Primer design for multiplex PCR using a genetic algorithm

Feng Mao Lin, Hsien Da Huang, His Yuan Huang, Jorng Tzong Horng

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

2 Scopus citations

Abstract

Multiplex Polymerase Chain Reaction (PCR) experiments are used for amplifying several segments of the target DNA simultaneously and thereby to conserve template DNA, reduce the experimental time, and minimize the experimental expense. The success of the experiment is dependent on primer design. However, this can be a dreary task as there are many constrains such as melting temperatures, primer length, GC content and complementarity that need to be optimized to obtain a good PCR product. Motivated by the lack of primer design tools for multiplex PCR genotypic assay, we propose a multiplex PCR primer design tool using a genetic algorithm, which is a stochastic approach based on the concept of biological evolution, biological genetics and genetic operations on chromosomes, to find an optimal selection of primer pairs for multiplex PCR experiments. The presented experimental results indicate that the proposed algorithm is capable of finding a series of primer pairs that obeies the design properties in the same tube.

Original languageEnglish
Title of host publicationGECCO 2005 - Genetic and Evolutionary Computation Conference
PublisherAssociation for Computing Machinery (ACM)
Pages475-476
Number of pages2
ISBN (Print)1595930108, 9781595930101
DOIs
StatePublished - 2005
EventGECCO 2005 - Genetic and Evolutionary Computation Conference - Washington, D.C., United States
Duration: 25 Jun 200529 Jun 2005

Publication series

NameGECCO 2005 - Genetic and Evolutionary Computation Conference

Conference

ConferenceGECCO 2005 - Genetic and Evolutionary Computation Conference
Country/TerritoryUnited States
CityWashington, D.C.
Period25/06/0529/06/05

Keywords

  • Genetic algorithm
  • Multiplex PCR
  • Primer

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