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  • Research Article
  • Open Access

Short Exon Detection in DNA Sequences Based on Multifeature Spectral Analysis

EURASIP Journal on Advances in Signal Processing20102011:780794

https://doi.org/10.1155/2011/780794

  • Received: 30 June 2010
  • Accepted: 31 October 2010
  • Published:

Abstract

This paper presents a new technique for the detection of short exons in DNA sequences. In this method, we analyze four DNA structural properties, which include the DNA bending stiffness, disrupt energy, free energy, and propeller twist, using the autoregressive (AR) model. The linear prediction matrices for the four features are combined to find the same set of linear prediction coefficients, from which we estimate the spectrum of the DNA sequence and detect exons based on the 1/3 frequency component. To overcome the nonstationarity of DNA sequences, we use moving windows of different sizes in the AR model. Experiments on the human genome show that our multi-feature based method is superior in performance to existing exon detection algorithms.

Keywords

  • Free Energy
  • Human Genome
  • Spectral Analysis
  • Quantum Information
  • Detection Algorithm

Publisher note

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Authors’ Affiliations

(1)
Department of Electronic Engineering, City University of Hong Kong, Kowloon, Hong Kong

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