Models

What is a Model?

102 Models visible to you, out of a total of 112

bakkerxml

SysMO-LAB

No description specified

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 7th Oct 2010 at 12:57, Last updated: 12th May 2016 at 14:25

solventogenesis

SysMO-LAB

No description specified

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Not specified

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 15th Feb 2011 at 14:51, Last updated: 12th May 2016 at 14:25

haus1

SysMO-LAB

No description specified

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Not specified

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

Download

Created: 15th Feb 2011 at 14:58, Last updated: 12th May 2016 at 14:25

JAK2/STAT5 model

Molecular Systems Biology

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: Bachmann et al (2011) Molecular Systems Biology...

Studies: Figure 3A: Model calibration with experimental ...

Assays: Model for JAK2/STAT5 signaling

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Created: 3rd Mar 2016 at 09:47, Last updated: 3rd Mar 2016 at 10:06

Kinetic model incorporating glucose transport inhibition (vanniekerk1)

Whole body modelling of glucose metabolism in malaria patients

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: Not specified

Organism: Plasmodium falciparum

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model analysis

Assays: Inhibition of lactate flux

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Created: 2nd Jul 2015 at 10:16, Last updated: 23rd Nov 2015 at 13:09

GLCtr kinetic model incorporating inhibition

Whole body modelling of glucose metabolism in malaria patients

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Plasmodium falciparum

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model analysis

Assays: Inhibition of glucose transport

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Created: 2nd Jul 2015 at 10:21, Last updated: 23rd Nov 2015 at 13:09

Supply demand analysis on penkler1 model

Whole body modelling of glucose metabolism in malaria patients

No description specified

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model analysis

Assays: Supply-demand analysis

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Created: 10th Jul 2015 at 10:30, Last updated: 23rd Nov 2015 at 13:09

Kinetic model for steady state (penkler1)

Whole body modelling of glucose metabolism in malaria patients

Glycolytic model for Plasmodium falciparum; open system

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model analysis, Model validation

Assays: Inhibition of lactate flux, Steady state, Supply-demand analysis

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Created: 27th Aug 2014 at 11:43, Last updated: 15th Sep 2015 at 09:31

GLCtr Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: GLCtr

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Created: 11th Aug 2014 at 09:12, Last updated: 8th Sep 2015 at 11:29

Kinetic model for incubation (penkler2)

Whole body modelling of glucose metabolism in malaria patients

Glycolytic model for Plasmodium falciparum; closed system

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: JWS Online

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model validation

Assays: GLC incubation

Download

Created: 11th Aug 2014 at 07:58, Last updated: 1st Jul 2015 at 08:19

G3PDH Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the parameterisation of the G3PDH rate equation based on SEEK linked experimental data.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: G3PDH

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Created: 11th Aug 2014 at 06:47, Last updated: 3rd Mar 2015 at 09:48

ALD Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: ALD

Download

Created: 11th Aug 2014 at 06:44, Last updated: 3rd Mar 2015 at 09:47

ATPASE Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the ATPase reaction.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

Download

Created: 11th Aug 2014 at 10:28, Last updated: 3rd Mar 2015 at 07:28

ENO Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: ENO

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Created: 11th Aug 2014 at 07:23, Last updated: 3rd Mar 2015 at 07:28

LACtr Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the lactate transport rate equation, based on literature data.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

Download

Created: 11th Aug 2014 at 10:26, Last updated: 3rd Mar 2015 at 07:27

GLYtr Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the glycerol transport rate equation.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

Download

Created: 11th Aug 2014 at 10:24, Last updated: 3rd Mar 2015 at 07:26

GAPDH Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: GAPDH

Download

Created: 11th Aug 2014 at 06:48, Last updated: 3rd Mar 2015 at 07:24

PGI Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: PGI

Download

Created: 11th Aug 2014 at 06:41, Last updated: 3rd Mar 2015 at 07:24

LDH Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: LDH

Download

Created: 11th Aug 2014 at 07:21, Last updated: 3rd Mar 2015 at 07:23

TPI Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: TPI

Download

Created: 11th Aug 2014 at 06:45, Last updated: 3rd Mar 2015 at 07:23

PFK Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: PFK

Download

Created: 11th Aug 2014 at 06:43, Last updated: 3rd Mar 2015 at 07:22

PYRtr Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the pyruvate transport rate equation, based on literature data.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

Download

Created: 11th Aug 2014 at 10:25, Last updated: 3rd Mar 2015 at 07:21

PGK Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: PGK

Download

Created: 11th Aug 2014 at 07:03, Last updated: 3rd Mar 2015 at 07:15

PK Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematica notebook for the parameterisation of the PK rate equation based on the experimental SEEK data set

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: PK

Download

Created: 11th Aug 2014 at 07:19, Last updated: 3rd Mar 2015 at 07:12

PGM Kinetic model

Whole body modelling of glucose metabolism in malaria patients

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

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: PGM

Download

Created: 11th Aug 2014 at 07:18, Last updated: 2nd Mar 2015 at 18:42

HK Kinetic model

Whole body modelling of glucose metabolism in malaria patients

Mathematical model for HK kinetics, GLC and ATP saturation, and inhibition with G6P and ADP.

Creators: Dawie van Niekerk, Jacky Snoep

Submitter: Dawie van Niekerk

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum tro...

Studies: Model construction

Assays: HK

Download

Created: 8th Aug 2014 at 13:38, Last updated: 10th Dec 2014 at 14:07

Model of reconstituted gluconeogenesis system in S. solfataricus

SulfoSys

Model of reconstituted gluconeogenesis system in S. solfataricus based on the individual kinetic models for PGK, GAPDH, TPI, FBPAase.

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Ordinary differential equations (ODE)

Model format: SBML

Environment: JWS Online

Organism: Sulfolobus solfataricus

Investigations: Central Carbon Metabolism of Sulfolobus solfata...

Studies: Carbon Loss at High Temperature, Model Gluconeogenesis

Assays: Model Validation Gluconeogenesis in S. solfatar..., Reconstituted Gluconeogenesis System

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Created: 1st Aug 2013 at 12:45, Last updated: 18th Sep 2013 at 15:46

Kinetic Model of Temperature Degradation of Gluconeogenic Intermediates

SulfoSys

Exponential decay model of gluconeogenic intermediates

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Sulfolobus solfataricus

Investigations: Central Carbon Metabolism of Sulfolobus solfata...

Studies: Model Gluconeogenesis

Assays: Modelling Metabolite Degradation at High Temper..., Reconstituted Gluconeogenesis System

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Created: 1st Aug 2013 at 15:05

TPI Kinetic Model

SulfoSys

Mathematical model for TPI kinetics, GAP and DHAP saturation, and inhibition with 3PG and PEP.

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Sulfolobus solfataricus

Investigations: Central Carbon Metabolism of Sulfolobus solfata...

Studies: Model Gluconeogenesis

Assays: Reconstituted Gluconeogenesis System, TPI Modelling

Download

Created: 1st Aug 2013 at 14:54

GAPDH Kinetic Model

SulfoSys

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

Creator: Jacky Snoep

Submitter: Jacky Snoep

Model type: Ordinary differential equations (ODE)

Model format: Mathematica

Environment: Not specified

Organism: Sulfolobus solfataricus

Investigations: Central Carbon Metabolism of Sulfolobus solfata...

Studies: Model Gluconeogenesis

Assays: GAPDH Modelling, Reconstituted Gluconeogenesis System

Download

Created: 1st Aug 2013 at 14:47

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