About lab
Brown1997 - Mathematical Diurnal Variations Human Plasma Melatonin Lab
Scientific Source
- Source type:
PhysioMe CellML - Upstream ID:
physiome:57f - Original URL: https://models.physiomeproject.org/workspace/57f
- Bundled artifact:
data/brown_choe_shanahan_czeisler_1997.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_concentration_h1(Concentration H1 (source H1)) maps to source symbolH1; units:picomolar; evidence: amount concentration units identify a concentration state.initial_concentration_h2(Concentration H2 (source H2)) maps to source symbolH2; units:picomolar; evidence: amount concentration units identify a concentration state.- 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.concentration_h1(Concentration H1 (source H1)) maps to source symbolH1; units:picomolar; evidence: amount concentration units identify a concentration state.concentration_h2(Concentration H2 (source H2)) maps to source symbolH2; units:picomolar; evidence: amount concentration units identify a concentration state.alpha(Alpha) maps to source symbolalpha; units:first_order_rate_constant; evidence: source symbol, component, or units provide a direct public name.beta_c(Beta C) maps to source symbolbeta_C; units:first_order_rate_constant; evidence: source symbol, component, or units provide a direct public name.beta_i(Beta I) maps to source symbolbeta_I; units:first_order_rate_constant; evidence: source symbol, component, or units provide a direct public name.lamda(Lamda) maps to source symbollamda; units:first_order_rate_constant; 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: 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 Brown, Choe, Shanahan, Czeisler, 1997. Public controls and outputs are mapped to real source symbols for source-model physiology.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_concentration_h1",
"label": "Initial Concentration H1 (source H1)",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.initial_concentration_h1",
"description": "Initial value for Concentration H1 (source H1). Maps to source symbol `H1`. Units: picomolar. Naming evidence: amount concentration units identify a concentration state.",
"accepted_units": [
"picomolar"
]
},
{
"name": "initial_concentration_h2",
"label": "Initial Concentration H2 (source H2)",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.initial_concentration_h2",
"description": "Initial value for Concentration H2 (source H2). Maps to source symbol `H2`. Units: picomolar. Naming evidence: amount concentration units identify a concentration state.",
"accepted_units": [
"picomolar"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.variable_labels"
},
{
"name": "concentration_h1",
"label": "Concentration H1 (source H1)",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.concentration_h1",
"description": "Concentration H1 (source H1). Maps to source symbol `H1`. Units: picomolar. Naming evidence: amount concentration units identify a concentration state."
},
{
"name": "concentration_h2",
"label": "Concentration H2 (source H2)",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.concentration_h2",
"description": "Concentration H2 (source H2). Maps to source symbol `H2`. Units: picomolar. Naming evidence: amount concentration units identify a concentration state."
},
{
"name": "alpha",
"label": "Alpha",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.alpha",
"description": "Alpha. Maps to source symbol `alpha`. Units: first_order_rate_constant. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "beta_c",
"label": "Beta C",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.beta_c",
"description": "Beta C. Maps to source symbol `beta_C`. Units: first_order_rate_constant. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "beta_i",
"label": "Beta I",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.beta_i",
"description": "Beta I. Maps to source symbol `beta_I`. Units: first_order_rate_constant. Naming evidence: source symbol, component, or units provide a direct public name."
},
{
"name": "lamda",
"label": "Lamda",
"maps_to": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.lamda",
"description": "Lamda. Maps to source symbol `lamda`. Units: first_order_rate_constant. Naming evidence: source symbol, component, or units provide a direct public name."
}
]
},
"title": "Brown1997 - Mathematical Diurnal Variations Human Plasma Melatonin Lab",
"models": [
{
"path": "owned/models/physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model",
"alias": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model",
"parameters": {
"model_path": "data/brown_choe_shanahan_czeisler_1997.cellml",
"integration_step": 0.01
},
"provenance": {
"owned_path": "owned/models/physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model_state"
],
"from": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.state"
},
{
"to": [
"visualisation.physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model_summary"
],
"from": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model_trajectory"
],
"from": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model_variable_labels"
],
"from": "physiology_cellml_brown_choe_shanahan_czeisler_1997_57f_model.variable_labels"
}
],
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"description": "Source-faithful physiology lab for Brown, Choe, Shanahan, Czeisler, 1997. Public controls and outputs are mapped to real source symbols for source-model physiology.",
"schema_version": "2.0"
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