Krüger Jan, Rehmsmeier Marc
Center for Biotechnology, CeBiTec, Universität Bielefeld, 33594 Bielefeld, Germany.
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W451-4. doi: 10.1093/nar/gkl243.
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.
在阐明微小RNA调控网络时，了解潜在靶标至关重要。在现有的靶标预测方法中，RNAhybrid [M. Rehmsmeier, P. Steffen, M. Höchsmann和R. Giegerich（2004年），《RNA》，第10卷，第1507 - 1517页] 在提供灵活的在线预测方面独具特色。最近，又添加了一些有用的功能，其中包括在种子区域禁止G:U碱基对的可能性，以及种子匹配加速功能，该功能可使程序加速8倍。此外，该程序现在可以用作网络服务，供用户实现的程序进行远程调用。我们通过预测秀丽隐杆线虫miR - 241在lin - 39的3' - 非翻译区的非典型靶位点来展示RNAhybrid的灵活性。可通过http://bibiserv.techfak.uni-bielefeld.de/rnahybrid获取RNAhybrid。
