Models

261 Models visible to you, out of a total of 447

The model describes the catabolism of Escherichia coli and its regulation. The metabolic reactions are modeled by the thermokinetic model formalism. The model is simplified by assuming rapid equilibrium of many reactions. Regulation is modeled by phenomenological laws describing the activation or repression of enzymes and genes in dependence of metabolic signals. The model is intended to describe the behavior of E. coli in a chemostat culture in depedence on the oxygen supply.

The model is described
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Creators: Michael Ederer, David Knies

Contributor: Michael Ederer

Originally submitted model file for PLaSMo accession ID PLM_33, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_34, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_35, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_36, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_37, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_38, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_39, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_40, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_41, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_32, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

The model presents the response of E.coli to different levels of oxygen supply, in which the oxidases, Cyo and Cyd, and their regulators, FNR and ArcBA systems, are included. The initial file 0.xml and supporting documents are for the model with FNR only. Four 0.xml files provided are at AAU level 31, 85, 115 and 217 respectively. The ArcBA system can be activated by revising the number of agents, ArcB, ArcA dimer, ArcA monomer, ArcA tetramer and ArcA octamer, in the initial file. The model needs
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Creator: Hao Bai

Contributor: Hao Bai

Mathematica notebook for the parameterisation of the ALD rate equation based on SEEK linked experimental data.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

Simplified model file for PLaSMo accession ID PLM_77, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_77, version 1

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_78, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_78, version 1

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_79, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_79, version 1

Creators: BioData SynthSys, Daniel Seaton

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_1045, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

This version is P2011.1.2, model ID PLM_71 version 1. Dynamics identical to P2011.1.1 of the Pokhilko et al. 2012 publication.

http://www.plasmo.ed.ac.uk/plasmo/models/download.shtml?accession=PLM_71&version=1

Creator: Andrew Millar

Contributor: Andrew Millar

Simplified model file for PLaSMo accession ID PLM_1041, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_1041, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_1042, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_1042, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_1043, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_1043, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_1044, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_1044, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_71, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_71, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_71, version 2 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_71, version 2

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_2, version 1

Creators: BioData SynthSys, Chris Davey

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_47, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Maria-Luisa Guerriero

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_47, version 1

Creators: BioData SynthSys, Maria-Luisa Guerriero

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_6, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_6, version 1

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_6, version 2 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_6, version 2

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_6, version 3 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_6, version 3

Creators: BioData SynthSys, Alexandra Pokhilko, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_64, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_64, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_64, version 2 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_64, version 2

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_64, version 3 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_64, version 3

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_64, version 4 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_64, version 4

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_70, version 1 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_70, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Simplified model file for PLaSMo accession ID PLM_70, version 2 (use simplified if your software cannot read the file, e.g. Sloppy Cell)

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Originally submitted model file for PLaSMo accession ID PLM_70, version 2

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

Mathematica notebook for the ATPase reaction.

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

Originally submitted model file for PLaSMo accession ID PLM_30, version 1

Creators: BioData SynthSys, Andrew Millar, Andrew Millar

Contributor: BioData SynthSys

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