Chapter 11. Integrating Prediction of Structure, Function, and Interactions

  1. Janusz M. Bujnicki2,3
  1. Michael Tress1,
  2. Janusz M. Bujnicki2,3,
  3. Gonzalo Lopez1 and
  4. Alfonso Valencia1

Published Online: 18 DEC 2008

DOI: 10.1002/9780470741894.ch11

Prediction of Protein Structures, Functions, and Interactions

Prediction of Protein Structures, Functions, and Interactions

How to Cite

Tress, M., Bujnicki, J. M., Lopez, G. and Valencia, A. (2008) Integrating Prediction of Structure, Function, and Interactions, in Prediction of Protein Structures, Functions, and Interactions (ed J. M. Bujnicki), John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/9780470741894.ch11

Editor Information

  1. 2

    Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology, ul. Ks. Trojdena 4, 02-109 Warsaw, Poland

  2. 3

    Laboratory of Bioinformatics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznan, Poland

Author Information

  1. 1

    Structural Biology and Biocomputing Programme, Spanish National Cancer Research Centre (CNIO), C. Melchor Fernandez Almagro, 3, 28029 Madrid, Spain

  2. 2

    Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology, ul. Ks. Trojdena 4, 02-109 Warsaw, Poland

  3. 3

    Laboratory of Bioinformatics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznan, Poland

Publication History

  1. Published Online: 18 DEC 2008
  2. Published Print: 19 DEC 2008

ISBN Information

Print ISBN: 9780470517673

Online ISBN: 9780470741894

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Keywords:

  • structure, function, and interactions - integrating prediction;
  • Gene Ontology (GO) and GO consortium;
  • protein function homology-based prediction;
  • protein function annotation and homology;
  • 3D structures and predicting function;
  • large-scale experimental methods and function prediction;
  • yeast two-hybrid and tandem affinity-purification/mass spectroscopy;
  • CASP and function prediction assessment

Summary

This chapter contains sections titled:

  • Introduction: A Flood of Sequence Data and the Limits of Homology-Based Function Prediction

  • Predicting Function with 1D Sequence Features

  • Predicting Function with 3D Structures

  • Predicting Function from Whole Genome Information

  • Function Prediction from Large-Scale Experimental Methods and Networks

  • Information from Text Mining

  • Recent Development and Future Directions

  • Assessment of Function Prediction

  • Acknowledgements

  • References