使用RNAalifold进行RNA共有结构预测。

RNA consensus structure prediction with RNAalifold.

作者信息

Hofacker Ivo L

机构信息

Department of Theoretical Chemistry, University of Vienna.

出版信息

Methods Mol Biol. 2007;395:527-44. doi: 10.1007/978-1-59745-514-5_33.

DOI:10.1007/978-1-59745-514-5_33

PMID:17993696

Abstract

The secondary structure of most functional RNA molecules is strongly conserved in evolution. Prediction of these conserved structures is therefore of particular interest when studying noncoding RNAs. Moreover, structure predictions on the basis of several sequences produce much more accurate results than energy directed folding of single sequences. The RNAalifold program predicts the consensus structure for a set of aligned sequences taking into account both thermodynamic stability and sequence covariation. In this contribution, we provide a tutorial on how to install and use RNAalifold, as well as a guide on how to interpret the results.

摘要

大多数功能性RNA分子的二级结构在进化过程中高度保守。因此，在研究非编码RNA时，预测这些保守结构格外引人关注。此外，基于多个序列进行的结构预测比单序列的能量导向折叠产生的结果要准确得多。RNAalifold程序在考虑热力学稳定性和序列共变的基础上，预测一组比对序列的共有结构。在本论文中，我们提供了关于如何安装和使用RNAalifold的教程，以及如何解读结果的指南。