Models

127 Models visible to you, out of a total of 207

SBML description of L. lactis glycolysis. Same as the uploaded Copasi file

Creator: Mark Musters

Contributor: Mark Musters

The model includes glycolysis, pentosephosphate pathway, purine salvage reactions, purine de novo synthesis, redox balance and biomass growth. The network balances adenylate pool as opened moiety.

Creator: Maksim Zakhartsev

Contributor: Maksim Zakhartsev

No description specified

Creators: Jay Moore, David Hodgson, Veronica Armendarez, Emma Laing , Govind Chandra, Mervyn Bibb

Contributor: Jay Moore

input: array of investigated quenching temperatures and volumetric flows
output: quenching time and coil length as function of quenching temperature, and quenching time as function of temperature for varying coil lengths

Creator: Sebastian Curth

Contributor: Sebastian Curth

The model can simulate the the dynamics of sigB dependent transcription at the transition to starvation. It is was developed along the comic in <data> 'sigB-activation-comic_vol1'. Parameters were partly taken from Delumeau et al., 2002, J. Bact. and Igoshin et al., 2007, JMB. Parameter estimation was performed using experimental data from <assay> '0804_shake-flask'.
Use the .m-file with matlab as:
% reading initial conditions from the file:
inic = sigb_model_liebal;

% performing the
...

Creator: Ulf Liebal

Contributor: Ulf Liebal

No description specified

Creator: Jacky Snoep

Contributor: Jacky Snoep

The zip-folder contains files for execution in matlab that allow for the simulation of stressosome dynamics and reproduction of published data on the stressosome. The important file for execution is 'liebal_stressosome-model_12_workflow-matlab.m'.

Creator: Ulf Liebal

Contributor: Ulf Liebal

No description specified

Creators: Dawie Van Niekerk, Jacky Snoep

Contributor: Dawie Van Niekerk

Using optical tweezers to position yeast cells in a microfluidic chamber, we were able to observe sustained oscillations in individual isolated cells. Using a detailed kinetic model for the cellular reactions, we simulated the heterogeneity in the response of the individual cells, assuming small differences in a single internal parameter. By operating at two different flow rates per experiment, we observe four of categories of cell behaviour. The present model (gustavsson1) predicts the limit
...

Creators: Franco Du Preez, Jacky Snoep, David D van Niekerk

Contributor: Franco Du Preez

Using optical tweezers to position yeast cells in a microfluidic chamber, we were able to observe sustained oscillations in individual isolated cells. Using a detailed kinetic model for the cellular reactions, we simulated the heterogeneity in the response of the individual cells, assuming small differences in a single internal parameter. By operating at two different flow rates per experiment, we observe four of categories of cell behaviour. The present model (gustavsson2) predicts the damped
...

Creators: Franco Du Preez, Jacky Snoep, David D van Niekerk

Contributor: Franco Du Preez

Using optical tweezers to position yeast cells in a microfluidic chamber, we were able to observe sustained oscillations in individual isolated cells. Using a detailed kinetic model for the cellular reactions, we simulated the heterogeneity in the response of the individual cells, assuming small differences in a single internal parameter. By operating at two different flow rates per experiment, we observe four of categories of cell behaviour. The present model (gustavsson3) predicts the steady-state
...

Creators: Franco Du Preez, Jacky Snoep, David D van Niekerk

Contributor: Franco Du Preez

Using optical tweezers to position yeast cells in a microfluidic chamber, we were able to observe sustained oscillations in individual isolated cells. Using a detailed kinetic model for the cellular reactions, we simulated the heterogeneity in the response of the individual cells, assuming small differences in a single internal parameter. By operating at two different flow rates per experiment, we observe four of categories of cell behaviour. The present model (gustavsson4) predicts the steady-state
...

Creators: Franco Du Preez, Jacky Snoep, Dawie Van Niekerk

Contributor: Franco Du Preez

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