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  1. CellCircuits (View Publication)
    Full Name of the Resource : Molecular network models: from pairwise molecular interactions to whole pathways
    Resource Category : Databases -> Metabolic and Signaling Pathways -> Protein-Protein Interactions

    Brief Description : CellCircuits (http://www.cellcircuits.org) is an open-access database of molecular network models, designed to bridge the gap between databases of individual pair-wise molecular interactions and databases of validated pathways. CellCircuits captures the output from an increasing number of approaches that screen molecular interaction networks to identify functional subnetworks, based on their correspondence with expression or phenotypic data, their internal structure, or their conservation across species. This initial release catalogs 2019 computationally-derived models drawn from eleven journal articles and spanning five organisms (yeast, worm, fly, Plasmodium falciparum, and human). Models are available either as images or in machine-readable formats and can be queried by the names of proteins they contain or by their enriched biological functions. We envision CellCircuits as a clearinghouse in which theorists may distribute or revise models in need of validation and experimentalists may search for models or specific hypotheses relevant to their interests. We demonstrate how such a repository of network models is a novel systems biology resource by performing several meta-analyses not currently possible with existing databases.

    Institute/s :
    Division of Biology, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
    Department of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA

    Country : United States

    Associated Institutes :

    • Department of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92037, USA
    • Division of Biology, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92037, USA

    Associated Country : USA


    Authors/Contributors : Trey Ideker
    Contact Email : trey@bioeng.ucsd.edu
    Year : 2007
    Language : English

    Keywords : Animals; Caenorhabditis elegans Proteins / metabolism; *Databases, Protein; Drosophila Proteins / metabolism; Humans; Internet; Meta-Analysis as Topic; Metabolic Networks and Pathways; Models, Biological; Plasmodium falciparum / metabolism; Proteins / genetics / metabolism; Saccharomyces cerevisiae Proteins / metabolism; Signal Transduction; *Systems Biology; User-Computer Interface