Detection of short exons in DNA sequences using complex wavelet transform of structural features

Author

Provaznik, Ivo ; Kubicova, V. ; Skutkova, H. ; Nedved, J. ; Tkacz, E. ; Babula, P. ; Kizek, R.

Author_Institution

Dept. of Biomed. Eng., Brno Univ. of Technol., Brno, Czech Republic

fYear

2012

fDate

2-4 Dec. 2012

Firstpage

107

Lastpage

110

Abstract

The paper presents a spectral method used for detection of short coding regions in genes. The complex representation of four nucleotides involving three basic chemical and structural properties is used for conversion of a symbolic sequence into a genomic signal. Another genomic signal is generated from dinucleotide propeller twist. Filtered complex combination of both signals is transformed by a complex continuous wavelet transform. Its results were analysed both in amplitude and phase parts. Experimental results obtained by this method are shown to be comparable or better than recently published methods based on the selected set of genes.

Keywords

DNA; biochemistry; bioinformatics; genetics; genomics; molecular biophysics; molecular configurations; spectral analysis; wavelet transforms; DNA sequences; amplitude parts; chemical property; complex continuous wavelet transform; complex representation; dinucleotide propeller twist; filtered complex combination; genes; genomic signal; nucleotides; phase parts; short coding region detection; short exon detection; spectral method; structural features; structural property; symbolic sequence conversion; DNA sequence analysis; DNA structure; Exon detection; wavelet analysis;

fLanguage

English

Publisher

ieee

Conference_Titel

Genomic Signal Processing and Statistics, (GENSIPS), 2012 IEEE International Workshop on

Conference_Location

Washington, DC

ISSN

2150-3001

Print_ISBN

978-1-4673-5234-5

Type

conf

DOI

10.1109/GENSIPS.2012.6507740

Filename

6507740