Ferroptosis Related Genes in Ischemic and Idiopathic Cardiomyopathy: Screening for Potential Pharmacological Targets.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35309948", "kind": "science-record", "revision": 4, "content_hash": "sha256:007fb053ed536b36b7dc25973c2b96d762e5374b75bc4c448a6355c87f341d07", "created_at": "2026-11-01T18:14:06Z", "updated_at": "2026-11-01T22:06:09Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Ferroptosis Related Genes in Ischemic and Idiopathic Cardiomyopathy: Screening for Potential Pharmacological Targets.", "doi": "10.3389/fcell.2022.817819", "pmid": "35309948", "authors": ["Yufeng Jiang", "Ling Chen", "Zhujun Chao", "Tan Chen", "Yafeng Zhou"], "journal": "Frontiers in cell and developmental biology", "year": 2022, "abstract": "Background: Ferroptosis is a new form of cell death recently discovered that is distinct from apoptosis, necrosis and autophagy. This article is expected to provide a new direction for the treatment of cardiomyopathy in the future by screening potential drug targets associated with ferroptosis. Methods: Differential expression analysis of GSE5406 from the Gene Expression Omnibus (GEO) database was performed using the GEO2R tool. Functional annotation of ferroptosis related genes was also performed. Then we constructed protein-protein interaction networks and identified hub genes using Cytoscape. The candidates for pharmacological compounds targeting the hub genes were screened by cMap. Results: Totally 15 ferroptosis related genes (4 upregulated and 11 downregulated) for ischemic cardiomyopathy and 17 ferroptosis related genes (13 upregulated and 4 downregulated) for idiopathic cardiomyopathy were found. The biological processes involved in these genes mainly include negative regulation of apoptotic process, flavonoid metabolic process, response to drug for ischemic cardiomyopathy and cellular response to fibroblast growth factor stimulus, negative regulation of apoptotic process, and response to drug for idiopathic cardiomyopathy. KEGG results showed that these genes were mainly involved in MAPK signaling pathway for ischemic cardiomyopathy and PI3K-Akt signaling pathway for idiopathic cardiomyopathy. We generated a co-expression network for hub genes and obtained top 10 medications suggested respectively for ischemic/idiopathic cardiomyopathy. Conclusion: Our study reveals the potential role of ferroptosis related genes in ischemic and idiopathic cardiomyopathy through bioinformatics analysis. The hub genes and potential drugs may become novel biomarkers for prognosis and precision treatment in the future.", "claims": [{"id": "claim-method", "statement": "DEGs were analyzed using GEO2R (www.ncbi.nlm.nih.gov/geo/geo2r).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35309948", "locator": "sections[4] \"Sample Detection and Differential Expression genes Analysis\" paragraph 2", "quote": "DEGs were analyzed using GEO2R (www.ncbi.nlm.nih.gov/geo/geo2r)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study. This data can be found here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5406.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35309948", "locator": "sections[17] \"Data Availability Statement\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study. This data can be found here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE5406."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Differential expression analysis identified 370 genes in ischemic cardiomyopathy and 433 genes in idiopathic cardiomyopathy relative to normal myocardial tissue.", "kind": "quantitative", "target": {"value": 0.05, "unit": "p-value", "tolerance": null, "source": "Using the GEO2R online analysis tool for differential expression analysis, and using p < 0.05 and |log2 FC| > 0.5 as filtering conditions, we found that 370 genes were differentially expressed in the myocardial tissue of patients with ischemic cardiomyopathy compared with the normal myocardial tissue, of which 139 were up-regulated genes and 231 were down regulated genes, and clustering analysis of these differential genes was performed, as shown in the volcano plot (Figure 1A). A total of 433 genes were differentially expressed in the myocardium of patients with idiopathic cardiomyopathy, 215 of which were upregulated and 218 downregulated genes, and clustering analysis of these differential genes was performed, as shown in a volcano plot (Figure 2A)."}, "evidence": [{"asset": "source:pmid:35309948", "locator": "sections[10] \"Identification of Differentially Expressed Genes\" paragraph 2", "quote": "Using the GEO2R online analysis tool for differential expression analysis, and using p < 0.05 and |log2 FC| > 0.5 as filtering conditions, we found that 370 genes were differentially expressed in the myocardial tissue of patients with ischemic cardiomyopathy compared with the normal myocardial tissue, of which 139 were up-regulated genes and 231 were down regulated genes, and clustering analysis of these differential genes was performed, as shown in the volcano plot (Figure 1A). A total of 433 genes were differentially expressed in the myocardium of patients with idiopathic cardiomyopathy, 215 of which were upregulated and 218 downregulated genes, and clustering analysis of these differential genes was performed, as shown in a volcano plot (Figure 2A)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Differential expression analysis identified 370 genes in ischemic cardiomyopathy and 433 genes in idiopathic cardiomyopathy relative to normal myocardial tissue.", "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:35309948"], "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:GSE5406"], "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:GSE5406"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:35309948", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fcell.2022.817819", "sha256": "sha256:f366fc57b3eca57b83b798bf44029ab6cc96505a21283a206afb64d14d407acc", "bytes": 25567, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fcell.2022.817819", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC8927736", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE5406", "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=GSE5406", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE5406", "version": null, "note": "Publicly available datasets were analyzed in this study. 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