GO-Elite: a flexible solution for pathway and ontology over-representation
GO-Elite: a flexible solution for pathway and ontology over-representation
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DOI：
10.1093/bioinformatics/bts366
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发表时间：
2012-08-15
期刊：
影响因子：
5.8
通讯作者：
Salomonis, Nathan
中科院分区：
文献类型：
--
作者：
Zambon, Alexander C.;Gaj, Stan;Salomonis, Nathan
我们介绍了GO-Elite，一个灵活而强大的途径分析工具，用于广泛的物种，标识符（ID），途径，本体和基因集。除了基因本体（GO）之外，GOElite还允许用户对任何结构化本体注释、途径数据库或生物ID（例如：G.基因、蛋白质或代谢物）。GO- Elite利用生物本体的结构化本质来报告最小的非重叠术语集。结果可以在WikiPathways或网络上可视化。为60多个物种和50个ID系统提供内置支持，涵盖基因、疾病和表型本体、多途径数据库、生物标志物以及转录因子和微小RNA靶标。GO-精英是作为一个网页界面，GenMAPP-CS插件和作为一个跨平台的应用程序.
We introduce GO-Elite, a flexible and powerful pathway analysis tool for a wide array of species, identifiers (IDs), pathways, ontologies and gene sets. In addition to the Gene Ontology (GO), GOElite allows the user to perform over- representation analysis on any structured ontology annotations, pathway database or biological IDs (e. g. gene, protein or metabolite). GO- Elite exploits the structured nature of biological ontologies to report a minimal set of nonoverlapping terms. The results can be visualized on WikiPathways or as networks. Built- in support is provided for over 60 species and 50 ID systems, covering gene, disease and phenotype ontologies, multiple pathway databases, biomarkers, and transcription factor and microRNA targets. GO- Elite is available as a web interface, GenMAPP- CS plugin and as a cross- platform application.