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Handling Diverse Protein Interaction Data: Integration, Storage and Retrieval

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Protein-protein Interactions and Networks

Part of the book series: Computational Biology ((COBO,volume 9))

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Abstract

In this chapter we review current approaches to store, retrieve and integrate diverse protein interaction data. To incorporate the heterogeneous results of computational predictions and protein interaction experiments, methods of data integration have been widely used which provide efficient presentation, and analysis of interaction data. Among them statistical meta-analysis and supervised machine learning methods are becoming very popular in this respect. While integration methods reduce complexity of system representation, the databases provide efficient storage and retrieval of data. A large variety of interaction databases exist which differ in scope, type and coverage of data as well as query search capabilities. We categorize the databases of protein interactions into comprehensive, specialized, structural and databases developed for network analysis. This gives a rough grouping of resources based on how they might be used. In particular, one might often start with a comprehensive database search and afterwards perform a refined search of the obtained results using a database with a more specific focus.

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  1. National Center for Biotechnology Information, National Institutes of Health, Bethesda, USA

    Benjamin Shoemaker & Anna Panchenko

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Correspondence to Benjamin Shoemaker .

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  1. National Institutes of Health, Bethesda, Maryland, USA

    Anna Panchenko  & Teresa Przytycka  & 

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Shoemaker, B., Panchenko, A. (2008). Handling Diverse Protein Interaction Data: Integration, Storage and Retrieval. In: Panchenko, A., Przytycka, T. (eds) Protein-protein Interactions and Networks. Computational Biology, vol 9. Springer, London. https://doi.org/10.1007/978-1-84800-125-1_2

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  • DOI: https://doi.org/10.1007/978-1-84800-125-1_2

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