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Koo2013 Shear-to-NO Composed Pathway

About lab

End-to-end shear-stress driven mechanotransduction. Composes the calcium-influx submodel with the NO-production submodel by wiring the cytosolic calcium output of the first into the cytosolic calcium input of the second. Single experimental knob: stimulus_intensity.

Runtime

Duration600
Comms Step10

Runs

Total3
Completed2
Failed1

Metadata

Packagekoo2013-shear-to-no
Created2026-05-04
Updated2026-06-13
biomechanicsendothelialshear-stressmechanotransductioncalciumsbmlbiomodels_ebifaithfulnitric-oxidevisualisationkoo2013other

Manifest

{
  "description": "End-to-end shear-stress driven mechanotransduction. Composes the calcium-influx submodel with the NO-production submodel by wiring the cytosolic calcium output of the first into the cytosolic calcium input of the second. Single experimental knob: stimulus_intensity.",
  "io": {
    "inputs": [
      {
        "maps_to": "calcium_influx.stimulus_intensity",
        "name": "stimulus_intensity"
      },
      {
        "maps_to": "calcium_influx.integration_step",
        "name": "integration_step"
      }
    ],
    "outputs": [
      {
        "maps_to": "calcium_influx.cytosolic_calcium",
        "name": "cytosolic_calcium"
      },
      {
        "maps_to": "calcium_influx.ip3",
        "name": "ip3"
      },
      {
        "maps_to": "no_production.active_eNOS",
        "name": "active_eNOS"
      },
      {
        "maps_to": "no_production.nitric_oxide",
        "name": "nitric_oxide"
      },
      {
        "maps_to": "calcium_influx.state",
        "name": "calcium_influx_state"
      },
      {
        "maps_to": "no_production.state",
        "name": "no_production_state"
      }
    ]
  },
  "models": [
    {
      "alias": "calcium_influx",
      "path": "models/calcium-influx"
    },
    {
      "alias": "no_production",
      "path": "models/no-production"
    },
    {
      "alias": "visualisation",
      "path": "models/visualisation"
    }
  ],
  "package": "koo2013-shear-to-no",
  "runtime": {
    "communication_step": 10,
    "duration": 600,
    "initial_inputs": {}
  },
  "schema_version": "2.0",
  "title": "Koo2013 Shear-to-NO Composed Pathway",
  "version": "1.0.0",
  "wiring": [
    {
      "from": "calcium_influx.cytosolic_calcium",
      "to": [
        "no_production.cytosolic_calcium",
        "visualisation.calcium_influx_cytosolic_calcium"
      ]
    },
    {
      "from": "calcium_influx.ip3",
      "to": [
        "visualisation.calcium_influx_ip3"
      ]
    },
    {
      "from": "no_production.active_eNOS",
      "to": [
        "visualisation.no_production_active_eNOS"
      ]
    },
    {
      "from": "no_production.nitric_oxide",
      "to": [
        "visualisation.no_production_nitric_oxide"
      ]
    },
    {
      "from": "calcium_influx.state",
      "to": [
        "visualisation.calcium_influx_state"
      ]
    },
    {
      "from": "calcium_influx.summary",
      "to": [
        "visualisation.calcium_influx_summary"
      ]
    },
    {
      "from": "no_production.state",
      "to": [
        "visualisation.no_production_state"
      ]
    },
    {
      "from": "no_production.summary",
      "to": [
        "visualisation.no_production_summary"
      ]
    }
  ]
}

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Python error: incompatible input profiles: source (scalar, float64, None, None) does not match any accepted input profile
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