Sneyd1995 Calciumwave Ip3diffusion Lab

About lab

Sneyd1995 Calciumwave Ip3diffusion

This Biosimulant lab wraps Sneyd1995 Calciumwave Ip3diffusion as a runnable systems biology model with a companion visualization module. This a model from the article: Intercellular calcium waves mediated by diffusion of inositol trisphosphate: atwo-dimensional model. It can be used to explore the configured dynamics and compare scenario outcomes across configurations.

What You'll See

The lab asks: Which physiological state variables carry the strongest baseline response? Source model: Sneyd1995_CalciumWave_IP3diffusion. 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 P, H, and C, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, P moved from 0 to 0.6317 across 1.0 simulation windows.

Output Visualizations

Sneyd1995 Calciumwave Ip3diffusion - run interpretation

Summary table for Sneyd1995 Calciumwave Ip3diffusion, reporting the scientific question, observed answer, dominant module, and caveat.

Sneyd1995 Calciumwave Ip3diffusion - timeseries visualization

Trajectories of P, H, and C across the 1.0 simulation. In this run P climbed from 0 to 0.6317 and H fell from 1.000 to 0.5618 — the largest movements among the focused observables.

Sneyd1995 Calciumwave Ip3diffusion - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: P = 0.6317, H = 0.4382, C = 0.3818.

Sneyd1995 Calciumwave Ip3diffusion - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: C = 0.6818, P = 0.6317, H = 0.5618.

Sneyd1995 Calciumwave Ip3diffusion - visualization

Visualization card from the Sneyd1995 Calciumwave Ip3diffusion dark-mode run.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:MODEL1006230107
License: CC0

Inputs

Input	Maps To	Notes
Initial Model State P	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_p`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P`.
Initial Model State H	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_h`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `h`.
Initial Model State C	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_c`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `c`.

Outputs

Output	Maps To	Role
`state`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.state`	Available to the visualization model and downstream workflows.
`summary`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.species_labels`	Available to the visualization model and downstream workflows.
`model_state_p`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_p`	Available to the visualization model and downstream workflows.
`model_state_h`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_h`	Available to the visualization model and downstream workflows.
`model_state_c`	`systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_c`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve

This a model from the article: Intercellular calcium waves mediated by diffusion of inositol trisphosphate: atwo-dimensional model. Sneyd J, Wetton BT, Charles AC, Sanderson MJ.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packagesneyd1995-calciumwave-ip3diffusion-lab

Created2026-05-17

Updated2026-05-17

physiologysystemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_model_state_p",
        "label": "Initial Model State P",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_p",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `P`."
      },
      {
        "name": "initial_model_state_h",
        "label": "Initial Model State H",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_h",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `h`."
      },
      {
        "name": "initial_model_state_c",
        "label": "Initial Model State C",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.initial_model_state_c",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `c`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.species_labels"
      },
      {
        "name": "model_state_p",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_p"
      },
      {
        "name": "model_state_h",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_h"
      },
      {
        "name": "model_state_c",
        "maps_to": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.model_state_c"
      }
    ]
  },
  "tags": [
    "physiology",
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Sneyd1995 Calciumwave Ip3diffusion Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model",
      "alias": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model_state"
      ],
      "from": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model_summary"
      ],
      "from": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model_species_labels"
      ],
      "from": "systemsbiology_sbml_sneyd1995_calciumwave_ip3diffusion_model1006230107_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "This a model from the article: Intercellular calcium waves mediated by diffusion of inositol trisphosphate: atwo-dimensional model. Sneyd J, Wetton BT, Charles AC, Sanderson MJ.",
  "schema_version": "2.0"
}

Select a run from History to view its results.