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Cut-out switch model Membrane identity and GTPase cascades regulated by toggle and cut-out switches Perla Del Conte-Zerial, Lutz Brusch, Jochen C Rink, Claudio Collinet, Yannis Kalaidzidis, Marino Zer. It can be used to explore systemsbiology del conte zerial2008 rab5 rab7 dynamics and compare simulation behavior across conditions.
Manifest
{
"io": {
"inputs": [
{
"name": "initial_rab7_gdp",
"label": "Initial Rab7 Gdp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.initial_rab7_gdp",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `r7`."
},
{
"name": "initial_rab5_gdp",
"label": "Initial Rab5 Gdp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.initial_rab5_gdp",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `r5`."
},
{
"name": "initial_rab7_gtp",
"label": "Initial Rab7 Gtp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.initial_rab7_gtp",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `R7`."
},
{
"name": "initial_rab5_gtp",
"label": "Initial Rab5 Gtp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.initial_rab5_gtp",
"description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `R5`."
}
],
"outputs": [
{
"name": "state",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.state"
},
{
"name": "summary",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.summary"
},
{
"name": "species_labels",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.species_labels"
},
{
"name": "rab7_gdp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.rab7_gdp"
},
{
"name": "rab5_gdp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.rab5_gdp"
},
{
"name": "rab7_gtp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.rab7_gtp"
},
{
"name": "rab5_gtp",
"maps_to": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.rab5_gtp"
}
]
},
"tags": [
"systemsbiology",
"sbml",
"biomodels_ebi",
"faithful",
"curated"
],
"title": "Zerial2008 Del Conte Rab5 Rab7 Cut Out Switch Lab",
"models": [
{
"path": "models/core",
"alias": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model"
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model_state"
],
"from": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.state"
},
{
"to": [
"visualisation.systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model_summary"
],
"from": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.summary"
},
{
"to": [
"visualisation.systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model_species_labels"
],
"from": "systemsbiology_sbml_del_conte_zerial2008_rab5_rab7_cut_out_switch_biomd0000000174_model.species_labels"
}
],
"package": "zerial2008-del-conte-rab5-rab7-cut-out-switch",
"runtime": {
"duration": 1,
"initial_inputs": {},
"communication_step": 0.1
},
"version": "1.0.0",
"description": "Cut-out switch model Membrane identity and GTPase cascades regulated by toggle and cut-out switches Perla Del Conte-Zerial, Lutz Brusch, Jochen C Rink, Claudio Collinet, Yannis Kalaidzidis, Marino Zer. It can be used to explore systemsbiology del conte zerial2008 rab5 rab7 dynamics and compare simulation behavior across conditions.",
"schema_version": "2.0"
}Runtime
Duration1
Comms Step0.1
Runs
Total0
Completed0
Failed0
Metadata
Packagezerial2008-del-conte-rab5-rab7-cut-out-switch
Created2026-05-17
Updated2026-06-13
systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisationother