Language-based modelling of biological systems is a growing field of research. Many proofs of concept have been published in the last decade. We propose a domain specific language, imperative in style, to step ahead of proof of concepts. Our DSL is compiled into C# and exploits the benefits of C# optimising compilers to gain in time performance of simulations. We report benchmarks of its implementation relying on a mass-action model of the MAPK cascade and a Michaelis-Menten model of the one-carbon metabolism.
l: An imperative DSL to stochastically simulate biological systems / Zunino, Roberto; Nikolić, Đurica; Priami, Corrado; Kahramanogullari, Ozan; Schiavinotto, Tommaso. - 9465:(2015), pp. 354-374. [10.1007/978-3-319-25527-9_23]
l: An imperative DSL to stochastically simulate biological systems
Zunino, Roberto;Priami, Corrado;Kahramanogullari, Ozan;
2015-01-01
Abstract
Language-based modelling of biological systems is a growing field of research. Many proofs of concept have been published in the last decade. We propose a domain specific language, imperative in style, to step ahead of proof of concepts. Our DSL is compiled into C# and exploits the benefits of C# optimising compilers to gain in time performance of simulations. We report benchmarks of its implementation relying on a mass-action model of the MAPK cascade and a Michaelis-Menten model of the one-carbon metabolism.| File | Dimensione | Formato | |
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