Introduction

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/).

Publications

  1. RNAspace.org: An integrated environment for the prediction, annotation, and analysis of ncRNA.
    Cite this
    Cros MJ, de Monte A, Mariette J, Bardou P, Grenier-Boley B, Gautheret D, Touzet H, Gaspin C, 2011-11-01 - RNA (New York, N.Y.)

Credits

  1. Marie-Josée Cros
    Developer

  2. Antoine de Monte
    Developer

  3. Jérôme Mariette
    Developer

  4. Philippe Bardou
    Developer

  5. Benjamin Grenier-Boley
    Developer

  6. Daniel Gautheret
    Developer

  7. Hélène Touzet
    Developer

  8. Christine Gaspin
    Investigator

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Summary
AccessionBT006587
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted ByChristine Gaspin