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      CFinder: Locating cliques and overlapping modules in biological networks

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          Abstract

          Summary: Most cellular tasks are performed not by individual proteins, but by groups of functionally associated proteins, often referred to as modules. In a protein assocation network modules appear as groups of densely interconnected nodes, also called communities or clusters. These modules often overlap with each other and form a network of their own, in which nodes (links) represent the modules (overlaps). We introduce CFinder, a fast program locating and visualizing overlapping, densely interconnected groups of nodes in undirected graphs, and allowing the user to easily navigate between the original graph and the web of these groups. We show that in gene (protein) association networks CFinder can be used to predict the function(s) of a single protein and to discover novel modules. CFinder is also very efficient for locating the cliques of large sparse graphs. Availability: CFinder (for Windows, Linux, and Macintosh) and its manual can be downloaded from http://angel.elte.hu/clustering. Contact: cfinder@angel.elte.hu

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          Author and article information

          Journal
          04 February 2006
          Article
          10.1093/bioinformatics/btl039
          q-bio/0602004
          Custom metadata
          Bioinformatics 22, 1021-1023 (2006)
          The free academic research software, CFinder, used for the publication is available at the website of the publication: http://angel.elte.hu/clustering
          q-bio.MN q-bio.GN

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