Fung2005_Metabolic_Oscillator Lab

{
  "io": {
    "inputs": [
      {
        "name": "initial_metabolic_pathway_state_1",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.initial_metabolic_pathway_state_1",
        "description": "Initial condition for metabolic pathway state 1. Maps to bundled SBML symbol `AcCoA`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_acetyl_phosphate",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.initial_acetyl_phosphate",
        "description": "Initial condition for acetyl phosphate. Maps to bundled SBML symbol `AcP`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_metabolic_pathway_state_3",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.initial_metabolic_pathway_state_3",
        "description": "Initial condition for metabolic pathway state 3. Maps to bundled SBML symbol `OAc`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_protonated_acetate",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.initial_protonated_acetate",
        "description": "Initial condition for protonated acetate. Maps to bundled SBML symbol `HOAc`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      },
      {
        "name": "initial_lactate_repressor",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.initial_lactate_repressor",
        "description": "Initial condition for lactate repressor. Maps to bundled SBML symbol `LacI`. Applied before the Tellurium simulation starts; this does not change kinetic parameters or equations. Default from bundled SBML initial value."
      }
    ],
    "outputs": [
      {
        "name": "metabolic_pathway_state_1",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.metabolic_pathway_state_1"
      },
      {
        "name": "acetyl_phosphate",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.acetyl_phosphate"
      },
      {
        "name": "metabolic_pathway_state_3",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.metabolic_pathway_state_3"
      },
      {
        "name": "protonated_acetate",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.protonated_acetate"
      },
      {
        "name": "lactate_repressor",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.lactate_repressor"
      },
      {
        "name": "observable_values",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.observable_values"
      },
      {
        "name": "run_summary",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.run_summary"
      },
      {
        "name": "observable_labels",
        "maps_to": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.observable_labels"
      }
    ]
  },
  "title": "Fung2005_Metabolic_Oscillator Lab",
  "models": [
    {
      "path": "owned/models/metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model",
      "alias": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model",
      "parameters": {
        "model_path": "data/BIOMD0000000067.xml",
        "integration_step": 0.1
      },
      "provenance": {
        "owned_path": "owned/models/metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model_observable_values"
      ],
      "from": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.observable_values"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model_run_summary"
      ],
      "from": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.run_summary"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model_observable_labels"
      ],
      "from": "metabolism_sbml_fung2005_metabolic_oscillator_biomd0000000067_model.observable_labels"
    }
  ],
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 1
  },
  "description": "A Synthetic Gene-Metabolic Oscillator Reference: Fung et al; Nature (2005) 435:118-122 Name of kinetic law Reaction Glycolytic flux, V_gly: nil -> AcCoA; Flux to TCA cycle/ETOH, V_TCA: AcCoA ->. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.",
  "schema_version": "2.0"
}