Palaniappan2021 - Cell free modelling of second generation Toehold switches Lab

{
  "io": {
    "inputs": [
      {
        "name": "initial_mi_r",
        "label": "MiR",
        "units": "native SBML value",
        "default": 1.2e-7,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_mi_r",
        "description": "Initial MiR. Sets the initial value of bundled SBML symbol `miR`."
      },
      {
        "name": "initial_antimi_r",
        "label": "AntimiR",
        "units": "native SBML value",
        "default": 1.2e-7,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_antimi_r",
        "description": "Initial AntimiR. Sets the initial value of bundled SBML symbol `antimiR`."
      },
      {
        "name": "initial_toehold_dna",
        "label": "Toehold DNA",
        "units": "native SBML value",
        "default": 2.35e-7,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_toehold_dna",
        "description": "Initial Toehold DNA. Sets the initial value of bundled SBML symbol `Toehold_DNA`."
      },
      {
        "name": "initial_gfp",
        "label": "GFP",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_gfp",
        "description": "Initial GFP. Sets the initial value of bundled SBML symbol `GFP`."
      },
      {
        "name": "initial_toehold_rna_cts",
        "label": "Toehold RNA CTS",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_toehold_rna_cts",
        "description": "Initial Toehold RNA CTS. Sets the initial value of bundled SBML symbol `Toehold_RNA_CTS`."
      },
      {
        "name": "initial_mi_r_antimi_r",
        "label": "MiR antimiR",
        "units": "native SBML value",
        "default": 0,
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.initial_mi_r_antimi_r",
        "description": "Initial MiR antimiR. Sets the initial value of bundled SBML symbol `miR_antimiR`."
      }
    ],
    "outputs": [
      {
        "name": "mi_r",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.mi_r",
        "description": "MiR observable. Maps to SBML symbol `miR`."
      },
      {
        "name": "antimi_r",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.antimi_r",
        "description": "AntimiR observable. Maps to SBML symbol `antimiR`."
      },
      {
        "name": "toehold_dna",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.toehold_dna",
        "description": "Toehold DNA observable. Maps to SBML symbol `Toehold_DNA`."
      },
      {
        "name": "gfp",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.gfp",
        "description": "GFP observable. Maps to SBML symbol `GFP`."
      },
      {
        "name": "toehold_rna_cts",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.toehold_rna_cts",
        "description": "Toehold RNA CTS observable. Maps to SBML symbol `Toehold_RNA_CTS`."
      },
      {
        "name": "mi_r_antimi_r",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.mi_r_antimi_r",
        "description": "MiR antimiR observable. Maps to SBML symbol `miR_antimiR`."
      },
      {
        "name": "state",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.state",
        "description": "Full raw SBML observable record for reproducibility and downstream visualisation."
      },
      {
        "name": "summary",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.summary",
        "description": "Change and peak summary across the simulated SBML observables."
      },
      {
        "name": "species_labels",
        "maps_to": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.species_labels",
        "description": "Mapping from selected raw SBML observable symbols to display labels."
      }
    ]
  },
  "tags": [
    "biomodels_ebi",
    "curated",
    "drug-response",
    "faithful",
    "oncology",
    "pharmacology",
    "physiology",
    "sbml",
    "systemsbiology",
    "tumor-growth"
  ],
  "title": "Palaniappan2021 - Cell free modelling of second generation Toehold switches Lab",
  "models": [
    {
      "path": "owned/models/oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model",
      "alias": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model",
      "provenance": {
        "owned_path": "owned/models/oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model_state"
      ],
      "from": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.state"
    },
    {
      "to": [
        "visualisation.oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model_summary"
      ],
      "from": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.summary"
    },
    {
      "to": [
        "visualisation.oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model_species_labels"
      ],
      "from": "oncology_sbml_palaniappan2021_cell_free_modelling_of_second_ge_biomd0000001103_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 10,
    "initial_inputs": {},
    "communication_step": 1
  },
  "description": "Cervical cancer is a global public health subject as it affects women in the reproductive ages, and accounts for the second largest burden among cancer patients worldwide with an unforgiving 50% morta. It can be used to explore tumor-related dynamics and compare treatment-response behavior across conditions.",
  "schema_version": "2.0"
}