DocumentCode :
3071953
Title :
Evaluation of DNA mapping schemes for exon detection
Author :
Sharma, S.D. ; Shakya, K. ; Sharma, S.N.
Author_Institution :
Dept. of E&I, Inst. of Technol. & Manage., Gwalior, India
fYear :
2011
fDate :
18-19 March 2011
Firstpage :
71
Lastpage :
74
Abstract :
Identification of protein coding regions (exons) in eukaryotic genomic sequences is an active area of research at present. Mapping of symbolic genomic sequences to numeric sequences is the first step required for processing them using digital signal processing (DSP) tools. For DFT-based methods paired numeric and frequency of nucleotide are reported as the best mapping schemes. In this work performance of a wavelet-based method for exon detection is evaluated with different symbolic-to-numeric representations. Optimum performance is obtained by using Z-Curve for DNA mapping. For performance evaluation Receiver Operating Characteristics (ROC) curves are used and the study is conducted on HMR195 data set. This work in general highlights that exon prediction accuracy and computational complexity of the DSP-based algorithms is dependent on the scheme used to map DNA nucleotides into numerical sequences, and so the optimum performance of any algorithm can only be attained with a particular mapping scheme.
Keywords :
DNA; biology computing; discrete Fourier transforms; genomics; proteins; signal processing; wavelet transforms; DFT-based method; DNA mapping scheme; Z-curve; computational complexity; digital signal processing; eukaryotic genomic sequence; exon detection; exon identification; exon prediction accuracy; nucleotide; numeric sequence; protein coding region identification; receiver operating characteristics curves; symbolic genomic sequence; symbolic-to-numeric representation; wavelet-based method; Accuracy; Bioinformatics; DNA; Encoding; Genomics; Proteins; Signal processing; DNA; Discrete Fourier Transform; Gabor Wavelet; Protein-coding regions;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Computer, Communication and Electrical Technology (ICCCET), 2011 International Conference on
Conference_Location :
Tamilnadu
Print_ISBN :
978-1-4244-9393-7
Type :
conf
DOI :
10.1109/ICCCET.2011.5762441
Filename :
5762441
Link To Document :
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