Network analysis tools: From biological networks to clusters and pathways

被引：72

作者：

Brohée S. ^{[1
]}

Faust K. ^{[1
]}

Lima-Mendez G. ^{[1
]}

Vanderstocken G. ^{[1
]}

van Helden J. ^{[1
]}

机构：

[1] Laboratoire de Bioinformatique des Génomes et des Réseaux (BiGRe), Université Libre de Bruxelles, B-1050 Bruxelles, Boulevard du Triomphe

来源：

Nature Protocols | 2008年 / 3卷 / 10期

关键词：

D O I：

10.1038/nprot.2008.100

中图分类号：

学科分类号：

摘要：

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 ∼1 h.

引用

页码：1616 / 1629

页数：13

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