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A Scoring Method for the Clustering of Nucleic Acid Sequences

by Barileé Barisi Baridam
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International Journal of Computer Applications
Foundation of Computer Science (FCS), NY, USA
Volume 44 - Number 2
Year of Publication: 2012
Authors: Barileé Barisi Baridam
10.5120/6235-8331

Barileé Barisi Baridam . A Scoring Method for the Clustering of Nucleic Acid Sequences. International Journal of Computer Applications. 44, 2 ( April 2012), 14-22. DOI=10.5120/6235-8331

@article{ 10.5120/6235-8331,
author = { Barileé Barisi Baridam },
title = { A Scoring Method for the Clustering of Nucleic Acid Sequences },
journal = { International Journal of Computer Applications },
issue_date = { April 2012 },
volume = { 44 },
number = { 2 },
month = { April },
year = { 2012 },
issn = { 0975-8887 },
pages = { 14-22 },
numpages = {9},
url = { https://ijcaonline.org/archives/volume44/number2/6235-8331/ },
doi = { 10.5120/6235-8331 },
publisher = {Foundation of Computer Science (FCS), NY, USA},
address = {New York, USA}
}
%0 Journal Article
%1 2024-02-06T20:34:30.597783+05:30
%A Barileé Barisi Baridam
%T A Scoring Method for the Clustering of Nucleic Acid Sequences
%J International Journal of Computer Applications
%@ 0975-8887
%V 44
%N 2
%P 14-22
%D 2012
%I Foundation of Computer Science (FCS), NY, USA
Abstract

The clustering of biological sequence data is a significant task for biologists. The reason is that sequence clustering assists molecular biologists to group sequences based on the ancestral traits or hereditary information that are hidden in sequences. To accomplish the similarity detection and clustering tasks, several clustering algorithms, similarity and distance measures have been proposed. Most of these algorithms and similarity measures manifest some form of inefficiency in the detection of sequences based on their structural similarity as was observed in the course of this study. In this paper, the codon-based scoring method (COBASM) is developed to handle this inefficiency. COBASM employs the codon principle, by the application of triplet nucleotides, in the clustering of nucleic acid sequences. The results obtained show that COBASM is able to produce compact and well- separated clusters based on the structural similarity of sequences.

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Index Terms

Computer Science
Information Sciences

Keywords

Codon Scoring Method Similarity Measure Clustering

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