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

Paul C. Boutros | Zendy; Allan B. Okey | Zendy

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

Author(s) -

Paul C. Boutros,

Allan B. Okey

Publication year - 2004

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bth257

Subject(s) - primer (cosmetics) , in silico , unigene , computational biology , in silico pcr , polymerase chain reaction , dna microarray , biology , genetics , computer science , genome , multiplex polymerase chain reaction , gene , expressed sequence tag , chemistry , gene expression , organic chemistry

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.

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