Fuentes2005 Zymogenactivation Lab

About lab

Fuentes2005 Zymogenactivation

This Biosimulant lab wraps Fuentes2005 Zymogenactivation as a runnable systems biology model with a companion visualization module. . 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: Fuentes2005_ZymogenActivation. 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 Enzyme-Substrate complex, Zymogen, Peptide, and Enzyme, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, Zymogen moved from 2.4e-05 to 2.39e-05 across 1.0 simulation windows.

Output Visualizations

Fuentes2005 Zymogenactivation - run interpretation

Summary table for Fuentes2005 Zymogenactivation, reporting the scientific question, observed answer, dominant module, and caveat.

Fuentes2005 Zymogenactivation - timeseries visualization

Trajectories of Zymogen, Peptide, Enzyme, and Enzyme-Substrate complex across the 1.0 simulation. In this run Peptide climbed from 0 to 8.62e-08 and Zymogen fell from 2.4e-05 to 2.39e-05 — the largest movements among the focused observables.

Fuentes2005 Zymogenactivation - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: Zymogen = 8.72e-08, Peptide = 8.62e-08, Enzyme = 8.53e-08, with 1 more observable below.

Fuentes2005 Zymogenactivation - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: Zymogen = 2.39e-05, Peptide = 8.62e-08, Enzyme = 8.53e-08, with 1 more observable below.

Fuentes2005 Zymogenactivation - visualization

Visualization card from the Fuentes2005 Zymogenactivation dark-mode run.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:BIOMD0000000092
License: CC0

Inputs

Input	Maps To	Notes
Initial Enzyme Substrate Complex	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_enzyme_substrate_complex`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `ez`.
Initial Zymogen	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_zymogen`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `z`.
Initial Peptide	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_peptide`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `w`.
Initial Enzyme	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_enzyme`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `e`.

Outputs

Output	Maps To	Role
`state`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.state`	Available to the visualization model and downstream workflows.
`summary`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.species_labels`	Available to the visualization model and downstream workflows.
`enzyme_substrate_complex`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.enzyme_substrate_complex`	Available to the visualization model and downstream workflows.
`zymogen`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.zymogen`	Available to the visualization model and downstream workflows.
`peptide`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.peptide`	Available to the visualization model and downstream workflows.
`enzyme`	`systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.enzyme`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve

. It can be used to explore systemsbiology fuentes2005 zymogenactivation BioModels0000000092 dynamics and compare simulation behavior across conditions.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packagefuentes2005-zymogenactivation-lab

Created2026-05-17

Updated2026-05-17

systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_enzyme_substrate_complex",
        "label": "Initial Enzyme Substrate Complex",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_enzyme_substrate_complex",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `ez`."
      },
      {
        "name": "initial_zymogen",
        "label": "Initial Zymogen",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_zymogen",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `z`."
      },
      {
        "name": "initial_peptide",
        "label": "Initial Peptide",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_peptide",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `w`."
      },
      {
        "name": "initial_enzyme",
        "label": "Initial Enzyme",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.initial_enzyme",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `e`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.species_labels"
      },
      {
        "name": "enzyme_substrate_complex",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.enzyme_substrate_complex"
      },
      {
        "name": "zymogen",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.zymogen"
      },
      {
        "name": "peptide",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.peptide"
      },
      {
        "name": "enzyme",
        "maps_to": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.enzyme"
      }
    ]
  },
  "tags": [
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Fuentes2005 Zymogenactivation Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model",
      "alias": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model_state"
      ],
      "from": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model_summary"
      ],
      "from": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model_species_labels"
      ],
      "from": "systemsbiology_sbml_fuentes2005_zymogenactivation_biomd0000000092_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": ". It can be used to explore systemsbiology fuentes2005 zymogenactivation BioModels0000000092 dynamics and compare simulation behavior across conditions.",
  "schema_version": "2.0"
}

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