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A Numerical Representation Method for a DNA Sequence Using Gray Code Method

  • M. Raman Kumar
  • Vaegae Naveen KumarEmail author
Conference paper
Part of the Advances in Intelligent Systems and Computing book series (AISC, volume 1057)

Abstract

The exceptional speed in increase of genomic data at public databases requires advanced computational tools to perform quick gene analysis. The tools can be devised with the aid of genomic signal processing. The pivotal task in genomic signal processing is numerical mapping. In numerical mapping, the string of nucleotides is transformed into discrete numerical sequence by assigning optimum mathematical descriptor to a nucleotide. The descriptor must be compatible with the further stages of genomic application in order to achieve high efficiency. In this work, a simple numerical mapping method is proposed in which the optimum descriptor value is obtained by applying Gray code concept. The proposed method is evaluated on benchmark databases HRM195 and ASP67 for an identification of protein coding region application. The proposed method exhibits improved exon prediction efficiency in terms of performance accuracy and equal error rate when compared with similar methods.

Keywords

Exon identification Genomic signal processing Gene encoding Gray code Numerical mapping Three-base periodicity 

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Copyright information

© Springer Nature Singapore Pte Ltd. 2020

Authors and Affiliations

  1. 1.School of Electronics EngineeringVellore Institute of TechnologyVelloreIndia

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