Biochemical Space: A Language for Formal Description and Annotation of Complex Biological Processes

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Authors

TROJÁK Matej DĚD Tadeáš ŠAFRÁNEK David KLEMENT Matej ČERVENÝ Jan BRIM Luboš

Year of publication 2015
Type Appeared in Conference without Proceedings
MU Faculty or unit

Faculty of Informatics

Citation
Description Biochemical Space (BCS) is a novel framework for practical description of complex biological processes. It is developed as a part of Comprehensive Modelling Platform (CMP) -- a web-based platform for modelling and analysis of biological processes. In the context of CMP, Biochemical Space glues together complicated quantitative models with an easy-to-understand but yet formal and compact qualitative description. BCS allows to specify formal and well-annotated reaction networks of chemical entities and elemental reactions onto which the mathematical models are projected. BCS is supported by a Biochemical Space Language (BCSL) that combines state-of-the-art rule-based techniques with meta-data formats developed in well-known annotation databases.
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