Zsyntax: A formal language for molecular biology with projected applications in text mining and biological prediction

Giovanni Boniolo, Marcello D'Agostino, Pier Paolo Di Fiore

Research output: Contribution to journalArticlepeer-review

Abstract

We propose a formal language that allows for transposing biological information precisely and rigorously into machinereadable information. This language, which we call Zsyntax (where Z stands for the Greek word, life), is grounded on a particular type of non-classical logic, and it can be used to write algorithms and computer programs. We present it as a first step towards a comprehensive formal language for molecular biology in which any biological process can be written and analyzed as a sort of logical "deduction". Moreover, we illustrate the potential value of this language, both in the field of text mining and in that of biological prediction.

Original languageEnglish
Article numbere9511
JournalPLoS One
Volume5
Issue number3
DOIs
Publication statusPublished - Mar 3 2010

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

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