{
  "vercy": "1.0-draft",
  "publication": {
    "status": "research-draft",
    "adjudicationStatus": "unreviewed",
    "publishableCanonical": false,
    "generatedAt": "2026-09-11T15:32:53Z",
    "providers": [
      "Claude"
    ],
    "breadth": "written by Claude from model knowledge without web access - no source was read, every claim is a lead to verify",
    "pass": 2,
    "wave": 1,
    "engine": "claude",
    "enrichment": {
      "pass": 3,
      "engine": "claude",
      "producedAt": "2026-10-05T18:00:00Z",
      "ingestedAt": "2026-10-05T13:27:51+00:00",
      "fields": [
        "agent_conduct",
        "ethics",
        "owners"
      ]
    }
  },
  "metaModel": {
    "id": "THING-Q6151736",
    "registryId": "vr.tr.cellular-transport",
    "name": "cellular transport",
    "version": "0.2.0-wave.1",
    "entryKind": "thing",
    "family": "Thing Registry",
    "domain": [
      "ACT.PRC"
    ],
    "status": "research-draft"
  },
  "canonicalUrl": "https://ver.cy/models/thing/q6151736/",
  "model": {
    "registry_id": "vr.tr.cellular-transport",
    "name": "cellular transport",
    "purpose": "Let an agent explain cellular transport mechanisms, classify transport types, relate them to physiology and pharmacology, and support learning and research.",
    "definition": "The movement of substances into, out of and within cells, including transmembrane transport of ions and small molecules by diffusion, channels, carriers and pumps, vesicular transport between organelles such as from the cytosol to the Golgi apparatus, and specialised transport such as auxin movement in plants and export of xenobiotics.",
    "what_it_is_for": "Cell biology, physiology and pharmacology.",
    "affordances": [
      "classify a transport process",
      "explain passive and active transport",
      "relate transporters to drugs and diseases",
      "find gene ontology terms"
    ],
    "distinguishing_features": [
      "Occurs at cellular scale",
      "Passive or active",
      "Membrane or vesicular",
      "Highly regulated"
    ],
    "appearance": "Not visible directly; shown in diagrams of membranes, channels and vesicles.",
    "visual_identification": [
      "Membrane channels and pumps",
      "Vesicles budding and fusing",
      "Bulk transport in blood is not cellular transport"
    ],
    "physical_properties": [],
    "families_and_kinds": [
      "passive diffusion and facilitated diffusion",
      "active transport by pumps",
      "vesicular transport and endocytosis",
      "intracellular trafficking",
      "plant hormone transport"
    ],
    "related_models": [
      {
        "relation": "is a kind of",
        "target": "transport",
        "why": "category"
      },
      {
        "relation": "includes",
        "target": "endocytosis",
        "why": "kind"
      },
      {
        "relation": "occurs across",
        "target": "cell membrane",
        "why": "structure"
      },
      {
        "relation": "is related to",
        "target": "hydrolysis",
        "why": "ATP hydrolysis powers pumps"
      }
    ],
    "identifiers": [
      {
        "scheme": "Gene Ontology",
        "value_or_pattern": "GO:0006810 transport and children",
        "note": "ontology"
      }
    ],
    "standards_and_regulation": [
      "Gene Ontology and transporter classification systems"
    ],
    "failure_modes_and_hazards": [
      "Confusing passive and active transport",
      "Transporter defects causing disease",
      "Drug interactions via transporters"
    ],
    "in_scope": [],
    "out_of_scope": [],
    "characteristics": [],
    "agent_conduct": {
      "may": [
        "Explain cellular transport mechanisms from biology textbooks.",
        "Summarize published research for a reader, citing the sources."
      ],
      "must_not": [
        "Claim that a treatment works by altering cellular transport without evidence.",
        "Give medical advice based on simplified cell biology.",
        "Misrepresent unsettled research as established."
      ],
      "requires_human": [
        "Using research findings to guide treatment of a patient."
      ]
    },
    "ethics": {
      "considerations": [
        "Simplified cell biology is often misused to sell supplements and cures.",
        "Many drugs act on cell transport; errors in explanation can mislead patients."
      ],
      "affected_parties": [
        "Students and readers",
        "Patients"
      ]
    },
    "owners": {
      "steward": "Nobody owns the process; the scientific community maintains the knowledge.",
      "master_systems": []
    }
  },
  "sources": [],
  "structure": {
    "bundles": [
      {
        "id": "classify",
        "name": "Classify",
        "description": "Type of transport.",
        "rationale": "Mechanisms differ.",
        "layers": [
          {
            "id": "type",
            "name": "Type",
            "description": "Passive or active.",
            "findings": [
              {
                "id": "type-finding",
                "name": "Type",
                "description": "Transport type.",
                "questions": [
                  {
                    "text": "Is this transport passive, facilitated or active, and what drives it?",
                    "kind": "definition"
                  },
                  {
                    "text": "Which proteins are involved?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          },
          {
            "id": "route",
            "name": "Route",
            "description": "Membrane or vesicle.",
            "findings": [
              {
                "id": "route-finding",
                "name": "Route",
                "description": "Route.",
                "questions": [
                  {
                    "text": "Does the substance cross the membrane directly or travel in vesicles?",
                    "kind": "definition"
                  },
                  {
                    "text": "Which organelles are involved?",
                    "kind": "definition"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "mechanism",
        "name": "Mechanism",
        "description": "How it works.",
        "rationale": "Energy and gradients.",
        "layers": [
          {
            "id": "gradients",
            "name": "Gradients",
            "description": "Driving forces.",
            "findings": [
              {
                "id": "gradients-finding",
                "name": "Gradients",
                "description": "Driving forces.",
                "questions": [
                  {
                    "text": "How do concentration and electrical gradients drive transport?",
                    "kind": "definition"
                  },
                  {
                    "text": "How do pumps use ATP?",
                    "kind": "definition"
                  }
                ]
              }
            ]
          },
          {
            "id": "regulation",
            "name": "Regulation",
            "description": "Control.",
            "findings": [
              {
                "id": "regulation-finding",
                "name": "Regulation",
                "description": "Regulation.",
                "questions": [
                  {
                    "text": "How is this transporter regulated?",
                    "kind": "provenance"
                  },
                  {
                    "text": "What happens when it is defective?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "applications",
        "name": "Applications",
        "description": "Medicine and plants.",
        "rationale": "Transport matters in health.",
        "layers": [
          {
            "id": "drugs",
            "name": "Drugs",
            "description": "Pharmacology.",
            "findings": [
              {
                "id": "drugs-finding",
                "name": "Drugs",
                "description": "Pharmacology.",
                "questions": [
                  {
                    "text": "How do transporters affect drug uptake, distribution and resistance?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which drug interactions involve transporters?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          },
          {
            "id": "plants",
            "name": "Plants",
            "description": "Plant transport.",
            "findings": [
              {
                "id": "plants-finding",
                "name": "Plants",
                "description": "Plant transport.",
                "questions": [
                  {
                    "text": "How is auxin transported between plant cells?",
                    "kind": "definition"
                  },
                  {
                    "text": "Why does polar transport matter for growth?",
                    "kind": "definition"
                  }
                ]
              }
            ]
          }
        ]
      },
      {
        "id": "learn",
        "name": "Learn",
        "description": "Study and data.",
        "rationale": "Resources exist.",
        "layers": [
          {
            "id": "ontology",
            "name": "Ontology",
            "description": "GO terms.",
            "findings": [
              {
                "id": "ontology-finding",
                "name": "Ontology",
                "description": "GO terms.",
                "questions": [
                  {
                    "text": "Which Gene Ontology term describes this transport process?",
                    "kind": "provenance"
                  },
                  {
                    "text": "Which genes are annotated to it?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          },
          {
            "id": "teach",
            "name": "Teach",
            "description": "Teaching.",
            "findings": [
              {
                "id": "teach-finding",
                "name": "Teach",
                "description": "Teaching.",
                "questions": [
                  {
                    "text": "How can membrane transport be taught with models and experiments?",
                    "kind": "action"
                  },
                  {
                    "text": "Which misconceptions are common?",
                    "kind": "provenance"
                  }
                ]
              }
            ]
          }
        ]
      }
    ]
  },
  "openQuestions": [
    "Should each transport type be a separate entry?",
    "How should transporter databases be linked?",
    "How should plant transport be linked?"
  ],
  "statistics": {
    "bundles": 4,
    "layers": 8,
    "findings": 8,
    "questions": 16
  }
}