The analysis of protein-protein interactions is fundamental to
the understanding of cellular organization, processes, and
functions. Recent large-scale investigations of protein-protein
interactions using such techniques as two-hybrid systems, mass
spectrometry, and protein microarrays have enriched the available
protein interaction data and facilitated the construction of
integrated protein-protein interaction networks. The resulting
large volume of protein-protein interaction data has posed a
challenge to experimental investigation. This book provides a
comprehensive understanding of the computational methods available
for the analysis of protein-protein interaction networks. It offers
an in-depth survey of a range of approaches, including statistical,
topological, data-mining, and ontology-based methods. The author
discusses the fundamental principles underlying each of these
approaches and their respective benefits and drawbacks, and she
offers suggestions for future research.
目錄：
Preface
1 IntroductiOn
1.1 Rapid Growth of Protein—Protein Interaction Data
1.2 Computational Analysis of PPI Networks
1.2.1 Topological Features of PPI Networks
1.2.2 Modularity Analysis
1.2.3 Prediction of Protein Functions in PPI Networks
1.2.4 Integration of Domain Knowledge
1.3 Significant Applications
1.4 0rganization of this Book
1.5 Summary
2 Experimental Approaches to Generation of PPI Data
2.1 Introduction
2.2 The Y2H System
2.3 Mass SpectrometryMSApproaches
2.4 Protein Microarrays
2.5 Public PPI Data and Their Reliability
2.5.1 Experimental PPI Data Sets
2.5.2 Public PPI Databases
2.5.3 Functional Analysis of PPI Data
2.6 Summary
3 ComputationaI Methods for the Prediction of PPIs
3.1 Introduction
3.2 Genome—Scale Approaches
3.3 Sequence—Based Approaches
3.4 Structure—Based Approaches
3.5 Learnin9—Based Approaches
3.6 Network Topology—Based Approaches
3.7 Summary
……
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