在Cytoscape中使用上下文枢纽分析工具(CHAT)来识别上下文相关的网络枢纽

Q1 Biochemistry, Genetics and Molecular Biology

Current protocols in bioinformatics Pub Date : 2018-02-13 DOI:10.1002/cpbi.35

Tanja Muetze, David J. Lynn

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引用次数: 5

摘要

生物网络中高度连接的节点被称为网络集线器。枢纽在拓扑结构上对网络结构很重要，并且已被证明优先与一系列感兴趣的表型相关。然而，枢纽节点的相对重要性可以根据生物环境而改变。在这里，我们提供了一个使用上下文枢纽分析工具(CHAT)的分步协议，这是Cytoscape 3中的一个应用程序，它使用户能够轻松地从感兴趣的基因或蛋白质列表中构建和可视化交互网络，整合上下文信息，如基因或蛋白质表达数据，并识别与上下文节点的连接程度比预期的要高的枢纽节点。©2017 by John Wiley &儿子,Inc。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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Using the Contextual Hub Analysis Tool (CHAT) in Cytoscape to Identify Contextually Relevant Network Hubs

Highly connected nodes in biological networks are called network hubs. Hubs are topologically important to the structure of the network and have been shown to be preferentially associated with a range of phenotypes of interest. The relative importance of a hub node, however, can change depending on the biological context. Here, we provide a step-by-step protocol for using the Contextual Hub Analysis Tool (CHAT), an application within Cytoscape 3, which enables users to easily construct and visualize a network of interactions from a gene or protein list of interest, integrate contextual information, such as gene or protein expression data, and identify hub nodes that are more highly connected to contextual nodes than expected by chance. © 2017 by John Wiley & Sons, Inc.

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来源期刊

Current protocols in bioinformatics Biochemistry, Genetics and Molecular Biology-Biochemistry

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期刊介绍： With Current Protocols in Bioinformatics, it"s easier than ever for the life scientist to become "fluent" in bioinformatics and master the exciting new frontiers opened up by DNA sequencing. Updated every three months in all formats, CPBI is constantly evolving to keep pace with the very latest discoveries and developments.