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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

  1. Title of the Paper : CellCircuits: a database of protein network models (View at PubMed)
    Contributors : Mak, H. C.; Daly, M.; Gruebel, B.; Ideker, T.
    Address : Department of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92037, USA.
    Publication Name : Nucleic Acids Res
    Volume : 35
    Issue : Database issue
    Pages : D538-45
    Publication Year : 2007
    ISSN : 1362-4962 (Electronic) 0305-1048 (Linking)
    Language : English
    Abstract : CellCircuits ( is an open-access database of molecular network models, designed to bridge the gap between databases of individual pairwise 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 11 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.