Autoregressive Modeling and Feature Analysis of DNA Sequences

A parametric signal processing approach for DNA sequence analysis based on autoregressive (AR) modeling is presented. AR model residual errors and AR model parameters are used as features. The AR residual error analysis indicate a high specificity of coding DNA sequences, while AR feature-based analysis helps distinguish between coding and noncoding DNA sequences. An AR model-based string searching algorithm is also proposed. The effect of several types of numerical mapping rules in th proposed method is demonstrated.

Affiliations

1. Department of Electrical Engineering, Arizona State University, Tempe, AZ, 85287-5706, USA

   • Niranjan Chakravarthy
   • , A. Spanias
   •  & K. Tsakalis

2. Harrington Department of Bioengineering, Arizona State University, Tempe, AZ, 85287-9709, USA

   • L. D. Iasemidis

Corresponding author

Correspondence to Niranjan Chakravarthy.

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