Insignia protocols

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Insignia specifications

Information


Unique identifier OMICS_14277
Name Insignia
Interface Web user interface
Restrictions to use None
Input data Any set of target and background genomes selected from the online database.
Output data A list of signatures perfectly conserved by all target genomes and absent from all of the background genomes.
Programming languages C++, Javascript, Perl, PHP
Computer skills Basic
Stability No
Maintained No

Documentation


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This tool is not available anymore.

Publication for Insignia

Insignia in pipeline

2012
PMCID: 3359998
PMID: 22655073
DOI: 10.1371/journal.pone.0037836

[…] c program, available upon request, that allowed the determination of the overlaps between the genome coordinates of cupid's corresponding nucleotide sequences and the coordinates of both sets of insignia's outputted signatures. the confirmatory in silico specificity tests were performed using the blast (blastn) utility and ten regions were selected for experimental validation ()., several […]


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Insignia in publications

 (3)
PMCID: 4515919
PMID: 26279626
DOI: 10.4137/MBI.S29736

[…] quantified using nanodrop (thermo scientific) and stored at −20°c prior to pcr amplification., the overall computational workflow has been previously described. briefly, the open-internet-accessible insignia program, (http://insignia.cbcb.umd.edu) was selected to produce dna signatures for e. faecalis, e. faecium, s. aureus, c. perfringens, c. difficile, and c. tetani. currently, […]

PMCID: 3422334
PMID: 22912836
DOI: 10.1371/journal.pone.0043246

[…] in the study. all positive pcr products obtained in the testing using the pcr array were confirmed for validity by sequencing in the facility for biotechnology resources of fda/cber., we used the “insignia” program (http://insignia.cbcb.umd.edu/query.php), a bioinformatics on line tool developed in the center for bioinformatics and computational biology, university of maryland to choose […]

PMCID: 3359998
PMID: 22655073
DOI: 10.1371/journal.pone.0037836

[…] and to perform meaningful in silico specificity tests, which make possible to focus the laborious and time-consuming “wet lab” validation assays in pre-selected and optimized markers . cupid and insignia are online-based resourceful bioinformatics applications made for this purpose with user-friendly interfaces and freely available. cupid is a database of taxa-specific proteins calculated […]


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Insignia institution(s)
Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA; Department of Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, WA, DC, USA
Insignia funding source(s)
This work was supported by US Department of Homeland Security Science and Technology Directorate under award NBCH2070002 in part.

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