{
  "schema": "nmd-vcell-digital-tissue-contract/1.0",
  "source_schema": "nmd-vcell-digital-tissue-contract-source/1.0",
  "contract_id": "DIGITAL-TISSUE-CONTRACT:RESEARCH-OS:V201",
  "updated": "2026-09-15",
  "local_candidate": {
    "state_id": "LOCAL:RESEARCH_OS:V201",
    "deployment_state": "LOCAL_CANDIDATE_NOT_PRODUCTION"
  },
  "authority_rule": "This contract projects released cell-context, physical-time and spatial-reference objects into a multiscale evidence workspace. It does not infer cell-cell effects, run a tissue simulation or create a patient prediction.",
  "workspace": {
    "mode": "HYPOTHESIS_LAYER_ONLY_NO_MULTICELLULAR_SIMULATION",
    "default_decision": "LOCK_UNSUPPORTED_CROSS_SCALE_INFERENCE",
    "cell_cell_simulation_available": false,
    "spatial_prediction_available": false,
    "perturbation_conditioned_tissue_truth": "MISSING",
    "patient_calibration_available": false
  },
  "evidence_snapshot": {
    "cell_context_records": 10,
    "observed_or_measured_contexts": 9,
    "dmd_candidate_perturbation_outcomes": 0,
    "physical_time_reference": {
      "dataset": "GSE52529",
      "measured_cells": 271,
      "timepoints_hours": [
        0,
        24,
        48,
        72
      ],
      "dmd_longitudinal_state": "NOT_MEASURED",
      "perturbation_conditioned_fate_state": "NOT_MEASURED"
    },
    "spatial_reference": {
      "task_count": 1,
      "ineligible_nonspatial_context_count": 1,
      "task_id": "SPATIAL-GSE297388-REPRESENTATION-STABILITY",
      "spots": 7509,
      "dimensions": 128,
      "sections": 4,
      "comparison": "two mdx strain backgrounds; not DMD versus wild type",
      "independent_unit": "section for resampling; animal identity must be confirmed before animal-level generalization",
      "interpretation": "Random feature-dropout stability does not establish gene-panel transfer."
    },
    "measured_outcomes": 0,
    "calibrated_dmd_model_runs": 0
  },
  "evidence_planes": {
    "counts": {
      "total": 6,
      "bounded_reference": 3,
      "missing_or_locked": 3
    },
    "records": [
      {
        "plane_id": "PLANE:CELL_CONTEXT",
        "label": "Disease and cell context",
        "state": "BOUNDED_OBSERVED_CONTEXT",
        "source_keys": [
          "cell_context"
        ],
        "permitted_use": "Inspect measured or explicitly missing disease/cell contexts with their statistical units.",
        "boundary": "Context proximity is descriptive and does not create a candidate-conditioned response.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/cell_context_registry.json",
            "sha256": "411d74af7412716bd01b9aa01aeb83be02bb6247d04b2a0119f7751811382eff"
          }
        ]
      },
      {
        "plane_id": "PLANE:PHYSICAL_TIME",
        "label": "Physical-time myogenic reference",
        "state": "MEASURED_REFERENCE_ONLY",
        "source_keys": [
          "process_trajectory"
        ],
        "permitted_use": "Inspect the unperturbed human myoblast reference at physical sampling times.",
        "boundary": "This is not a longitudinal DMD trajectory or perturbation-conditioned fate.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/cell_process_trajectory_contract.json",
            "sha256": "dce888354ad35aea787936ac640843d910a380539b9eddfa7781a633c68c3847"
          }
        ]
      },
      {
        "plane_id": "PLANE:SPATIAL_REFERENCE",
        "label": "Spatial tissue representation",
        "state": "BOUNDED_SPATIAL_REFERENCE",
        "source_keys": [
          "spatial_tasks"
        ],
        "permitted_use": "Inspect registered section-level representation stability and its sensitivity requirements.",
        "boundary": "The released mdx comparison lacks a wild-type arm and confirmed animal-level identity; nonspatial objects cannot enter the spatial task.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/multidisease_spatial_task_registry.json",
            "sha256": "52fd94af059d4aaf81221abdc92a30cabc77678a3d072dbfbb168b52457c3c3b"
          }
        ]
      },
      {
        "plane_id": "PLANE:DMD_PERTURBATION",
        "label": "Candidate-conditioned DMD response",
        "state": "MISSING_REQUIRED_OUTCOME",
        "source_keys": [
          "cell_context",
          "outcome_ledger"
        ],
        "permitted_use": "Expose the missing truth and route users to a governed experiment plan.",
        "boundary": "Zero measured candidate outcomes is absence of evidence, not a null or negative effect.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/cell_context_registry.json",
            "sha256": "411d74af7412716bd01b9aa01aeb83be02bb6247d04b2a0119f7751811382eff"
          },
          {
            "path": "/resource/api/v2/outcome_ledger.json",
            "sha256": "3d94cc782218eccdc02a11242903e542550807a28e4324d53021766b0e95b540"
          }
        ]
      },
      {
        "plane_id": "PLANE:CROSS_CELL_OUTCOME",
        "label": "Cross-cell and tissue outcome",
        "state": "LOCKED_NO_MATCHED_CROSS_CELL_TRUTH",
        "source_keys": [
          "spatial_tasks",
          "outcome_ledger"
        ],
        "permitted_use": "Form a falsifiable multicellular hypothesis only.",
        "boundary": "No matched perturbation, neighboring-cell response and tissue-level functional outcome are jointly observed.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/multidisease_spatial_task_registry.json",
            "sha256": "52fd94af059d4aaf81221abdc92a30cabc77678a3d072dbfbb168b52457c3c3b"
          },
          {
            "path": "/resource/api/v2/outcome_ledger.json",
            "sha256": "3d94cc782218eccdc02a11242903e542550807a28e4324d53021766b0e95b540"
          }
        ]
      },
      {
        "plane_id": "PLANE:PATIENT_SCALE",
        "label": "Patient-scale calibration",
        "state": "LOCKED_NO_LONGITUDINAL_CALIBRATION",
        "source_keys": [
          "process_trajectory",
          "model_evaluation",
          "outcome_ledger"
        ],
        "permitted_use": "Document which longitudinal and calibration evidence is missing.",
        "boundary": "No patient digital twin, clinical trajectory forecast or therapeutic recommendation is supported.",
        "source_objects": [
          {
            "path": "/resource/api/v1.1/cell_process_trajectory_contract.json",
            "sha256": "dce888354ad35aea787936ac640843d910a380539b9eddfa7781a633c68c3847"
          },
          {
            "path": "/resource/api/v2/model_evaluation_contract.json",
            "sha256": "05934cbd7df873b91cfe6290e82e65cf2226a438abf16049a7565a8bcd24745d"
          },
          {
            "path": "/resource/api/v2/outcome_ledger.json",
            "sha256": "3d94cc782218eccdc02a11242903e542550807a28e4324d53021766b0e95b540"
          }
        ]
      }
    ]
  },
  "cross_scale_links": [
    {
      "link_id": "LINK:PERTURBATION_TO_CELL_STATE",
      "from": "perturbation",
      "to": "cell state",
      "state": "LOCKED_NO_MATCHED_DMD_RESPONSE",
      "required_next_evidence": "Candidate-conditioned molecular response in a matched DMD model with biological repeats."
    },
    {
      "link_id": "LINK:CELL_STATE_TO_PROCESS",
      "from": "cell state",
      "to": "myogenic process",
      "state": "REFERENCE_ONLY_NOT_CAUSAL",
      "required_next_evidence": "Perturbation-conditioned fate measured at physical timepoints."
    },
    {
      "link_id": "LINK:CELL_TO_CELL",
      "from": "cell state",
      "to": "neighboring cell state",
      "state": "LOCKED_NO_INTERACTION_TRUTH",
      "required_next_evidence": "Spatially resolved, perturbation-matched sender/receiver measurements with negative controls."
    },
    {
      "link_id": "LINK:PROCESS_TO_FUNCTION",
      "from": "myogenic process",
      "to": "tissue function and safety",
      "state": "CONTEXT_ONLY_DMD_OUTCOME_MISSING",
      "required_next_evidence": "Matched DMD fusion/function and toxicity outcomes linked to molecular response."
    },
    {
      "link_id": "LINK:TISSUE_TO_PATIENT",
      "from": "tissue state",
      "to": "patient trajectory",
      "state": "LOCKED_NO_PATIENT_CALIBRATION",
      "required_next_evidence": "Longitudinal patient outcome with a prespecified calibration and uncertainty contract."
    }
  ],
  "admission": {
    "decision": "LOCK_UNSUPPORTED_CROSS_SCALE_INFERENCE",
    "gate_summary": {
      "ready": 1,
      "partial": 3,
      "open": 4,
      "total": 8
    },
    "gates": [
      {
        "gate_id": "GATE:CONTEXT_IDENTITY",
        "label": "Disease, species, tissue and cell-state identity",
        "state": "PARTIAL"
      },
      {
        "gate_id": "GATE:INDEPENDENT_UNITS",
        "label": "Independent-unit and nested-cell structure",
        "state": "PARTIAL"
      },
      {
        "gate_id": "GATE:PHYSICAL_TIME",
        "label": "Physical-time reference rather than pseudotime substitution",
        "state": "READY"
      },
      {
        "gate_id": "GATE:SPATIAL_GEOMETRY",
        "label": "Coordinates, section/animal identity and spatial negative controls",
        "state": "PARTIAL"
      },
      {
        "gate_id": "GATE:DMD_RESPONSE",
        "label": "Candidate-conditioned DMD response",
        "state": "OPEN"
      },
      {
        "gate_id": "GATE:CROSS_CELL_OUTCOME",
        "label": "Matched sender/receiver and tissue outcome",
        "state": "OPEN"
      },
      {
        "gate_id": "GATE:PATIENT_CALIBRATION",
        "label": "Longitudinal patient calibration",
        "state": "OPEN"
      },
      {
        "gate_id": "GATE:REGISTERED_EXECUTION",
        "label": "Registered multiscale task, model and receipt",
        "state": "OPEN"
      }
    ]
  },
  "source_objects": {
    "cell_context": {
      "path": "/resource/api/v1.1/cell_context_registry.json",
      "sha256": "411d74af7412716bd01b9aa01aeb83be02bb6247d04b2a0119f7751811382eff"
    },
    "process_trajectory": {
      "path": "/resource/api/v1.1/cell_process_trajectory_contract.json",
      "sha256": "dce888354ad35aea787936ac640843d910a380539b9eddfa7781a633c68c3847"
    },
    "spatial_tasks": {
      "path": "/resource/api/v1.1/multidisease_spatial_task_registry.json",
      "sha256": "52fd94af059d4aaf81221abdc92a30cabc77678a3d072dbfbb168b52457c3c3b"
    },
    "outcome_ledger": {
      "path": "/resource/api/v2/outcome_ledger.json",
      "sha256": "3d94cc782218eccdc02a11242903e542550807a28e4324d53021766b0e95b540"
    },
    "model_evaluation": {
      "path": "/resource/api/v2/model_evaluation_contract.json",
      "sha256": "05934cbd7df873b91cfe6290e82e65cf2226a438abf16049a7565a8bcd24745d"
    }
  },
  "claim_boundary": "The Digital Tissue workspace links measured context, time and spatial references to explicit cross-scale gaps. It is a hypothesis and experiment-design layer, not a multicellular simulator, patient twin or efficacy model.",
  "does_not_imply": [
    "cell-cell simulation",
    "perturbation-conditioned spatial prediction",
    "tissue-level rescue",
    "patient trajectory forecasting",
    "clinical or therapeutic validity"
  ],
  "new_dataset_count": 0,
  "new_model_run_count": 0,
  "new_scientific_claim_count": 0,
  "new_multicellular_simulation_count": 0,
  "digital_tissue_contract_sha256": "7b6ac358889495efb6a23527df416e7ce50f063dc8ea69871598a21bdcbf441f"
}