JEPETTO：一个基于交互网络的基因集富集和拓扑分析 Cytoscape 插件。
JEPETTO: a Cytoscape plugin for gene set enrichment and topological analysis based on interaction networks.
机构信息
Institute of Systems & Synthetic Biology, University of Evry Val-d'Essonne, 91000 Evry, France and School of Computing Science, Newcastle University, Newcastle NE1 7RU, UK.
出版信息
Bioinformatics. 2014 Apr 1;30(7):1029-30. doi: 10.1093/bioinformatics/btt732. Epub 2013 Dec 19.
SUMMARY
JEPETTO (Java Enrichment of Pathways Extended To TOpology) is a Cytoscape 3.x plugin performing integrative human gene set analysis. It identifies functional associations between genes and known cellular pathways, and processes using protein interaction networks and topological analysis. The plugin integrates information from three separate web servers we published previously, specializing in enrichment analysis, pathways expansion and topological matching. This integration substantially simplifies the analysis of user gene sets and the interpretation of the results. We demonstrate the utility of the JEPETTO plugin on a set of misregulated genes associated with Alzheimer's disease.
AVAILABILITY
Source code and binaries are freely available for download at http://apps.cytoscape.org/apps/jepetto, implemented in Java and multi-platform. Installable directly via Cytoscape plugin manager. Released under the GNU General Public Licence.
摘要
JEPETTO（Java 扩展途径拓扑分析）是 Cytoscape 3.x 的一个插件，用于进行综合人类基因集分析。它确定基因与已知细胞途径之间的功能关联，并使用蛋白质相互作用网络和拓扑分析进行处理。该插件集成了我们之前发布的三个独立的 Web 服务器的信息，这些服务器专门用于富集分析、途径扩展和拓扑匹配。这种集成大大简化了用户基因集的分析和结果的解释。我们在一组与阿尔茨海默病相关的失调基因上演示了 JEPETTO 插件的实用性。
可用性
源代码和二进制文件可在 http://apps.cytoscape.org/apps/jepetto 上免费下载，它是用 Java 编写的，支持多平台。可通过 Cytoscape 插件管理器直接安装。根据 GNU 通用公共许可证发布。
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