Computational analysis and interactive visualization of biological networks and protein
structures are common tasks for gaining insight into biological processes. This protocol …

Cytoscape is a general network visualization, data integration, and analysis software
package. Its development and use has been focused on the modeling requirements of …

Cytoscape is an open source software tool for biological network visualization and analysis,
which can be extended with independently developed apps. We launched the Cytoscape …

Background and scope Nowadays, centrality analysis has become a principal method for
identifying essential proteins in biological networks. Here we present CytoNCA, a Cytoscape …

Cytoscape is one of the most popular open‐source software tools for the visual exploration
of biomedical networks composed of protein, gene, and other types of interactions. It offers …

Detection of community structure has become a fundamental step in the analysis of
biological networks with application to protein function annotation, disease gene prediction …

Rapidly increasing amounts of molecular interaction data are being produced by various
experimental techniques and computational prediction methods. In order to gain insight into …

The growing dimension and complexity of the available experimental data generating
biological networks have increased the need for tools that help in categorizing nodes by …

Background Biomolecular pathways and networks are dynamic and complex, and the
perturbations to them which cause disease are often multiple, heterogeneous and …

Protein networks have become a popular tool for analyzing and visualizing the often long
lists of proteins or genes obtained from proteomics and other high-throughput technologies …