TBI-Preprint 06-03-002
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Titel:
A minimal and self-consistent
Author(s):
Christoph Flamm,
Lukas Endler,
Stefan Müller,
Stefanie Widder,
Peter Schuster
Submitted to:
Phil. Trans. R. Soc. B Special Issue on Artificial Cell 2006
Abstract:
A self-consistent minimal cell model
with a physically motivated schema for molecular interaction is
introduced and described. The genetic and metabolic reaction network
of the cell is modeled by multidimensional nonlinear ODEs, which are
derived from biochemical kinetics. The strategy behind this modeling
approach is to keep the model sufficiently simple in order to be able
to perform studies on evolutionary optimization in populations of
cells. At the same time the model should be complex enough to handle
the basic features of genetic control of metabolism and coupling to
environmental factors. Thereby the model system will provide insight
into the mechanisms leading to important biological phenomena like
homeostasis, (circadian) rhythms, robustness, and adaptation to a
changing environment. One example of modeling a molecular regulation
mechanism, cooperative binding of transcription factors, is discussed
in detail.
Keywords:
Biochemical ODE solver,
cooperativity,
genetic regulatory network,
metabolic network,
SBML
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Last modified: 2006-08-09 15:30:49 xtof