WebApr 6, 2024 · Cytohubba was used for further topological analysis of the network . Cytohubba provides 11 different methods to find the top ten proteins within networks. We used it to identify hub proteins by five different classification methods of centrality – degree, betweenness centrality, closeness centrality, bottleneck and radiality. 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 …
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WebSep 30, 2024 · CytoHubba is a Cytoscape plugin that could calculate the core protein genes of the PPI network . There are up to 12 algorithms in CytoHubba, all of which are already proven to be effective in screening hub genes. ... Radiality, Stress, and Betweenness) in the CytoHubba plugin were selected to identify hub genes. The top 10 … WebMar 17, 2024 · Combining multiple ML and cytohubba algorithms yielded 11 relevant genes. ... EPC, EcCentricity, Radiality, Closeness and Betweenness algorithms were used to calculate the associated gene scores (Supplementary Figure S2A–G). The UpSet graph was used to filter out five common HF-associated genes ... WebDec 6, 2024 · Meanwhile, Cytohubba package was used in Cytoscape 3.8.0 to get hub genes in the radiality algorithm. The PPI network was also constructed by Cytoscape 3.8.0 based on the STRING results. At last, some important genes associated with HF treatment were annotated, and clustered heatmaps were generated using R (version 3.6.3). cubby station address