The aim of INTERACTION PROTEOME is to establish Europe as the international scientific leader in functional proteomics, i.e. in the analysis of protein-protein interactions. Major objectives include the establishment of a broadly applicable platform of routine methods for the analysis of protein interaction networks. A multidisciplinary appoach is laid out to address different aspects of the generation of protein-interaction data; their validation by cell biological, biochemical and biophysical methods; their collection in a new type of public database; and their exploitation and use for in silico simulations of protein-interaction networks. INTERACTION PROTEOME will develop novel technology, including a high-end mass spectrometer with extremely large dynamic range, high density peptide arrays, and improved visualisation technology for light and electron microscopy. Using the novel technology, the interaction partners of more than 100 relevant protein domains and more than 3.000 peptides will be characterised. Data obtained in the project will be collected in an improved version of the European MINT database. In parallel, novel bioinformatics tools for the prediction of protein interactions and their relation to post-translational modifications will be created. Software for in silico modeling of protein interactions will be developed and validated with the projects model systems. Each of these objectives represents a substantial advance of the state of the art in these technologies. The innovations generated in INTERACTION PROTEOME thus will provide the basis for an efficient analysis and systems modeling of fundamental biological processes in health and disease.
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