Center for Non-coding RNA in Technology and Health, Division of Genetics and Bioinformatics, IBHV, University of Copenhagen, Grønnegårdsvej 3, DK-1870 Frederiksberg, Denmark.
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W107-11. doi: 10.1093/nar/gkr248. Epub 2011 May 23.
The function of non-coding RNA genes largely depends on their secondary structure and the interaction with other molecules. Thus, an accurate prediction of secondary structure and RNA-RNA interaction is essential for the understanding of biological roles and pathways associated with a specific RNA gene. We present web servers to analyze multiple RNA sequences for common RNA structure and for RNA interaction sites. The web servers are based on the recent PET (Probabilistic Evolutionary and Thermodynamic) models PETfold and PETcofold, but add user friendly features ranging from a graphical layer to interactive usage of the predictors. Additionally, the web servers provide direct access to annotated RNA alignments, such as the Rfam 10.0 database and multiple alignments of 16 vertebrate genomes with human. The web servers are freely available at: http://rth.dk/resources/petfold/
非编码 RNA 基因的功能在很大程度上取决于它们的二级结构和与其他分子的相互作用。因此，准确预测二级结构和 RNA-RNA 相互作用对于理解与特定 RNA 基因相关的生物学作用和途径至关重要。我们提供了两个网络服务器，用于分析多个 RNA 序列的常见 RNA 结构和 RNA 相互作用位点。这些网络服务器基于最新的 PET（概率进化和热力学）模型 PETfold 和 PETcofold，但添加了用户友好的功能，范围从图形层到预测器的交互式使用。此外，网络服务器还提供了对已注释 RNA 比对的直接访问，例如 Rfam 10.0 数据库以及 16 种脊椎动物基因组与人类的多重比对。网络服务器可免费访问：http://rth.dk/resources/petfold/
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