Computer Methods in Biomechanics & Biomedical Engineering, Год журнала: 2024, Номер unknown, С. 1 - 12
Опубликована: Окт. 2, 2024
Psoriasis, a chronic inflammatory dermatosis, profoundly affects patients' well-being. Although exosomes are key in disease etiology, diagnostic potentials of associated genes unclear. Our research targeted bioinformatics-based characterization exosome-related and the development model for psoriasis.
Язык: Английский
Immunity Inflammation and Disease, Год журнала: 2025, Номер 13(1)
Опубликована: Янв. 1, 2025
ABSTRACT Background Long COVID, a heterogeneous condition characterized by range of physical and neuropsychiatric presentations, can be presented with proportion COVID‐19‐infected individuals. Methods Transcriptomic data sets those within gene expression profiles COVID‐19, long healthy controls were retrieved from the GEO database. Differentially expressed genes (DEGs) falling under COVID‐19 COVID identified R packages, contemporaneously conducted module detection was performed Modular Pharmacology Platform ( http://112.86.129.72:48081/ ). The integration both DEGs differentially module‐genes (DEMGs) regarding intersected following Gene Ontology (GO), Kyoto Encyclopedia Genes Genomes (KEGG), Set Enrichment Analysis (GSEA). Results There 11 62 modules, 1837 179 DEGs, as well 103 508 DEMGs acquiring for notably enriched in immune‐correlated signaling pathways. immune infiltrating cells comparatively respectively assessed via CIBERSORT, ssGSEA, xCell algorithms. Subsequently, screening hub involved employing SVM‐RFE, RF, XGBoost algorithms, logistic regression analysis. Among 67 candidate processed machine learning algorithms regression, subgroup consisting CEP55, CDCA2, MELK, DEPDC1B, at last potential biomarkers predicting risk progression into after infections. performance quantified ROC value 0.8762542, which proved combination provided highest performance. Conclusions In summary, we infection, could partly elucidation associated molecular mechanisms COVID.
Язык: Английский
Процитировано
0
Molecular Medicine, Год журнала: 2025, Номер 31(1)
Опубликована: Март 26, 2025
Abstract Objectives Abdominal aortic aneurysm (AAA) is an inflammation-driven disease in which neutrophil infiltration critical to its progression. This study aims explore the molecular mechanisms behind AAA and identify key regulatory genes. Methods We utilized weighted gene co-expression network analysis (WGCNA) differential expression compare healthy abdominal tissues. Functional enrichment a protein–protein interaction (PPI) were constructed understand functions. Machine learning algorithms applied hub genes, followed by vivo validation using ApoE-/- mouse model. Results Neutrophils, NK cells, pDCs significantly increased WGCNA identified 234 genes associated with infiltration, of 39 differentially expressed. highlighted roles actin-related processes pathways. Nexilin (NEXN) was consistently as negatively correlated immune cell infiltration. In confirmed that NEXN inhibits progression mice regulating Conclusion plays crucial role modulating AAA. These findings provide new insights into pathogenesis suggest potential target for therapy.
Язык: Английский
Процитировано
0
Hereditas, Год журнала: 2025, Номер 162(1)
Опубликована: Апрель 7, 2025
Abstract Background Qingying decoction (QYD) is a traditional prescription in China that has been shown to be effective treating psoriasis. However, its mechanism of action remains elucidated. Methods The active ingredients and targets QYD were obtained from TCMSP database, HERB database SwissTargetPrediction respectively. Differential expression gene (DEGs) analysis weighted co-expression network (WGCNA) used identify key genes associated with Protein-protein interaction (PPI) was constructed using STRING platform. Gene Ontology (GO) Kyoto Encyclopedia Genes Genomes (KEGG) analyses performed the DAVID clusterProfiler package R software. Cytoscape 3.9.0 software screen components hub targets. Molecular docking detect binding ability between An vitro model psoriasis established by stimulating keratinocyte HaCaT mixture five pro-inflammatory cytokines (IL-17 A, IL-22, IL-1α, oncostatin M, TNF-α) (M5). Cell viability cell cycle measured counting Kit 8 (CCK-8) flow cytometry, Real-time quantitative polymerase chain reaction (qRT-PCR) mRNA levels genes, high-proliferation marker keratin 6 (KRT6) inflammatory factors IL-1β, IL-6 TNF-α. Protein PI3K/AKT/FoxO pathway related detected Western blot. Results A total 139 screened this study, 1033 targets, 59 which overlapped psoriasis-related genes. Quercetin, luteolin, kaempferol, beta-sitosterol methylophiopogonanone considered treatment CDC25A, TOP2A, NEK2 CCNA2 identified could probably regulate cycle, T receptor signaling metabolic treat had good affinity target proteins. significantly attenuated M5-induced hyperproliferation progression cells. M5 stimulation upregulates NEK2, CCNA2, TNF-α, while reversed effect. In addition, inhibited phosphorylation PI3K AKT M5-stimulated cells upregulated p-FOXO1 protein level. Conclusion can inhibit excessive proliferation response keratinocytes regulating pathway, suggesting may an attractive for
Язык: Английский
Процитировано
0
Journal of Inflammation Research, Год журнала: 2024, Номер Volume 17, С. 8165 - 8180
Опубликована: Ноя. 1, 2024
Background: Psoriasis is characterized by accelerated proliferation of epidermal keratinocytes. IL-27 relevant to psoriasis pathogenesis. We previously found that stimulates the However, mRNAs involved in process have not been fully studied. This study aims identify potential pathways and hub genes associated with keratinocytes intervention bioinformatics analysis. Methods: The mRNA expression profiles from HaCaT cells or without treated were analyzed tools. protein–protein interaction (PPI) network was constructed screen gene clusters proliferation. Gene Ontology (GO), Kyoto Encyclopedia Genes Genomes (KEGG), Set Enrichment Analysis (GSEA) used function mRNAs. GEO database quantitative real-time PCR (qPCR) verify levels psoriatic skin lesions IL-27-treated psoriasiform keratinocytes, respectively. Results: 1257 differentially expressed screened 2 crucial clusters. GO analysis revealed Cluster 1 mainly enriched "Mitotic sister chromatid segregation" "Spindle". "Pyruvate metabolic process" "Oxidoreductase complex". KEGG showed "Cell cycle" "Glycolysis/Gluconeogenesis", then identified 6 two pathways, including CCNB1, PTTG1, CDC20, PLK1, PKM , LDHA . GSEA complemented role mitochondrial "Oxidative phosphorylation" pathway. Moreover, we upregulated elevated M5-induced Conclusion: possibly promotes glycolysis, oxidative phosphorylation, cell cycle progression Additionally, as may be mechanism facilitating keratinocyte psoriasis. Keywords: psoriasis,
Язык: Английский
Процитировано
1
Cell Biochemistry and Biophysics, Год журнала: 2024, Номер unknown
Опубликована: Ноя. 20, 2024
Язык: Английский
Процитировано
1
Computer Methods in Biomechanics & Biomedical Engineering, Год журнала: 2024, Номер unknown, С. 1 - 12
Опубликована: Окт. 2, 2024
Psoriasis, a chronic inflammatory dermatosis, profoundly affects patients' well-being. Although exosomes are key in disease etiology, diagnostic potentials of associated genes unclear. Our research targeted bioinformatics-based characterization exosome-related and the development model for psoriasis.
Язык: Английский
Процитировано
0