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Title

MathSBML: a package for manipulating SBML-based biological models
Authors

Bruce E Shapiro
Organization: Caltech
Department: Control and Dynamical Systems
Michael Hucka
Organization: California Institute of Technology
Department: Control and Dynamical Systems
Albert Finney
Organization: University of Hertfordshire
Department: Science and Technology Research Center
John Doyle
Organization: California Institute of Technology
Department: Control and Dynamical Systems
Journal / Anthology

Bioinformatics
Year: 2004
Volume: 20
Issue: 16
Page range: 2829-2831
Description

MathSBML is a Mathematica package designed for manipulating Systems Biology Markup Language (SBML) models. It converts SBML models into Mathematica data structures and provides a platform for manipulating and evaluating these models. Once a model is read by MathSBML, it is fully compatible with standard Mathematica functions such as NDSolve (a differential-algebraic equations solver). MathSBML also provides an application programming interface for viewing, manipulating, running numerical simulations; exporting SBML models; and converting SBML models in to other formats, such as XPP, HTML and FORTRAN. By accessing the full breadth of Mathematica functionality, MathSBML is fully extensible to SBML models of any size or complexity.
Subjects

*Science > Biochemistry
*Science > Bioinformatics
*Science > Biology