Clancy2001 Potassium Channel Lab

{
  "io": {
    "inputs": [
      {
        "name": "integration_step",
        "maps_to": "clancy2001_potassium_channel_core.integration_step"
      },
      {
        "name": "parameter_overrides",
        "maps_to": "clancy2001_potassium_channel_core.parameter_overrides"
      },
      {
        "name": "initial_conditions",
        "maps_to": "clancy2001_potassium_channel_core.initial_conditions"
      }
    ],
    "outputs": [
      {
        "name": "scenario_metadata",
        "maps_to": "clancy2001_potassium_channel_scenario.scenario_metadata"
      },
      {
        "name": "state",
        "maps_to": "clancy2001_potassium_channel_core.state"
      },
      {
        "name": "run_summary",
        "maps_to": "clancy2001_potassium_channel_viz.run_summary"
      }
    ]
  },
  "title": "Clancy2001 Potassium Channel Lab",
  "models": [
    {
      "path": "owned/models/clancy2001_potassium_channel_scenario",
      "alias": "clancy2001_potassium_channel_scenario",
      "parameters": {
        "schedule": {
          "temperature": {
            "unit": "dimensionless",
            "label": "temperature",
            "active": false,
            "baseline": 310,
            "recovery": 310,
            "challenge": 310,
            "description": "Scenario-controlled temperature value."
          },
          "test_voltage": {
            "unit": "mV",
            "label": "test voltage",
            "active": false,
            "baseline": 0,
            "recovery": 0,
            "challenge": 0,
            "description": "Scenario-controlled test voltage value."
          },
          "holding_voltage": {
            "unit": "mV",
            "label": "holding voltage",
            "active": true,
            "baseline": -40,
            "recovery": -40,
            "challenge": -60,
            "description": "Scenario-controlled holding voltage value."
          },
          "extracellular_potassium": {
            "unit": "mM",
            "label": "extracellular potassium",
            "active": false,
            "baseline": 5.4,
            "recovery": 5.4,
            "challenge": 5.4,
            "description": "Scenario-controlled extracellular potassium value."
          },
          "intracellular_potassium": {
            "unit": "mM",
            "label": "intracellular potassium",
            "active": false,
            "baseline": 140,
            "recovery": 140,
            "challenge": 140,
            "description": "Scenario-controlled intracellular potassium value."
          }
        },
        "scenario_name": "Voltage-step channel challenge",
        "baseline_until": 0.25,
        "challenge_until": 0.75,
        "scenario_description": "Baseline is followed by a holding voltage challenge and recovery period."
      },
      "provenance": {
        "owned_path": "owned/models/clancy2001_potassium_channel_scenario"
      }
    },
    {
      "path": "owned/models/clancy2001_potassium_channel_core",
      "alias": "clancy2001_potassium_channel_core",
      "parameters": {
        "model_path": "data/BIOMD0000000121.xml",
        "integration_step": 0.01
      },
      "provenance": {
        "owned_path": "owned/models/clancy2001_potassium_channel_core"
      }
    },
    {
      "path": "owned/models/clancy2001_potassium_channel_viz",
      "alias": "clancy2001_potassium_channel_viz",
      "parameters": {
        "lab_title": "Clancy2001 Potassium Channel",
        "lab_question": "How does the delayed rectifier potassium channel state distribution respond to voltage?",
        "integration_step": 0.01
      },
      "provenance": {
        "owned_path": "owned/models/clancy2001_potassium_channel_viz"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "clancy2001_potassium_channel_core.temperature"
      ],
      "from": "clancy2001_potassium_channel_scenario.temperature"
    },
    {
      "to": [
        "clancy2001_potassium_channel_core.extracellular_potassium"
      ],
      "from": "clancy2001_potassium_channel_scenario.extracellular_potassium"
    },
    {
      "to": [
        "clancy2001_potassium_channel_core.intracellular_potassium"
      ],
      "from": "clancy2001_potassium_channel_scenario.intracellular_potassium"
    },
    {
      "to": [
        "clancy2001_potassium_channel_core.holding_voltage"
      ],
      "from": "clancy2001_potassium_channel_scenario.holding_voltage"
    },
    {
      "to": [
        "clancy2001_potassium_channel_core.test_voltage"
      ],
      "from": "clancy2001_potassium_channel_scenario.test_voltage"
    },
    {
      "to": [
        "clancy2001_potassium_channel_viz.scenario_metadata"
      ],
      "from": "clancy2001_potassium_channel_scenario.scenario_metadata"
    },
    {
      "to": [
        "clancy2001_potassium_channel_viz.state"
      ],
      "from": "clancy2001_potassium_channel_core.state"
    },
    {
      "to": [
        "clancy2001_potassium_channel_viz.species_labels"
      ],
      "from": "clancy2001_potassium_channel_core.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {
      "clancy2001_potassium_channel_core": {
        "integration_step": 0.01,
        "initial_conditions": {
          "payload": {}
        },
        "parameter_overrides": {
          "payload": {}
        }
      }
    },
    "communication_step": 0.01
  },
  "description": "Two-model lab for Clancy2001 Potassium Channel: a core SBML simulator wired into a dedicated visualization sub-model that turns the raw state into friendly timeseries and a plain-language summary. This model is according to the paper Cellular consequences of HEGR mutations in the long QT syndrome: precursors to sudden cardiac death. The author used Markovian model of cardiac Ikr in the paper.",
  "schema_version": "2.0"
}