": 25097, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1155/2022/2045619", "version": null, "note": "Full article fetched from PMC; 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