Zatorsky2006 P53 3 Lab

About lab

Zatorsky2006 P53 3

This Biosimulant lab wraps Zatorsky2006 P53 3 as a runnable systems biology model with a companion visualization module. The model reproduces time profile of p53 and Mdm2 as depicted in Fig 6B of the paper for Model 4. 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: Zatorsky2006_p53_Model4. 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 precursor Mdm2, Mdm2, and p53, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, Mdm2 moved from 0.8000 to 0.4249 across 1.0 simulation windows.

Output Visualizations

Zatorsky2006 P53 3 - run interpretation

Summary table for Zatorsky2006 P53 3, reporting the scientific question, observed answer, dominant module, and caveat.

Zatorsky2006 P53 3 - timeseries visualization

Trajectories of Mdm2, precursor Mdm2, and p53 across the 1.0 simulation. In this run p53 climbed from 0 to 0.0346 and Mdm2 fell from 0.8000 to 0.4249 — the largest movements among the focused observables.

Zatorsky2006 P53 3 - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: Mdm2 = 0.3751, precursor Mdm2 = 0.0463, p53 = 0.0346.

Zatorsky2006 P53 3 - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: Mdm2 = 0.4249, precursor Mdm2 = 0.0537, p53 = 0.0346.

Zatorsky2006 P53 3 - visualization

Visualization card from the Zatorsky2006 P53 3 dark-mode run.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:BIOMD0000000157
License: CC0

Inputs

Input	Maps To	Notes
Initial Precursor Mdm2	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_precursor_mdm2`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `y0`.
Initial Mdm2	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_mdm2`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `y`.
Initial Model State P53	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_model_state_p53`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `x`.

Outputs

Output	Maps To	Role
`state`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.state`	Available to the visualization model and downstream workflows.
`summary`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.species_labels`	Available to the visualization model and downstream workflows.
`precursor_mdm2`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.precursor_mdm2`	Available to the visualization model and downstream workflows.
`mdm2`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.mdm2`	Available to the visualization model and downstream workflows.
`p53`	`systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.p53`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve

The model reproduces time profile of p53 and Mdm2 as depicted in Fig 6B of the paper for Model 4. It can be used to explore systemsbiology zatorsky2006 p53 model4 BioModels0000000157 dynamics and compare simulation behavior across conditions.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packagezatorsky2006-p53-3-lab

Created2026-05-17

Updated2026-05-17

systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_precursor_mdm2",
        "label": "Initial Precursor Mdm2",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_precursor_mdm2",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `y0`."
      },
      {
        "name": "initial_mdm2",
        "label": "Initial Mdm2",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_mdm2",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `y`."
      },
      {
        "name": "initial_model_state_p53",
        "label": "Initial Model State P53",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.initial_model_state_p53",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `x`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.species_labels"
      },
      {
        "name": "precursor_mdm2",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.precursor_mdm2"
      },
      {
        "name": "mdm2",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.mdm2"
      },
      {
        "name": "p53",
        "maps_to": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.p53"
      }
    ]
  },
  "tags": [
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Zatorsky2006 P53 3 Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model",
      "alias": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model_state"
      ],
      "from": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model_summary"
      ],
      "from": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model_species_labels"
      ],
      "from": "systemsbiology_sbml_zatorsky2006_p53_model4_biomd0000000157_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "The model reproduces time profile of p53 and Mdm2 as depicted in Fig 6B of the paper for Model 4. It can be used to explore systemsbiology zatorsky2006 p53 model4 BioModels0000000157 dynamics and compare simulation behavior across conditions.",
  "schema_version": "2.0"
}

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