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circadian mRNA/protein clock. The model reproduces the oscillations for mRNA and protein species as depicted in Fig 3 of the plot. The model differs slightly from that given in the paper and this was made after a communication fro.
Manifest
{
"io": {
"inputs": [],
"outputs": [
{
"name": "period_protein",
"maps_to": "xie2007_circadian_clock.period_protein"
},
{
"name": "timeless_protein",
"maps_to": "xie2007_circadian_clock.timeless_protein"
},
{
"name": "clock_protein",
"maps_to": "xie2007_circadian_clock.clock_protein"
},
{
"name": "state",
"maps_to": "xie2007_circadian_clock.state"
},
{
"name": "summary",
"maps_to": "xie2007_circadian_clock.summary"
},
{
"name": "species_labels",
"maps_to": "xie2007_circadian_clock.species_labels"
}
]
},
"title": "Xie2007 Circadian Clock Lab",
"models": [
{
"path": "models/core",
"alias": "xie2007_circadian_clock",
"parameters": {
"model_path": "data/BIOMD0000000160.xml",
"integration_step": 0.1
}
},
{
"path": "models/visualisation",
"alias": "visualisation"
}
],
"wiring": [
{
"to": [
"visualisation.xie2007_circadian_clock_period_protein"
],
"from": "xie2007_circadian_clock.period_protein"
},
{
"to": [
"visualisation.xie2007_circadian_clock_timeless_protein"
],
"from": "xie2007_circadian_clock.timeless_protein"
},
{
"to": [
"visualisation.xie2007_circadian_clock_clock_protein"
],
"from": "xie2007_circadian_clock.clock_protein"
},
{
"to": [
"visualisation.xie2007_circadian_clock_state"
],
"from": "xie2007_circadian_clock.state"
},
{
"to": [
"visualisation.xie2007_circadian_clock_summary"
],
"from": "xie2007_circadian_clock.summary"
},
{
"to": [
"visualisation.xie2007_circadian_clock_species_labels"
],
"from": "xie2007_circadian_clock.species_labels"
}
],
"package": "xie2007-circadian-clock",
"runtime": {
"duration": 10,
"initial_inputs": {},
"communication_step": 1
},
"version": "1.0.1",
"description": "circadian mRNA/protein clock. The model reproduces the oscillations for mRNA and protein species as depicted in Fig 3 of the plot. The model differs slightly from that given in the paper and this was made after a communication fro.",
"schema_version": "2.0"
}Runtime
Duration10
Comms Step1
Runs
Total0
Completed0
Failed0
Metadata
Packagexie2007-circadian-clock
Created2026-05-15
Updated2026-06-13
generegulationsbmlbiomodels_ebifaithfulvisualisationother