Send to

Choose Destination
See comment in PubMed Commons below
Curr Protoc Bioinformatics. 2006 Mar;Chapter 12:Unit 12.1. doi: 10.1002/0471250953.bi1201s13.

An overview of RNA structure prediction and applications to RNA gene prediction and RNAi design.

Author information

Washington University School of Medicine, St. Louis, Missouri, USA.


This unit briefly describes the two fundamentally different methods for predicting RNA structures. The first is to find that structure with the minimum free energy of folding, as predicted by various thermodynamic parameters related to base-pair stacking, loop lengths, and other features. If one has only a single sequence, this thermodynamic approach is the best available method. The second fundamental approach to RNA structure prediction is to use multiple, homologous sequences for which one can infer a common structure, and then try and predict a structure common to all of the sequences. Such an approach is referred to as a comparative method or phylogenetic method of RNA structure prediction.

[Indexed for MEDLINE]
PubMed Commons home

PubMed Commons

How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Wiley
    Loading ...
    Support Center