Using the Unified Modelling Language (UML) to guide the systemic description of biological processes and systems

One of the main issues in Systems Biology is to deal with semantic data integration. Previously, we examined the requirements for a reference conceptual model to guide semantic integration based on the systemic principles. In the present paper, we examine the usefulness of the Unified Modelling Lang...

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Bibliographic Details
Published in:BioSystems 2004-07, Vol.75 (1), p.3-14
Main Authors: Roux-Rouquié, Magali, Caritey, Nicolas, Gaubert, Laurent, Rosenthal-Sabroux, Camille
Format: Article
Language:English
Subjects:
Computer Science
Data integration
Diagrammatic representation
Epigenesis, Genetic
Genetic Phenomena
Information Storage and Retrieval - methods
Meta-modelling
Models, Theoretical
Programming Languages
Signal Transduction
Software Design
Systemics
Systems Biology
Systems Biology - methods
UML profile
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Summary:One of the main issues in Systems Biology is to deal with semantic data integration. Previously, we examined the requirements for a reference conceptual model to guide semantic integration based on the systemic principles. In the present paper, we examine the usefulness of the Unified Modelling Language (UML) to describe and specify biological systems and processes. This makes unambiguous representations of biological systems, which would be suitable for translation into mathematical and computational formalisms, enabling analysis, simulation and prediction of these systems behaviours.
ISSN:0303-2647
1872-8324
DOI:10.1016/j.biosystems.2004.03.009