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Bioinformatics Advance Access published online on January 22, 2004
Bioinformatics, doi:10.1093/bioinformatics/btg437
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received June 24, 2003
Accepted August 15, 2003

Applications note

Gene specific siRNA selector

Natasha Levenkova 1, Qingjuan Gu 1, John J. Rux 1*

1 The Wistar Institute, 3601 Spruce Street, Philadelphia, Pennsylvania 19104, USA

* To whom correspondence should be addressed. E-mail: rux{at}wistar.upenn.edu.


  Abstract

Summary: Small interfering RNA (siRNA) is used in functional genomics applications to decrease the expression of a target gene, which may yield a biological effect that suggests a function for the target gene. The siRNA design tool scans a target gene for candidate siRNA sequences that satisfy user-adjustable rules. Selected candidates are then screened to identify those siRNA sequences that are specific to the gene of interest.

Availability: A web tool is freely available for academic or commercial use at http://bioinfo.wistar.upenn.edu/siRNA/siRNA.htm. Source code is available upon request.

Supplementary information: See http://bioinfo.wistar.upenn.edu/siRNA/siRNA.htm for additional documentation and help pages.


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