Models of Gene Regulation and Metabolic Pathways

Bioinformatics

Volume 1278 of the series Lecture Notes in Computer Science pp 88-98

Date:

Towards an object-oriented framework for the modeling of integrated metabolic processes

  • G. BreuelAffiliated withInstitut für Systemdynamik and Regelungstechnik, Universität Stuttgart
  • , E. D. GillesAffiliated withInstitut für Systemdynamik and Regelungstechnik, Universität Stuttgart

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Abstract

This contribution aims at the development of a modular and object-oriented framework for the modeling of the entity of all metabolic reactions including their regulations as a collection of interacting subsystems. The purposes of this framework lie in facilitating model development, adaption and reuse. Additionally, the presented methodology can be seen as a first step towards the development of a common communication framework, to support the interdisciplinary research in biotechnology and biochemical engineering. For the development of this framework ideas from general system theory, object-oriented programming and knowledge representation are employed.