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DNA Sequence Assembly using Particle Swarm Optimization

by Ravi Shankar Verma, Vikas Singh, Sanjay Kumar
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International Journal of Computer Applications
Foundation of Computer Science (FCS), NY, USA
Volume 28 - Number 10
Year of Publication: 2011
Authors: Ravi Shankar Verma, Vikas Singh, Sanjay Kumar
10.5120/3425-4777

Ravi Shankar Verma, Vikas Singh, Sanjay Kumar . DNA Sequence Assembly using Particle Swarm Optimization. International Journal of Computer Applications. 28, 10 ( August 2011), 33-38. DOI=10.5120/3425-4777

@article{ 10.5120/3425-4777,
author = { Ravi Shankar Verma, Vikas Singh, Sanjay Kumar },
title = { DNA Sequence Assembly using Particle Swarm Optimization },
journal = { International Journal of Computer Applications },
issue_date = { August 2011 },
volume = { 28 },
number = { 10 },
month = { August },
year = { 2011 },
issn = { 0975-8887 },
pages = { 33-38 },
numpages = {9},
url = { https://ijcaonline.org/archives/volume28/number10/3425-4777/ },
doi = { 10.5120/3425-4777 },
publisher = {Foundation of Computer Science (FCS), NY, USA},
address = {New York, USA}
}
%0 Journal Article
%1 2024-02-06T20:14:27.563389+05:30
%A Ravi Shankar Verma
%A Vikas Singh
%A Sanjay Kumar
%T DNA Sequence Assembly using Particle Swarm Optimization
%J International Journal of Computer Applications
%@ 0975-8887
%V 28
%N 10
%P 33-38
%D 2011
%I Foundation of Computer Science (FCS), NY, USA
Abstract

DNA sequence assembly problem is a very complex problem of computational biology. DNA sequence assembly is a NP hard problem there is no single solution available for this kind of problems. DNA sequence assembly refers to aligning and merging fragments of a much longer DNA sequence in order to reconstruct the original sequence. In this paper a solution is proposed for DNA sequence assembly problem using Particle Swarm Optimization (PSO) with Shortest Position Value (SPV) rule. DNA sequence assembly problem is a discrete optimization problem, so there is need of discrete optimization algorithm to solve it. In this paper continuous version of PSO is used with SPV rule to solve the DNA sequence assembly problem. SPV rule transforms continuous version of PSO to discrete version. Proposed methodology is named as DSAPSO. To check the efficiency of proposed methodology the results of DSAPSO is compared with the results of genetic algorithm (GA).

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Index Terms

Computer Science
Information Sciences

Keywords

DNA sequence assembly Particle Swarm Optimization PSO Swarm Intelligence SPV Bioinformatics

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