A toolkit for analysing large-scale plant small RNA datasets

Bioinformatics. 2008 Oct 1;24(19):2252-3. doi: 10.1093/bioinformatics/btn428. Epub 2008 Aug 19.

Abstract

Recent developments in high-throughput sequencing technologies have generated considerable demand for tools to analyse large datasets of small RNA sequences. Here, we describe a suite of web-based tools for processing plant small RNA datasets. Our tools can be used to identify micro RNAs and their targets, compare expression levels in sRNA loci, and find putative trans-acting siRNA loci.

Availability: The tools are freely available for use at http://srna-tools.cmp.uea.ac.uk.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computational Biology / methods
  • Databases, Nucleic Acid
  • MicroRNAs / genetics*
  • MicroRNAs / metabolism
  • RNA, Plant / genetics*
  • RNA, Plant / metabolism
  • Software*

Substances

  • MicroRNAs
  • RNA, Plant