About lab
Almuallem2020 - Virus-macrophage-tumour interactions in oncolytic viral therapies Lab
Curated immunology lab using the bundled source model as the scientific source of truth.
What You'll See
This captured run documents the default Almuallem2020 - Virus-macrophage-tumour interactions in oncolytic viral therapies configuration for 10.0 time units with a 1.0 communication step. Default inputs include Initial Infected Tumour Cells, Initial Uninfected Tumour Cells, Initial Oncolytic Viruses, and Initial Unresolved Tumor Observable 1. Reported outputs include infected_tumour_cells, uninfected_tumour_cells, oncolytic_viruses, and unresolved_tumor_observable_1. The screenshots below pair the run-interpretation table with Tumor-immune burden and Largest state excursions so the README shows both trajectories and the strongest state changes from the same dark-mode run.
Output Visualizations
The run-interpretation table summarizes the configured Almuallem2020 - Virus-macrophage-tumour interactions in oncolytic viral therapies simulation and its final-state diagnostics.
The Tumor-immune burden time series follows the selected immune, pathogen, tumor, or signaling quantities across the simulated horizon.
The largest state excursions chart ranks the state variables that moved furthest during the run.
This mathematical model of the role of the innate immune responses generated by macrophages in the context of anti-tumour oncolytic viral therapies is described in the publication:Nada Almuallem, Dumi. It can be used to explore immune response dynamics and compare pathway-level behavior across conditions.
Runtime
Runs
Metadata
Manifest
{
"io": {
"inputs": [
{
"name": "initial_infected_tumour_cells",
"label": "Initial Infected Tumour Cells",
"units": "native source value",
"default": 0,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.initial_infected_tumour_cells",
"description": "Initial Infected Tumour Cells. Sets the initial value of bundled SBML species `Infected_tumour_cells`."
},
{
"name": "initial_uninfected_tumour_cells",
"label": "Initial Uninfected Tumour Cells",
"units": "native source value",
"default": 0.0005,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.initial_uninfected_tumour_cells",
"description": "Initial Uninfected Tumour Cells. Sets the initial value of bundled SBML species `Uninfected_tumour_cells`."
},
{
"name": "initial_oncolytic_viruses",
"label": "Initial Oncolytic Viruses",
"units": "native source value",
"default": 0.00001,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.initial_oncolytic_viruses",
"description": "Initial Oncolytic Viruses. Sets the initial value of bundled SBML species `Oncolytic_viruses`."
},
{
"name": "initial_unresolved_tumor_observable_1",
"label": "Initial Unresolved Tumor Observable 1",
"units": "native source value",
"default": 0.0000025,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.initial_unresolved_tumor_observable_1",
"description": "Initial Unresolved Tumor Observable 1. Sets the initial value of bundled SBML species `M1_macrophages`."
},
{
"name": "initial_uninfected_m2_macrophages",
"label": "Initial Uninfected M2 Macrophages",
"units": "native source value",
"default": 2.5e-7,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.initial_uninfected_m2_macrophages",
"description": "Initial Uninfected M2 Macrophages. Sets the initial value of bundled SBML species `Uninfected_M2_macrophages`."
},
{
"name": "tumour_growth_production_rate",
"label": "Tumour Growth Production Rate",
"units": "native source value",
"default": 0.62,
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.tumour_growth_production_rate",
"description": "Tumour Growth Production Rate. Sets bundled SBML parameter `r`."
}
],
"outputs": [
{
"name": "infected_tumour_cells",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.infected_tumour_cells"
},
{
"name": "uninfected_tumour_cells",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.uninfected_tumour_cells"
},
{
"name": "oncolytic_viruses",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.oncolytic_viruses"
},
{
"name": "unresolved_tumor_observable_1",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.unresolved_tumor_observable_1"
},
{
"name": "uninfected_m2_macrophages",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.uninfected_m2_macrophages"
},
{
"name": "state",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.state"
},
{
"name": "summary",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.summary"
},
{
"name": "species_labels",
"maps_to": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.species_labels"
}
]
},
"title": "Almuallem2020 - Virus-macrophage-tumour interactions in oncolytic viral therapies Lab",
"models": [
{
"path": "owned/models/immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model",
"alias": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model",
"provenance": {
"owned_path": "owned/models/immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model"
}
},
{
"path": "owned/models/visualisation",
"alias": "visualisation",
"provenance": {
"owned_path": "owned/models/visualisation"
}
}
],
"wiring": [
{
"to": [
"visualisation.immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model_state"
],
"from": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.state"
},
{
"to": [
"visualisation.immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model_summary"
],
"from": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.summary"
},
{
"to": [
"visualisation.immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model_species_labels"
],
"from": "immunology_sbml_almuallem2020_virus_macrophage_tumour_interactio_biomd0000001033_model.species_labels"
}
],
"runtime": {
"duration": 10,
"initial_inputs": {},
"communication_step": 1
},
"description": "This mathematical model of the role of the innate immune responses generated by macrophages in the context of anti-tumour oncolytic viral therapies is described in the publication:Nada Almuallem, Dumi. It can be used to explore immune response dynamics and compare pathway-level behavior across conditions.",
"schema_version": "2.0"
}Sign in to start your own run. Public-lab history stays visible here.
Select a run from History to view its results.