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Computational Prediction of Subcellular Localization

  • Protocol
Book cover Protein Targeting Protocols

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 390))

{It is widely recognized that much of the information for determining the final subcellular localization of proteins is found in their amino acid sequences. Thus the prediction of protein localization sites is of both theoretical and practical interest. In most cases, the prediction has been attempted in two ways: one is based on the knowledge of experimentally characterized targeting signals, while the other utilizes the statistical differences of general sequence characteristics, such as amino acid composition, between localization sites. Both approaches have limitations, and it is recommended to check the results of various prediction methods based on different principles as well as training data. Recently, increased proteomic analyses of localization sites have provided new data to assess the current status of predictive methods. In this chapter we discuss these issues and close with an example illustrating the use of the WoLF PSORT web server for localization prediction.}

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Acknowledgments

This work was partly supported by the National Project on Protein and Functional Analysis and Grant-in-Aid for Scientific Research on Priority Areas from the Ministry of Education, Culture, Sports, Science and Technology of Japan.

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Authors and Affiliations

  1. Laboratory of Functional Analysis in silico, Human Genome Center, The Institute of Medical Science, The University of Tokyo, Tokyo, Japan

    Kenta Nakai

  2. AIST Computational Biology Research Center, Tokyo, Japan

    Paul Horton

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  1. Kenta Nakai
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  2. Paul Horton
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  1. School of Biological and Chemical Sciences, Queen Mary, University of London, London, UK

    Mark van der Giezen

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Nakai, K., Horton, P. (2007). Computational Prediction of Subcellular Localization. In: van der Giezen, M. (eds) Protein Targeting Protocols. Methods in Molecular Biology™, vol 390. Humana Press. https://doi.org/10.1007/978-1-59745-466-7_29

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  • DOI: https://doi.org/10.1007/978-1-59745-466-7_29

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-702-0

  • Online ISBN: 978-1-59745-466-7

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