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Linguistic approaches to biological sequences

D B Searls1

  • 1SmithKline Beecham Pharmaceuticals, King of Prussia, PA 19406, USA.

Computer Applications in the Biosciences : CABIOS
|August 1, 1997
PubMed
Summary

Computational linguistics offers powerful tools for analyzing biological sequences. This review explores applying computational linguistics methods to genetic text and protein sequences in molecular biology research.

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Area of Science:

  • Molecular Biology
  • Computational Linguistics
  • Bioinformatics

Background:

  • Biological processes involving nucleic acids and proteins are often described using linguistic metaphors.
  • The genetic 'text' and its sequential transliterations are naturally viewed through a linguistic lens.
  • The utility of linguistic analysis techniques for biological problems remains an important question.

Purpose of the Study:

  • To investigate the applicability of computational linguistics methods to biological sequences.
  • To review the author's and others' work in this interdisciplinary field.
  • To determine if techniques from human and computer language analysis can solve molecular biology problems.

Main Methods:

  • Application of computational linguistics techniques.
  • Analysis of biological sequences (nucleic acid and protein).
  • Review of existing research and methodologies.

Main Results:

  • Demonstrated the potential of computational linguistics for biological sequence analysis.
  • Highlighted successful applications of linguistic methods to genetic and protein data.
  • Provided a review of interdisciplinary research efforts.

Conclusions:

  • Computational linguistics provides valuable tools for understanding biological sequences.
  • The metaphor of genetic 'text' can be practically applied using computational linguistic methods.
  • Further integration of computational linguistics is beneficial for molecular biology.

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