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Kholodenko1999 - Quantification Short Term Signaling By Epidermal Growth Lab

About lab

Source-faithful physiology lab for Kholodenko, Demin, Moehren, Hoek, 1999. Public controls and outputs are mapped to real source symbols for signalling physiology.

Runtime

Duration0.01
Comms Step0.01
Settle Steps1

Runs

Total0
Completed0
Failed0

Metadata

Packagekholodenko1999-quantification-short-term-signaling-by-epidermal
Created2026-05-23
Updated2026-05-23
physiologycellmlphysiomefaithfulvisualisationother

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_concentration_g_s",
        "label": "Initial Concentration G S (source G_S)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.initial_concentration_g_s",
        "description": "Initial value for Concentration G S (source G_S). Maps to source symbol `G_S`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state.",
        "accepted_units": [
          "nanomolar"
        ]
      },
      {
        "name": "initial_concentration_r",
        "label": "Initial Concentration R (source R)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.initial_concentration_r",
        "description": "Initial value for Concentration R (source R). Maps to source symbol `R`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state.",
        "accepted_units": [
          "nanomolar"
        ]
      }
    ],
    "outputs": [
      {
        "name": "state",
        "label": "Selected Source State",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation Summary",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.summary"
      },
      {
        "name": "trajectory",
        "label": "Source Trajectory",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.trajectory"
      },
      {
        "name": "variable_labels",
        "label": "Observable Labels",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.variable_labels"
      },
      {
        "name": "concentration_g_s",
        "label": "Concentration G S (source G_S)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_g_s",
        "description": "Concentration G S (source G_S). Maps to source symbol `G_S`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      },
      {
        "name": "concentration_r",
        "label": "Concentration R (source R)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_r",
        "description": "Concentration R (source R). Maps to source symbol `R`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      },
      {
        "name": "concentration_r2",
        "label": "Concentration R2 (source R2)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_r2",
        "description": "Concentration R2 (source R2). Maps to source symbol `R2`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      },
      {
        "name": "concentration_r_g",
        "label": "Concentration R G (source R_G)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_r_g",
        "description": "Concentration R G (source R_G). Maps to source symbol `R_G`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      },
      {
        "name": "concentration_r_pl",
        "label": "Concentration R Pl (source R_PL)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_r_pl",
        "description": "Concentration R Pl (source R_PL). Maps to source symbol `R_PL`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      },
      {
        "name": "concentration_r_sh",
        "label": "Concentration R Sh (source R_Sh)",
        "maps_to": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.concentration_r_sh",
        "description": "Concentration R Sh (source R_Sh). Maps to source symbol `R_Sh`. Units: nanomolar. Naming evidence: amount concentration units identify a concentration state."
      }
    ]
  },
  "title": "Kholodenko1999 - Quantification Short Term Signaling By Epidermal Growth Lab",
  "models": [
    {
      "path": "owned/models/physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model",
      "alias": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model",
      "parameters": {
        "model_path": "data/kholodenko_demin_moehren_hoek_1999.cellml",
        "integration_step": 0.01
      },
      "provenance": {
        "owned_path": "owned/models/physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model_state"
      ],
      "from": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.state"
    },
    {
      "to": [
        "visualisation.physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model_summary"
      ],
      "from": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.summary"
    },
    {
      "to": [
        "visualisation.physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model_trajectory"
      ],
      "from": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.trajectory"
    },
    {
      "to": [
        "visualisation.physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model_variable_labels"
      ],
      "from": "physiology_cellml_kholodenko_demin_moehren_hoek_1999_394_model.variable_labels"
    }
  ],
  "runtime": {
    "duration": 0.01,
    "settle_steps": 1,
    "initial_inputs": {},
    "communication_step": 0.01
  },
  "description": "Source-faithful physiology lab for Kholodenko, Demin, Moehren, Hoek, 1999. Public controls and outputs are mapped to real source symbols for signalling physiology.",
  "schema_version": "2.0"
}

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