Cytohubba stress

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August undefined, 2024

WebMar 4, 2024 · A plugin named cytoHubba was introduced to screen hub genes of PPI network in Cytoscape. CytoHubba can provide 12 topological analysis methods including Betweenness, BottleNeck, Closeness, Clustering Coefficient, Degree, DMNC, EcCentricity, EPC, MCC, MNC, Radiality and Stress based on shortest paths . Results. Normalization … WebAug 6, 2024 · After conducting WGCNA, a total of 45 potential hub genes were identified. Lu et al. used CytoHubba MCC method in their study to screen out hub genes, whereas …

A computational model revealing the immune-related hub genes …

WebMar 14, 2024 · Stress cardiomyopathy (SCM) is a transient reversible left ventricular dysfunction that more often occurs in women. ... CRP, ALB, APOE, APOB, MFGE8, GAPDH, and PLAT, finally utilizing the cytoHubba plug-in to determine APOE, MFGE8, ALB, APOB, SAA1, A2M, and C3 as the hub gene, as shown in Figure 8 and Table 4. … WebJan 7, 2024 · Figure 3.Screen of upregulated overlapping DEGs for key genes. (A,B) Top 15 upregulated overlapping DEGs analyzed with the stress (A) and betweenness (B) algorithms of cytoHubba plugin in Cytoscape, shown in yellow, orange, and red in the middle of the circle. Different colors represent different connectivity with other genes in … shapeways 3d metal printing

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WebDec 8, 2014 · CytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum … WebDec 3, 2024 · The gene network was analyzed using 12 scoring methods available in Cytohubba - betweenness, bottleneck, closeness, clustering coefficient (CC), degree, density of maximum neighborhood component (DMNC), eccentricity (EcC), edge percolated component (EPC), maximal clique centrality (MCC), maximum neighborhood component … WebJan 4, 2024 · The Cytoscape plugin cytoHubba was applied to identify hub genes from the PPI network. Connectivity value and stress methods were used to identify hub genes. Significant clusters were generated by using PEWCC (version 1.0) . Significant transcription factors (TFs) were screened by generating the TF-gene network. shapeways 3d printing materials

cytoHubba: Identifying hub objects and sub-networks from …

WebApr 1, 2024 · The extent of drought stress is varieties and time-dependent, however, the molecular response mechanisms of drought tolerance in sunflower with different varieties are still unclear. ... CytoHubba analysis showed that the top 10 genes all encoded ribosomal proteins. Up-regulated genes were enriched in the KEGG pathway of … WebJul 30, 2024 · Stress is a state of the body a non-specific response to any demand for change. Cancer had a deep relation with stress. Activation of the stress response and … poodle chihuahua mix puppies for adoptionWebDec 7, 2024 · STRING, Cytoscape, MCODE and Cytohubba were used to construct a protein-protein interaction (PPI) network and screen key EP-DEGs. Key EP-DEGs levels … shapeways 3d printing models

"WebCytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum Neighborhood Component, Maximal Clique Centrality and six centralities (Bottleneck, EcCentricity, Closeness, Radiality, Betweenness, and Stress) based on shortest paths. " - Cytohubba stress

Cytohubba stress

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WebDownload scientific diagram Top 10 hub genes ranked by MCC method in cytoHubba. from publication: Prediction of Mechanosensitive Genes in Vascular Endothelial Cells … WebThe CYBA gene provides instructions for making a protein called the cytochrome b-245 alpha chain (also known as p22-phox). This protein is one part (subunit) of a group of …

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WebFinally, the hub genes were screened from the PPI network using the MCC algorithm of CytoHubba plugin. ... Functional enrichment analysis indicated that DEGs were mainly … WebOct 3, 2024 · The results demonstrate that baicalin may exert anti-oxidative stress effects by targeting NOX4, providing new mechanisms and insights to baicalin for the treatment …

WebApr 28, 2024 · cytoHubba根据nodes在网络中的属性进行排名。它提供了11种拓扑分析方法，包括: Degrre; Edge Percolated component; Maximum neighborhood component; … WebApr 11, 2024 · In addition, the MCC module in the Cytohubba plugin filtered the top 20 hub genes in each of the three datasets and then took the intersection of the top 20 hub genes to determine the common hub genes by Venn software, ... (ASK1) by histone modifications in sufficient cells induces oxidative stress to reduce glomerular injury. Bioinformatics ...

WebMar 17, 2024 · Combining multiple ML and cytohubba algorithms yielded 11 relevant genes. ... (Figure 5), in order to further screen for key hub genes, the Stress, MCC, Degree, EPC, EcCentricity, Radiality, Closeness and Betweenness algorithms were used to calculate the associated gene scores (Supplementary Figure S2A–G). WebIn the comparisons, 932 and 384 overlapping transcripts were consistently up- and down-regulated, respectively. Combining the results of protein-protein interaction network analysis MCODE and CytoHubba, 55 up-regulated hub genes from four clusters and 9 down-regulated genes were identified.

WebAug 6, 2024 · Lu et al. used CytoHubba MCC method in their study to screen out hub genes, whereas Huang et al. identified serpin family E member 1 (SERPINE1) as a novel biomarker for diffuse lower-grade gliomas via CytoHubba stress algorithm and CytoHubba betweenness algorithm (49, 50). Considering that all these algorithms were effective …

WebJan 4, 2024 · We identified 17 hub genes that were closely associated with oxidative stress in AS and constructed a four-gene (aldehyde dehydrogenase six family member A1 ( ALDH6A1 ), eukaryotic elongation factor 2 kinase ( EEF2K ), glutaredoxin ( GLRX) and l -lactate dehydrogenase B ( LDHB )) diagnostic model with good accuracy. poodle chinook mixWebNov 25, 2024 · It can play a protective role on nerve cells through anti-inflammatory response, antioxidant stress and inhibition of apoptosis. In addition, it also has estrogen like effect on nerve cells. In... poodle chinese crested mixWebJan 1, 2024 · Using Cytohubba centrality analysis, Genes and their regulators were subjected to five different statistical methods (Maximal Clique Centrality (MCC), Maximum Neighborhood Component (MNC), Stress, Density of Maximum Neighborhood Component (DMNC), and Degree) to identify their connectivity (Chin et al., 2014). DE-centrality hub … shapeways 3d printing rcWebAug 8, 2024 · Twelve methods in cytoHubba (Betweenness, BottleNeck, Closeness, Clustering Coefficient, Degree, DMNC, EcCentricity, EPC, MCC, MNC, Radiality, and Stress) were used to rank and evaluate the hub genes, and to finally generate the hub gene network; DAVID was used for hub gene enrichment analysis of GO, and KEGG further … shapeways 3d printing pricesWebApr 30, 2024 · HCC is hard to diagnose and has a poor prognosis due to the less understanding of the molecular pathological mechanisms and the regulation … shapeways 3d printing stock symbolWebNational Center for Biotechnology Information shapeways cherry keeper lockWebMar 15, 2024 · CytoHubba, which has been widely used to explore important nodes in biological networks, was then applied to identify the lip and oral cavity carcinoma hub proteins in the PPI network. ... The PI3K/Akt pathway is a central controller of viability in response to cell stress (e.g., pH, nutrient, and oxygen levels), and deregulation of the … shapeways 3d printing service