Conference Paper (published)
Details
Citation
Scott E, Hoyle A & Shankland C (2013) PEPA'd Oysters: Converting Dynamic Energy Budget Models to Bio-PEPA, illustrated by a Pacific oyster case study. In: Bradley J, Heljanko K, Knottenbelt W & Thomas N (eds.) volume 296. PASM'12: Sixth International Workshop on Practical Applications of Stochastic Modelling, Imperial College London, UK, 17.09.2012-17.09.2012. Elsevier, pp. 211-228. https://doi.org/10.1016/j.entcs.2013.07.014
Abstract
We present a Bio-PEPA (Biochemical-Performance Evaluation Process Algebra) computational model for the Pacific oyster, derived from a DEB (Dynamic Energy Budget) mathematical model. Experience with this specific model allows us to propose a generic scheme for translation between the widely-used DEB theory and Bio-PEPA. The benefits of translation are that a range of novel analysis tools become available, therefore improving the potential to understand complex biological phenomena at a systems level. This work also provides a link between biology, mathematics and computer science: such interlinking of disciplines is the core of the systems approach to biology.
Keywords
Dynamic Energy Budget Model;
Bio-PEPA;
Process Algebra;
Pacific oyster (Crassostrea gigas) case study;
Physiological models;
Computational tools
Journal
Electronic Notes in Theoretical Computer Science: Volume 296
Status | Published |
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Publication date | 16/08/2013 |
Publication date online | 17/09/2012 |
URL | |
Related URLs | |
Publisher | Elsevier |
ISSN | 1571-0661 |
Conference | PASM'12: Sixth International Workshop on Practical Applications of Stochastic Modelling |
Conference location | Imperial College London, UK |
Dates |
People (1)
Senior Lecturer, Mathematics