About lab
Aubert2002 - Coupling between Brain electrical activity, Metabolism and Hemodynamics
Cleaned metabolism SBML ODE lab. The bundled SBML file remains the scientific source of truth.
Validation evidence: Tellurium loaded and simulated 13 floating species
What You'll See
These dark-mode screenshots show the default Aubert2002 - Coupling between Brain electrical activity, Metabolism and Hemodynamics run over 10 model-time units with outputs sampled every 1. The lab exposes 5 inputs (initial_brain_energy_state_1, initial_glucose, initial_glyceraldehyde_3_phosphate, initial_nadh, initial_pyruvate) and 8 outputs (brain_energy_state_1, glucose, glyceraldehyde_3_phosphate, nadh, pyruvate, and 3 more). The default input state includes initial_brain_energy_state_1=15, initial_glucose=1.2, initial_glyceraldehyde_3_phosphate=0.0057, initial_nadh=0.026. Aubert2002 - Coupling between Brainelectrical activity, Metabolism and Hemodynamics Felix Winter encoded this model in SBMLas part of his work at ASD GmbH This model is described in the article: A mod. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.
Output Visualizations
The run interpretation table summarizes the configured Aubert2002 - Coupling between Brain electrical activity, Metabolism and Hemodynamics simulation and its reported output statistics.
The observable dynamics plot traces the main reported outputs over the captured run window, including brain_energy_state_1, glucose, glyceraldehyde_3_phosphate, nadh, and 4 more.
The largest-observable-excursions chart ranks which reported variables moved the most during this simulation.
The phase-relationship plot compares paired observable values to show how the dominant trajectories move relative to one another.
Aubert2002 - Coupling between Brainelectrical activity, Metabolism and Hemodynamics Felix Winter encoded this model in SBMLas part of his work at ASD GmbH This model is described in the article: A mod. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_brain_energy_state_1",
"units": "native SBML value",
"default": 15,
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.initial_brain_energy_state_1",
"description": "Initial condition for brain energy state 1. Maps to bundled SBML symbol `species_1`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
},
{
"name": "initial_glucose",
"units": "native SBML value",
"default": 1.2,
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.initial_glucose",
"description": "Initial condition for glucose. Maps to bundled SBML symbol `species_4`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
},
{
"name": "initial_glyceraldehyde_3_phosphate",
"units": "native SBML value",
"default": 0.0057,
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.initial_glyceraldehyde_3_phosphate",
"description": "Initial condition for glyceraldehyde 3 phosphate. Maps to bundled SBML symbol `species_5`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
},
{
"name": "initial_nadh",
"units": "native SBML value",
"default": 0.026,
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.initial_nadh",
"description": "Initial condition for nadh. Maps to bundled SBML symbol `species_7`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
},
{
"name": "initial_pyruvate",
"units": "native SBML value",
"default": 0.16,
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.initial_pyruvate",
"description": "Initial condition for pyruvate. Maps to bundled SBML symbol `species_8`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
}
],
"outputs": [
{
"name": "brain_energy_state_1",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.brain_energy_state_1"
},
{
"name": "glucose",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.glucose"
},
{
"name": "glyceraldehyde_3_phosphate",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.glyceraldehyde_3_phosphate"
},
{
"name": "nadh",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.nadh"
},
{
"name": "pyruvate",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.pyruvate"
},
{
"name": "observable_values",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.observable_values"
},
{
"name": "run_summary",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.run_summary"
},
{
"name": "observable_labels",
"maps_to": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.observable_labels"
}
]
},
"title": "Aubert2002 - Coupling between Brain electrical activity, Metabolism and Hemodynamics Lab",
"models": [
{
"path": "owned/models/metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model",
"alias": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model",
"parameters": {
"model_path": "data/BIOMD0000000570.xml",
"integration_step": 0.1
},
"provenance": {
"owned_path": "owned/models/metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model_observable_values"
],
"from": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.observable_values"
},
{
"to": [
"visualisation.metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model_run_summary"
],
"from": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.run_summary"
},
{
"to": [
"visualisation.metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model_observable_labels"
],
"from": "metabolism_sbml_aubert2002_coupling_between_brain_electrical_act_biomd0000000570_model.observable_labels"
}
],
"runtime": {
"duration": 10,
"initial_inputs": {},
"communication_step": 1
},
"description": "Aubert2002 - Coupling between Brainelectrical activity, Metabolism and Hemodynamics Felix Winter encoded this model in SBMLas part of his work at ASD GmbH This model is described in the article: A mod. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.",
"schema_version": "2.0"
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