SBML
(Systems Biology Markup Language) is an XML-based file format
for the exchange of models describing biochemical systems.
SBML is an open and widely used format maintained by a consortium
of industry and academic agencies. At present there are dozens
of tools for the creation of SBML-based models. SBML files
typically contain information related to chemical reaction
pathways, including reaction rate equations. This information
is converted to sets of Ordinary Differential Equations which
are solved numerically.
|
SBML
models are comprised of a few simple components; their conversion
to corresponding CSL constructs is summarized below:
| SBML
Construct |
Corresponding
CSL Construct |
| Model |
Entire
CSL file, PROGRAM section |
| Function |
Macros |
| Compartment |
Constants |
| Species |
State
variables |
| Parameters |
Constants |
| Rules |
Equations |
| Reactions |
Equations |
| Events |
State
events |
|
