Multi objective particle swarm optimization approach for DNA sequence design

Finding reliable and efficient DNA sequences is one of the most important tasks for successful DNA related experiments such as DNA computing. In DNA computing, perfect hybridization between a sequence and its base-pairing complement is important to retrieve the information stored in the sequences an...

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Main Author:	Mahabadi, Ali Arab Khazael
Format:	Thesis
Published:	2010
Subjects:	TK Electrical engineering Electronics Nuclear engineering
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spelling	my-utm-ep.268642017-08-14T01:02:53Z Multi objective particle swarm optimization approach for DNA sequence design 2010 Mahabadi, Ali Arab Khazael TK Electrical engineering. Electronics Nuclear engineering Finding reliable and efficient DNA sequences is one of the most important tasks for successful DNA related experiments such as DNA computing. In DNA computing, perfect hybridization between a sequence and its base-pairing complement is important to retrieve the information stored in the sequences and to operate the computation processes. For this reason, the desired set of good DNA sequences, which have a stable duplex with their complement, are highly required. Various kinds of methods and strategies have been proposed to date to obtain good DNA sequences designed sequences using overlapping subsequences to enforce uniqueness. In this study a multi objective PSO is implemented to design DNA sequences based on Pareto optimality non-dominated solutions. The ability of the proposed approach is to detect the true Pareto optimal solutions and capture the true Pareto optimal front. By this method four objective functions, namely Hmeasure and similarity, hairpin, continuity were minimized simultaneously. The results were obtained from multi objective particle swarm optimization based on non dominated solutions are unique sequences which cannot be hybridized with other sequences in the set. 2010 Thesis http://eprints.utm.my/id/eprint/26864/ http://libraryopac.utm.my/client/en_AU/main/search/detailnonmodal/ent:$002f$002fSD_ILS$002f0$002fSD_ILS:770545/one?qu=Multi+objective+particle+swarm+optimization+approach+for+DNA+sequence+design masters Universiti Teknologi Malaysia, Faculty of Electrical Engineering Faculty of Electrical Engineering
institution	Universiti Teknologi Malaysia
collection	UTM Institutional Repository
topic	TK Electrical engineering Electronics Nuclear engineering
spellingShingle	TK Electrical engineering Electronics Nuclear engineering Mahabadi, Ali Arab Khazael Multi objective particle swarm optimization approach for DNA sequence design
description	Finding reliable and efficient DNA sequences is one of the most important tasks for successful DNA related experiments such as DNA computing. In DNA computing, perfect hybridization between a sequence and its base-pairing complement is important to retrieve the information stored in the sequences and to operate the computation processes. For this reason, the desired set of good DNA sequences, which have a stable duplex with their complement, are highly required. Various kinds of methods and strategies have been proposed to date to obtain good DNA sequences designed sequences using overlapping subsequences to enforce uniqueness. In this study a multi objective PSO is implemented to design DNA sequences based on Pareto optimality non-dominated solutions. The ability of the proposed approach is to detect the true Pareto optimal solutions and capture the true Pareto optimal front. By this method four objective functions, namely Hmeasure and similarity, hairpin, continuity were minimized simultaneously. The results were obtained from multi objective particle swarm optimization based on non dominated solutions are unique sequences which cannot be hybridized with other sequences in the set.
format	Thesis
qualification_level	Master's degree
author	Mahabadi, Ali Arab Khazael
author_facet	Mahabadi, Ali Arab Khazael
author_sort	Mahabadi, Ali Arab Khazael
title	Multi objective particle swarm optimization approach for DNA sequence design
title_short	Multi objective particle swarm optimization approach for DNA sequence design
title_full	Multi objective particle swarm optimization approach for DNA sequence design
title_fullStr	Multi objective particle swarm optimization approach for DNA sequence design
title_full_unstemmed	Multi objective particle swarm optimization approach for DNA sequence design
title_sort	multi objective particle swarm optimization approach for dna sequence design
granting_institution	Universiti Teknologi Malaysia, Faculty of Electrical Engineering
granting_department	Faculty of Electrical Engineering
publishDate	2010
_version_	1747815529336274944

Multi objective particle swarm optimization approach for DNA sequence design

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