Protein complex prediction via cost-based clustering
Bioinformatics
Evolutionary analysis of functional modules in dynamic PPI networks
Proceedings of the ACM Conference on Bioinformatics, Computational Biology and Biomedicine
Modules in the metabolic network of E.coli with regulatory interactions
International Journal of Data Mining and Bioinformatics
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Modular architecture, which encompasses groups of genes/proteins involved in elementary biological functional units, is a basic form of the organisation of interacting proteins. Here, we propose a method that combines the Line Graph Transformation (LGT) and clique percolation-clustering algorithm to detect network modules, which may overlap each other in large sparse PPI networks. The resulting modules by the present method show a high coverage among yeast, fly, and worm PPI networks, respectively. Our analysis of the yeast PPI network suggests that most of these modules have well-biological significance in context of protein localisation, function annotation, and protein complexes.