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This a model from the article: Synthetic in vitro transcriptional oscillators. It can be used to explore systemsbiology kim2011 oscillator simplei BioModels0000000322 dynamics and compare simulation behavior across conditions.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_model_state_y",
"label": "Initial Model State Y",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.initial_model_state_y",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `species_2`."
},
{
"name": "initial_model_state_x",
"label": "Initial Model State X",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.initial_model_state_x",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `species_1`."
},
{
"name": "initial_model_state_v",
"label": "Initial Model State V",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.initial_model_state_v",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `species_4`."
},
{
"name": "initial_model_state_u",
"label": "Initial Model State U",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.initial_model_state_u",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `species_3`."
}
],
"outputs": [
{
"name": "state",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.state"
},
{
"name": "summary",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.summary"
},
{
"name": "species_labels",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.species_labels"
},
{
"name": "model_state_y",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.model_state_y"
},
{
"name": "model_state_x",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.model_state_x"
},
{
"name": "model_state_v",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.model_state_v"
},
{
"name": "model_state_u",
"maps_to": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.model_state_u"
}
]
},
"tags": [
"generegulation",
"systemsbiology",
"sbml",
"biomodels_ebi",
"faithful",
"curated"
],
"title": "Kim2011 Oscillator Simplei Lab",
"models": [
{
"path": "models/core",
"alias": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model"
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model_state"
],
"from": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.state"
},
{
"to": [
"visualisation.systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model_summary"
],
"from": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.summary"
},
{
"to": [
"visualisation.systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model_species_labels"
],
"from": "systemsbiology_sbml_kim2011_oscillator_simplei_biomd0000000322_model.species_labels"
}
],
"package": "kim2011-oscillator-simplei",
"runtime": {
"duration": 1,
"initial_inputs": {},
"communication_step": 0.1
},
"version": "1.0.0",
"description": "This a model from the article: Synthetic in vitro transcriptional oscillators. It can be used to explore systemsbiology kim2011 oscillator simplei BioModels0000000322 dynamics and compare simulation behavior across conditions.",
"schema_version": "2.0"
}Runtime
Duration1
Comms Step0.1
Runs
Total0
Completed0
Failed0
Metadata
Packagekim2011-oscillator-simplei
Created2026-05-17
Updated2026-06-13
generegulationsystemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisationother