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Nucleic Acids Research Advance Access originally published online on May 5, 2009
Nucleic Acids Research 2009 37(Web Server issue):W229-W234; doi:10.1093/nar/gkp286
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Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W229-W234
© 2009 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.

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Insignia: a DNA signature search web server for diagnostic assay development

Adam M. Phillippy1,*, Kunmi Ayanbule1, Nathan J. Edwards1,2 and Steven L. Salzberg1

1Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD and 2Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, Washington, DC, USA

*To whom correspondence should be addressed. Tel: +1 301 405 3234; Fax: +1 301 314 1341; Email: amp{at}umiacs.umd.edu

Received January 29, 2009. Revised April 3, 2009. Accepted April 14, 2009.

Insignia is a web application for the rapid identification of unique DNA signatures. DNA signatures are distinct nucleotide sequences that can be used to detect the presence of certain organisms and to distinguish those organisms from all other species. These signatures can be used as the basis for diagnostic assays to detect and genotype microbes in both environmental and clinical samples. Insignia identifies an exhaustive set of accurate DNA signatures for any set of target genomes, and screens these signatures against a comprehensive background that includes all sequenced bacteria and viruses, the human genome, and many other animals and plants. Identified signatures may be browsed by genomic location or proximal genes, filtered by composition, viewed in a genome browser or directly downloaded. Integrated PCR primer design is also provided for each signature. The Insignia website (http://insignia.cbcb.umd.edu) is free and open to all users and there is no login requirement. In addition, the source code for the computational pipeline is freely available.


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