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A modified algorithm for species specific motif discovery


Syed Abdullah, Sharifah Lailee and Harun, Hazaruddin and Taib, Mohd Nasir (2010) A modified algorithm for species specific motif discovery. In: 2010 International Conference on Science and Social Research (CSSR), 5-7 Dec. 2010, Kuala Lumpur, Malaysia.

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Abstract

Motif discovery can be used to categorize unknown DNA sequences into their corresponding families. For this study, PSO was modified for discovering motif.The modified Linear-PSO is chosen even though it is a slower because linear search is not a choice but a necessary criteria for identifying motif of pig (Sus Scrofa).Pig motif identification is a critical for halal authentication.The modified Linear-PSO algorithm used linear number for population initializing and next position updating.For each cycle, only a particle called ‘target motif’ was selected and compared with other DNA sequences for fitness calculation. Motif discovered can be used as a standard motif for species identification. Experimental results show that the modified algorithm is able to identify motifs as expected. This study showed that a slower algorithm is still needed and has value based on how critical the problem is.

Item Type: Conference or Workshop Item (Paper)
Uncontrolled Keywords: Motif Discovery; Species Specific; PSO
Subjects: Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Divisions: School of Computing
Depositing User: Mr. Hazaruddin Harun
Date Deposited: 18 Jan 2017 03:20
Last Modified: 18 Jan 2017 03:20
URI: http://repo.uum.edu.my/id/eprint/20640

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