# Models

The Assmus model taken from JWS Online at - http://jjj.mib.ac.uk/models/assmus/

The 2nd version has been modified, to demonstrate use of the BiVeS tool for comparison ( https://sems.uni-rostock.de/projects/bives/ )

To view the comparison, you need to be logged in (you can login as guest), and click the button for the version you wish to compare with the current displayed version in the box below...

**Creator: **Stuart Owen

**Contributor**: Stuart Owen

**Model type**: Not specified

**Model format**: SBML

**Environment**: JWS Online

**Scales:**
Not specified

An exponential decay model was fitted to the experimental data set of DHAP degradation at 70C. The model is uploaded as an SBML file. A data file showing the model fit to the experimental data set is included. The rate constant for DHAP degradation at 70C was estimated to be 0.0225 1/min, equivalent to a half life time of 30.8 min.

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: SBML

**Environment**: JWS Online

**Scales:**
Not specified

Mathematical model for FBPAase kinetics

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: Mathematica

**Environment**: Not specified

**Scales:**
Not specified

An exponential decay model was fitted to the experimental data set of GAP degradation at 70C. The model is uploaded as an SBML file. A data file showing the model fit to the experimental data set is included. The rate constant for GAP degradation at 70C was estimated to be 0.056 1/min, equivalent to a half life time of 12.4 min.

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: SBML

**Environment**: JWS Online

**Scales:**
Not specified

Mathematical model for GAPDH kinetics, saturation for GAP, BPG, NADP, NADPH, Pi.

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: Mathematica

**Environment**: Not specified

**Scales:**
Not specified

Detailed kinetic model for glycolysis of L. lactis. The model is basically the same model as that published by Hoefnagel et al 2002 (Mol. Biol. Reports 29, 157-161). The change made to the model is to make external glucose a variable such that a glucose pulse can be simulated.

**Creators: **Jacky Snoep, Ana Rute Neves

**Contributor**: Katy Wolstencroft

**Model type**: Ordinary differential equations (ODE)

**Model format**: SBML

**Environment**: Not specified

**Scales:**
Not specified

The PGK, GAPDH, TPI and FBPAase were modelled together using the individual rate equations. Closed system.

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: SBML

**Environment**: JWS Online

**Scales:**
Not specified

MCA of Glycerol Synthesis in Saccharomyces cerevisiae

**Creators: **Jacky Snoep, Garth R. Cronwright, Johann M. Rohwer, and Bernard A. Prior

**Contributor**: Katy Wolstencroft

**Model type**: Ordinary differential equations (ODE)

**Model format**: SBML

**Environment**: Not specified

**Scales:**
Not specified

Mathematical model for TIM kinetics, GAP and DHAP saturation and PEP inhibition.

**Creator: **Jacky Snoep

**Contributor**: Jacky Snoep

**Model type**: Ordinary differential equations (ODE)

**Model format**: Mathematica

**Environment**: Not specified

**Scales:**
Not specified

This model is for a paper that examines whether the in vivo behavior of yeast glycolysis can be understood in terms of the in vitro kinetic properties of the constituent enzymes. In non-growing, anaerobic, compressed Saccharomyces cerevisiae the values of the kinetic parameters of most glycolytic enzymes were determined. For the other enzymes appropriate literature values were collected. By inserting these values into a kinetic model for glycolysis, fluxes and metabolites were calculated. Under

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**Creator: **Stuart Owen

**Contributor**: Stuart Owen

**Model type**: Not specified

**Model format**: SBML

**Environment**: Not specified