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The Structure of Complex NetworksTheory and Applications$
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Ernesto Estrada

Print publication date: 2011

Print ISBN-13: 9780199591756

Published to Oxford Scholarship Online: December 2013

DOI: 10.1093/acprof:oso/9780199591756.001.0001

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Protein‐protein interaction networks

Protein‐protein interaction networks

(p.300) (p.301) 15 Protein‐protein interaction networks
The Structure of Complex Networks

Ernesto Estrada

Oxford University Press

This chapter starts by discussing the biophysics of protein–protein interactions, the experimental methods for their study, and the construction of protein–protein interaction (PPI) networks. It then analyses the global topological properties of eleven PPI networks based on their density, maximum degree, average path length, clustering, degree distributions, degree heterogeneity, and assortativity. The chapter examines subgraph-based techniques used for understanding the structure of PPI networks; the most abundant subgraphs and their biological and evolutionary signification; the bipartivity in PPI networks and the lock-and-key model of protein–protein interactions; and the local structure of PPI networks based on protein centrality and topics such as the in silico detection of essential proteins.

Keywords:   protein interactions, mass spectrometry, protein complexes, essential proteins, evolutionary conservation

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