On deriving a hybrid model for carbohydrate uptake in escherichia coli

Eric Bullinger, T. Sauter, F. Allgöwer, E.D. Gilles

Research output: Contribution to conferencePaper

1 Citation (Scopus)

Abstract

In the past years, several large dynamical models of cellular metabolism have been published. Even more are going to come on the way towards models of the complete cellular metabolism. As the models are nonlinear, analyzing and understanding them is a not trivial task. This paper proposes a method to finding approximate models that explicitly take into account the switching behavior inherently present in several parts of the cellular metabolism. First, the states are separated into functional units based on similar "activity" along suitable trajectories. Important are the choices of sufficiently stimulating trajectories and of when a state is called active. Secondly, an automata model is build using the result of the first step. A model of carbohydrate uptake and the glycolysis is used to demonstrate the feasibility of the proposed method.

Conference

Conference15th Triennial World Congress of the International Federation of Automatic Control
CountrySpain
CityBarcelona
Period21/07/0226/07/02

Fingerprint

Carbohydrates
Escherichia coli
Metabolism
Trajectories

Keywords

  • deriving
  • hybrid model
  • carbohydrate uptake
  • escherichia coli
  • model reduction
  • biochemical modeling
  • hybrid system

Cite this

Bullinger, E., Sauter, T., Allgöwer, F., & Gilles, E. D. (2002). On deriving a hybrid model for carbohydrate uptake in escherichia coli. Paper presented at 15th Triennial World Congress of the International Federation of Automatic Control, Barcelona, Spain. https://doi.org/10.3182/20020721-6-ES-1901.01312
Bullinger, Eric ; Sauter, T. ; Allgöwer, F. ; Gilles, E.D. / On deriving a hybrid model for carbohydrate uptake in escherichia coli. Paper presented at 15th Triennial World Congress of the International Federation of Automatic Control, Barcelona, Spain.
@conference{1af7557b6801494fb068ff79f0ab5ad3,
title = "On deriving a hybrid model for carbohydrate uptake in escherichia coli",
abstract = "In the past years, several large dynamical models of cellular metabolism have been published. Even more are going to come on the way towards models of the complete cellular metabolism. As the models are nonlinear, analyzing and understanding them is a not trivial task. This paper proposes a method to finding approximate models that explicitly take into account the switching behavior inherently present in several parts of the cellular metabolism. First, the states are separated into functional units based on similar {"}activity{"} along suitable trajectories. Important are the choices of sufficiently stimulating trajectories and of when a state is called active. Secondly, an automata model is build using the result of the first step. A model of carbohydrate uptake and the glycolysis is used to demonstrate the feasibility of the proposed method.",
keywords = "deriving, hybrid model , carbohydrate uptake , escherichia coli, model reduction, biochemical modeling, hybrid system",
author = "Eric Bullinger and T. Sauter and F. Allg{\"o}wer and E.D. Gilles",
year = "2002",
month = "7",
doi = "10.3182/20020721-6-ES-1901.01312",
language = "English",
note = "15th Triennial World Congress of the International Federation of Automatic Control ; Conference date: 21-07-2002 Through 26-07-2002",

}

Bullinger, E, Sauter, T, Allgöwer, F & Gilles, ED 2002, 'On deriving a hybrid model for carbohydrate uptake in escherichia coli' Paper presented at 15th Triennial World Congress of the International Federation of Automatic Control, Barcelona, Spain, 21/07/02 - 26/07/02, . https://doi.org/10.3182/20020721-6-ES-1901.01312

On deriving a hybrid model for carbohydrate uptake in escherichia coli. / Bullinger, Eric; Sauter, T.; Allgöwer, F.; Gilles, E.D.

2002. Paper presented at 15th Triennial World Congress of the International Federation of Automatic Control, Barcelona, Spain.

Research output: Contribution to conferencePaper

TY - CONF

T1 - On deriving a hybrid model for carbohydrate uptake in escherichia coli

AU - Bullinger, Eric

AU - Sauter, T.

AU - Allgöwer, F.

AU - Gilles, E.D.

PY - 2002/7

Y1 - 2002/7

N2 - In the past years, several large dynamical models of cellular metabolism have been published. Even more are going to come on the way towards models of the complete cellular metabolism. As the models are nonlinear, analyzing and understanding them is a not trivial task. This paper proposes a method to finding approximate models that explicitly take into account the switching behavior inherently present in several parts of the cellular metabolism. First, the states are separated into functional units based on similar "activity" along suitable trajectories. Important are the choices of sufficiently stimulating trajectories and of when a state is called active. Secondly, an automata model is build using the result of the first step. A model of carbohydrate uptake and the glycolysis is used to demonstrate the feasibility of the proposed method.

AB - In the past years, several large dynamical models of cellular metabolism have been published. Even more are going to come on the way towards models of the complete cellular metabolism. As the models are nonlinear, analyzing and understanding them is a not trivial task. This paper proposes a method to finding approximate models that explicitly take into account the switching behavior inherently present in several parts of the cellular metabolism. First, the states are separated into functional units based on similar "activity" along suitable trajectories. Important are the choices of sufficiently stimulating trajectories and of when a state is called active. Secondly, an automata model is build using the result of the first step. A model of carbohydrate uptake and the glycolysis is used to demonstrate the feasibility of the proposed method.

KW - deriving

KW - hybrid model

KW - carbohydrate uptake

KW - escherichia coli

KW - model reduction

KW - biochemical modeling

KW - hybrid system

U2 - 10.3182/20020721-6-ES-1901.01312

DO - 10.3182/20020721-6-ES-1901.01312

M3 - Paper

ER -

Bullinger E, Sauter T, Allgöwer F, Gilles ED. On deriving a hybrid model for carbohydrate uptake in escherichia coli. 2002. Paper presented at 15th Triennial World Congress of the International Federation of Automatic Control, Barcelona, Spain. https://doi.org/10.3182/20020721-6-ES-1901.01312