使用RNAz预测结构非编码RNA

Prediction of structural noncoding RNAs with RNAz.

作者信息

Washietl Stefan

机构信息

Department of Theoretical Chemistry, University of Vienna.

出版信息

Methods Mol Biol. 2007;395:503-26. doi: 10.1007/978-1-59745-514-5_32.

DOI:10.1007/978-1-59745-514-5_32

PMID:17993695

Abstract

The function of many noncoding RNAs (ncRNAs) depend on a defined secondary structure. RNAz detects evolutionarily conserved and thermodynamically stable RNA secondary structures in multiple sequence alignments and, thus, efficiently filters for candidate ncRNAs. In this chapter, we provide a step-by-step guide on how to use RNAz. Starting with basic concepts, we also cover advanced analysis techniques and, as an example for a large scale application, demonstrate a complete screen of the Saccharomyces cerevisiae genome.

摘要

许多非编码RNA（ncRNA）的功能依赖于特定的二级结构。RNAz可在多序列比对中检测进化上保守且热力学稳定的RNA二级结构，从而有效地筛选出ncRNA候选序列。在本章中，我们提供了一份关于如何使用RNAz的详细指南。从基本概念入手，我们还涵盖了高级分析技术，并作为大规模应用的一个例子，展示了对酿酒酵母基因组的完整筛选。