CellML2SBML: conversion of CellML into SBML.

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TitleCellML2SBML: conversion of CellML into SBML.
Publication TypeJournal Article
Year of Publication2006
AuthorsSchilstra, MJ, Li, L, Matthews, J, Finney, A, Hucka, M, Le Novère, N
JournalBioinformatics
Volume22
Issue8
Pagination1018-20
Date Published2006 Apr 15
ISSN1367-4803
KeywordsCell Physiological Phenomena, Database Management Systems, Databases, Protein, Information Storage and Retrieval, Molecular Biology, Programming Languages, Proteins
Abstract

<p><b>UNLABELLED: </b>CellML and SBML are XML-based languages for storage and exchange of molecular biological and physiological reaction models. They use very similar subsets of MathML to specify the mathematical aspects of the models. CellML2SBML is implemented as a suite of XSLT stylesheets that, when applied consecutively, convert models expressed in CellML into SBML without significant loss of information. The converter is based on the most recent stable versions of the languages (CellML version 1.1; SBML Level 2 Version 1), and the XSLT used in the stylesheets adheres to the XSLT version 1.0 specification. Of all 306 models in the CellML repository in April 2005, CellML2SBML converted 91% automatically into SBML. Minor manual changes to the unit definitions in the originals raised the percentage of successful conversions to 96%.</p><p><b>AVAILABILITY: </b>http://sbml.org/software/cellml2sbml/.</p><p><b>SUPPLEMENTARY INFORMATION: </b>Instructions for use and further documentation available on http://sbml.org/software/cellml2sbml/</p>

DOI10.1093/bioinformatics/btl047
Alternate JournalBioinformatics
PubMed ID16473867