Current Bioinformatics

Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University


A New Approach for Identifying Protein-Coding Regions by Combining Chirp z and Wavelet Transform.

Author(s): Suping Deng, Liyun Yuan, Kanyan Feng, Guohui Ding, Yixue Li.


Identifying protein coding regions of DNA sequences is an important step in gene annotation. It is well-known that the protein coding regions of most genomic sequences exhibit a period-3 pattern due to non-uniform distribution of codons. In order to identify protein coding regions more efficiently, a new identification approach was proposed by combining chirp z transform and wavelet transform based on period-3 property. The identification method was applied to 17 DNA sequences of different organisms and achieved a high sensitivity (>80%) in all sequences. Demanding no prior training sets, the approach is fast and could potentially be used widely and conveniently.

Keywords: Chirp z transform, fourier transform, identification, period-3 pattern, protein-coding regions, wavelet transform.

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Article Details

Year: 2013
Page: [557 - 563]
Pages: 7
DOI: 10.2174/1574893611308050006
Price: $58