Identifying Feature Biomarkers Related to Disulfidptosis and Immune Cell Infiltration in Osteoarthritis through Bioinformatics Analysis DOI Creative Commons

zhengchao zhang,

Jiayu He,

Yiren Zhu

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 7, 2023

Abstract Objective: This study aims to identify feature genes, pathways, and infiltrating immune cells related the metabolic mechanisms of cellular disulfidptosis in osteoarthritis (OA) through bioinformatics analysis. Method: Expression profiles from two Gene Omnibus datasets (GSE207881 GSE98918) were analyzed OA. The included 63 12 OA patients, respectively, alongside control subjects. Differential expression analysis was performed after data preprocessing using ‘limma’ package R. A co-expression network constructed weighted gene (WGCNA), modules highly correlated with identified. functionality explored Set Enrichment Analysis (GSEA) Variation (GSVA). Additionally, protein–protein interactions (PPI) key genes GeneMANIA. Ontology (GO) Kyoto Encyclopedia Genes Genomes (KEGG) enrichment analyses conducted on genes. Furthermore, diagnostic potential selected evaluated, infiltration performed. Result: total 522 differentially expressed statistical significance GSEA GSVA revealed multiple significantly enriched signaling such as ribosome, melanogenesis, leukocyte transendothelial migration. Nine screened by WGCNA, which blue module (n = 353) showed strongest positive correlation (r 0.78, p < 0.05). Intersection further identified 13 hub Through PPI networks GO KEGG analyses, these found be Notch pathway, this pathway validated. area under receiver operating characteristic curve greater than 0.6, suggesting their biomarkers for Immune cell that TUSC3 SOX5 have a significant relationship type 17 T helper (p 0.001). An RNA-binding protein (RBP)–mRNA interaction comprising 68 nodes, 61 RBPs, 7 mRNAs, 271 edges StarBase online database. Conclusion: used techniques reveal complex networks, unique interactions, thereby providing insights into These findings lay groundwork future approaches diagnosis therapeutic intervention.

Language: Английский

MitoMAMMAL: a genome scale model of mammalian mitochondria predicts cardiac and BAT metabolism DOI Creative Commons
Stephen P. Chapman,

Theo Brunet,

Arnaud Mourier

et al.

Bioinformatics Advances, Journal Year: 2024, Volume and Issue: 5(1)

Published: Nov. 5, 2024

Abstract Motivation Mitochondria are essential for cellular metabolism and inherently flexible to allow correct function in a wide range of tissues. Consequently, dysregulated mitochondrial affects different tissues ways leading challenges understanding the pathology diseases. System-level metabolic modelling is useful studying tissue-specific metabolism, yet despite mouse being common model organism research, no specific currently available. Results Building upon similarity between human we present mitoMammal, genome-scale that contains gene-product reaction rules. MitoMammal able metabolism. To demonstrate this, using an adapted E-Flux algorithm, integrated proteomic data from mitochondria isolated cardiomyocytes brown adipocyte tissue, as well transcriptomic vitro differentiated adipocytes modelled context flux balance analysis. In all three simulations, mitoMammal made mostly accurate, some novel predictions relating energy adipocytes. This demonstrates its usefulness research cardiac disease diabetes both contexts. Availability implementation The Jupyter Notebook available at: https://gitlab.com/habermann_lab/mitomammal.

Language: Английский

Citations

0
Cluster Headache and Hypoxia: Breathing New Life into an Old Theory, with Novel Implications DOI Creative Commons
Jonathan M. Borkum

Neurology International, Journal Year: 2024, Volume and Issue: 16(6), P. 1691 - 1716

Published: Dec. 4, 2024

Cluster headache is a severe, poorly understood disorder for which there are as yet virtually no rationally derived treatments. Here, Lee Kudrow’s 1983 theory, that cluster an overly zealous response to hypoxia, updated according current understandings of hypoxia detection, signaling, and sensitization. It shown the distinctive clinical characteristics (circadian timing attacks circannual patterning bouts, autonomic symptoms, agitation), risk factors (cigarette smoking; male gender), triggers (alcohol; nitroglycerin), genetic findings (GWAS studies), anatomical substrate (paraventricular nucleus hypothalamus, solitary tract nucleus/NTS, trigeminal caudalis), neurochemical features (elevated levels galectin-3, nitric oxide, tyramine, tryptamine), responsiveness treatments (verapamil, lithium, melatonin, prednisone, oxygen, histamine desensitization) can all be in terms hypoxic signaling. Novel treatment directions hypothesized, including repurposing pharmacological antagonists signaling molecules (HIF-2; P2X3) headache, breath training, physical exercise, high-dose thiamine, carnosine, flavonoid kaempferol. The limits knowledge described, program basic translational research proposed.

Language: Английский

Citations

0
Identifying Feature Biomarkers Related to Disulfidptosis and Immune Cell Infiltration in Osteoarthritis through Bioinformatics Analysis DOI Creative Commons

zhengchao zhang,

Jiayu He,

Yiren Zhu

et al.

Research Square (Research Square), Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 7, 2023

Abstract Objective: This study aims to identify feature genes, pathways, and infiltrating immune cells related the metabolic mechanisms of cellular disulfidptosis in osteoarthritis (OA) through bioinformatics analysis. Method: Expression profiles from two Gene Omnibus datasets (GSE207881 GSE98918) were analyzed OA. The included 63 12 OA patients, respectively, alongside control subjects. Differential expression analysis was performed after data preprocessing using ‘limma’ package R. A co-expression network constructed weighted gene (WGCNA), modules highly correlated with identified. functionality explored Set Enrichment Analysis (GSEA) Variation (GSVA). Additionally, protein–protein interactions (PPI) key genes GeneMANIA. Ontology (GO) Kyoto Encyclopedia Genes Genomes (KEGG) enrichment analyses conducted on genes. Furthermore, diagnostic potential selected evaluated, infiltration performed. Result: total 522 differentially expressed statistical significance GSEA GSVA revealed multiple significantly enriched signaling such as ribosome, melanogenesis, leukocyte transendothelial migration. Nine screened by WGCNA, which blue module (n = 353) showed strongest positive correlation (r 0.78, p < 0.05). Intersection further identified 13 hub Through PPI networks GO KEGG analyses, these found be Notch pathway, this pathway validated. area under receiver operating characteristic curve greater than 0.6, suggesting their biomarkers for Immune cell that TUSC3 SOX5 have a significant relationship type 17 T helper (p 0.001). An RNA-binding protein (RBP)–mRNA interaction comprising 68 nodes, 61 RBPs, 7 mRNAs, 271 edges StarBase online database. Conclusion: used techniques reveal complex networks, unique interactions, thereby providing insights into These findings lay groundwork future approaches diagnosis therapeutic intervention.

Language: Английский

Citations

0