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Source-faithful physiology lab for Cui, Kaandorp, Lloyd, 2008. Public controls and outputs are mapped to real source symbols for source-model physiology.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_active_znt_r",
"label": "Initial Active Znt R",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.initial_active_znt_r",
"description": "Initial value for Active Znt R. Maps to source symbol `Px1`. Units: nanomolar. Naming evidence: source metadata names `Px1` as `active ZntR`.",
"accepted_units": [
"nanomolar"
]
},
{
"name": "initial_active_zur",
"label": "Initial Active Zur",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.initial_active_zur",
"description": "Initial value for Active Zur. Maps to source symbol `Py1`. Units: nanomolar. Naming evidence: source metadata names `Py1` as `active Zur`.",
"accepted_units": [
"nanomolar"
]
}
],
"outputs": [
{
"name": "state",
"label": "Selected Source State",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.state"
},
{
"name": "summary",
"label": "Simulation Summary",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.summary"
},
{
"name": "trajectory",
"label": "Source Trajectory",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.trajectory"
},
{
"name": "variable_labels",
"label": "Observable Labels",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.variable_labels"
},
{
"name": "apo_znt_r",
"label": "Apo Znt R",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.apo_znt_r",
"description": "Apo Znt R. Maps to source symbol `Px`. Units: nanomolar. Naming evidence: source metadata names `Px` as `apo-ZntR`."
},
{
"name": "dna_of_znt_a",
"label": "DNA Of Znt A",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.dna_of_znt_a",
"description": "DNA Of Znt A. Maps to source symbol `Dz`. Units: nanomolar. Naming evidence: source metadata names `Dz` as `DNA of ZntA`."
},
{
"name": "dna_of_znu_c",
"label": "DNA Of Znu C",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.dna_of_znu_c",
"description": "DNA Of Znu C. Maps to source symbol `Dw`. Units: nanomolar. Naming evidence: source metadata names `Dw` as `DNA of ZnuC`."
},
{
"name": "m_rna_of_znu_c",
"label": "M RNA Of Znu C",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.m_rna_of_znu_c",
"description": "M RNA Of Znu C. Maps to source symbol `Mw`. Units: nanomolar. Naming evidence: source metadata names `Mw` as `mRNA of ZnuC`."
},
{
"name": "m_rna_of_znu_c_mz",
"label": "M RNA Of Znu C Mz",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.m_rna_of_znu_c_mz",
"description": "M RNA Of Znu C Mz. Maps to source symbol `Mz`. Units: nanomolar. Naming evidence: source metadata names `Mz` as `mRNA of ZnuC`."
},
{
"name": "zur_dimer_containing_one_zinc_ion_per_monomer",
"label": "Zur Dimer Containing One Zinc Ion Per Monomer",
"maps_to": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.zur_dimer_containing_one_zinc_ion_per_monomer",
"description": "Zur Dimer Containing One Zinc Ion Per Monomer. Maps to source symbol `Py`. Units: nanomolar. Naming evidence: source metadata names `Py` as `Zur dimer containing one zinc ion per monomer`."
}
]
},
"title": "Cui2008 - Does Not Include Zinc Buffering Effects Tpen Lab",
"models": [
{
"path": "models/core",
"alias": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model",
"parameters": {
"model_path": "data/cui_kaandorp_lloyd_2008_a.cellml",
"integration_step": 0.01
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model_state"
],
"from": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.state"
},
{
"to": [
"visualisation.physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model_summary"
],
"from": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.summary"
},
{
"to": [
"visualisation.physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model_trajectory"
],
"from": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.trajectory"
},
{
"to": [
"visualisation.physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model_variable_labels"
],
"from": "physiology_cellml_cui_kaandorp_lloyd_2008_cuikaandorplloyd2008_model.variable_labels"
}
],
"package": "cui2008-does-not-include-zinc-buffering-effects-tpen",
"runtime": {
"duration": 0.01,
"settle_steps": 1,
"initial_inputs": {},
"communication_step": 0.01
},
"version": "1.0.0",
"description": "Source-faithful physiology lab for Cui, Kaandorp, Lloyd, 2008. Public controls and outputs are mapped to real source symbols for source-model physiology.",
"schema_version": "2.0"
}Runtime
Duration0.01
Comms Step0.01
Settle Steps1
Runs
Total0
Completed0
Failed0
Metadata
Packagecui2008-does-not-include-zinc-buffering-effects-tpen
Created2026-05-23
Updated2026-06-13
physiologycellmlphysiomefaithfulvisualisationother