期刊
NATURE PROTOCOLS
卷 3, 期 10, 页码 1616-1629出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/nprot.2008.100
关键词
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资金
- Fonds pour la Formation a la Recherche dans l'Industrie et dans l'Agriculture (FRIA)
- Actions de Recherches Concertees de la Communaute Francaise de Belgique (ARC) [04/09-307]
- Fonds Xenophilia [Universite Libre de Bruxelles (ULB)
- Region Wallonne de Belgique [415925]
- European Communities [LSHG-CT-2003-503265]
- Belgian Program on Interuniversity Attraction Poles [P6/25]
Network Analysis Tools (NeAT) is a suite of computer tools that integrate various algorithms for the analysis of biological networks: comparison between graphs, between clusters, or between graphs and clusters; network randomization; analysis of degree distribution; network-based clustering and path finding. The tools are interconnected to enable a stepwise analysis of the network through a complete analytical workflow. In this protocol, we present a typical case of utilization, where the tasks above are combined to decipher a protein-protein interaction network retrieved from the STRING database. The results returned by NeAT are typically subnetworks, networks enriched with additional information (i.e., clusters or paths) or tables displaying statistics. Typical networks comprising several thousands of nodes and arcs can be analyzed within a few minutes. The complete protocol can be read and executed in similar to 1 h.
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