software components for arranging and visualizing graph structures. In order to perform an improved GO analysis, the ClueGO application 16 for Cytoscape was developed and allows visualization and integration of. ClueGO is a Cytoscape plug-in that visualizes the non-redundant biological terms for large clusters of genes in a functionally grouped network. If you use Cytoscape 3.x with OpenJDK, ClueGO may not work properly! e.g. Arrange your Cytoscape networks in a clear and concise way with the yFiles layout. To extend it's functionality get as well CluePedia. ClueGO is easy updatable with the newest files from Gene Ontology, KEGG and Reactome. you can load pathways in the Reactome database into Cytoscape, visualize Reactome. The significance of the terms and groups is automatically calculated. Visualize Drugs in the Contexts of Reactome Pathways and FI Network. ClueGO charts are underlying the specificity and the common aspects of the biological role. On the network, the node colour can be switched between functional groups and clusters distribution. The ClueGO network is created with kappa statistics and reflects the relationships between the terms based on the similarity of their associated genes. The related terms which share similar associated genes can be fused to reduce redundancy. From the ontology sources used, the terms are selected by different filter criteria. ClueGO software is a Cytoscape App that extracts representative functional biological information for large lists of genes or proteins. ClueGO performs single cluster analysis and comparison of clusters. The type of identifiers supported can be easely extended by the user. The identifiers can be uploaded from a text file or interactively from a network of Cytoscape. ClueGO is a Cytoscape plug-in that visualizes the non-redundant biological terms for large clusters of genes in a functionally grouped network and it can be used in combination with GOlorize.
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