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Sepsis is a complex clinical syndrome caused by a dysregulated host immune response to infection. This study aimed to identify a competing endogenous RNA (ceRNA) network that can greatly contribute to understanding the pathophysiological process of sepsis and determining sepsis biomarkers. The GSE100159, GSE65682, GSE167363, and GSE94717 datasets were obtained from the Gene Expression Omnibus (GEO) database. Weighted gene coexpression network analysis was performed to find modules possibly involved in sepsis. A long noncoding RNA-microRNA-messenger RNA (lncRNA-miRNA-mRNA) network was constructed based on the findings. Single-cell analysis was performed. Human umbilical vein endothelial cells were treated with lipopolysaccharide (LPS) to create an model of sepsis for network verification. Reverse transcription-polymerase chain reaction, fluorescence hybridization, and luciferase reporter genes were used to verify the bioinformatic analysis. By integrating data from three GEO datasets, we successfully constructed a ceRNA network containing 18 lncRNAs, 7 miRNAs, and 94 mRNAs based on the ceRNA hypothesis. The lncRNA was found to be highly expressed in LPS-stimulated endothelial cells and may thus play a role in endothelial cell injury. Univariate and multivariate Cox analyses showed that only was an independent predictor of prognosis in sepsis. Overall, our findings indicated that the /hsa-miR-449c-5p/ ceRNA regulatory axis may play a role in the progression of sepsis. The sepsis ceRNA network, especially the /hsa-miR-449c-5p/ regulatory axis, is expected to reveal potential biomarkers and therapeutic targets for sepsis management.
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http://dx.doi.org/10.1089/gtmb.2023.0143 | DOI Listing |
PLoS One
September 2025
Respiratory and Critical Care Medicine, The Second Affiliated Hospital of Guangdong Medical University, Zhanjiang, Guangdong, China.
Background: Disulfidptosis, a novel cellular death manner, has yet to be fully explored within the context of pulmonary arterial hypertension (PAH). This study aims to identify genes implicated in PAH that are involved in disulfidptosis.
Method: Based on data from the GEO database, this study employed co-expression analysis, Weighted Gene Co-Expression Network Analysis (WGCNA), hub gene identification, and Gene Set Enrichment Analysis (GSEA) to uncover genes associated with PAH and disulfidptosis.
Exp Clin Endocrinol Diabetes
August 2025
Department of Endocrinology, Taizhou Central Hospital (Taizhou University Hospital), Taizhou, China.
Painful diabetic neuropathy (PDN), a severe microvascular complication of diabetes, is closely associated with neuroinflammation. This study aimed to investigate the mechanism of circ_0002590 in neuroinflammation associated with PDN.The Schwann cells (HEI193) were treated with high glucose (HG, 150 mM) to simulate the diabetic microenvironment.
View Article and Find Full Text PDFRep Pract Oncol Radiother
August 2025
Department of Cancer Immunology, Chair of Medical Biotechnology, Poznan University of Medical Sciences, Poznan, Poland.
Initially, pseudogenes were considered to be "junk DNA", and their biological role was unclear. However, some of the pseudogenes are engaged in the process of cancerogenesis and perform essential functions in competing for endogenous ribonucleic acid (ceRNA) networks and competing for RNA binding proteins (RBPs). They either positively or negatively regulate gene expression and act as suppressive and oncogenic transcripts.
View Article and Find Full Text PDFExp Cell Res
September 2025
State Key Laboratory of Oral Diseases, National Center for Stomatology, National Clinical Research Center for Oral Diseases, Department of Oral and Maxillofacial Surgery, West China Hospital of Stomatology, Sichuan University, Chengdu City 610041, China. Electronic address:
Adipose-derived mesenchymal stem cells (ADSCs) hold great promise for bone tissue repair and regeneration. Circular RNAs (circRNAs) play a crucial role in regulating the osteogenic differentiation and bone remodeling of ADSCs; however, the underlying molecular mechanisms remain unclear. In this study, we conducted whole transcriptome sequencing (WTS) on ADSCs and constructed a competing endogenous RNA (ceRNA) regulatory network to identify the circTTC3/miR-205/mothers against decapentaplegic homolog 3 (Smad3) signaling axis.
View Article and Find Full Text PDFAnal Biochem
September 2025
College of Rehabilitation Science, Shanghai University of Traditional Chinese Medicine, Shanghai, China.
This study aimed to investigate potential biomarkers related to Endoplasmic reticulum (ER) stress in Amyotrophic lateral sclerosis (ALS) through a comprehensive bioinformatic approach. The gene expression profiles of ALS patients and healthy controls were downloaded from the Gene Expression Omnibus (GEO) database. ER stress-related genes were collected from the MSigDB databases and document literature.
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