Cytohubba stress

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August undefined, 2024

WebMar 18, 2024 · The top 20 hub genes were calculated using the seven algorithms of the plug-in CytoHubba ... Closeness, Radiality, Stress, and EPC) were used in evaluating and selecting hub genes. WebMar 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 …

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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 … WebNov 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... irish intuition

Computational identification of biomarker genes for lung …

WebApr 28, 2024 · 1、首先选择左边的 cytoHubba 进入工作页面 2、 Target Network 选择待分析的网络 3、点击 Calculate 4、点击 Top 10 ，可根据自身课题需要，调整提取关键基因的数量 5、下方 MCC 可下拉选择计算方法 6、 Particular nodes ：选择感兴趣的基因进行分析（一般是对整个网络分析的话，此项可以忽略） 5、点击左下方 Display the shortest … WebNov 26, 2024 · The key genes were output by the four algorithms' maximum neighborhood component (MNC), degree, maximal clique centrality (MCC), and stress in cytoHubba … 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. … porstarhiring

Identification of Hub Genes in Patients with Alzheimer Disease and ...

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 … WebThe data set obtained from string analysis is imported into Cytoscape, and Cytohubba, a plug-in of Cytoscape, 16 is used to select the central gene of biological network. In this study, the first 15 genes were selected as the central genes. ... Stress methods in cytoHubba. Construction and Analysis of the Key Gene Co-Expression Network. irish international trading corporation iitcWebOct 30, 2024 · The CytoNCA and the CytoHubba are two Cytoscape plug-in for centrality analysis and give us some insight into the most influential nodes or edges in a network. We ran CytoHubba application and... irish international school logo png

"WebThe plug-in CytoHubba (version 1.6) in Cytoscape was used to explore significant genes in the PPI network, and the genes with most interactions were referred as hub genes, which might play core roles in the disease pathogenesis. 17 We used Maximal Clique Centrality (MCC) to calculate the hub genes. Results Identification of DEGs " - Cytohubba stress

Cytohubba stress

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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 … 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 …

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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 ... 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.

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. WebDownload scientific diagram Top 10 hub genes ranked by MCC method in cytoHubba. from publication: Prediction of Mechanosensitive Genes in Vascular Endothelial Cells …

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 … Webfrom publication: cytoHubba: Identifying hub objects and sub-networks from complex interactome Background Network is a useful way for presenting many types of biological data including protein ...

WebFeb 22, 2024 · We used algorithms of Cytohubba, molecular complex detection, Lasso logistic regression, and support vector machine to identify the key biomarkers. ... Cardiac myocytes have elevated levels of THBS1 in response to stress stimulation 15 and THBS1 can release active TGF-β and trigger fibrosis. 16 This trial demonstrates that THBS1 is …

WebJan 1, 2024 · CytoNCA and cytoHubba were performed and identified overlapping DEGs. In addition, we narrowed down DEGs by filtering with immune-related genes and identified … porst bayreuthWebApr 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; … porst compact reflex ovWebJan 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. porst coswigWebJan 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 … porst color reflex auto 50mm f1.7 reviewWebMar 18, 2024 · The top 20 hub genes were calculated using the seven algorithms of the plug-in CytoHubba ... Closeness, Radiality, Stress, and EPC) were used in evaluating … irish intonationWebNov 26, 2024 · The target of RA was screened based on Comparative Toxicogenomics Database (CTD). The key genes were output by the four algorithms' maximum neighborhood component (MNC), degree, maximal clique centrality (MCC), and stress in cytoHubba in Cytoscape, while biological functions and pathways were also analyzed. irish invasion of britainWebCytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum Neighborhood … porst compact reflex sp