Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling Lab

About lab

Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling

This Biosimulant lab wraps Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling 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 Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling 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 AKT, RASSF1A, source-defined MST2 state, source-defined DMST2 state, source-defined AMST2 state, and A Mst2u RASSF1A, and related outputs, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, source-defined IRAF1 state moved from 750.0 to 395.2 across 1.0 simulation windows.

Output Visualizations

Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling - run interpretation

Summary table for Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling, reporting the scientific question, observed answer, dominant module, and caveat.

Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling - timeseries visualization

Trajectories of source-defined IRAF1 state, I Raf1ui MST2, source-defined DMST2 state, source-defined AMST2 state, RAS GDP, and RAS GTP across the 1.0 simulation. In this run I Raf1ui MST2 climbed from 200.0 to 543.2 and source-defined IRAF1 state fell from 750.0 to 395.2 — the largest movements among the focused observables.

Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: ERK = 2992.8, I Raf1ui MST2 = 543.2, source-defined IRAF1 state = 395.2, with 7 more observables below.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:BIOMD0000000832
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	Default	Notes
A EGFR	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.initial_a_egfr_level`		A EGFR source parameter. Maps to SBML symbol `aEGFR` and preserves the bundled default.

Outputs

Output	Maps To	Role
`akt`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.akt`	AKT.
`rassf1a`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.rassf1a`	RASSF1A.
`a_mst2u_rassf1a`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.a_mst2u_rassf1a`	A Mst2u RASSF1A.
`state`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.state`	Available to the visualization model and downstream workflows.
`summary`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_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

Packageshin2016-unveiling-hidden-dynamics-of-hippo-signalling-lab

Created2026-05-16

Updated2026-05-16

signalingsystemssystems-biologysbmlfaithfulbiomodels_ebimapkras-erkpi3k-akthippovisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_a_egfr_level",
        "label": "A EGFR",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.initial_a_egfr_level",
        "description": "A EGFR source parameter. Maps to SBML symbol `aEGFR` and preserves the bundled default."
      }
    ],
    "outputs": [
      {
        "name": "akt",
        "label": "AKT",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.akt",
        "description": "AKT. Maps to SBML symbol `Akt` and is emitted in native SBML units."
      },
      {
        "name": "rassf1a",
        "label": "RASSF1A",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.rassf1a",
        "description": "RASSF1A. Maps to SBML symbol `RASSF1A` and is emitted in native SBML units."
      },
      {
        "name": "a_mst2u_rassf1a",
        "label": "A Mst2u RASSF1A",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.a_mst2u_rassf1a",
        "description": "A Mst2u RASSF1A. Maps to SBML symbol `aMST2uRASSF1A` and is emitted in native SBML units."
      },
      {
        "name": "state",
        "label": "Observable state",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Observable labels",
        "maps_to": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.species_labels"
      }
    ]
  },
  "tags": [
    "signaling",
    "systems",
    "systems-biology",
    "sbml",
    "faithful",
    "biomodels_ebi",
    "mapk",
    "ras-erk",
    "pi3k-akt",
    "hippo"
  ],
  "title": "Shin2016 - Unveiling Hidden Dynamics of Hippo Signalling Lab",
  "models": [
    {
      "path": "owned/models/signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model",
      "alias": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model",
      "provenance": {
        "owned_path": "owned/models/signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model_state"
      ],
      "from": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.state"
    },
    {
      "to": [
        "visualisation.signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model_summary"
      ],
      "from": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model.summary"
    },
    {
      "to": [
        "visualisation.signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_model_species_labels"
      ],
      "from": "signaling_sbml_shin2016_unveiling_hidden_dynamics_of_hippo_sign_biomd0000000832_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"
}

Select a run from History to view its results.