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A Three-State Model for DNA Protein-Coding Regions

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5 Author(s)
A. J. Pinho ; Signal Process. Lab., Aveiro Univ. ; A. J. R. Neves ; V. Afreixo ; C. A. C. Bastos
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It is known that the protein-coding regions of DNA are usually characterized by a three-base periodicity. In this paper, we exploit this property, studying a DNA model based on three deterministic states, where each state implements a finite-context model. The experimental results obtained confirm the appropriateness of the proposed approach, showing compression gains in relation to the single finite-context model counterpart. Additionally, and potentially more interesting than the compression gain on its own, is the observation that the entropy associated to each of the three base positions of a codon differs and that this variation is not the same among the organisms analyzed

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IEEE Transactions on Biomedical Engineering  (Volume:53 ,  Issue: 11 )