RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA
RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA
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DOI：
10.1261/rna.2844911
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发表时间：
2011-11-01
期刊：
影响因子：
4.5
通讯作者：
Gaspin, Christine
中科院分区：
文献类型：
--
作者：
Cros, Marie-Josee;de Monte, Antoine;Gaspin, Christine
非编码RNA基因的注释仍然是基因组测序项目的主要瓶颈。今天发布的大多数基因组序列仍然带有trna和rnas作为唯一的注释RNA元件，忽略了其他数百个RNA家族。我们开发了一个专门用于非编码RNA （ncRNA）预测、注释和分析的网络环境，并允许用户以集成和灵活的方式运行各种工具。该环境提供了互补的ncRNA基因发现器和一套用于比较、可视化、编辑和导出候选ncRNA的工具。预测可以根据大量的特征进行过滤。基于这个环境，我们创建了一个位于http://RNAspace.org的公共网站。它接受高达5mb的基因组序列，这允许对完整的细菌基因组或小的真核生物染色体进行在线注释。该项目作为Source Forge项目托管（http://rnaspace.sourceforge.net/）。
The annotation of noncoding RNA genes remains a major bottleneck in genome sequencing projects. Most genome sequences released today still come with sets of tRNAs and rRNAs as the only annotated RNA elements, ignoring hundreds of other RNA families. We have developed a web environment that is dedicated to noncoding RNA (ncRNA) prediction, annotation, and analysis and allows users to run a variety of tools in an integrated and flexible manner. This environment offers complementary ncRNA gene finders and a set of tools for the comparison, visualization, editing, and export of ncRNA candidates. Predictions can be filtered according to a large set of characteristics. Based on this environment, we created a public website located at http://RNAspace.org. It accepts genomic sequences up to 5 Mb, which permits for an online annotation of a complete bacterial genome or a small eukaryotic chromosome. The project is hosted as a Source Forge project (http://rnaspace.sourceforge.net/).