Chapter 5. Protein Interaction Prediction by Integrating Genomic Features and Protein Interaction Network Analysis

  1. Francisco Azuaje4 and
  2. Joaquín Dopazo5,6
  1. Long J. Lu1,
  2. Yu Xia1,
  3. Haiyuan Yu1,
  4. Alexander Rives2,
  5. Haoxin Lu1,
  6. Falk Schubert3 and
  7. Mark Gerstein1

Published Online: 15 JUN 2005

DOI: 10.1002/0470094419.ch5

Data Analysis and Visualization in Genomics and Proteomics

Data Analysis and Visualization in Genomics and Proteomics

How to Cite

Lu, L. J., Xia, Y., Yu, H., Rives, A., Lu, H., Schubert, F. and Gerstein, M. (2005) Protein Interaction Prediction by Integrating Genomic Features and Protein Interaction Network Analysis, in Data Analysis and Visualization in Genomics and Proteomics (eds F. Azuaje and J. Dopazo), John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/0470094419.ch5

Editor Information

  1. 4

    School of Computing and Mathematics, University of Ulster at Jordanstown, BT37 0QB, Co. Antrim, Northern Ireland, UK

  2. 5

    Bioinformatics Unit, Centrol Nacional de Investigaciones Oncológicas, Melchor Fernández Almagro 3, E-28039 Madrid, Spain

  3. 6

    Spanish Cancer National Centre (CNIO), Madrid, Spain

Author Information

  1. 1

    Department of Molecular Biophysics and Biochemistry, Yale University, Bass Center, 266 Whitney Avenue, P.O. Box 208114, New Haven, CT 06520-8114, USA

  2. 2

    Institute of Systems Biology, 1441 North 34th Street, Seattle, WA 98103, USA

  3. 3

    Department of Computer Sciences, Yale University, 51 Prospect Street, New Haven, CT 06520, USA

Publication History

  1. Published Online: 15 JUN 2005
  2. Published Print: 24 MAR 2005

ISBN Information

Print ISBN: 9780470094396

Online ISBN: 9780470094419

SEARCH

Keywords:

  • protein–protein interactions;
  • integration and prediction;
  • Bayesian network;
  • network topology;
  • network modularity;
  • network visualization;
  • genomic features;
  • biological modules

Summary

This chapter contains sections titled:

  • Introduction

  • Genomic Features in Protein Interaction Predictions

  • Machine Learning on Protein–Protein Interactions

  • The Missing Value Problem

  • Network Analysis of Protein Interactions

  • Discussion

  • References