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Bioinformatics. 2015 Sep 1;31(17):2891-3. doi: 10.1093/bioinformatics/btv221. Epub 2015 Apr 24.

iFoldRNA v2: folding RNA with constraints.

Author information

1
Department of Biochemistry & Biophysics, University of North Carolina, Chapel Hill, NC, 27599, USA.

Abstract

A key to understanding RNA function is to uncover its complex 3D structure. Experimental methods used for determining RNA 3D structures are technologically challenging and laborious, which makes the development of computational prediction methods of substantial interest. Previously, we developed the iFoldRNA server that allows accurate prediction of short (<50 nt) tertiary RNA structures starting from primary sequences. Here, we present a new version of the iFoldRNA server that permits the prediction of tertiary structure of RNAs as long as a few hundred nucleotides. This substantial increase in the server capacity is achieved by utilization of experimental information such as base-pairing and hydroxyl-radical probing. We demonstrate a significant benefit provided by integration of experimental data and computational methods.

AVAILABILITY AND IMPLEMENTATION:

http://ifoldrna.dokhlab.org

CONTACT:

dokh@unc.eu.

PMID:
25910700
PMCID:
PMC4547609
DOI:
10.1093/bioinformatics/btv221
[Indexed for MEDLINE]
Free PMC Article

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