title: Effective Encoding for DNA Sequence Visualization Based on Nucleotide's Ring Structure.
abstract: Effective representation of DNA sequences is one of the important tasks in the study of genome sequences. In this paper, we propose a graphical representation of DNA sequences based on nucleotide ring structure. In the proposed representation, we convert DNA sequences into 16 dinucleotides on the surface of the hexagon so that it can preserve nucleotide's chemical property and positional information. Our approach can provide capability of efficient similarity comparison between DNA sequences and also high comparison accuracy. Furthermore, our approach satisfies uniqueness and no degeneracy of DNA sequences. In the experimental study, we use phylogeny analysis for evolutionary relationship among different species. Extensive performance study shows that the proposed method can give better performance than existing methods in comparison with the degree of similarity.
authors.affiliation: Department of Computer Engineering, Kyung Hee University, Gyeonggi-do, Yongin-si, Republic of Korea.
authors.forename: A T M Golam
authors.initials: AT
authors.lastname: Bari
authors.forename: Mst Rokeya
authors.initials: MR
authors.lastname: Reaz
authors.forename: A K M Tauhidul
authors.initials: AK
authors.lastname: Islam
authors.forename: Ho-Jin
authors.initials: HJ
authors.lastname: Choi
authors.forename: Byeong-Soo
authors.initials: BS
authors.lastname: Jeong
keywords: DNA curve; hexagon; ring structure; β-globin gene
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