Cytohubba stress

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August undefined, 2024

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 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 …

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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. 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 … image to emoji converter online

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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 … 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. … 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 … image toe bones

Bioinformatics Analysis of the Key Genes and Pathways in Multiple …

cytoHubba: identifying hub objects and sub-networks from complex ...

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 … 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... list of dehydrated foodsWebFinally, the hub genes were screened from the PPI network using the MCC algorithm of CytoHubba plugin. ... Functional enrichment analysis indicated that DEGs were mainly … image to dxf converter

"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 … " - Cytohubba stress

Cytohubba stress

Analysis and identification of novel biomarkers involved in

WebCytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum Neighborhood … 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 …

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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. 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.

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 … 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).

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. 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 …

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 …

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 … image toffoluttiWebJan 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 … image to embroidery converter onlineWebJan 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 … image to fbxWebOct 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... list of deis schools 2022WebJul 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 exposure to the associated hormones could promote the growth and spread of tumors. The immune system can be important for finding and eliminating cancer cells. image toenail fungusWebCytoHubba 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. list of deities paganWebDec 8, 2014 · CytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum … image to excel in python