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Bioinformatics Advance Access originally published online on October 20, 2005
Bioinformatics 2006 22(1):115-116; doi:10.1093/bioinformatics/bti728
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
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OLIGOFAKTORY: a visual tool for interactive oligonucleotide design

Colas Schretter * and Michel C. Milinkovitch

Unit of Evolutionary Genetics (UEG), Institute of Molecular Biology and Medicine (IBMM), Free University of Brussels (ULB) Gosselies, Belgium

*To whom correspondence should be addressed.

Summary: The OLIGOFAKTORY is a set of tools for the design, on an arbitrary number of target sequences, of high-quality long oligonucleotide for micro-array, of primer pair for PCR, of siRNA and more. The user-centered interface exists in two flavours: a web portal and a standalone software for Mac OS X Tiger. A unified presentation of results provides overviews with distribution charts and relative location bar graphs, as well as detailed features for each oligonucleotide. Input and output files conform to a common XML interchange file format to allow both automatic generation of input data, archiving, and post-processing of results. The design pipeline can use BLAST servers to evaluate specificity of selected oligonucleotides.

Availability: The web portal http://ueg.ulb.ac.be/oligofaktory/; the software for Macintosh: http://www.oligofaktory.org/

Contact: cschrett{at}ulb.ac.be

Received on July 8, 2005; revised on October 17, 2005; accepted on October 17, 2005

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