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Abstract

The open-source modeling tool ProMoT has its origins in process modeling for chemical engineering but incorporates more and more specific functionalities for modeling in Systems Biology. Three main components can be used in the modeling work flow, the ProMoT Browser, the Visual Editor and the Visual Explorer. The key features comprise the modular modeling which can be done in an object-oriented fashion based on extensible modeling libraries, the exchange of models with other tools by the international standard format SBML and advanced visual capabilities. ProMoT supports different kinds of modeling. Quantitative models can be based on differential-algebraic equations, qualitative models on a recently introduced logical model formalism. Both types of models can be structured and modular. This results in many advantages like reusable flexible modules. More information about ProMoT and the software can be obtained on our homepage (http://www.mpi-magdeburg.mpg.de/projects/promot).