A binary vector evaluated particle swarm optimization based method for DNA sequence design problem

Zuwairie Ibrahim,Noor Khafifah Khalid,Kian Sheng Lim,Salinda Buyamin,Jameel Abdulla Ahmed Mukred

Research and Development（2011）

引用 6|浏览9

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摘要

Deoxyribonucleic Acid (DNA) has certain unique properties such as self-assembly and self-complementary in hybridization, which are important in many DNA-based technologies. Hybridization of DNA can be controlled by properly designing DNA sequences. In this study, sequences are designed such that each sequence uniquely hybridizes to its complementary sequence, but not to any other sequences. Vector evaluated particle swarm optimization (VEPSO) is employed to solve the DNA sequence design problem by minimizing four objective functions, namely similarity, Hmeasure, continuity, and hairpin, subjected to two constraints: melting temperature and GCcontent. Non-dominated solutions can be produced, which are better than other research works where only a set of sequences is generated.

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关键词

dna,molecular biophysics,particle swarm optimisation,self-assembly,dna sequence design,vepso,binary vector evaluated particle swarm optimization,continuity,deoxyribonucleic acid,hairpin,hybridization,self assembly,self complementary,similarity,binary particle swarm optimization,multi objective optimization,vector evaluated pso,dna sequence,particle swarm optimization,dna computing,genetic algorithm,vectors,genetic algorithms,algorithm design and analysis,objective function,optimization

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