title: A three-state model for DNA protein-coding regions.
abstract: 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.
authors.affiliation: Signal Processing Laboratory, DETI/IEETA, University of Aveiro, 3810-193 Aveiro, Portugal. ap@det.ua.pt
authors.forename: Armando J
authors.initials: AJ
authors.lastname: Pinho
authors.forename: António J R
authors.initials: AJ
authors.lastname: Neves
authors.forename: Vera
authors.initials: V
authors.lastname: Afreixo
authors.forename: Carlos A C
authors.initials: CA
authors.lastname: Bastos
authors.forename: Paulo J S G
authors.initials: PJ
authors.lastname: Ferreira
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D003198:Computer Simulation; D004247:DNA / Q000235:genetics*; D008957:Models, Genetic; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D011506:Proteins / Q000235:genetics*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*
chemical_list: D011506:Proteins; D004247:DNA