Publication details

Executable Biochemical Space for Specification and Analysis of Biochemical Systems

Authors

TROJÁK Matej ŠAFRÁNEK David BRIM Luboš ŠALAGOVIČ Jakub ČERVENÝ Jan

Year of publication 2020
Type Article in Proceedings
Conference Proceedings of SASB 2018, the Ninth International Workshop on Static Analysis and Systems Biology
MU Faculty or unit

Faculty of Informatics

Citation
Web https://www.sciencedirect.com/science/article/pii/S1571066120300347
Doi http://dx.doi.org/10.1016/j.entcs.2020.06.006
Keywords rule-based modelling; formal specification; static analysis
Description We present the second generation of a rule-based language called Biochemical Space Language (BCSL) that combines the advantages of different approaches and thus makes an effort to overcome several problems with existing solutions. The key aspect of the language is the level of abstraction it uses, which allows scalable and compact hierarchical specification of biochemical entities. This abstraction enables unique analysis techniques to reason about properties of models written in the language on the semantic and syntactic level.
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