A method for finding communities of related genes
A method for finding communities of related genes
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DOI：
10.1073/pnas.0307740100
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发表时间：
2004-04
影响因子：
11.1
通讯作者：
Dennis M. Wilkinson;B. Huberman
中科院分区：
文献类型：
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作者：
Dennis M. Wilkinson;B. Huberman
我们提出了一种从文献中创建基因共现网络并将其划分为相关基因社区的方法。我们的方法识别群落的方式使得每个群落的组成基因可能通过它们的功能联系起来。该方法处理一个大型文章摘要数据库，综合来自许多来源的信息，以阐明已被证明相互作用的基因组。它是生物医学研究人员使用的一种工具，可以快速搜索已知的相互作用，并提供对未探索的联系的见解。分区过程被设计为特别适用于大型网络，其中单个节点可能在多个社区中发挥作用。在本文中，我们解释了该方法的细节，特别是分区过程。我们还将该方法应用于产生与结肠癌相关的基因群落，并表明结果是有用的。
We present a method for creating a network of gene co-occurrences from the literature and partitioning it into communities of related genes. The way in which our method identifies communities makes it likely that the component genes of each community will be related by their function. The method processes a large database of article abstracts, synthesizing information from many sources to shed light on groups of genes that have been shown to interact. It is a tool to be used by researchers in the biomedical sciences to swiftly search for known interactions and to provide insight into unexplored connections. The partitioning procedure is designed to be particularly applicable to large networks in which individual nodes may play a role in more than one community. In this paper, we explain the details of the method, in particular the partitioning process. We also apply the method to produce communities of genes related to colon cancer and show that the results are useful.