Bernhart Stephan H, Hofacker Ivo L, Stadler Peter F
Institut für Theoretische Chemie, Universität Wien, Währingerstr. 17, A-1090 Wien, Austria.
Bioinformatics. 2006 Mar 1;22(5):614-5. doi: 10.1093/bioinformatics/btk014. Epub 2005 Dec 20.
The genome-wide search for non-coding RNAs requires efficient methods to compute and compare local secondary structures. Since the exact boundaries of such putative transcripts are typically unknown, arbitrary sequence windows have to be used in practice. Here we present a method for robustly computing the probabilities of local base pairs from long RNA sequences independent of the exact positions of the sequence window.
The program RNAplfold is part of the Vienna RNA Package and can be downloaded from http://www.tbi.univie.ac.at/RNA/.
全基因组范围内寻找非编码RNA需要高效的方法来计算和比较局部二级结构。由于此类假定转录本的确切边界通常未知，实际中不得不使用任意的序列窗口。在此，我们提出一种方法，可从长RNA序列中稳健地计算局部碱基对的概率，而与序列窗口的确切位置无关。
程序RNAplfold是维也纳RNA软件包的一部分，可从http://www.tbi.univie.ac.at/RNA/下载。
