©1996-2019 All Rights Reserved. Online Journal of Bioinformatics. You may not
store these pages in any form except for your own personal use. All other usage
or distribution is illegal under international copyright treaties. Permission to use any of these pages in any other way besides the
before mentioned must be gained in writing from the publisher. This
article is exclusively copyrighted in its entirety to OJB publications. This
article may be copied once but may not be reproduced or re-transmitted without
the express permission of the editors.
OJB©
Online Journal of Bioinformatics©
Volume 5:49-58, 2004.
1School of
Agriculture and Food Systems, University of Melbourne, Sneydes
Road, Werribee, VIC 3030 Australia. 2School of Computer Science and Information Technology, RMIT
University, VIC 3001,
Australia.
Zou Y., Reliability
of RNA secondary Structure prediction with XNAfold,
Onl J Bioinform.,
5: 49-58, 2004. Assessment of prediction reliability of RNA secondary structures remains
challenging. In this paper, a direct comparison of RNA secondary structures
predicted by free energy minimisation with those derived from experimentally
determined three dimensional structures was carried out to assess the
prediction accuracy of XNAfold
(http://xnafold.tripod.com). Based on analysis of 133 different RNA sequences
from the Protein Data Bank, the accuracy of secondary structure prediction was
84%. The minimum free energy structure predicted was identical to the
experimentally determined structure in 58% of cases. Additionally, the
experimentally determined structures matched one of the sub-optimal structures
computed in 26% of cases.
Key words: RNA secondary structure, XNAfold, prediction reliability
FULL-TEXT (SUBSCRIBE OR PURCHASE TITLE $25USD)