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PUNS: transcriptomic- and genomic- in silico PCR for enhanced primer design

2004; Oxford University Press; Volume: 20; Issue: 15 Linguagem: Inglês

10.1093/bioinformatics/bth257

1367-4811

Paul C. Boutros, Allan B. Okey,

Genomics and Phylogenetic Studies

Abstract Summary: We developed a CGI/Perl-based web server to perform in silico polymerase chain reaction (PCR) on PCR primer sequences. The PUNS (Primer-UniGene Selectivity) server simulates PCR reactions by running BLASTN analysis on user-entered primer pairs against both the transcriptome and the genome to assess primer specificity. PUNS is particularly suited for the identification of highly selective primers for quantitative microarray validation. Availability: Both system access and source-code are freely available at http://okeylabimac.med.utoronto.ca/PUNS