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Markevich2004 Mapk Allrandomelementary Lab

About lab

Markevich2004 Mapk Allrandomelementary

This Biosimulant lab wraps Markevich2004 Mapk Allrandomelementary as a runnable systems biology model with a companion visualization module. This model originates from BioModels Database: A Database of Annotated Published Models. It can be used to explore the configured dynamics and compare scenario outcomes across configurations.

What You'll See

The lab asks: Which signalling variables dominate the simulated network response? Source model: Markevich2004_MAPK_AllRandomElementary. 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 MAPK_MKP_Y, MAPK_MKP_T, MAPK_MAPKK_Y, MAPK_MAPKK_T, MAPK-PY_MKP_Y, and MAPK-PY_MKP_T, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, MAPK_MAPKK_Y moved from 0 to 86.062 across 1.0 simulation windows.

Output Visualizations

Markevich2004 Mapk Allrandomelementary - run interpretation

Summary table for Markevich2004 Mapk Allrandomelementary, reporting the scientific question, observed answer, dominant module, and caveat.

Markevich2004 Mapk Allrandomelementary - timeseries visualization

Trajectories of MAPK_MAPKK_Y, MAPK_MAPKK_T, MAPK_MKP_Y, MAPK_MKP_T, MAPK-PY_MKP_T, and MAPK-PY_MKP_Y across the 1.0 simulation. In this run MAPK_MAPKK_Y climbed from 0 to 86.062 — the largest movements among the focused observables.

Markevich2004 Mapk Allrandomelementary - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: MAPK_MAPKK_Y = 86.271, MAPK_MAPKK_T = 86.271, MAPK_MKP_Y = 45.993, with 3 more observables below.

Markevich2004 Mapk Allrandomelementary - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: MAPK_MAPKK_Y = 86.062, MAPK_MAPKK_T = 86.062, MAPK_MKP_Y = 45.993, with 3 more observables below.

Markevich2004 Mapk Allrandomelementary - visualization

Visualization card from the Markevich2004 Mapk Allrandomelementary dark-mode run.

Model Context

  • Core model: models/core
  • Visualization model: models/visualisation
  • Standard: other
  • Upstream source: biomodels_ebi:BIOMD0000000030
  • License: CC0

Inputs

InputMaps ToDefaultNotes
Initial MAPK Mkp Ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mkp_ySource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol M_MKP_Y.
Initial MAPK Mkp Tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mkp_tSource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol M_MKP_T.
Initial MAPK Mapkk Ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mapkk_ySource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol M_MAPKK_Y.
Initial MAPK Mapkk Tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mapkk_tSource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol M_MAPKK_T.
Initial MAPK Py Mkp Ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_py_mkp_ySource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol MpY_MKP_Y.
Initial MAPK Py Mkp Tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_py_mkp_tSource state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol MpY_MKP_T.

Outputs

OutputMaps ToRole
statesystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.stateAvailable to the visualization model and downstream workflows.
summarysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.summaryAvailable to the visualization model and downstream workflows.
species_labelssystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.species_labelsAvailable to the visualization model and downstream workflows.
mapk_mkp_ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mkp_yAvailable to the visualization model and downstream workflows.
mapk_mkp_tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mkp_tAvailable to the visualization model and downstream workflows.
mapk_mapkk_ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mapkk_yAvailable to the visualization model and downstream workflows.
mapk_mapkk_tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mapkk_tAvailable to the visualization model and downstream workflows.
mapk_py_mkp_ysystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_py_mkp_yAvailable to the visualization model and downstream workflows.
mapk_py_mkp_tsystemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_py_mkp_tAvailable to the visualization model and downstream workflows.

Runtime

  • Duration: 1.0
  • Communication step: 0.1

Running Locally

biosimulant labs serve

This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team.

Runtime

Duration1
Comms Step0.1

Runs

Total0
Completed0
Failed0

Metadata

Packagemarkevich2004-mapk-allrandomelementary-lab
Created2026-05-17
Updated2026-05-17
signalingsystemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_mapk_mkp_y",
        "label": "Initial MAPK Mkp Y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mkp_y",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `M_MKP_Y`."
      },
      {
        "name": "initial_mapk_mkp_t",
        "label": "Initial MAPK Mkp T",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mkp_t",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `M_MKP_T`."
      },
      {
        "name": "initial_mapk_mapkk_y",
        "label": "Initial MAPK Mapkk Y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mapkk_y",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `M_MAPKK_Y`."
      },
      {
        "name": "initial_mapk_mapkk_t",
        "label": "Initial MAPK Mapkk T",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_mapkk_t",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `M_MAPKK_T`."
      },
      {
        "name": "initial_mapk_py_mkp_y",
        "label": "Initial MAPK Py Mkp Y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_py_mkp_y",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `MpY_MKP_Y`."
      },
      {
        "name": "initial_mapk_py_mkp_t",
        "label": "Initial MAPK Py Mkp T",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.initial_mapk_py_mkp_t",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `MpY_MKP_T`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.species_labels"
      },
      {
        "name": "mapk_mkp_y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mkp_y"
      },
      {
        "name": "mapk_mkp_t",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mkp_t"
      },
      {
        "name": "mapk_mapkk_y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mapkk_y"
      },
      {
        "name": "mapk_mapkk_t",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_mapkk_t"
      },
      {
        "name": "mapk_py_mkp_y",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_py_mkp_y"
      },
      {
        "name": "mapk_py_mkp_t",
        "maps_to": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.mapk_py_mkp_t"
      }
    ]
  },
  "tags": [
    "signaling",
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Markevich2004 Mapk Allrandomelementary Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model",
      "alias": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model_state"
      ],
      "from": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model_summary"
      ],
      "from": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model_species_labels"
      ],
      "from": "systemsbiology_sbml_markevich2004_mapk_allrandomelementary_biomd0000000030_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "This model originates from BioModels Database: A Database of Annotated Published Models. It is copyright (c) 2005-2009 The BioModels Team.",
  "schema_version": "2.0"
}

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