Design and implementation of a tool for translating SBML into the biochemical stochastic pi-calculus.
BACKGROUND
SBML is becoming a standard 'de-facto' to represent and store biological models. Although SBML is very useful in defining ways of exchanging and storing biological information, it is not formal enough to allow direct translation into non ambiguous formal representation languages to perform analysis and simulation of models. We here suggest to map SBML models into process calculi representations.


RESULTS
We implemented and validated a tool that translates SBML descriptions into stochastic pi-calculus specifications.


BACKGROUND
Source code is freely available for academic use by contacting the authors.
Eccher
Claudio
C
DIT-University of Trento Trento, Italy. cleccher@itc.it
Priami
Corrado
C
D000465:Algorithms; D003196:Computer Graphics; D003198:Computer Simulation; D008954:Models, Biological; D015233:Models, Statistical; D011381:Programming Languages; D025941:Protein Interaction Mapping / Q000379:methods; D020543:Proteome / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*; D012984:Software; D012985:Software Design; D013269:Stochastic Processes; D014584:User-Computer Interface
D020543:Proteome