Deterministic graph-theoretic algorithm for detecting modules in biological interaction networks Online publication date: Wed, 10-Mar-2010
by Roger L. Chang, Feng Luo, Stuart Johnson, Richard H. Scheuermann
International Journal of Bioinformatics Research and Applications (IJBRA), Vol. 6, No. 2, 2010
Abstract: An approach for module identification, Modules of Networks (MoNet), introduced an intuitive module definition and clear detection method using edges ranked by the Girvan-Newman algorithm. Modules from a yeast network showed significant association with biological processes, indicating the method's utility; however, systematic bias leads to varied results across trials. MoNet modules also exclude some network regions. To address these shortcomings, we developed a deterministic version of the Girvan-Newman algorithm and a new agglomerative algorithm, Deterministic Modularization of Networks (dMoNet). dMoNet simultaneously processes structurally equivalent edges while preserving intuitive foundations of the MoNet algorithm and generates modules with full network coverage.
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