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Sharp2013 - Lipopolysaccharide induced NFkB activation Lab

About lab

Clean Biosimulant lab for NF-kB pathway signaling. Values are native SBML quantities; equations, parameters, and initial values remain in the bundled source file.

Runtime

Duration1
Comms Step0.1

Runs

Total0
Completed0
Failed0

Metadata

Packagesharp2013-lipopolysaccharide-induced-nfkb-activation-lab
Created2026-05-16
Updated2026-05-16
signalingsystemssystems-biologysbmlfaithfulbiomodels_ebinfkbtlr-signalingvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_cd14",
        "label": "Initial CD14",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.initial_cd14",
        "description": "Initial level of CD14. Maps to SBML symbol `species_1`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_source_defined_irak4_state",
        "label": "Initial source-defined IRAK4 state",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.initial_source_defined_irak4_state",
        "description": "Initial level of source-defined IRAK4 state. Maps to SBML symbol `species_2`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_source_defined_lbp_state",
        "label": "Initial source-defined LBP state",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.initial_source_defined_lbp_state",
        "description": "Initial level of source-defined LBP state. Maps to SBML symbol `species_3`; exposed as a traceable initial-condition perturbation."
      }
    ],
    "outputs": [
      {
        "name": "source_defined_tnfa_state",
        "label": "source-defined TNFA state",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.source_defined_tnfa_state",
        "description": "source-defined TNFA state. Maps to SBML symbol `species_24` and is emitted in native SBML units."
      },
      {
        "name": "tnf_receptor_1",
        "label": "TNF receptor 1",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.tnf_receptor_1",
        "description": "TNF receptor 1. Maps to SBML symbol `species_25` and is emitted in native SBML units."
      },
      {
        "name": "tnfa_tnf_receptor_1_traf2_tradd_rip1",
        "label": "Tnfa TNF receptor 1 TRAF2 TRADD RIP1",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.tnfa_tnf_receptor_1_traf2_tradd_rip1",
        "description": "Tnfa TNF receptor 1 TRAF2 TRADD RIP1. Maps to SBML symbol `species_28` and is emitted in native SBML units."
      },
      {
        "name": "state",
        "label": "Observable state",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Observable labels",
        "maps_to": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.species_labels"
      }
    ]
  },
  "tags": [
    "signaling",
    "systems",
    "systems-biology",
    "sbml",
    "faithful",
    "biomodels_ebi",
    "nfkb",
    "tlr-signaling"
  ],
  "title": "Sharp2013 - Lipopolysaccharide induced NFkB activation Lab",
  "models": [
    {
      "path": "owned/models/signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model",
      "alias": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model",
      "provenance": {
        "owned_path": "owned/models/signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model_state"
      ],
      "from": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.state"
    },
    {
      "to": [
        "visualisation.signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model_summary"
      ],
      "from": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.summary"
    },
    {
      "to": [
        "visualisation.signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model_species_labels"
      ],
      "from": "signaling_sbml_sharp2013_lipopolysaccharide_induced_nfkb_activa_biomd0000000489_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "Clean Biosimulant lab for NF-kB pathway 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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