ModuLand plug-in for Cytoscape: determination of hierarchical layers of overlapping network modules and community centrality
Mate Szalay-Beko, Robin Palotai, Balazs Szappanos, Istvan A. Kovacs,, Balazs Papp, Peter Csermely
TL;DR
The ModuLand plug-in for Cytoscape enables detailed analysis of overlapping network modules, hierarchical layers, and key nodes, facilitating functional predictions in complex biological networks.
Contribution
It introduces a novel algorithm for identifying overlapping modules and hierarchical layers, with a user-friendly interface for biological network analysis.
Findings
Successfully applied to protein structure networks
Effectively identifies key bridging nodes
Reveals hierarchical modular organization
Abstract
Summary: The ModuLand plug-in provides Cytoscape users an algorithm for determining extensively overlapping network modules. Moreover, it identifies several hierarchical layers of modules, where meta-nodes of the higher hierarchical layer represent modules of the lower layer. The tool assigns module cores, which predict the function of the whole module, and determines key nodes bridging two or multiple modules. The plug-in has a detailed JAVA-based graphical interface with various colouring options. The ModuLand tool can run on Windows, Linux, or Mac OS. We demonstrate its use on protein structure and metabolic networks. Availability: The plug-in and its user guide can be downloaded freely from: http://www.linkgroup.hu/modules.php. Contact: [email protected] Supplementary information: Supplementary information is available at Bioinformatics online.
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