Revealing lactylation-mediated mechanisms and hub genes in heart failure pathogenesis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40873619", "kind": "science-record", "revision": 4, "content_hash": "sha256:16cbde7d824f920a18ecbe3110df0f92724e2352e053865f1b2dc1e75bb644b5", "created_at": "2026-11-01T20:30:59Z", "updated_at": "2026-11-01T22:57:06Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Revealing lactylation-mediated mechanisms and hub genes in heart failure pathogenesis.", "doi": "10.3389/fcvm.2025.1622958", "pmid": "40873619", "authors": ["Hongguang Xie", "Yiqiang Wang", "Xing Zhu", "Lili Zhang", "Heli Niu", "Hongguang Jin"], "journal": "Frontiers in cardiovascular medicine", "year": 2025, "abstract": "Purpose: This study explores lactylation's pivotal role in the disease progression of heart failure (HF).\nMethods: The GSE57345 dataset, encompassing 177 HF samples and 136 normal controls (CTL), was sourced from Gene Expression Omnibus (GEO). Differentially expressed genes between HF and CTL groups underwent enrichment analysis using Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. Weighted correlation network analysis (WGCNA) and unsupervised clustering were employed to identify HF-associated gene modules and subtypes, and these were intersected with lactate-related genes (LRGs), curated from the Molecular Signatures Database and GeneCards, to pinpoint hub genes implicated in lactylation-mediated HF (Lcy-HF). The least absolute shrinkage and selection operator (LASSO), XGBoost, Boruta algorithm, and protein-protein interaction (PPI) networks were utilized to identify these hub genes. The diagnostic potential and biological significance of these hub genes in HF progression were assessed using receiver operating characteristic (ROC) curves, gene set enrichment analysis (GSEA), and immune infiltration analysis.\nResults: In the comparison between HF and CTL samples, 91 upregulated and 88 downregulated genes were identified, primarily enriched in inflammatory responses and pathways. By intersecting 387 LRGs curated from databases, we pinpointed six hub genes implicated in Lcy-HF: GATA2, HBB, JAK2, STAT2, STAT4, and WARS2. Immune infiltration analysis further revealed that these Lcy-HF hub genes are associated with macrophage polarization.\nConclusions: Lactylation plays a crucial role in the pathogenesis of HF, with genes such as GATA2, HBB, JAK2, STAT2, STAT4, and WARS2 emerging as potential lactylation biomarkers for HF identification. The lactylation-macrophage polarization-inflammation axis stands out as a pivotal mechanism driving HF progression.", "claims": [{"id": "claim-method", "statement": "Weighted correlation network analysis (WGCNA) and unsupervised clustering were employed to identify HF-associated gene modules and subtypes, and these were intersected with lactate-related genes (LRGs), curated from the Molecular Signatures Database and GeneCards, to pinpoint hub genes implicated in lactylation-mediated HF (Lcy-HF).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40873619", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "Weighted correlation network analysis (WGCNA) and unsupervised clustering were employed to identify HF-associated gene modules and subtypes, and these were intersected with lactate-related genes (LRGs), curated from the Molecular Signatures Database and GeneCards, to pinpoint hub genes implicated in lactylation-mediated HF (Lcy-HF)."}], "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=GSE57345.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:40873619", "locator": "sections[21] \"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=GSE57345."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Six Lcy-HF hub genes were identified: GATA2, HBB, JAK2, STAT2, STAT4, and WARS2.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:40873619", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "By intersecting 387 LRGs curated from databases, we pinpointed six hub genes implicated in Lcy-HF: GATA2, HBB, JAK2, STAT2, STAT4, and WARS2."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Six Lcy-HF hub genes were identified: GATA2, HBB, JAK2, STAT2, STAT4, and WARS2.", "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:40873619"], "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:GSE57345"], "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:GSE57345"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:40873619", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fcvm.2025.1622958", "sha256": "sha256:7ac17b8273e8a69fc2dac7c1a24091444101bc50314de824d6562b114db24dc4", "bytes": 31831, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fcvm.2025.1622958", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC12378386", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE57345", "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=GSE57345", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE57345", "version": null, "note": "Publicly available datasets were analyzed in this study. 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