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TLR4-NFkB-phospho-NF-kB signaling in BMDM 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

Packagetlr4-nfkb-phospho-nf-kb-signaling-in-bmdm-lab
Created2026-05-16
Updated2026-05-16
signalingsystemssystems-biologysbmlfaithfulbiomodels_ebinfkbtlr-signalingimmune-signalingphysiologyvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_sink_species",
        "label": "Initial sink species",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.initial_sink_species",
        "description": "Initial level of sink species. Maps to SBML symbol `species_23`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_source_dna",
        "label": "Initial Source DNA",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.initial_source_dna",
        "description": "Initial level of Source DNA. Maps to SBML symbol `species_22`; exposed as a traceable initial-condition perturbation."
      },
      {
        "name": "initial_cd14lps",
        "label": "Initial CD14LPS",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.initial_cd14lps",
        "description": "Initial level of CD14LPS. Maps to SBML symbol `CD14LPS`; exposed as a traceable initial-condition perturbation."
      }
    ],
    "outputs": [
      {
        "name": "ik_ba_nfk_b",
        "label": "Ik Ba Nfk B",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.ik_ba_nfk_b",
        "description": "Ik Ba Nfk B. Maps to SBML symbol `species_30` and is emitted in native SBML units."
      },
      {
        "name": "nfkb",
        "label": "NF-kB",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.nfkb",
        "description": "NF-kB. Maps to SBML symbol `species_31` and is emitted in native SBML units."
      },
      {
        "name": "ikk_p_ik_ba_nfk_b",
        "label": "IKK P Ik Ba Nfk B",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.ikk_p_ik_ba_nfk_b",
        "description": "IKK P Ik Ba Nfk B. Maps to SBML symbol `species_32` and is emitted in native SBML units."
      },
      {
        "name": "state",
        "label": "Observable state",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.state"
      },
      {
        "name": "summary",
        "label": "Simulation summary",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.summary"
      },
      {
        "name": "species_labels",
        "label": "Observable labels",
        "maps_to": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.species_labels"
      }
    ]
  },
  "tags": [
    "signaling",
    "systems",
    "systems-biology",
    "sbml",
    "faithful",
    "biomodels_ebi",
    "nfkb",
    "tlr-signaling",
    "immune-signaling",
    "physiology"
  ],
  "title": "TLR4-NFkB-phospho-NF-kB signaling in BMDM Lab",
  "models": [
    {
      "path": "owned/models/signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model",
      "alias": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model",
      "provenance": {
        "owned_path": "owned/models/signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model_state"
      ],
      "from": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.state"
    },
    {
      "to": [
        "visualisation.signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model_summary"
      ],
      "from": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model.summary"
    },
    {
      "to": [
        "visualisation.signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_model_species_labels"
      ],
      "from": "signaling_sbml_tlr4_nfkb_phospho_nf_kb_signaling_in_bmdm_model1809230001_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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