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

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

Rok publikování 2015
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Fakulta / Pracoviště MU

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Popis 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, 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 devel- oped in well-known annotation databases.
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