Gene-primer a PCR primer design program

Gene-primer a PCR primer design program

Proper PCR primer design determines the success or failure of Polymerase Chain Reaction (PCR) reactions. In this project, we develop GENE-PRIMER, a genome- specific PCR primer design program that is amenable to a genome-wide scale. To achieve this, we incorporated various parameters with biological...

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Bibliographic Details
Main Author: Kok, Wui Lim.
Other Authors: Kwoh, Chee Keong
Format: Theses and Dissertations
Published: 2008
Subjects:
DRNTU::Engineering::Computer science and engineering::Computer applications::Life and medical sciences
Online Access:http://hdl.handle.net/10356/2674
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Institution: Nanyang Technological University
Description
Summary:Proper PCR primer design determines the success or failure of Polymerase Chain Reaction (PCR) reactions. In this project, we develop GENE-PRIMER, a genome- 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 ,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.

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