Identification of genes and key pathways underlying the pathophysiological association between nonalcoholic fatty liver disease and atrial fibrillation.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35790963", "kind": "science-record", "revision": 5, "content_hash": "sha256:f34f33fb135c632ce762c457e816b7bfdd655a600688eab065c48ee71efeb881", "created_at": "2026-11-01T18:14:50Z", "updated_at": "2026-11-01T22:49:28Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of genes and key pathways underlying the pathophysiological association between nonalcoholic fatty liver disease and atrial fibrillation.", "doi": "10.1186/s12920-022-01300-1", "pmid": "35790963", "authors": ["Yanan Chu", "Fangcong Yu", "Yakui Wu", "Jinxiu Yang", "Jiaran Shi", "Tianxin Ye", "Deheng Han", "Xingxiang Wang"], "journal": "BMC medical genomics", "year": 2022, "abstract": "BACKGROUND: Atrial fibrillation (AF) is one of the most prevalent sustained cardiac arrhythmias. The latest studies have revealed a tight correlation between nonalcoholic fatty liver disease (NAFLD) and AF. However, the exact molecular mechanisms underlying the association between NAFLD and AF remain unclear. The current research aimed to expound the genes and signaling pathways that are related to the mechanisms underlying the association between these two diseases.\nMATERIALS AND METHODS: NAFLD- and AF- related differentially expressed genes (DEGs) were identified via bioinformatic analysis of the Gene Expression Omnibus (GEO) datasets GSE63067 and GSE79768, respectively. Further enrichment analysis of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG), the construction of a protein-protein interaction (PPI) network, the identification of significant hub genes, and receiver operator characteristic curve analysis were conducted. The gene-disease interactions were analyzed using the Comparative Toxicogenomics Database. In addition, the hub genes were validated by quantitative Real-Time PCR (qRT-PCR) in NAFLD cell model.\nRESULTS: A total of 45 co-expressed differentially expressed genes (co-DEGs) were identified between the NAFLD/AF and healthy control individuals. GO and KEGG pathway analyses revealed that the co-DEGs were mostly enriched in neutrophil activation involved in the immune response and cytokine-cytokine receptor interactions. Moreover, eight hub genes were selected owing to their high degree of connectivity and upregulation in both the NAFLD and AF datasets. These genes included CCR2, PTPRC, CXCR2, MNDA, S100A9, NCF2, S100A12, and S100A8.\nCONCLUSIONS: In summary, we conducted the gene differential expression analysis, functional enrichment analysis, and PPI analysis of DEGs in AF and NAFLD, which provides novel insights into the identification of potential biomarkers and valuable therapeutic leads for AF and NAFLD.", "claims": [{"id": "claim-method", "statement": "The identification of DEGs between patients suffering from NAFLD or AF and healthy controls was performed using the R-platform (http://Rproject.org) and LIMMA package [23].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35790963", "locator": "sections[4] \"Identification of DEGs in NAFLD and AF\" paragraph 2", "quote": "The identification of DEGs between patients suffering from NAFLD or AF and healthy controls was performed using the R-platform (http://Rproject.org) and LIMMA package [23]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets used and analyzed during the current study are available in the GEO database through GEO accession numbers GSE63067 and GSE79768.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35790963", "locator": "sections[31] \"Availability of data and materials\" paragraph 2", "quote": "The datasets used and analyzed during the current study are available in the GEO database through GEO accession numbers GSE63067 and GSE79768."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Bioinformatic analysis of the GEO datasets GSE63067 and GSE79768 using LIMMA identified 45 co-expressed differentially expressed genes between NAFLD and AF.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35790963", "locator": "sections[4] \"Identification of DEGs in NAFLD and AF\" paragraph 2", "quote": "The identification of DEGs between patients suffering from NAFLD or AF and healthy controls was performed using the R-platform (http://Rproject.org) and LIMMA package [23]."}, {"asset": "source:pmid:35790963", "locator": "sections[14] \"Identification of DEGs in GSE63067 and GSE79768\" paragraph 2", "quote": "The Venn diagram demonstrates that 45 DEGs were co-expressed in the two gene expression groups (Fig. 2E)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Bioinformatic analysis of the GEO datasets GSE63067 and GSE79768 using LIMMA identified 45 co-expressed differentially expressed genes between NAFLD and AF.", "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:35790963"], "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:GSE63067"], "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:GSE63067"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:35790963", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s12920-022-01300-1", "sha256": 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