{
  "registry_object_schema": "nmd-vcell-dataset-registry-record/1.0",
  "dataset_id": "GSE272233",
  "accession": "GSE272233",
  "permanent_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE272233",
  "stable_url": "/resource/dataset/gse272233/",
  "json_url": "/resource/api/v1.1/datasets/gse272233.json",
  "title": "DMD-locus CRISPR-correction transcript reference",
  "source_identity": {
    "accession": "GSE272233",
    "permanent_url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE272233",
    "license_status": "Source repository and publication terms apply; verify at accession",
    "source_verification_required": true
  },
  "biological_context": {
    "disease_or_context": "Duchenne muscular dystrophy",
    "species": "Homo sapiens",
    "tissue_or_model": "DMD-locus correction reference",
    "cell_type": "Patient-derived and corrected cellular models",
    "donor_age_sex_stage_state": "grouped_sample_identities_available"
  },
  "measurement_design": {
    "modality": "bulk RNA expression",
    "observation_unit": "bulk sample",
    "cell_count_or_sample_size": "21 samples; 3 per reported group",
    "cell_count_state": "not_single_cell",
    "endpoint": "Bulk RNA expression and correction contrasts"
  },
  "perturbation_design": {
    "perturbation": "DMD-locus correction",
    "dose": "DMD-locus correction; candidate perturbation absent",
    "timepoints": "Study endpoint",
    "direct_dmd_candidate_perturbation_outcome": false,
    "direct_dmd_candidate_perturbation_truth": false
  },
  "replication_and_batch": {
    "biological_replicate_state": "3_per_reported_group",
    "technical_replicate_state": "source_publication_required",
    "batch_platform_state": "source_publication_required"
  },
  "file_hash_chain": {
    "raw": "upstream_accession_required",
    "processed": "processed_matrix_checksummed",
    "analysis": "derived_tables_in_resource_manifest"
  },
  "benchmark_partitioning": {
    "leakage_grouping": "orthogonal_reference_no_candidate_training",
    "permitted_benchmark_use": [
      "disease_correction_context_only"
    ],
    "donor_holdout_qualified": false,
    "disease_state_holdout_qualified": false,
    "prospective_holdout_qualified": false
  },
  "ai_readiness_state": "ORTHOGONAL_REFERENCE_ONLY",
  "current_ai_role": "Check disease-correction direction and context",
  "decision_blocker": "Candidate transcripts are observed but candidates were not perturbed",
  "research_value": {
    "value_schema": "nmd-vcell-dataset-research-value/1.0",
    "what_it_proves": "DMD-locus correction changes disease-context transcript programs in patient-derived/corrected models.",
    "what_it_cannot_prove": "It cannot isolate a displayed candidate's perturbation effect because those candidates were not perturbed.",
    "best_model_use": "Use as orthogonal DMD directionality and disease-correction context, not as candidate-training truth.",
    "next_experiment_handoff": "Use the corrected-vs-DMD contrast to choose endpoints for a separate candidate perturbation study.",
    "claim_boundary": "Dataset value is task-specific; no Dataset Card alone is evidence of candidate efficacy, patient response or clinical utility."
  },
  "boundary": "Dataset registration does not convert context evidence into DMD perturbation-response outcome."
}