Gene module regulation in dilated cardiomyopathy and the role of Na/K-ATPase.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35901050", "kind": "science-record", "revision": 5, "content_hash": "sha256:9624bcef4846f7919ec91ba43c99f8e2c455bb2fc3d72442709aaa84270f52c6", "created_at": "2026-11-01T18:14:59Z", "updated_at": "2026-11-01T22:49:40Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Gene module regulation in dilated cardiomyopathy and the role of Na/K-ATPase.", "doi": "10.1371/journal.pone.0272117", "pmid": "35901050", "authors": ["Yingnyu Gao", "Lilian N D Silva", "John D Hurley", "Xiaoming Fan", "Sandrine V Pierre", "Komal Sodhi", "Jiang Liu", "Joseph I Shapiro", "Jiang Tian"], "journal": "PloS one", "year": 2022, "abstract": "Dilated cardiomyopathy (DCM) is a major cause of cardiac death and heart transplantation. It has been known that black people have a higher incidence of heart failure and related diseases compared to white people. To identify the relationship between gene expression and cardiac function in DCM patients, we performed pathway analysis and weighted gene co-expression network analysis (WGCNA) using RNA-sequencing data (GSE141910) from the NCBI Gene Expression Omnibus (GEO) database and identified several gene modules that were significantly associated with the left ventricle ejection fraction (LVEF) and DCM phenotype. Genes included in these modules are enriched in three major categories of signaling pathways: fibrosis-related, small molecule transporting-related, and immune response-related. Through consensus analysis, we found that gene modules associated with LVEF in African Americans are almost identical as in Caucasians, suggesting that the two groups may have more common rather than disparate genetic regulations in the etiology of DCM. In addition to the identified modules, we found that the gene expression level of Na/K-ATPase, an important membrane ion transporter, has a strong correlation with the LVEF. These clinical results are consistent with our previous findings and suggest the clinical significance of Na/K-ATPase regulation in DCM.", "claims": [{"id": "claim-method", "statement": "We performed the gene expression analysis using DESeq2 based on the published RNA-sequencing data obtained from the GEO141910 cohort.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35901050", "locator": "sections[12] \"Gene expression and pathway changes in DCM patients receiving heart transplants compared to non-failing donors\" paragraph 2", "quote": "We performed the gene expression analysis using DESeq2 based on the published RNA-sequencing data obtained from the GEO141910 cohort."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The relevant data for this study are publicly available from the NCBI GEO database (GSE141910; https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE141910). The clinical phenotype data and gene expression count data of this cohort are publicly available online from the Github database (https://github.com/mpmorley/MAGNet).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35901050", "locator": "sections[19] \"Data Availability\" paragraph 2", "quote": "The relevant data for this study are publicly available from the NCBI GEO database (GSE141910; https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE141910). The clinical phenotype data and gene expression count data of this cohort are publicly available online from the Github database (https://github.com/mpmorley/MAGNet)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The comparison of eigengene and group module characteristics showed an overall similarity of 0.94 between African American and Caucasian American groups.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35901050", "locator": "sections[14] \"Comparison between African Americans and Caucasian Americans\" paragraph 2", "quote": "The comparison of eigengene and group module characteristics showed an overall similarity of 0.94 (Fig 5B)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The comparison of eigengene and group module characteristics showed an overall similarity of 0.94 between African American and Caucasian American groups.", "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:35901050"], "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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