Proceedings of the Korean Society for Bioinformatics Conference (한국생물정보학회:학술대회논문집)
- 2005.09a
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- Pages.147-150
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- 2005
A Genome-Specific PCR Primer Design Program for Open Reading Frames
- Keong, Kwoh-Chee (School of Computer Engineering Nanyang Technological University) ;
- Lim, Kok-Wui (Genome Institute of Singapore)
- Published : 2005.09.22
Abstract
Proper PCR primer design determines the success or failure of Polymerase Chain Reaction (PCR) reactions. In this project, we develop GENE-PRIMER, a genomes specific PCR primer design program that is amenable to a genome-wide scale. To achieve this, we incorporated various parameters with biological significance into our program, namely, primer length, melting temperature of primers Tm, guanine/cytosine (GC) content of primer, homopolymeric runs in primer and self-hybridization tendency of primer. In addition, BLAST algorithm is utilized for the purpose of primer specificity check. In summary, selected primers adhered to both physico-chemical criteria and also display specificity to intended binding site in the genome.