About lab
Cooling2007 - Modeling Hypertrophic IP3 Transients Cardiac Myocyte Lab
Scientific Source
- Source type:
PhysioMe CellML - Upstream ID:
physiome:cooling_hunter_crampin_2007 - Original URL: https://models.physiomeproject.org/workspace/cooling_hunter_crampin_2007
- Bundled artifact:
data/cooling_hunter_crampin_2007.cellml
The bundled CellML/SBML artifact remains the scientific source of truth. This cleanup does not rewrite equations, parameters, units, or initial values; it exposes selected source symbols with conservative user-facing names.
Public Interface
Source-backed inputs:
initial_calcium(Calcium) maps to source symbolCa; units:uM; evidence: source symbol, component, or units provide a direct public name.initial_inositol_trisphosphate(Inositol Trisphosphate) maps to source symbolIP3; units:uM; evidence: source symbol, component, or units provide a direct public name.- The simulator still uses an internal
integration_stepparameter from the model manifest; it is not exposed as a biological lab input.
Selected outputs:
state,summary,trajectory, andvariable_labelsremain available for traceability.calcium(Calcium) maps to source symbolCa; units:uM; evidence: source symbol, component, or units provide a direct public name.inositol_trisphosphate(Inositol Trisphosphate) maps to source symbolIP3; units:uM; evidence: source symbol, component, or units provide a direct public name.all_gd(All Gd) maps to source symbolGd; units:per_um2; evidence: source symbol, component, or units provide a direct public name.all_gt(All Gt) maps to source symbolGt; units:per_um2; evidence: source symbol, component, or units provide a direct public name.all_p(All P) maps to source symbolP; units:per_um2; evidence: source symbol, component, or units provide a direct public name.all_pc(All Pc) maps to source symbolPc; units:per_um2; evidence: source symbol, component, or units provide a direct public name.
Ambiguous source symbols are intentionally given conservative names such as model_state_*, cell_population_*, or rate_constant_* rather than unsupported biological interpretations.
Visualisations
Visual scope: Membrane-voltage and gating-variable trajectories; ionic current ranking; action-potential response Q/A.
The visualisation renders a scientific Q/A table, selected source-variable trajectories, final observable values, and source/runtime evidence. The cards use runtime outputs from the core wrapper and suppress empty data.
Output Visualizations




Caveat
This validates source-faithful execution and Biosimulant wiring for electrophysiology; it does not claim clinical safety or full reproduction of every upstream figure.
Source-faithful physiology lab for Cooling, Hunter, Crampin, 2007. Public controls and outputs are mapped to real source symbols for electrophysiology.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_calcium",
"label": "Initial Calcium",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.initial_calcium",
"description": "Initial value for Calcium. Maps to source symbol `Ca`. Units: uM. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"uM"
]
},
{
"name": "initial_inositol_trisphosphate",
"label": "Initial Inositol Trisphosphate",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.initial_inositol_trisphosphate",
"description": "Initial value for Inositol Trisphosphate. Maps to source symbol `IP3`. Units: uM. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"uM"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.variable_labels"
},
{
"name": "calcium",
"label": "Calcium",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.calcium",
"description": "Calcium. Maps to source symbol `Ca`. Units: uM. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "inositol_trisphosphate",
"label": "Inositol Trisphosphate",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.inositol_trisphosphate",
"description": "Inositol Trisphosphate. Maps to source symbol `IP3`. Units: uM. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "all_gd",
"label": "All Gd",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.all_gd",
"description": "All Gd. Maps to source symbol `Gd`. Units: per_um2. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "all_gt",
"label": "All Gt",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.all_gt",
"description": "All Gt. Maps to source symbol `Gt`. Units: per_um2. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "all_p",
"label": "All P",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.all_p",
"description": "All P. Maps to source symbol `P`. Units: per_um2. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "all_pc",
"label": "All Pc",
"maps_to": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.all_pc",
"description": "All Pc. Maps to source symbol `Pc`. Units: per_um2. Naming evidence: source symbol, component, or units provide a direct public name."
}
]
},
"title": "Cooling2007 - Modeling Hypertrophic IP3 Transients Cardiac Myocyte Lab",
"models": [
{
"path": "owned/models/physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model",
"alias": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model",
"parameters": {
"model_path": "data/cooling_hunter_crampin_2007.cellml",
"integration_step": 0.01
},
"provenance": {
"owned_path": "owned/models/physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model_state"
],
"from": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.state"
},
{
"to": [
"visualisation.physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model_summary"
],
"from": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model_trajectory"
],
"from": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model_variable_labels"
],
"from": "physiology_cellml_cooling_hunter_crampin_2007_coolinghuntercrampin2007_model.variable_labels"
}
],
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"description": "Source-faithful physiology lab for Cooling, Hunter, Crampin, 2007. Public controls and outputs are mapped to real source symbols for electrophysiology.",
"schema_version": "2.0"
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