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

Autor: Marcello D'Agostino, Giovanni Boniolo, Pier Paolo Di Fiore
Rok vydání: 2009
Předmět:
Language identification
Socio-culturale
lcsh:Medicine
Information Storage and Retrieval
Picture language
Field (computer science)
Molecular Biology/Bioinformatics
Computer Science/Ontology and Logics
Formal language
Data Mining
Humans
Substructural Logics
Phosphorylation
lcsh:Science
Molecular Biology
Natural Language Processing
Formal Languages
Text-Mining
Physics
Multidisciplinary
Computational Biology/Systems Biology
Computers
Object language
lcsh:R
Computational Biology
Specification language
Molecular biology
Databases
Bibliographic
Computational Biology/Literature Analysis
Computational Biology/Signaling Networks
Universal Networking Language
lcsh:Q
Programming Languages
Tumor Suppressor Protein p53
Protein Processing
Post-Translational
Word (computer architecture)
Allosteric Site
Software
Research Article
Zdroj: PLoS ONE
PLoS ONE, Vol 5, Iss 3, p e9511 (2010)
ISSN: 1932-6203
Popis: We propose a formal language that allows for transposing biological information precisely and rigorously into machine-readable information. This language, which we call Zsyntax (where Z stands for the Greek word zetaomegaeta, 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.
Databáze: OpenAIRE
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