About lab
Komarova2003 - Wodarz Mathematical Evolutionary Dynamics Mutator Lab
Scientific Source
- Source type:
PhysioMe CellML - Upstream ID:
physiome:komarova_wodarz_2003 - Original URL: https://models.physiomeproject.org/workspace/komarova_wodarz_2003
- Bundled artifact:
data/komarova_wodarz_2003_complex.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_m_1_2(M 1 2) maps to source symbolM_1_2; units:dimensionless; evidence: source symbol, component, or units provide a direct public name.initial_model_state_m_0(Model State M 0 (source M_0)) maps to source symbolM_0; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.- 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.model_state_m_0(Model State M 0 (source M_0)) maps to source symbolM_0; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.model_state_m_1(Model State M 1 (source M_1)) maps to source symbolM_1; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.model_state_m_2(Model State M 2 (source M_2)) maps to source symbolM_2; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.model_state_m_3(Model State M 3 (source M_3)) maps to source symbolM_3; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.model_state_m_4(Model State M 4 (source M_4)) maps to source symbolM_4; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.model_state_m_5(Model State M 5 (source M_5)) maps to source symbolM_5; units:dimensionless; evidence: source symbol is dimensionless but lacks enough evidence for a biological label.
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: Selected source-variable trajectories; final observable ranking; source/runtime evidence table; scientific 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 source-model physiology; it does not claim clinical safety or full reproduction of every upstream figure.
Source-faithful physiology lab for Komarova, Wodarz, 2003. Public controls and outputs are mapped to real source symbols for source-model physiology.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_m_1_2",
"label": "Initial M 1 2",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.initial_m_1_2",
"description": "Initial value for M 1 2. Maps to source symbol `M_1_2`. Units: dimensionless. Naming evidence: source symbol, component, or units provide a direct public name.",
"accepted_units": [
"dimensionless"
]
},
{
"name": "initial_model_state_m_0",
"label": "Initial Model State M 0 (source M_0)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.initial_model_state_m_0",
"description": "Initial value for Model State M 0 (source M_0). Maps to source symbol `M_0`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label.",
"accepted_units": [
"dimensionless"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.variable_labels"
},
{
"name": "model_state_m_0",
"label": "Model State M 0 (source M_0)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_0",
"description": "Model State M 0 (source M_0). Maps to source symbol `M_0`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
},
{
"name": "model_state_m_1",
"label": "Model State M 1 (source M_1)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_1",
"description": "Model State M 1 (source M_1). Maps to source symbol `M_1`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
},
{
"name": "model_state_m_2",
"label": "Model State M 2 (source M_2)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_2",
"description": "Model State M 2 (source M_2). Maps to source symbol `M_2`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
},
{
"name": "model_state_m_3",
"label": "Model State M 3 (source M_3)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_3",
"description": "Model State M 3 (source M_3). Maps to source symbol `M_3`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
},
{
"name": "model_state_m_4",
"label": "Model State M 4 (source M_4)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_4",
"description": "Model State M 4 (source M_4). Maps to source symbol `M_4`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
},
{
"name": "model_state_m_5",
"label": "Model State M 5 (source M_5)",
"maps_to": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.model_state_m_5",
"description": "Model State M 5 (source M_5). Maps to source symbol `M_5`. Units: dimensionless. Naming evidence: source symbol is dimensionless but lacks enough evidence for a biological label."
}
]
},
"title": "Komarova2003 - Wodarz Mathematical Evolutionary Dynamics Mutator Lab",
"models": [
{
"path": "owned/models/physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model",
"alias": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model",
"parameters": {
"model_path": "data/komarova_wodarz_2003_complex.cellml",
"integration_step": 0.01
},
"provenance": {
"owned_path": "owned/models/physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model_state"
],
"from": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.state"
},
{
"to": [
"visualisation.physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model_summary"
],
"from": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model_trajectory"
],
"from": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model_variable_labels"
],
"from": "physiology_cellml_komarova_wodarz_2003_komarovawodarz2003_model.variable_labels"
}
],
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"description": "Source-faithful physiology lab for Komarova, Wodarz, 2003. Public controls and outputs are mapped to real source symbols for source-model physiology.",
"schema_version": "2.0"
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