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Scalable reaction network modeling with automatic validation of consistency in Event-B
Mälardalen University, School of Innovation, Design and Engineering, Innovation and Product Realisation.
School of Electronics and Computer Science, University of Southampton, Southampton, United Kingdom.
Computer Science, Abo Akademi University, Turku, Finland.
Department of Mathematics and Statistics, University of Turku, Turku, Finland.
2022 (English)In: Scientific Reports, E-ISSN 2045-2322, Vol. 12, no 1, article id 1287Article in journal (Refereed) Published
Abstract [en]

Constructing a large biological model is a difficult, error-prone process. Small errors in writing a part of the model cascade to the system level and their sources are difficult to trace back. In this paper we extend a recent approach based on Event-B, a state-based formal method with refinement as its central ingredient, allowing us to validate for model consistency step-by-step in an automated way. We demonstrate this approach on a model of the heat shock response in eukaryotes and its scalability on a model of the ErbB signaling pathway. All consistency properties of the model were proved automatically with computer support.

Place, publisher, year, edition, pages
Nature Research , 2022. Vol. 12, no 1, article id 1287
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Computer Sciences
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URN: urn:nbn:se:mdh:diva-57251DOI: 10.1038/s41598-022-05308-6ISI: 000747291900075Scopus ID: 2-s2.0-85123503132OAI: oai:DiVA.org:mdh-57251DiVA, id: diva2:1636229
Available from: 2022-02-09 Created: 2022-02-09 Last updated: 2022-09-15Bibliographically approved

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Sanwal, Muhammad Usman

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