Larbat2016.2 - Modeling the diversion of primary carbon flux into secondary metabolism under variable nitrate and light or dark conditions (Light Dark Cycles) Lab

{
  "io": {
    "inputs": [
      {
        "name": "initial_metabolic_pathway_state_1",
        "units": "native SBML value",
        "default": 0.748,
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.initial_metabolic_pathway_state_1",
        "description": "Initial condition for metabolic pathway state 1. Maps to bundled SBML symbol `sucr`. 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_2",
        "units": "native SBML value",
        "default": 2.825,
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.initial_metabolic_pathway_state_2",
        "description": "Initial condition for metabolic pathway state 2. Maps to bundled SBML symbol `EtrioseP`. 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": 9.751e-7,
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.initial_metabolic_pathway_state_3",
        "description": "Initial condition for metabolic pathway state 3. Maps to bundled SBML symbol `Ephe`. 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_4",
        "units": "native SBML value",
        "default": 4.998,
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.initial_metabolic_pathway_state_4",
        "description": "Initial condition for metabolic pathway state 4. Maps to bundled SBML symbol `N`. 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_5",
        "units": "native SBML value",
        "default": 6.041,
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.initial_metabolic_pathway_state_5",
        "description": "Initial condition for metabolic pathway state 5. Maps to bundled SBML symbol `starch`. 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_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.metabolic_pathway_state_1"
      },
      {
        "name": "metabolic_pathway_state_2",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.metabolic_pathway_state_2"
      },
      {
        "name": "metabolic_pathway_state_3",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.metabolic_pathway_state_3"
      },
      {
        "name": "metabolic_pathway_state_4",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.metabolic_pathway_state_4"
      },
      {
        "name": "metabolic_pathway_state_5",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.metabolic_pathway_state_5"
      },
      {
        "name": "observable_values",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.observable_values"
      },
      {
        "name": "run_summary",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.run_summary"
      },
      {
        "name": "observable_labels",
        "maps_to": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.observable_labels"
      }
    ]
  },
  "title": "Larbat2016.2 - Modeling the diversion of primary carbon flux into secondary metabolism under variable nitrate and light or dark conditions (Light Dark Cycles) Lab",
  "models": [
    {
      "path": "models/core",
      "alias": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model",
      "parameters": {
        "model_path": "data/BIOMD0000000858.xml",
        "integration_step": 0.1
      }
    },
    {
      "path": "models/visualisation",
      "alias": "visualisation"
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model_observable_values"
      ],
      "from": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.observable_values"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model_run_summary"
      ],
      "from": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.run_summary"
    },
    {
      "to": [
        "visualisation.metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model_observable_labels"
      ],
      "from": "metabolism_sbml_larbat2016_2_modeling_the_diversion_of_primary_c_biomd0000000858_model.observable_labels"
    }
  ],
  "package": "larbat2016-2-modeling-the-diversion-of-primary-carbon-f-65f09610",
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 1
  },
  "version": "1.0.0",
  "description": "This is a global mathematical model describing metabolic partitioning of carbon resources in plants between growth and defense, as a function of nitrate fertilization. It can be used to explore metabolic flux dynamics and compare pathway behavior across conditions.",
  "schema_version": "2.0"
}