Towards Scalable Modeling of Biology in Event-B

Muhammad Usman Sanwal, Thai Son Hoang, Luigia Petre, Ion Petre

Research output: Other contribution

Abstract

Biology offers many examples of large-scale, complex, concurrent systems: many processes take place in parallel, compete on resources and influence each other's behavior. The scalable modeling of biological systems continues to be a very active field of research. In this paper we introduce a new approach based on Event-B, a state-based formal method with refinement as its central ingredient, allowing us to check for model consistency step-by-step in an automated way. Our approach based on functions leads to an elegant and concise modeling method. We demonstrate this approach by constructing what is, to our knowledge, the largest ever built Event-B model, describing the ErbB signaling pathway, a key evolutionary pathway with a significant role in development and in many types of cancer. The Event-B model for the ErbB pathway describes 1320 molecular reactions through 242 events.
Original languageEnglish
PublisherComputer Research Repository
Number of pages18
Volumeabs/2105.10344
ISBN (Electronic)https://arxiv.org/abs/2105.10344
DOIs
Publication statusPublished - 20 May 2021
MoE publication typeO2 Other

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