Reduced Modular Representations Applied to Simulate Some Genetic Regulatory Circuits**

Maria, Gheorghe

Gheorghe Maria

Reduced Modular Representations Applied to Simulate Some Genetic Regulatory Circuits**

Abstract:

General chemical engineering modelling principles are valuable tools to represent the topology and the kinetics of complex cell processes. Elaboration of reduced models is based on a large amount of qualitative-quantitative information ‘translated’ from the ‘language’ of molecular biology to that of mechanistic chemistry. In the ‘reverse engineering’ approach, linked modules of adjustable complexity are used to simulate the genetic expression regulatory networks by adequately lumping of species or metabolic reactions exhibiting similar functions. The resulted model must keep a satisfactory predictability on key-species and steps, an adequate representation of species inter-connectivity, structural, functional, and temporal cell hierarchy, and of the multi-cascade control loops of adjustable intermediate levels. Application of (non-) conventional identification and lumping methods can lead to a satisfactory prediction of local and global properties of the protein synthesis regulatory network. Examples on modelling the genetic expression illustrate the advantages but also the over-simplifications introduced by various reduced modular representations. Potential applications of the lumped simulation in 'genetic circuit engineering' reveal the advantages of using modular constructions for ‘in-silico’ design of new organisms that possess desired specific functions (e.g. biosensor design).

Keywords:
lumping analysis; genetic regulatory networks; modular approach

Issue: 2008, Volume 59, Issue 3

Pages: 318-324

Publication date: 2008/4/9

https://doi.org/10.37358/RC.08.3.1756

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This article is published under the Creative Commons Attribution 4.0 International License

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