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Bioinformatics (Oxford, England) DOI:10.1093/bioinformatics/btq624

PriSM: a primer selection and matching tool for amplification and sequencing of viral genomes.

Publication TypeJournal Article
Year of Publication2011
AuthorsYu, Q, Ryan, EM, Allen, TM, Birren, BW, Henn, MR, Lennon, NJ
JournalBioinformatics (Oxford, England)
Volume27
Issue2
Pages266-7
Date Published2011/01/15
ISSN1367-4803
Abstract

SUMMARY: PriSM is a set of algorithms designed to select and match degenerate primer pairs for the amplification of viral genomes. The design of panels of hundreds of primer pairs takes just hours using this program, compared with days using a manual approach. PriSM allows for rapid in silico optimization of primers for downstream applications such as sequencing. As a validation, PriSM was used to create an amplification primer panel for human immunodeficiency virus (HIV) Clade B. AVAILABILITY: The program is freely available for use at: www.broadinstitute.org/perl/seq/specialprojects/primerDesign.cgi.

URLhttp://bioinformatics.oxfordjournals.org/cgi/pmidlookup?view=long&pmid=21068001
DOI10.1093/bioinformatics/btq624
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/21068001?dopt=Abstract