A model to optimize DNA sequences based on particle swarm optimization
In DNA based computation and DNA nanotechnology, the design of good DNA sequences has turned out to be an elementary problem and one of the most practical and important research topics. Although the design of DNA sequences is dependent on the protocol of biological experiments, it is highly required...
| Main Authors: | , , , |
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| Format: | Conference or Workshop Item |
| Published: |
2008
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| Online Access: | http://eprints.utm.my/9969/ |
| _version_ | 1848891986305613824 |
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| author | Khalid, N. K. Kurniawan, T. B. Ibrahim, Z. Yusof, Z. M. |
| author_facet | Khalid, N. K. Kurniawan, T. B. Ibrahim, Z. Yusof, Z. M. |
| author_sort | Khalid, N. K. |
| building | UTeM Institutional Repository |
| collection | Online Access |
| description | In DNA based computation and DNA nanotechnology, the design of good DNA sequences has turned out to be an elementary problem and one of the most practical and important research topics. Although the design of DNA sequences is dependent on the protocol of biological experiments, it is highly required to establish a method for the systematic design of DNA sequences, which could be applied to various design constraints. Therefore, much work has focused on designing the DNA sequences to avoid incorrect or undesirable DNA computations. In this paper, a model for Particle Swarm Optimization (PSO) implementation is proposed to solve the DNA sequence design problem. PSO simulates a commonly observed social behavior where members of a group tend to follow the leader of the group. To demonstrate the correctness of the proposed model, a basic PSO with 10 particles is implemented to minimize an objective of DNA sequence design, which is the H-measure |
| first_indexed | 2025-11-15T21:06:41Z |
| format | Conference or Workshop Item |
| id | utm-9969 |
| institution | Universiti Teknologi Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-15T21:06:41Z |
| publishDate | 2008 |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | utm-99692020-02-29T13:40:39Z http://eprints.utm.my/9969/ A model to optimize DNA sequences based on particle swarm optimization Khalid, N. K. Kurniawan, T. B. Ibrahim, Z. Yusof, Z. M. TK Electrical engineering. Electronics Nuclear engineering In DNA based computation and DNA nanotechnology, the design of good DNA sequences has turned out to be an elementary problem and one of the most practical and important research topics. Although the design of DNA sequences is dependent on the protocol of biological experiments, it is highly required to establish a method for the systematic design of DNA sequences, which could be applied to various design constraints. Therefore, much work has focused on designing the DNA sequences to avoid incorrect or undesirable DNA computations. In this paper, a model for Particle Swarm Optimization (PSO) implementation is proposed to solve the DNA sequence design problem. PSO simulates a commonly observed social behavior where members of a group tend to follow the leader of the group. To demonstrate the correctness of the proposed model, a basic PSO with 10 particles is implemented to minimize an objective of DNA sequence design, which is the H-measure 2008 Conference or Workshop Item PeerReviewed Khalid, N. K. and Kurniawan, T. B. and Ibrahim, Z. and Yusof, Z. M. (2008) A model to optimize DNA sequences based on particle swarm optimization. In: 2008 Second Asia International Conference on Modelling, 13-15 May 2008. http://doi.ieeecomputersociety.org/10.1109/AMS.2008.25 |
| spellingShingle | TK Electrical engineering. Electronics Nuclear engineering Khalid, N. K. Kurniawan, T. B. Ibrahim, Z. Yusof, Z. M. A model to optimize DNA sequences based on particle swarm optimization |
| title | A model to optimize DNA sequences based on particle swarm optimization |
| title_full | A model to optimize DNA sequences based on particle swarm optimization |
| title_fullStr | A model to optimize DNA sequences based on particle swarm optimization |
| title_full_unstemmed | A model to optimize DNA sequences based on particle swarm optimization |
| title_short | A model to optimize DNA sequences based on particle swarm optimization |
| title_sort | model to optimize dna sequences based on particle swarm optimization |
| topic | TK Electrical engineering. Electronics Nuclear engineering |
| url | http://eprints.utm.my/9969/ http://eprints.utm.my/9969/ |