寻找两个同源RNA共有的结构。
Finding the common structure shared by two homologous RNAs.
作者信息
Perriquet O, Touzet H, Dauchet M
机构信息
LIFL, UPRESA CNRS 8022, Bâtiment M3, Université des Sciences et Technologies de Lille, 59655 Villeneuve d'Ascq Cedex, France.
出版信息
Bioinformatics. 2003 Jan;19(1):108-16. doi: 10.1093/bioinformatics/19.1.108.
MOTIVATION
CARNAC is a new method for pairwise folding of RNA sequences. The program takes into account local similarity, stem energy, and covariations to produce the common folding. It can handle all RNA types, and has also been adapted to align a new homologous sequence along a reference structured sequence.
RESULTS
Using different data sets, we show that CARNAC provides a good partial prediction for a wide range of sequences (16S ssu rRNA, RNase P RNA, viruses) with only two sequences. In presence of a whole family of sequences, we also show that CARNAC can be used to detect whether the sequences actually share the same structure.
AVAILABILITY
CARNAC is available at the URLhttp://www.lifl.fr/~perrique/rna/.
动机
CARNAC是一种用于RNA序列成对折叠的新方法。该程序考虑局部相似性、茎干能量和共变以生成共同折叠。它可以处理所有RNA类型，并且还被改编用于沿着参考结构化序列比对新的同源序列。
结果
使用不同的数据集，我们表明CARNAC仅用两条序列就能为广泛的序列（16S小亚基核糖体RNA、核糖核酸酶P RNA、病毒）提供良好的部分预测。在存在整个序列家族的情况下，我们还表明CARNAC可用于检测这些序列是否实际共享相同的结构。
可用性
CARNAC可从网址http://www.lifl.fr/~perrique/rna/获得。
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