Mathews Lab RNAstructure Download

RNAstructure, Version 4.6

updated 5/6/2008

RNAstructure is a Windows program for the prediction and analysis of RNA secondary structure. It works with Windows ME, Windows NT 4, Windows 2000, Windows XP, and Windows Vista. (Note that with Windows Vista, you will need to install the older Windows help reader by following the instructions provided by Microsoft to use the online help. We are working to change this.) Version 4.6 includes a secondary structure prediction algorithm, a sequence editor, an integrated drawing tool, the OligoWalk program, OligoScreen, Dynalign, and a partition function calculator. RNAstructure uses the most current thermodynamic parameters from the Turner lab.

New for version 4.6 are stochastic sampling of secondary structures and the ability to constrain the prediction of the lowest free energy structure with SHAPE data.

We ask you to register before downloading so that we may occasionally notify you of significant updates. RNAstructure is free of charge.

Register to Download

Extract the contents of RNAstructure.zip and install RNAstructure by double-clicking setup.exe. An online help file is included with the installation.

The most recent reference for the algorithm and the thermodynamic data is:

Mathews, D.H.; Disney, M.D.; Childs, J.L.; Schroeder, S.J.; Zuker, M.; and Turner, D.H., "Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure," 2004. Proceedings of the National Academy of Sciences, USA. 101. 7287-7292.

Online RNA secondary structure prediction is available at Michael Zuker's Homepage.

RNAstructure was made possible by the support of Isis Pharmaceuticals and NIH.

RNAstructure, Version 4.6 updated 5/6/2008 RNAstructure is a Windows program for the prediction and analysis of RNA secondary structure. It works with Windows ME, Windows NT 4, Windows 2000, Windows XP, and Windows Vista. (Note that with Windows Vista, you will need to install the older Windows help reader by following the instructions provided by Microsoft to use the online help. We are working to change this.) Version 4.6 includes a secondary structure prediction algorithm, a sequence editor, an integrated drawing tool, the OligoWalk program, OligoScreen, Dynalign, and a partition function calculator. RNAstructure uses the most current thermodynamic parameters from the Turner lab. New for version 4.6 are stochastic sampling of secondary structures and the ability to constrain the prediction of the lowest free energy structure with SHAPE data. We ask you to register before downloading so that we may occasionally notify you of significant updates. RNAstructure is free of charge. Register to Download Extract the contents of RNAstructure.zip and install RNAstructure by double-clicking setup.exe. An online help file is included with the installation. The most recent reference for the algorithm and the thermodynamic data is: Mathews, D.H.; Disney, M.D.; Childs, J.L.; Schroeder, S.J.; Zuker, M.; and Turner, D.H., "Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure," 2004. Proceedings of the National Academy of Sciences, USA. 101. 7287-7292. Online RNA secondary structure prediction is available at Michael Zuker's Homepage. RNAstructure was made possible by the support of Isis Pharmaceuticals and NIH.