Electric LAMP: Virtual Loop-Mediated Isothermal AMPlification | Zendy

Nelson R. Salinas | Zendy; Damon P. Little | Zendy

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Electric LAMP: Virtual Loop-Mediated Isothermal AMPlification

Author(s) -

Nelson R. Salinas,

Damon P. Little

Publication year - 2012

Publication title -

isrn bioinformatics

Language(s) - English

Resource type - Journals

eISSN - 2090-7346

pISSN - 2090-7338

DOI - 10.5402/2012/696758

Subject(s) - loop mediated isothermal amplification , isothermal process , loop (graph theory) , materials science , physics , optoelectronics , thermodynamics , biology , mathematics , genetics , dna , combinatorics

We present eLAMP, a PERL script, with Tk graphical interface, that electronically simulates Loop-mediated AMPlification (LAMP) allowing users to efficiently test putative LAMP primers on a set of target sequences. eLAMP can match primers to templates using either exact (via builtin PERL regular expressions) or approximate matching (via the tre-agrep library). Performance was tested on 40 whole genome sequences of Staphylococcus . eLAMP correctly predicted that the two tested primer sets would amplify from S. aureus genomes and not amplify from other Staphylococcus species. Open source (GNU Public License) PERL scripts are available for download from the New York Botanical Garden's website.

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