CORNA: testing gene lists for regulation by microRNAs.
CORNA: testing gene lists for regulation by microRNAs.
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DOI：
10.1093/bioinformatics/btp059
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发表时间：
2009-03-15
期刊：
影响因子：
--
通讯作者：
Watson M
中科院分区：
文献类型：
--
作者：
Wu X;Watson M
动机：随着后基因组学技术在世界各地的实验室中越来越多地用于检查各种各样的生物系统，科学家们经常会看到他们必须理解的基因列表。一个一直具有挑战性的问题是在这些基因列表中定义共调控基因。近年来，microRNA已成为调节几种细胞过程的机制。在这篇文章中，我们报告了基因列表和microRNA靶数据如何整合，以测试基因列表和microRNA之间的显著关联。结果如下：我们讨论CORNA，一个用R编写并在GNU GPL下发布的软件包，它允许用户使用三个独立的统计测试之一来测试基因列表中的显著microRNA-靶标关联，将microRNA靶标与功能注释联系起来，并可视化与这些数据相关的定量数据。可用性：CORNA作为R包可从http://corna.sf.net获得联系人：xikun. bbsrc.ac.uk
Motivation: With the increasing use of post-genomics techniques to examine a wide variety of biological systems in laboratories throughout the world, scientists are often presented with lists of genes that they must make sense of. A consistently challenging problem is that of defining co-regulated genes within those gene lists. In recent years, microRNAs have emerged as a mechanism for regulating several cellular processes. In this article, we report on how gene lists and microRNA targets data may be integrated to test for significant associations between gene lists and microRNAs. Results: We discuss CORNA, a package written in R and released under the GNU GPL, which allows users to test gene lists for significant microRNA–target associations using one of three separate statistical tests, to link microRNA targets to functional annotation and to visualize quantitative data associated with those data. Availability: CORNA is available as an R package from http://corna.sf.net Contact: xikun.wu@bbsrc.ac.uk
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