title: Using the Unified Modelling Language (UML) to guide the systemic description of biological processes and systems.
abstract: 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.
authors.affiliation: BSMI, Institut PASTEUR, 25-28 rue du Dr Roux, 75724 Paris Cedex 15, France. magil.roux@lip6.fr
authors.forename: Magali
authors.initials: M
authors.lastname: Roux-Rouquié
authors.forename: Nicolas
authors.initials: N
authors.lastname: Caritey
authors.forename: Laurent
authors.initials: L
authors.lastname: Gaubert
authors.forename: Camille
authors.initials: C
authors.lastname: Rosenthal-Sabroux
mesh_terms: D044127:Epigenesis, Genetic; D055614:Genetic Phenomena; D016247:Information Storage and Retrieval / Q000379:methods*; D008962:Models, Theoretical; D011381:Programming Languages; D015398:Signal Transduction; D012985:Software Design; D049490:Systems Biology / Q000379:methods*