Lee2016 Blood Coagulation Lab

About lab

Lee2016 Blood Coagulation

This Biosimulant lab wraps Lee2016 Blood Coagulation as a runnable systems biology model with a companion visualization module. Systems Biology Lee2016Blood Coagulation Model Model1806060001Model captures systems biology lee2016 blood coagulation model1806060001 behavior in the context of systemsbiology, sbml, biomodels_ebi using a biomo. It can be used to explore the configured dynamics and compare scenario outcomes across configurations.

What You'll See

The lab asks: Which source-defined system states dominate this SBML model trajectory? Source model: Lee2016 - Blood Coagulation Model. It runs for 1.0 time units with a communication step of 0.1. The run uses the model defaults declared by the curated SBML wrapper. The generated visualizations focus on P-Fg, t-PA-Pg, t-PA, P-F, P-XF, and TF-FVII, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, P-Fg moved from 75.000 to 74.746 across 1.0 simulation windows.

Output Visualizations

Lee2016 Blood Coagulation - run interpretation

Summary table for Lee2016 Blood Coagulation, reporting the scientific question, observed answer, dominant module, and caveat.

Lee2016 Blood Coagulation - timeseries visualization

Trajectories of P-Fg, t-PA-Pg, t-PA, P-F, P-XF, and TF-FVII across the 1.0 simulation. In this run t-PA-Pg climbed from 4.300 to 4.302 and P-Fg fell from 75.000 to 74.746 — the largest movements among the focused observables.

Lee2016 Blood Coagulation - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: P-Fg = 0.2547, t-PA-Pg = 0.00156, t-PA = 0.00155, with 3 more observables below.

Lee2016 Blood Coagulation - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: P-Fg = 74.746, t-PA-Pg = 4.302, t-PA = 0.1433, with 3 more observables below.

Lee2016 Blood Coagulation - visualization

Visualization card from the Lee2016 Blood Coagulation dark-mode run.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:MODEL1806060001
License: CC0

Inputs

Input	Maps To	Notes
Initial P Fg	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_p_fg`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_Fg`.
Initial T Pa Pg	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_t_pa_pg`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `t_PA_Pg`.
Initial T Pa	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_t_pa`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `t_PA`.
Initial Model State P F	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_model_state_p_f`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_F`.
Initial P Xf	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_p_xf`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_XF`.
Initial Tf Fvii	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_tf_fvii`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `TF_FVII`.

Outputs

Output	Maps To	Role
`state`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.state`	Available to the visualization model and downstream workflows.
`summary`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.species_labels`	Available to the visualization model and downstream workflows.
`p_fg`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_fg`	Available to the visualization model and downstream workflows.
`t_pa_pg`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.t_pa_pg`	Available to the visualization model and downstream workflows.
`t_pa`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.t_pa`	Available to the visualization model and downstream workflows.
`p_f`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_f`	Available to the visualization model and downstream workflows.
`p_xf`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_xf`	Available to the visualization model and downstream workflows.
`tf_fvii`	`systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.tf_fvii`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve

Systems Biology Lee2016Blood Coagulation Model Model1806060001Model captures systemsbiology lee2016 blood coagulation model1806060001 behavior in the context of systemsbiology, sbml, biomodels_ebi using a biomo. When you run it, you can observe state and evaluate how the modeled system changes across runs.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packagelee2016-blood-coagulation-lab

Created2026-05-17

Updated2026-05-17

systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_p_fg",
        "label": "Initial P Fg",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_p_fg",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_Fg`."
      },
      {
        "name": "initial_t_pa_pg",
        "label": "Initial T Pa Pg",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_t_pa_pg",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `t_PA_Pg`."
      },
      {
        "name": "initial_t_pa",
        "label": "Initial T Pa",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_t_pa",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `t_PA`."
      },
      {
        "name": "initial_model_state_p_f",
        "label": "Initial Model State P F",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_model_state_p_f",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_F`."
      },
      {
        "name": "initial_p_xf",
        "label": "Initial P Xf",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_p_xf",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P_XF`."
      },
      {
        "name": "initial_tf_fvii",
        "label": "Initial Tf Fvii",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.initial_tf_fvii",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `TF_FVII`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.species_labels"
      },
      {
        "name": "p_fg",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_fg"
      },
      {
        "name": "t_pa_pg",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.t_pa_pg"
      },
      {
        "name": "t_pa",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.t_pa"
      },
      {
        "name": "p_f",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_f"
      },
      {
        "name": "p_xf",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.p_xf"
      },
      {
        "name": "tf_fvii",
        "maps_to": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.tf_fvii"
      }
    ]
  },
  "tags": [
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Lee2016 Blood Coagulation Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model",
      "alias": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model_state"
      ],
      "from": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model_summary"
      ],
      "from": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model_species_labels"
      ],
      "from": "systemsbiology_sbml_lee2016_blood_coagulation_model_model1806060001_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "Systems Biology Lee2016Blood Coagulation Model Model1806060001Model captures systemsbiology lee2016 blood coagulation model1806060001 behavior in the context of systemsbiology, sbml, biomodels_ebi using a biomo. When you run it, you can observe state and evaluate how the modeled system changes across runs.",
  "schema_version": "2.0"
}

Select a run from History to view its results.