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Sci Rep. 2013;3:1691. doi: 10.1038/srep01691.

Dynamic modular architecture of protein-protein interaction networks beyond the dichotomy of 'date' and 'party' hubs.

Author information

1
Zilkha Neurogenetic Institute, Keck School of Medicine, University of Southern California, Los Angeles, USA.

Abstract

The protein-protein interaction (PPI) networks are dynamically organized as modules, and are typically described by hub dichotomy: 'party' hubs act as intramodule hubs and are coexpressed with their partners, yet 'date' hubs act as coordinators among modules and are incoherently expressed with their partners. However, there remains skepticism about the existence of hub dichotomy. Since different algorithms and data sets were used in previous studies to test the model of hub classification, the conclusions may be largely influenced by the potential inherent biases. In this study, we evaluated two data sets of yeast interactome, and systematically investigated the behavior of hubs from multiple perspectives including co-expression patterns, topological roles and functional classifications. Our results revealed consistency between the two data sets, confirming the presence of hub dichotomy. Furthermore, we analyzed a human interactome data set, and demonstrated that the modular architecture of the PPI networks was more complicated than hub dichotomy.

PMID:
23603706
PMCID:
PMC3631766
DOI:
10.1038/srep01691
[Indexed for MEDLINE]
Free PMC Article

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