Sammanfattning
Quantitative model refinement is an essential step in the model development cycle. Starting with a high level, abstract representation of a biological system, one often needs to add details to this representation to reflect changes in its constituent elements. Any such refinement step has two aspects: one structural and one quantitative. The structural aspect of the refinement defines an increase in the resolution of its representation, while the quantitative one specifies a numerical setup for the model that ensures its fit preservation at every refinement step. We discuss in this paper the implementation of quantitative model refinement in four extensively used bio-modelling frameworks: ODE-based models, rule-based models, Petri net models, and guarded command language models, emphasizing the specificity for every model implementation. We argue that quantitative model refinement is framework-independent, being implementable in all chosen frameworks despite their different underlying modelling paradigms. Quantitative model refinement is an essential step in the model development cycle. Starting with a high level, abstract representation of a biological system, one often needs to add details to this representation to reflect changes in its constituent elements. Any such refinement step has two aspects: one structural and one quantitative. The structural aspect of the refinement defines an increase in the resolution of its representation, while the quantitative one specifies a numerical setup for the model that ensures its fit preservation at every refinement step. We discuss in this paper the implementation of quantitative model refinement in four extensively used bio-modelling frameworks: ODE-based models, rule-based models, Petri net models, and guarded command language models, emphasizing the specificity for every model implementation. We argue that quantitative model refinement is framework-independent, being implementable in all chosen frameworks despite their different underlying modelling paradigms.
Originalspråk | Odefinierat/okänt |
---|---|
Titel på värdpublikation | From Action Systems to Distributed Systems |
Redaktörer | Luigia Petre, Emil Sekerinski |
Förlag | CRC Press |
Sidor | 201–214 |
ISBN (elektroniskt) | 978-1-4987-0159-4 |
ISBN (tryckt) | 978-1-4987-0158-7 |
DOI | |
Status | Publicerad - 2016 |
MoE-publikationstyp | A3 Del av bok eller annan forskningsbok |