Ueda2001 Typebtrichothecenes Lab

About lab

Ueda2001 Typebtrichothecenes

This Biosimulant lab wraps Ueda2001 Typebtrichothecenes as a runnable systems biology model with a companion visualization module. This a model from the article: Critical study of and improvements in chromatographic methods for the analysisof type B trichothecenes. It can be used to explore the configured dynamics and compare scenario outcomes across configurations.

What You'll See

The lab asks: Which source-defined system states dominate this SBML model trajectory? Source model: Ueda2001_typeBtrichothecenes. 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 Tim M, Tim C, Per M, Per C, PT N, and PT C, combining trajectory, endpoint-comparison, and summary-table views from one completed dark-mode run.

In this captured run, PT C moved from 0.9000 to 0.3945 across 1.0 simulation windows.

Output Visualizations

Ueda2001 Typebtrichothecenes - run interpretation

Summary table for Ueda2001 Typebtrichothecenes, reporting the scientific question, observed answer, dominant module, and caveat.

Ueda2001 Typebtrichothecenes - timeseries visualization

Trajectories of PT C, Tim M, Per M, Per C, PT N, and Tim C across the 1.0 simulation. In this run Tim C climbed from 0.8000 to 0.8021 and PT C fell from 0.9000 to 0.3945 — the largest movements among the focused observables.

Ueda2001 Typebtrichothecenes - excursions bar

Largest-excursion ranking of the focused observables — the absolute movement magnitude during the run. Top 3: PT C = 0.5055, Tim M = 0.1940, Per M = 0.1286, with 3 more observables below.

Ueda2001 Typebtrichothecenes - endpoint snapshot bar

Endpoint snapshot of the focused observables — final values from the captured run. Top 3 by value: PT N = 0.9096, Tim C = 0.8021, Per C = 0.5532, with 3 more observables below.

Ueda2001 Typebtrichothecenes - visualization

Visualization card from the Ueda2001 Typebtrichothecenes dark-mode run.

Model Context

Core model: models/core
Visualization model: models/visualisation
Standard: other
Upstream source: biomodels_ebi:MODEL1006230044
License: CC0

Inputs

Input	Maps To	Notes
Initial Tim M	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_tim_m`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Tim_m`.
Initial Tim C	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_tim_c`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Tim_c`.
Initial Per M	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_per_m`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Per_m`.
Initial Per C	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_per_c`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Per_c`.
Initial Pt N	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_pt_n`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `PT_n`.
Initial Pt C	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_pt_c`	Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `PT_c`.

Outputs

Output	Maps To	Role
`state`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.state`	Available to the visualization model and downstream workflows.
`summary`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.summary`	Available to the visualization model and downstream workflows.
`species_labels`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.species_labels`	Available to the visualization model and downstream workflows.
`tim_m`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.tim_m`	Available to the visualization model and downstream workflows.
`tim_c`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.tim_c`	Available to the visualization model and downstream workflows.
`per_m`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.per_m`	Available to the visualization model and downstream workflows.
`per_c`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.per_c`	Available to the visualization model and downstream workflows.
`pt_n`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.pt_n`	Available to the visualization model and downstream workflows.
`pt_c`	`systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.pt_c`	Available to the visualization model and downstream workflows.

Runtime

Duration: 1.0
Communication step: 0.1

Running Locally

biosimulant labs serve

This a model from the article: Critical study of and improvements in chromatographic methods for the analysisof type B trichothecenes. Mateo JJ, Llorens A, Mateo R, Jimenez M.

Runtime

Duration1

Comms Step0.1

Runs

Total0

Completed0

Failed0

Metadata

Packageueda2001-typebtrichothecenes

Created2026-05-17

Updated2026-06-13

systemsbiologysbmlbiomodels_ebifaithfulcuratedvisualisation

Manifest

{
  "io": {
    "inputs": [
      {
        "name": "initial_tim_m",
        "label": "Initial Tim M",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_tim_m",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Tim_m`."
      },
      {
        "name": "initial_tim_c",
        "label": "Initial Tim C",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_tim_c",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Tim_c`."
      },
      {
        "name": "initial_per_m",
        "label": "Initial Per M",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_per_m",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Per_m`."
      },
      {
        "name": "initial_per_c",
        "label": "Initial Per C",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_per_c",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `Per_c`."
      },
      {
        "name": "initial_pt_n",
        "label": "Initial Pt N",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_pt_n",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `PT_n`."
      },
      {
        "name": "initial_pt_c",
        "label": "Initial Pt C",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.initial_pt_c",
        "description": "Source state initial condition exposed as a model-specific control because no explicit intervention parameter is identifiable. Maps to SBML symbol `PT_c`."
      }
    ],
    "outputs": [
      {
        "name": "state",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.state"
      },
      {
        "name": "summary",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.summary"
      },
      {
        "name": "species_labels",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.species_labels"
      },
      {
        "name": "tim_m",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.tim_m"
      },
      {
        "name": "tim_c",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.tim_c"
      },
      {
        "name": "per_m",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.per_m"
      },
      {
        "name": "per_c",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.per_c"
      },
      {
        "name": "pt_n",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.pt_n"
      },
      {
        "name": "pt_c",
        "maps_to": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.pt_c"
      }
    ]
  },
  "tags": [
    "systemsbiology",
    "sbml",
    "biomodels_ebi",
    "faithful",
    "curated"
  ],
  "title": "Ueda2001 Typebtrichothecenes Lab",
  "models": [
    {
      "path": "owned/models/systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model",
      "alias": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model",
      "provenance": {
        "owned_path": "owned/models/systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model"
      }
    },
    {
      "path": "owned/models/visualisation",
      "alias": "visualisation",
      "provenance": {
        "owned_path": "owned/models/visualisation"
      }
    }
  ],
  "wiring": [
    {
      "to": [
        "visualisation.systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model_state"
      ],
      "from": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.state"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model_summary"
      ],
      "from": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.summary"
    },
    {
      "to": [
        "visualisation.systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model_species_labels"
      ],
      "from": "systemsbiology_sbml_ueda2001_typebtrichothecenes_model1006230044_model.species_labels"
    }
  ],
  "runtime": {
    "duration": 1,
    "initial_inputs": {},
    "communication_step": 0.1
  },
  "description": "This a model from the article: Critical study of and improvements in chromatographic methods for the analysisof type B trichothecenes. Mateo JJ, Llorens A, Mateo R, Jimenez M.",
  "schema_version": "2.0"
}

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