A new 3-D graphical representation of DNA sequences and their numerical characterization

Author

Song, Jie

Author_Institution

Coll. of Math. & Inf. Sci., Shaoguan Univ., Shaoguan, China

fYear

2009

fDate

25-28 July 2009

Firstpage

1035

Lastpage

1039

Abstract

A new 3-D graphical representation of DNA sequences is proposed according to chemical structures of bases and homomorphic map, which reflects the distribution of bases with different chemical structure, preserves information on sequential adjacency of bases, and avoids loss of information accompanying alternative graphical representations in which the curve standing for DNA overlaps and intersects itself. Based on this representation a numerical characterization approach is presented by the leading eigenvalues of the matrices associated with the DNA sequences. The application of the approach is illustrated on the coding sequences of the first exon of human beta-globin gene.

Keywords

DNA; biochemistry; biology computing; curve fitting; data visualisation; matrix algebra; 3D graphical representation; DNA sequence graphical visualization; DNA sequence matrix; chemical structure; exon coding sequence; homomorphic map; human beta-globin gene; numerical characterization approach; Chemical analysis; Computer science; Computer science education; DNA; Educational institutions; Eigenvalues and eigenfunctions; Humans; Mathematics; Sequences; Visualization; DNA sequence; characteristic curve; eigenvalue; graphical representation; numerical characterization;

fLanguage

English

Publisher

ieee

Conference_Titel

Computer Science & Education, 2009. ICCSE '09. 4th International Conference on

Conference_Location

Nanning

Print_ISBN

978-1-4244-3520-3

Electronic_ISBN

978-1-4244-3521-0

Type

conf

DOI

10.1109/ICCSE.2009.5228476

Filename

5228476