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Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W451-4.

RNAhybrid: microRNA target prediction easy, fast and flexible.

Author information

1
Center for Biotechnology, CeBiTec, Universität Bielefeld, 33594 Bielefeld, Germany.

Abstract

In the elucidation of the microRNA regulatory network, knowledge of potential targets is of highest importance. Among existing target prediction methods, RNAhybrid [M. Rehmsmeier, P. Steffen, M. Höchsmann and R. Giegerich (2004) RNA, 10, 1507-1517] is unique in offering a flexible online prediction. Recently, some useful features have been added, among these the possibility to disallow G:U base pairs in the seed region, and a seed-match speed-up, which accelerates the program by a factor of 8. In addition, the program can now be used as a webservice for remote calls from user-implemented programs. We demonstrate RNAhybrid's flexibility with the prediction of a non-canonical target site for Caenorhabditis elegans miR-241 in the 3'-untranslated region of lin-39. RNAhybrid is available at http://bibiserv.techfak.uni-bielefeld.de/rnahybrid.

PMID:
16845047
PMCID:
PMC1538877
DOI:
10.1093/nar/gkl243
[Indexed for MEDLINE]
Free PMC Article

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