About lab
Schwarz2018-Cdk Activity Threshold Determines Passage through the Restriction Point
This Biosimulant lab wraps Schwarz2018-Cdk Activity Threshold Determines Passage through the Restriction Point as a runnable signaling model with a companion visualization module.
Clean Biosimulant lab for cell-cycle regulatory signaling. It can be used to explore second-messenger and pathway-signaling dynamics and compare scenario outcomes across configurations.
What You'll See
The lab asks: How does Schwarz2018-Cdk Activity Threshold Determines Passage through the Restriction Point move checkpoint or cycle-control signaling states? It runs for 1.0 time units with a communication step of 0.1. The run uses the model defaults declared by the curated SBML wrapper. The generated visualizations focus on MYC transcription factor, E2F, source-defined CYCD state, source-defined CYCE state, source-defined RB state, and Phosphorylated Rb, and related outputs, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.
In this captured run, Rb E2F Complex moved from 0 to 158.1 across 1.0 simulation windows.
Output Visualizations
Summary table for Schwarz2018-Cdk Activity Threshold Determines Passage through the Restriction Point, reporting the scientific question, observed answer, dominant module, and caveat.
Trajectories of Rb E2F Complex, Phosphorylated Rb, source-defined RB state, source-defined CYCD state, E2F, and source-defined CYCE state across the 1.0 simulation. In this run Rb E2F Complex climbed from 0 to 158.1 and source-defined RB state fell from 55.000 to 51.804 — the largest movements among the focused observables.
Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: Rb E2F Complex = 158.1, source-defined RB state = 51.804, Phosphorylated Rb = 3.393, with 5 more observables below.
Model Context
- Core model:
models/core - Visualization model:
models/visualisation - Standard:
other - Upstream source:
biomodels_ebi:BIOMD0000000918 - License:
CC0 - Visual scope: cell-cycle regulatory signaling
- Caveat: Values are native SBML quantities; equations, parameters, units, and initial values remain in the bundled source file.
Inputs
| Input | Maps To | Default | Notes |
|---|---|---|---|
| Initial MYC transcription factor | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.initial_myc_transcription_factor | Initial level of MYC transcription factor. Maps to SBML symbol Myc; exposed as a traceable initial-condition perturbation. |
Outputs
| Output | Maps To | Role |
|---|---|---|
phosphorylated_rb | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.phosphorylated_rb | Phosphorylated Rb. |
rb_e2f_complex | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.rb_e2f_complex | Rb E2F Complex. |
myc_transcription_factor | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.myc_transcription_factor | MYC transcription factor. |
state | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.state | Available to the visualization model and downstream workflows. |
summary | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.summary | Available to the visualization model and downstream workflows. |
species_labels | signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.species_labels | Available to the visualization model and downstream workflows. |
Runtime
- Duration:
1.0 - Communication step:
0.1
Running Locally
biosimulant labs serve .
Clean Biosimulant lab for cell-cycle regulatory signaling. Values are native SBML quantities; equations, parameters, and initial values remain in the bundled source file.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_myc_transcription_factor",
"label": "Initial MYC transcription factor",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.initial_myc_transcription_factor",
"description": "Initial level of MYC transcription factor. Maps to SBML symbol `Myc`; exposed as a traceable initial-condition perturbation."
}
],
"outputs": [
{
"name": "phosphorylated_rb",
"label": "Phosphorylated Rb",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.phosphorylated_rb",
"description": "Phosphorylated Rb. Maps to SBML symbol `Phosphorylated_Rb` and is emitted in native SBML units."
},
{
"name": "rb_e2f_complex",
"label": "Rb E2F Complex",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.rb_e2f_complex",
"description": "Rb E2F Complex. Maps to SBML symbol `Rb_E2F_complex` and is emitted in native SBML units."
},
{
"name": "myc_transcription_factor",
"label": "MYC transcription factor",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.myc_transcription_factor",
"description": "MYC transcription factor. Maps to SBML symbol `Myc` and is emitted in native SBML units."
},
{
"name": "state",
"label": "Observable state",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.state"
},
{
"name": "summary",
"label": "Simulation summary",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.summary"
},
{
"name": "species_labels",
"label": "Observable labels",
"maps_to": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.species_labels"
}
]
},
"tags": [
"signaling",
"systems",
"systems-biology",
"sbml",
"faithful",
"biomodels_ebi",
"cell-cycle-signaling"
],
"title": "Schwarz2018-Cdk Activity Threshold Determines Passage through the Restriction Point Lab",
"models": [
{
"path": "owned/models/signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model",
"alias": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model",
"provenance": {
"owned_path": "owned/models/signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model_state"
],
"from": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.state"
},
{
"to": [
"visualisation.signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model_summary"
],
"from": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.summary"
},
{
"to": [
"visualisation.signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model_species_labels"
],
"from": "signaling_sbml_schwarz2018_cdk_activity_threshold_determines_pa_biomd0000000918_model.species_labels"
}
],
"runtime": {
"duration": 1,
"initial_inputs": {},
"communication_step": 0.1
},
"description": "Clean Biosimulant lab for cell-cycle regulatory signaling. Values are native SBML quantities; equations, parameters, and initial values remain in the bundled source file.",
"schema_version": "2.0"
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