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Hao, B. and Xie, H. (2007) Factorizable language revisited from dynamics to biology. International Journal of Modern Physics B, 21(23-24):4077--4082.

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   Authoritative: http://dx.doi.org/10.1142/S0217979207045244   (Publisher's PDF... likely be available here.)
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Abstract

A formal language is called factorizable if any substring of a word in it also belongs to the language. Symbolic sequences from symbolic dynamics make factorizable languages by definition. In studying avoided and under-represented strings in bacterial genomes we have defined a factorizable language for each complete genome. Recently, in studying the problem of uniqueness of reconstruction of a protein sequence from its constituent K-peptides we encounter again factorizable language which helps to build a finite state automaton to recognize the uniqueness of reconstruction. We present a brief review of these applications of factorizable languages from dynamics to biology.

Keywords: Symbolic dynamics; formal language; proteins; DNA sequence

BibTex
@article{hao07factorizableLanguage,
  author={Bailin Hao and Huimin Xie},
  title={Factorizable language revisited from dynamics to biology},
  journal={International Journal of Modern Physics B},
  year={2007},
  volume={21},
  number={23-24},
  pages={4077-4082},
  doi={10.1142/S0217979207045244},
  url={http://groups.lis.illinois.edu/amag/langev/paper/hao07factorizableLanguage.html},
  keywords={Symbolic dynamics; formal language; proteins; DNA sequence}
}