Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V Lab

About lab

Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V

This Biosimulant lab wraps Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V as a runnable signaling model with a companion visualization module. Clean Biosimulant lab for MAPK/ERK receptor signaling. It can be used to explore second-messenger and pathway-signaling dynamics and compare scenario outcomes across configurations.

What You'll See

The lab asks: How does Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V propagate receptor or RAS/ERK pathway activity? 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 X1 0, X1 1, X2 0, X2 1, X2 2, and X4 0, and related outputs, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, P70 S6K PT229 Obs moved from 0.2905 to 0.5161 across 1.0 simulation windows.

Output Visualizations

Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V - run interpretation

Summary table for Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V, reporting the scientific question, observed answer, dominant module, and caveat.

Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V - timeseries visualization

Trajectories of P70 S6K PT229 Obs, PRAS40 PS183 Obs, AKT PS473 Obs, FOUREBP1 PT37 46 Obs, P70 S6K PT389 Obs, and X5 1 across the 1.0 simulation. In this run P70 S6K PT229 Obs climbed from 0.2905 to 0.5161 and X5 0 fell from 6.642 to 6.618 — the largest movements among the focused observables.

Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: X10 0 = 10.000, X12 0 = 8.579, X5 0 = 6.618, with 7 more observables below.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:MODEL1902140002
License: CC0
Visual scope: receptor-to-MAPK cascade signaling
Caveat: Values are native SBML quantities; equations, parameters, units, and initial values remain in the bundled source file.

Inputs

Input	Maps To	Notes
Initial AKT P S473 Obs	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_akt_p_s473_obs`	Initial level of AKT P S473 Obs. Maps to SBML symbol `Akt_pS473_obs`; exposed as a traceable initial-condition perturbation.
Initial AKT P T308 Obs	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_akt_p_t308_obs`	Initial level of AKT P T308 Obs. Maps to SBML symbol `Akt_pT308_obs`; exposed as a traceable initial-condition perturbation.
Initial Four EBP1 P T37 46 Obs	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_four_ebp1_p_t37_46_obs`	Initial level of Four EBP1 P T37 46 Obs. Maps to SBML symbol `fourEBP1_pT37_46_obs`; exposed as a traceable initial-condition perturbation.

Outputs

Output	Maps To	Role
`akt_p_t308_obs`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.akt_p_t308_obs`	AKT P T308 Obs.
`akt_p_s473_obs`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.akt_p_s473_obs`	AKT P S473 Obs.
`pras40_p_t246_obs`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.pras40_p_t246_obs`	PRAS40 P T246 Obs.
`state`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.state`	Available to the visualization model and downstream workflows.
`summary`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.species_labels`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve .

Clean Biosimulant lab for MAPK/ERK receptor signaling. Values are native SBML quantities; equations, parameters, and initial values remain in the bundled source file.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packageheberle-razquin-navas-2019-pi3k-mapk-p38-mtor-model-v-lab

Created2026-05-16

Updated2026-05-16

signalingsystemssystems-biologysbmlfaithfulbiomodels_ebimapkpi3k-aktmtorstress-responsevisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_akt_p_s473_obs",
        "label": "Initial AKT P S473 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_akt_p_s473_obs",
        "description": "Initial level of AKT P S473 Obs. Maps to SBML symbol `Akt_pS473_obs`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_akt_p_t308_obs",
        "label": "Initial AKT P T308 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_akt_p_t308_obs",
        "description": "Initial level of AKT P T308 Obs. Maps to SBML symbol `Akt_pT308_obs`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_four_ebp1_p_t37_46_obs",
        "label": "Initial Four EBP1 P T37 46 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.initial_four_ebp1_p_t37_46_obs",
        "description": "Initial level of Four EBP1 P T37 46 Obs. Maps to SBML symbol `fourEBP1_pT37_46_obs`; exposed as a traceable initial-condition perturbation."
      }
    ],
    "outputs": [
      {
        "name": "akt_p_t308_obs",
        "label": "AKT P T308 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.akt_p_t308_obs",
        "description": "AKT P T308 Obs. Maps to SBML symbol `Akt_pT308_obs` and is emitted in native SBML units."
      },
      {
        "name": "akt_p_s473_obs",
        "label": "AKT P S473 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.akt_p_s473_obs",
        "description": "AKT P S473 Obs. Maps to SBML symbol `Akt_pS473_obs` and is emitted in native SBML units."
      },
      {
        "name": "pras40_p_t246_obs",
        "label": "PRAS40 P T246 Obs",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.pras40_p_t246_obs",
        "description": "PRAS40 P T246 Obs. Maps to SBML symbol `PRAS40_pT246_obs` and is emitted in native SBML units."
      },
      {
        "name": "state",
        "label": "Observable state",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Observable labels",
        "maps_to": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.species_labels"
      }
    ]
  },
  "tags": [
    "signaling",
    "systems",
    "systems-biology",
    "sbml",
    "faithful",
    "biomodels_ebi",
    "mapk",
    "pi3k-akt",
    "mtor",
    "stress-response"
  ],
  "title": "Heberle-Razquin Navas-2019 - PI3K-MAPK/p38-mTOR Model V Lab",
  "models": [
    {
      "path": "owned/models/signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model",
      "alias": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model",
      "provenance": {
        "owned_path": "owned/models/signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model_state"
      ],
      "from": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.state"
    },
    {
      "to": [
        "visualisation.signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model_summary"
      ],
      "from": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.summary"
    },
    {
      "to": [
        "visualisation.signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model_species_labels"
      ],
      "from": "signaling_sbml_heberle_razquin_navas_2019_pi3k_mapk_p38_mtor_mo_model1902140002_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "Clean Biosimulant lab for MAPK/ERK receptor signaling. Values are native SBML quantities; equations, parameters, and initial values remain in the bundled source file.",
  "schema_version": "2.0"
}

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