The Identification of Key Genes and Biological Pathways in Cardiac Arrest by Integrated Bioinformatics and Next Generation Sequencing Data Analysis DOI Open Access
Basavaraj Vastrad, Chanabasayya Vastrad

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 19, 2024

Abstract Cardiac arrest (CA) is a common cause of death world wide. The disease has lacks effective treatment. Efforts have been made to elucidate the molecular pathogenesis CA, but mechanisms remain elusive. To identify key genes and pathways in next generation sequencing (NGS) GSE200117 dataset was downloaded from Gene Expression Omnibus (GEO) database. DESeq2 tool used recognize differentially expressed (DEGs). ontology (GO) REACTOME pathway enrichment analyses were performed analyze DEGs associated signal g:Profiler IID database construct protein-protein interaction (PPI) network, modules analysis using Cytoscape. A miRNA-hub gene regulatory network TF-hub then constructed screen miRNAs, TFs hub by miRNet NetworkAnalyst Cityscape software. Receiver operating characteristic curve (ROC) verified genes. In total, 844 identified, comprising 414 up regulated 430 down GO indicated that for CA mainly enriched organonitrogen compound metabolic process, response stimulus, translation immune system. Ten (up-regulated: HSPA8, HOXA1, INCA1 TP53; down-regulated: HSPB1, LMNA, SNCA, ADAMTSL4 PDLIM7) screened. We also predicted miRNAs (hsa-mir-1914-5p hsa-mir-598-3p) (JUN PRRX2) targeting This study uses series bioinformatics technologies obtain hug genes, TFs, related CA. These results provide us with new ideas finding biomarkers treatment methods

Language: Английский

Eupalinolide B targets DEK and PANoptosis through E3 ubiquitin ligases RNF149 and RNF170 to negatively regulate asthma DOI

Qiaoyun Bai,

Chongyang Wang, Ning Ding

et al.

Phytomedicine, Journal Year: 2025, Volume and Issue: unknown, P. 156657 - 156657

Published: March 1, 2025

Language: Английский

Citations

0
RNF149 modulates the type I IFN innate antiviral immune responses through degrading IRF3 DOI Creative Commons
Mengyun Wu,

Jiamin Cai,

Guodong Qiao

et al.

PLoS Pathogens, Journal Year: 2025, Volume and Issue: 21(4), P. e1013051 - e1013051

Published: April 17, 2025

E3 ubiquitin ligases are key molecules in regulating the innate immune responses against virus. They catalyze activation or degradation of various signaling proteins involved responses. Herein, we found regulatory role RNF149 host's viral infection. Virus infection induced expression RNF149. Overexpression was associated with reduced production IFN-β and enhanced replication. Mechanically, interacted IRF3 downregulated its protein level. As an ligase, promoted K27-linked ubiquitination at K409 K33-linked K366 K409, which through proteasome pathway. Our results revealed mechanism during provided new insights into host cells responding to Downregulating may help enhance antiviral ability inhibit replication, thus providing a strategy for treatment

Language: Английский

Citations

0
The Role of Ubiquitination on Macrophages in Cardiovascular Diseases and Targeted Treatment DOI Open Access
Li Wang, Yan Zhang,

Jianming Yue

et al.

International Journal of Molecular Sciences, Journal Year: 2025, Volume and Issue: 26(9), P. 4260 - 4260

Published: April 30, 2025

Cardiovascular disease (CVD) is a leading cause of morbidity and mortality worldwide, with macrophage dysfunction playing central role in its pathogenesis. Ubiquitination, critical post-translational modification, regulates diverse functions, including lipoprotein metabolism, inflammation, oxidative stress, mitophagy, autophagy, efferocytosis, programmed cell death (pyroptosis, necroptosis, ferroptosis, apoptosis). This review highlights the regulatory roles ubiquitination macrophage-driven CVD progression, focusing on effects cholesterol activation, polarization, survival macrophages. Targeting pathways has therapeutic potential by enhancing reducing improving plaque stability. However, challenges, such as off-target effects, crosstalk, heterogeneity, must be addressed. By integrating advances biology, strategies can developed to mitigate other inflammatory diseases. underscores ubiquitination-targeting therapies for mitigating key areas further investigation.

Language: Английский

Citations

0
The Identification of Key Genes and Biological Pathways in Cardiac Arrest by Integrated Bioinformatics and Next Generation Sequencing Data Analysis DOI Open Access
Basavaraj Vastrad, Chanabasayya Vastrad

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 19, 2024

Abstract Cardiac arrest (CA) is a common cause of death world wide. The disease has lacks effective treatment. Efforts have been made to elucidate the molecular pathogenesis CA, but mechanisms remain elusive. To identify key genes and pathways in next generation sequencing (NGS) GSE200117 dataset was downloaded from Gene Expression Omnibus (GEO) database. DESeq2 tool used recognize differentially expressed (DEGs). ontology (GO) REACTOME pathway enrichment analyses were performed analyze DEGs associated signal g:Profiler IID database construct protein-protein interaction (PPI) network, modules analysis using Cytoscape. A miRNA-hub gene regulatory network TF-hub then constructed screen miRNAs, TFs hub by miRNet NetworkAnalyst Cityscape software. Receiver operating characteristic curve (ROC) verified genes. In total, 844 identified, comprising 414 up regulated 430 down GO indicated that for CA mainly enriched organonitrogen compound metabolic process, response stimulus, translation immune system. Ten (up-regulated: HSPA8, HOXA1, INCA1 TP53; down-regulated: HSPB1, LMNA, SNCA, ADAMTSL4 PDLIM7) screened. We also predicted miRNAs (hsa-mir-1914-5p hsa-mir-598-3p) (JUN PRRX2) targeting This study uses series bioinformatics technologies obtain hug genes, TFs, related CA. These results provide us with new ideas finding biomarkers treatment methods

Language: Английский

Citations

0