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Bioinformatics Advance Access published online on November 10, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn573
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© 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.

Selection of OLigonucleotides (SOL) for whole genome microarrays with semi-automatic update.

G. Golfier 1, S. Lemoine 2, A. van Miltenberg 1, A. Bendjoudi 1, J. Rossier 1, S. Le Crom 2,3 and M-C. Potier 1,*

1Neurobiologie et Diversité Cellulaire, CNRS UMR7637, Ecole Supérieure de Physique et de Chimie Industrielles, 10 rue Vauquelin, 75005 Paris, France
2IFR36, Plate-forme Transcriptome, École Normale Supérieure, 46 rue d'Ulm, 75230 Paris cedex05, France
3INSERM U784, École Normale Supérieure, 46 rue d'Ulm 75230 Paris cedex05, France

*To whom correspondence should be addressed. Dr. Marie-Claude. Potier, E-mail: marie-claude.potier{at}espci.fr


  Abstract

Summary: Oligonucleotide microarray probes are designed to match specific transcripts present in databases that are regularly updated. As a consequence probes should be checked every new database release. We thus developed an informatics tool allowing the semi-automatic update of probe collections of long oligonucleotides and applied it to the mouse RefSeq database.

Availability: http://www.bio.espci.fr/sol/

Contact: marie-claude.potier{at}espci.fr

Supplementary information: http://www.bio.espci.fr/sol/

Associate Editor: Dr. Trey Ideker

Received on September 3, 2008; revised on October 15, 2008; accepted on October 30, 2008

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