Format

Send to

Choose Destination
Bioinformatics. 2011 Jul 1;27(13):i129-36. doi: 10.1093/bioinformatics/btr220.

A folding algorithm for extended RNA secondary structures.

Author information

1
Institute for Theoretical Chemistry, University of Vienna, A-1090 Vienna, Austria. choener@tbi.inivie.ac.at

Abstract

MOTIVATION:

RNA secondary structure contains many non-canonical base pairs of different pair families. Successful prediction of these structural features leads to improved secondary structures with applications in tertiary structure prediction and simultaneous folding and alignment.

RESULTS:

We present a theoretical model capturing both RNA pair families and extended secondary structure motifs with shared nucleotides using 2-diagrams. We accompany this model with a number of programs for parameter optimization and structure prediction.

AVAILABILITY:

All sources (optimization routines, RNA folding, RNA evaluation, extended secondary structure visualization) are published under the GPLv3 and available at www.tbi.univie.ac.at/software/rnawolf/.

PMID:
21685061
PMCID:
PMC3117358
DOI:
10.1093/bioinformatics/btr220
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center