Correlation between elevated HCLS1 levels and heart failure: A diagnostic biomarker.

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HF datasets GSE192886 and GSE196656 profiles were generated from GPL24676 and GPL20301 platforms in gene expression omnibus (GEO) database and differentially expressed genes (DEGs) were obtained, which was followed by weighted gene co-expression network analysis, protein-protein interaction (PPI) networks, functional enrichment analysis and comparative toxicogenomics database (CTD) analysis. Heatmaps of gene expression levels were plotted. TargetScan was used to screen miRNAs regulating central DEGs. A total of 500 DEGs were found and mainly concentrated in leukocyte activation, protein phosphorylation, and protein complexes involved in cell adhesion, PI3K Akt signaling pathway, Notch signaling pathway, and right ventricular cardiomyopathy. PPI network identified 15 core genes (HCLS1, FERMT3, CD53, CD34, ITGAL, EP300, LYN, VAV1, ITGAX, LEP, ITGB1, IGF1, MMP9, SMAD2, RAC2). Heatmap shows that 4 genes (EP300, CD53, HCLS1, LYN) are highly expressed in HF tissue samples. We found that 4 genes (EP300, CD53, HCLS1, LYN) were associated with heart diseases, cardiovascular diseases, edema, rheumatoid arthritis, necrosis, and inflammation. HCLS1 is highly expressed in HF and maybe its target.", "claims": [{"id": "claim-method", "statement": "We adjusted raw P value using Benjamini Hochberg method. Folded change (FC) was calculated using false discovery rate (FDR). Threshold for DEG is P < .05, FC > 1.5, mapped volcanoes and obtained DEGs.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38847679", "locator": "sections[5] \"2.3. DEGs\" paragraph 2", "quote": "We adjusted raw P value using Benjamini Hochberg method. Folded change (FC) was calculated using false discovery rate (FDR). Threshold for DEG is P < .05, FC > 1.5, mapped volcanoes and obtained DEGs."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38847679", "locator": "sections[28] \"fn-group\" paragraph 1", "quote": "The datasets generated during and/or analyzed during the current study are available from the corresponding author on reasonable request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The analysis identified 500 differentially expressed genes and found that HCLS1 was highly expressed in heart failure.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:38847679", "locator": "sections[14] \"3.1. Analysis of DEGs\" paragraph 2", "quote": "Following set threshold, a total of 500 DEGs were found in matrix of GSE192886 and GSE196656 (Fig. 1)."}, {"asset": "source:pmid:38847679", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "HCLS1 is highly expressed in HF and maybe its target."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The analysis identified 500 differentially expressed genes and found that HCLS1 was highly expressed in heart failure.", "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:38847679"], "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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