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Nucleic Acids Research Advance Access originally published online on April 25, 2008
Nucleic Acids Research 2008 36(Web Server issue):W163-W169; doi:10.1093/nar/gkn198
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Nucleic Acids Research, 2008, Vol. 36, No. suppl_2 W163-W169
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

IDT SciTools: a suite for analysis and design of nucleic acid oligomers

Richard Owczarzy1,*, Andrey V. Tataurov1, Yihe Wu2, Jeffrey A. Manthey2, Kyle A. McQuisten2, Hakeem G. Almabrazi2, Kent F. Pedersen2, Yuan Lin2, Justin Garretson2, Neil O. McEntaggart3, Chris A. Sailor3, Robert B. Dawson3 and Andrew S. Peek2

1Department of Molecular Genetics and Biophysics, 2Department of Bioinformatics and 3Department of Information Services, Integrated DNA Technologies, Inc., 1710 Commercial Park, Coralville, IA 52241, USA

*To whom correspondence should be addressed. Tel: +1 319 626 8459; Fax: +1 319 626 9621; Email: science{at}owczarzy.net

Received January 31, 2008. Revised March 27, 2008. Accepted April 3, 2008.

DNA and RNA oligomers are used in a myriad of diverse biological and biochemical experiments. These oligonucleotides are designed to have unique biophysical, chemical and hybridization properties. We have created an integrated set of bioinformatics tools that predict the properties of native and chemically modified nucleic acids and assist in their design. Researchers can select PCR primers, probes and antisense oligonucleotides, find the most suitable sequences for RNA interference, calculate stable secondary structures, and evaluate the potential for two sequences to interact. The latest, most accurate thermodynamic algorithms and models are implemented. This free software is available at http://www.idtdna.com/SciTools/SciTools.aspx.

Present address: Yuan Lin, J. Craig Venter Institute, 9704 Medical Center Dr., Rockville, MD 20850, USA

Justin Garretson, Pioneer Hi-Bred International, Inc., 5640 Kings Row, Johnston, IA 50131, USA


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