RNA Secondary Structure Analysis Using RNAstructure

Curr Protoc Bioinformatics. 2014 Jun 17;46:12.6.1-12.6.25. doi: 10.1002/0471250953.bi1206s46.


RNAstructure is a user-friendly program for the prediction and analysis of RNA secondary structure. It is available as a Web server, as a program with a graphical user interface, or as a set of command-line tools. The programs are available for Microsoft Windows, Macintosh OS X, or Linux. This unit provides protocols for RNA secondary structure prediction (using the Web server or the graphical user interface) and prediction of high-affinity oligonucleotide biding sites to a structured RNA target (using the graphical user interface).

Keywords: RNA secondary structure prediction; free energy minimization; thermodynamics.

Publication types

  • Research Support, N.I.H., Extramural

MeSH terms

  • Internet
  • Nucleic Acid Conformation*
  • RNA / chemistry*
  • Software*
  • User-Computer Interface


  • RNA