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

Adam M. Phillippy; Kunmi Ayanbule; Nathan J. Edwards; Steven L. Salzberg

doi:10.1093/nar/gkp286

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

Adam M. Phillippy, Kunmi Ayanbule, Nathan J. Edwards, Steven L. Salzberg

Research output: Contribution to journal › Article › peer-review

30 Scopus citations

Abstract

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.

Original language	English (US)
Pages (from-to)	W229-W234
Journal	Nucleic acids research
Volume	37
Issue number	SUPPL. 2
DOIs	https://doi.org/10.1093/nar/gkp286
State	Published - 2009
Externally published	Yes

ASJC Scopus subject areas

Genetics

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10.1093/nar/gkp286

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title = "Insignia: A DNA signature search web server for diagnostic assay development",

abstract = "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.",

author = "Phillippy, {Adam M.} and Kunmi Ayanbule and Edwards, {Nathan J.} and Salzberg, {Steven L.}",

note = "Funding Information: US Department of Homeland Security Science and Technology Directorate under award NBCH2070002 in part. Funding for open access charge: US Department of Homeland Security Science and Technology Directorate under award NBCH2070002.",

year = "2009",

doi = "10.1093/nar/gkp286",

language = "English (US)",

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AU - Phillippy, Adam M.

AU - Ayanbule, Kunmi

AU - Edwards, Nathan J.

AU - Salzberg, Steven L.

N1 - Funding Information: US Department of Homeland Security Science and Technology Directorate under award NBCH2070002 in part. Funding for open access charge: US Department of Homeland Security Science and Technology Directorate under award NBCH2070002.

PY - 2009

Y1 - 2009

N2 - 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.

AB - 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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Insignia: A DNA signature search web server for diagnostic assay development

Abstract

ASJC Scopus subject areas

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