Models

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47 Models visible to you, out of a total of 47

Kinetic model for infected red blood cell cultures (dutoit3)

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: JWS Online

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: Flux vs external glucose, Flux vs parasitaemia

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Created: 25th Apr 2023 at 11:51, Last updated: 14th Oct 2023 at 18:40

Kinetic model for incubation (dutoit2)

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: JWS Online

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: GLC incubation

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Created: 25th Apr 2023 at 11:30, Last updated: 14th Oct 2023 at 18:38

Kinetic model for steady state (dutoit1)

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: JWS Online

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Analysis of model for malaria-infected erythroc..., Validation of model for malaria-infected erythr...

Assays: Inhibition of glycolytic flux, Metabolic control analysis, Stage specific fluxes, Steady-state

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Created: 25th Apr 2023 at 11:27, Last updated: 14th Oct 2023 at 18:37

Validation of lactate flux inhibition by glucose transport inhibitor

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 inf..., Glucose metabolism in Plasmodium falciparum tro...

Studies: Analysis of model for malaria-infected erythroc..., Model analysis

Assays: Inhibition of glycolytic flux, Inhibition of lactate flux

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Created: 2nd Jul 2015 at 10:40, Last updated: 18th Aug 2023 at 08:23

Glycolytic target analysis in malaria infected erythrocytes

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: Mathematica

Organism: Plasmodium falciparum

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Analysis of model for malaria-infected erythroc...

Assays: Inhibition of glycolytic flux

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Created: 18th Aug 2023 at 08:21

Flux vs glucose

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: Mathematica

Organism: Plasmodium falciparum

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: Flux vs external glucose

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Created: 18th Aug 2023 at 07:59

Steady state (trophozoite stage)

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: Mathematica

Organism: Plasmodium falciparum

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: Steady-state

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Created: 18th Aug 2023 at 07:45

Inhibition of glycolytic flux by glucose transport inhibitor (iRBC)

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: Mathematica

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Analysis of model for malaria-infected erythroc...

Assays: Inhibition of glycolytic flux

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Created: 25th Apr 2023 at 16:35, Last updated: 16th Aug 2023 at 08:28

Flux vs parasitaemia

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: Mathematica

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: Flux vs parasitaemia

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Created: 25th Apr 2023 at 11:52, Last updated: 29th Jul 2023 at 10:09

Stage specific fluxes

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: Mathematica

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: Stage specific fluxes

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Created: 25th Apr 2023 at 13:24, Last updated: 29th Jul 2023 at 10:09

MCA

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 inf...

Studies: Analysis of model for malaria-infected erythroc...

Assays: Metabolic control analysis

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Created: 26th Jul 2023 at 12:04, Last updated: 29th Jul 2023 at 10:09

GLC incubation timecourses

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: Mathematica

Organism: Not specified

Investigations: Glucose metabolism in Plasmodium falciparum inf...

Studies: Validation of model for malaria-infected erythr...

Assays: GLC incubation

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Created: 25th Apr 2023 at 11:32, Last updated: 29th Jul 2023 at 10:09

gustavsson1-4 models

Yeast glycolytic oscillations

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: Not specified

Investigations: Glycolytic oscillations in individual isolated ...

Studies: Sustained glycolytic oscillations in individual...

Assays: gustavsson1-4 models

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Created: 16th Jul 2018 at 14:42

gustavsson5 model

Yeast glycolytic oscillations

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: Saccharomyces cerevisiae

Investigations: Glycolytic oscillations in individual isolated ...

Studies: Allosteric regulation of phosphofructokinase co...

Assays: gustavsson5 model

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Created: 16th Jul 2018 at 14:19, Last updated: 16th Jul 2018 at 14:31

Kinetic model of antibiotic-mediated inhibition of ribosomes

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: Srimani et al (2017) Molecular Systems Biology

Studies: Figure 2C Panel ii: After the removal of the ex...

Assays: Kinetic model of antibiotic-mediated inhibition...

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Created: 26th Sep 2017 at 10:02, Last updated: 27th Sep 2017 at 10:30

BaF3 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: Not specified

Organism: Not specified

Investigations: Adlung et al (2017) Molecular Systems Biology

Studies: Figure 2: Model calibration with time-resolved ...

Assays: Mathematical models of the Epo-induced AKT, ERK...

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Created: 12th Jan 2017 at 08:16, Last updated: 12th Jan 2017 at 08:20

mCFU-E 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: Not specified

Organism: Not specified

Investigations: Adlung et al (2017) Molecular Systems Biology

Studies: Figure 2: Model calibration with time-resolved ...

Assays: Mathematical models of the Epo-induced AKT, ERK...

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Created: 12th Jan 2017 at 08:17, Last updated: 12th Jan 2017 at 08:20

NR model 6

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

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Created: 17th May 2016 at 12:31

NR model 5

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

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Created: 17th May 2016 at 12:30, Last updated: 17th May 2016 at 12:30

NR model 4

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

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Created: 17th May 2016 at 12:28

NR model 3

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

Download

Created: 17th May 2016 at 12:27

NR model 2

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

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Created: 17th May 2016 at 12:26

NR model 1

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: Kolodkin et al (2010) Molecular Systems Biology...

Studies: Figure 2B: Transcriptional response to a sudde...

Assays: Model nuclear receptor (NR) signaling

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Created: 17th May 2016 at 12:25

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

Download

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

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