Nyman2012_InsulinSignalling Lab

About lab

Nyman2012_InsulinSignalling

This Biosimulant lab wraps Nyman2012_InsulinSignalling as a runnable signaling model with a companion visualization module. Clean Biosimulant lab for metabolic and hormone-linked 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 Nyman2012 InsulinSignalling route receptor activity into cAMP/PKA-linked readouts? 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 insulin receptor, insulin-bound insulin receptor, phosphorylated insulin receptor, internalized phosphorylated insulin receptor, internalized insulin receptor, and IRS, and related outputs, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, insulin receptor moved from 8.941 to 0.2099 across 1.0 simulation windows.

Output Visualizations

Nyman2012_InsulinSignalling - run interpretation

Summary table for Nyman2012_InsulinSignalling, reporting the scientific question, observed answer, dominant module, and caveat.

Nyman2012_InsulinSignalling - timeseries visualization

Trajectories of insulin receptor, insulin-bound insulin receptor, IRS, Irsi P, internalized phosphorylated insulin receptor, and phosphorylated insulin receptor across the 1.0 simulation. In this run insulin-bound insulin receptor climbed from 0.5969 to 7.544 and insulin receptor fell from 8.941 to 0.2099 — the largest movements among the focused observables.

Nyman2012_InsulinSignalling - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: response node X = 9.994, insulin-bound insulin receptor = 7.544, IRS = 6.026, with 6 more observables below.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:BIOMD0000000423
License: CC0
Visual scope: GPCR and cAMP/PKA 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
K1a Basic	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.initial_k1a_basic_level`		K1a Basic source parameter. Maps to SBML symbol `k1aBasic` and preserves the bundled default.

Outputs

Output	Maps To	Role
`insulin_bound_insulin_receptor`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.insulin_bound_insulin_receptor`	insulin-bound insulin receptor.
`phosphorylated_insulin_receptor`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.phosphorylated_insulin_receptor`	phosphorylated insulin receptor.
`internalized_phosphorylated_insulin_receptor`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.internalized_phosphorylated_insulin_receptor`	internalized phosphorylated insulin receptor.
`state`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.state`	Available to the visualization model and downstream workflows.
`summary`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_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 metabolic and hormone-linked 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

Packagenyman2012-insulinsignalling-lab

Created2026-05-16

Updated2026-05-16

signalingsystemssystems-biologysbmlfaithfulbiomodels_ebigpcrmetabolic-signalinghormone-signalingvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_k1a_basic_level",
        "label": "K1a Basic",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.initial_k1a_basic_level",
        "description": "K1a Basic source parameter. Maps to SBML symbol `k1aBasic` and preserves the bundled default."
      }
    ],
    "outputs": [
      {
        "name": "insulin_bound_insulin_receptor",
        "label": "insulin-bound insulin receptor",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.insulin_bound_insulin_receptor",
        "description": "insulin-bound insulin receptor. Maps to SBML symbol `IRins` and is emitted in native SBML units."
      },
      {
        "name": "phosphorylated_insulin_receptor",
        "label": "phosphorylated insulin receptor",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.phosphorylated_insulin_receptor",
        "description": "phosphorylated insulin receptor. Maps to SBML symbol `IRp` and is emitted in native SBML units."
      },
      {
        "name": "internalized_phosphorylated_insulin_receptor",
        "label": "internalized phosphorylated insulin receptor",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.internalized_phosphorylated_insulin_receptor",
        "description": "internalized phosphorylated insulin receptor. Maps to SBML symbol `IRiP` and is emitted in native SBML units."
      },
      {
        "name": "state",
        "label": "Observable state",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Observable labels",
        "maps_to": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.species_labels"
      }
    ]
  },
  "tags": [
    "signaling",
    "systems",
    "systems-biology",
    "sbml",
    "faithful",
    "biomodels_ebi",
    "gpcr",
    "metabolic-signaling",
    "hormone-signaling"
  ],
  "title": "Nyman2012_InsulinSignalling Lab",
  "models": [
    {
      "path": "owned/models/signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model",
      "alias": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model",
      "provenance": {
        "owned_path": "owned/models/signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model_state"
      ],
      "from": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.state"
    },
    {
      "to": [
        "visualisation.signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model_summary"
      ],
      "from": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.summary"
    },
    {
      "to": [
        "visualisation.signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model_species_labels"
      ],
      "from": "signaling_sbml_nyman2012_insulinsignalling_biomd0000000423_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "Clean Biosimulant lab for metabolic and hormone-linked 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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