Identification of Protein-Coding Regions in DNA Sequences Using A Time-Frequency Filtering Approach  

作　　者：Sitanshu Sekhar Sahu Ganapati Panda 

机构地区：[1]Department of Electronics and Communication Engineering, National Institute of Technology, Rourkela 769008, India [2]School of Electrical Sciences, Indian Institute of Technology, Bhubaneswar 751013, India

出　　处：《Genomics, Proteomics & Bioinformatics》2011年第1期45-55,共11页基因组蛋白质组与生物信息学报（英文版）

摘　　要：Accurate identification of protein-coding regions （exons） in DNA sequences has been a challenging task in bioinformatics. Particularly the coding regions have a 3-base periodicity, which forms the basis of all exon identifica- tion methods. Many signal processing tools and techniques have been applied successfully for the identification task but still improvement in this direction is needed. In this paper, we have introduced a new promising model-independent time-frequency filtering technique based on S-transform for accurate identification of the coding regions. The S-transform is a powerful linear time-frequency representation useful for filtering in time-frequency domain. The potential of the proposed technique has been assessed through simulation study and the results obtained have been compared with the existing methods using standard datasets. The comparative study demonstrates that the proposed method outperforms its counterparts in identifying the coding regions.Accurate identification of protein-coding regions （exons） in DNA sequences has been a challenging task in bioinformatics. Particularly the coding regions have a 3-base periodicity, which forms the basis of all exon identifica- tion methods. Many signal processing tools and techniques have been applied successfully for the identification task but still improvement in this direction is needed. In this paper, we have introduced a new promising model-independent time-frequency filtering technique based on S-transform for accurate identification of the coding regions. The S-transform is a powerful linear time-frequency representation useful for filtering in time-frequency domain. The potential of the proposed technique has been assessed through simulation study and the results obtained have been compared with the existing methods using standard datasets. The comparative study demonstrates that the proposed method outperforms its counterparts in identifying the coding regions.

关 键 词：protein-coding region 3-base periodicity time-frequency filtering S-TRANSFORM 

分 类 号：Q75[生物学—分子生物学]