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Nucleic Acids Research Advance Access originally published online on September 10, 2008
Nucleic Acids Research 2009 37(Database issue):D567-D570; doi:10.1093/nar/gkn583
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Nucleic Acids Research, 2009, Vol. 37, Database issue D567-D570
© 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.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

FLYSNPdb: a high-density SNP database of Drosophila melanogaster

Doris Chen1,2,*, Jürg Berger1, Michaela Fellner1,2 and Takashi Suzuki1

1Research Institute of Molecular Pathology (IMP), Dr Bohr-Gasse 7 and 2Institute of Molecular Biotechnology (IMBA), Dr Bohr-Gasse 3, A-1030 Vienna, Austria

*To whom correspondence should be addressed. Tel: +43 1 79044 4513; Email: doris.chen{at}univie.ac.at

Received August 15, 2008. Accepted August 28, 2008.

FLYSNPdb provides high-resolution single nucleotide polymorphism (SNP) data of Drosophila melanogaster. The database currently contains 27 367 polymorphisms, including >3700 indels (insertions/deletions), covering all major chromsomes. These SNPs are clustered into 2238 markers, which are evenly distributed with an average density of one marker every 50.3 kb or 6.6 genes. SNPs were identified automatically, filtered for high quality and partly manually curated. The database provides detailed information on the SNP data including molecular and cytological locations (genome Releases 3–5), alleles of up to five commonly used laboratory stocks, flanking sequences, SNP marker amplification primers, quality scores and genotyping assays. Data specific for a certain region, particular stocks or a certain genome assembly version are easily retrievable through the interface of a publicly accessible website (http://flysnp.imp.ac.at/flysnpdb.php).

Present addresses: Doris Chen, Department of Biochemistry, University of Vienna, Max F. Perutz Laboratories (MFPL), c/o IMBA, Dr Bohr-Gasse 3, A-1030 Vienna, Austria

Jürg Berger, Roche Austria GmbH, Engelhorngasse 3, A-1210 Vienna, Austria

Michaela Fellner, Vienna Drosophila Research Center (VDRC), Dr Bohr-Gasse 3, A-1030 Vienna, Austria

Takashi Suzuki, Max Planck Institute of Neurobiology, Am Klopferspitz 18, D-82152 Martinsried, Germany


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