Identification of Mitochondrial and Succinylation Modification-Related Gene Signature in Ischemic Stroke.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40261608", "kind": "science-record", "revision": 4, "content_hash": "sha256:238499de1d8385463aa475bb67585ede3246fb59e3306882b6f34da1bd484418", "created_at": "2026-11-01T20:30:25Z", "updated_at": "2026-11-01T22:56:24Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of Mitochondrial and Succinylation Modification-Related Gene Signature in Ischemic Stroke.", "doi": "10.1007/s12035-025-04953-y", "pmid": "40261608", "authors": ["Lixia Wang", "Jishuai Zhao", "Hui Cai", "Xiaoling Ying", "Yonglei Liu", "Zeming Luo", "Heyan Chen", "Lin Yang"], "journal": "Molecular neurobiology", "year": 2025, "abstract": "Ischemic stroke (IS) is a leading cause of death and disability worldwide, often associated with immune dysregulation, mitochondrial dysfunction, and altered protein succinylation. This study aimed to identify mitochondrial and succinylation-related gene signatures with diagnostic potential in IS. Differentially expressed genes (DEGs) associated with IS were identified using transcriptome expression profiles from merged GSE16561 and GSE58294 GEO datasets. Functional enrichment and WGCNA identified hub genes. Mitochondrial and succinylation-related gene expression was assessed via ssGSEA. Feature genes were selected using machine learning. A prognostic nomogram was constructed. PPI networks were generated using GeneMANIA. Immune infiltration was assessed through ssGSEA. Drug-gene interactions were explored using DGIdb. qRT-PCR validation was performed on blood samples from IS patients and controls. We identified 317 DEGs enriched in immune response and inflammation pathways in 108 IS patients and 47 healthy controls using data from the merged datasets. WGCNA identified 101 hub genes in the yellow module and 65 in the brown module. Seven overlapping genes related to mitochondrial and succinylation processes were identified. Feature gene analysis revealed six key genes (MRPL41, NGRN, SLC25A42, SPTLC2, TUBB, and TXN) with robust diagnostic potential across both the merged and individual datasets (all AUCs > 0.7). Nomogram integration demonstrated predictive reliability. Feature genes exhibited significant correlations with immune cell infiltration. qRT-PCR validation confirmed the differential expression of four feature genes. TUBB and TXN showed interactions with various drugs. Mitochondrial and succinylation-related genes have diagnostic significance in IS, providing insights into disease pathogenesis and clinical applications.", "claims": [{"id": "claim-method", "statement": "DEGs in IS were identified in the merged dataset using the Limma package. p-values obtained from the differential analysis were adjusted for multiple testing using the Benjamini–Hochberg method.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40261608", "locator": "sections[4] \"Identification of DEGs\" paragraph 2", "quote": "DEGs in IS were identified in the merged dataset using the Limma package. p-values obtained from the differential analysis were adjusted for multiple testing using the Benjamini–Hochberg method."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data generated or analyzed during this study are included in this article and supplementary information files. 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The raw data used in this study can be found at the web site below: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE58294"}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study identified 317 differentially expressed genes enriched in immune response and inflammation pathways in 108 ischemic stroke patients and 47 healthy controls using merged GEO datasets.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:40261608", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "We identified 317 DEGs enriched in immune response and inflammation pathways in 108 IS patients and 47 healthy controls using data from the merged datasets."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The study identified 317 differentially expressed genes enriched in immune response and inflammation pathways in 108 ischemic stroke patients and 47 healthy controls using merged GEO datasets.", "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:40261608"], "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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We identified 317", "idation study using the blood samples from 5 patients with IS and 5 healthy controls, recruited from th", "s, we conducted a validation study using the blood samples from 5 patients with IS and 5 healthy controls, r", "rize the immunological discrepancies between patients with IS and controls, we compared the differences"], "order_basis": "paper_text_order:927", "id": "assay:2"}, {"role": "analysis", "definition_id": "differential_expression", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["DEGs in IS were identified in the merged dataset using the Limma package. p-values obtained from the differential analysis were adjusted for multiple testing using the Benjamini–Hochberg method."], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}