vanEunen2012 - Yeast Glycolysis (glucose upshift) Lab

{
  "io": {
    "inputs": [
      {
        "name": "initial_intracellular_glucose",
        "units": "native SBML value",
        "default": 0.0576023,
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.initial_intracellular_glucose",
        "description": "Initial condition for intracellular glucose. 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_6_phosphate",
        "units": "native SBML value",
        "default": 0.121566,
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.initial_glucose_6_phosphate",
        "description": "Initial condition for glucose 6 phosphate. Maps to bundled SBML symbol `species_2`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_fructose_6_phosphate",
        "units": "native SBML value",
        "default": 0.0263653,
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.initial_fructose_6_phosphate",
        "description": "Initial condition for fructose 6 phosphate. Maps to bundled SBML symbol `species_3`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_fructose_1_6_bisphosphate",
        "units": "native SBML value",
        "default": 0.0928847,
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.initial_fructose_1_6_bisphosphate",
        "description": "Initial condition for fructose 1 6 bisphosphate. 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_triose_phosphate",
        "units": "native SBML value",
        "default": 0.336706,
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.initial_triose_phosphate",
        "description": "Initial condition for triose 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."
      }
    ],
    "outputs": [
      {
        "name": "intracellular_glucose",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.intracellular_glucose"
      },
      {
        "name": "glucose_6_phosphate",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.glucose_6_phosphate"
      },
      {
        "name": "fructose_6_phosphate",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.fructose_6_phosphate"
      },
      {
        "name": "fructose_1_6_bisphosphate",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.fructose_1_6_bisphosphate"
      },
      {
        "name": "triose_phosphate",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.triose_phosphate"
      },
      {
        "name": "observable_values",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.observable_values"
      },
      {
        "name": "run_summary",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.run_summary"
      },
      {
        "name": "observable_labels",
        "maps_to": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.observable_labels"
      }
    ]
  },
  "title": "vanEunen2012 - Yeast Glycolysis (glucose upshift) Lab",
  "models": [
    {
      "path": "owned/models/metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model",
      "alias": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model",
      "parameters": {
        "model_path": "data/MODEL1403250001.xml",
        "integration_step": 0.1
      },
      "provenance": {
        "owned_path": "owned/models/metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model_observable_values"
      ],
      "from": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.observable_values"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model_run_summary"
      ],
      "from": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.run_summary"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model_observable_labels"
      ],
      "from": "metabolism_sbml_vaneunen2012_yeast_glycolysis_glucose_upshift_model1403250001_model.observable_labels"
    }
  ],
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 1
  },
  "description": "This is corresponding to the model of yeast glycolysis 'glucose upshift' condition described in the paper 'Testing Biochemistry Revisited: How In Vivo Metabolism Can Be Understood from In Vitro Enzyme. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.",
  "schema_version": "2.0"
}