{
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  "map_id": "DMD-PROCESS-V1",
  "resource_release": "v1.2.0-measured-dmd-evidence",
  "evidence_freeze": "2026-08-03",
  "interface_build": "EA-20260817-57",
  "coverage_policy": "Mapping and intake states are traceability metadata; they do not establish effect size, causality, confidence or prediction.",
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      "label": "DMD-locus correction transcript reference",
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      "source_id": "PRJNA772047",
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      "label": "Human DMD patient skeletal muscle reference",
      "route": "/resource/measured-dmd-evidence/",
      "role": "measured disease-pathway context",
      "coverage_state": "RELEASED_REFERENCE",
      "mapped_node_ids": [
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        "DMD-P006",
        "DMD-P007",
        "DMD-P008",
        "DMD-P020",
        "DMD-P021"
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      "mapped_edge_ids": [
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      "perturbation_model_ready": null,
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      "next_gate": "No additional intake gate; retain the declared contextual or curated claim ceiling.",
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        "therapeutic efficacy",
        "clinical prediction"
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      "source_id": "GSE288958",
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      "label": "Human DMD/BMD/control muscle snRNA-seq and spatial context",
      "route": "/resource/api/v1.1/context-objects/GSE288958.json",
      "role": "read-only disease cell-state and spatial context",
      "coverage_state": "CONTEXT_READY",
      "mapped_node_ids": [
        "DMD-P009",
        "DMD-P010",
        "DMD-P011",
        "DMD-P012",
        "DMD-P017",
        "DMD-P018",
        "DMD-P019",
        "DMD-P022",
        "DMD-P023"
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      "mapped_edge_ids": [
        "DMD-E013",
        "DMD-E020",
        "DMD-E021",
        "DMD-E024"
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      "intake_state": "REFERENCE_CONTEXT_READY_INDEPENDENT_DOUBLETS_AND_ANNOTATION_AUDITED_AMBIENT_OPEN",
      "readiness_state": "REFERENCE_CONTEXT_READY_INDEPENDENT_AUDITS_COMPLETE_AMBIENT_AND_AUTHOR_EXACT_REPROCESSING_OPEN",
      "context_analysis_ready": true,
      "pilot_analysis_ready": true,
      "perturbation_model_ready": false,
      "inferential_unit": "independent biopsy/sample; donor, site and age must remain explicit covariates",
      "next_gate": "Use the read-only sample-aware reference with Normal_2, Scrublet and annotation-disagreement sensitivities. Unfiltered droplets or author contamination estimates are needed only to close ambient RNA; exact author artifacts are needed only for an author-exact reprocessing claim.",
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        "candidate perturbation response",
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        "therapeutic efficacy"
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      "analysis_id": "gse288958_sample_aware_module_context_v01",
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      "pathway_axes": [
        "FAP / ECM fibrosis",
        "Regeneration / stress",
        "Macrophage inflammatory state",
        "Oxidative / mitochondrial context",
        "Vascular / endothelial context"
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      "artifact_routes": [
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          "label": "Sample-aware context object",
          "route": "/resource/api/v1.1/context-objects/GSE288958.json"
        },
        {
          "label": "Formal QC gate",
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        },
        {
          "label": "Reference audit",
          "route": "/resource/gse288958-audit/"
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        {
          "label": "Reference audit JSON",
          "route": "/resource/api/v1.1/gse288958_reference_audit.json"
        },
        {
          "label": "Context brief",
          "route": "/resource/downloads/GSE288958_CONTEXT_OBJECT.md"
        },
        {
          "label": "Stable module table",
          "route": "/resource/downloads/GSE288958_STABLE_MODULE_CONTEXT.tsv"
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        {
          "label": "Candidate context triage",
          "route": "/resource/downloads/GSE288958_CANDIDATE_CONTEXT_TRIAGE.tsv"
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      ],
      "claim_ceiling": "Supports descriptive sample-aware cell-state context and context-only candidate alignment; it does not establish a disease effect, causal transition, therapeutic response, model-training target or functional endpoint."
    },
    {
      "source_id": "GSE277637",
      "source_type": "dataset",
      "label": "DMD iPSC-derived skeletal-muscle organoid scRNA-seq",
      "route": "/resource/api/v1.1/context-objects/GSE277637.json",
      "role": "line-aware descriptive DMD organoid disease-axis context; no spatial, causal or functional endpoint",
      "coverage_state": "CONTEXT_READY",
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        "DMD-P007",
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        "DMD-P020"
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      "context_analysis_ready": true,
      "pilot_analysis_ready": null,
      "perturbation_model_ready": false,
      "inferential_unit": "iPSC-derived line/sample; cells are nested observations, not independent biological replicates",
      "next_gate": "Freeze line-aware sample metadata, preserve one-line-one-unit aggregation, publish source checksum and license record before public matrix release.",
      "blocked_claims": [
        "candidate perturbation response",
        "therapeutic efficacy",
        "clinical prediction"
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        "Myogenesis",
        "Muscle contraction",
        "Mitochondrial calcium ion transport",
        "Extracellular matrix organization",
        "Cell recruitment (pro-inflammatory response)",
        "Cellular response to chemical stress"
      ],
      "artifact_routes": [
        {
          "label": "Cross-dataset metrics",
          "route": "/resource/downloads/external_dmd_organoid_stress_test_metrics_v01.tsv"
        },
        {
          "label": "Line-aware context object",
          "route": "/resource/api/v1.1/context-objects/GSE277637.json"
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      ],
      "claim_ceiling": "Supports descriptive DMD organoid disease context and heterogeneity stress testing only; it does not establish cell-state transition, macrophage/FAP communication, candidate perturbation response or function."
    },
    {
      "source_id": "GSE293514",
      "source_type": "dataset",
      "label": "Human myoblast fusion CRISPR screen and CROP-seq context",
      "route": "/resource/cascade-network/",
      "role": "healthy-myoblast perturbation substrate",
      "coverage_state": "IDENTITY_BLOCKED",
      "mapped_node_ids": [
        "DMD-P013",
        "DMD-P015"
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      "mapped_edge_ids": [
        "DMD-E016",
        "DMD-E030"
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      "mapped_node_count": 2,
      "mapped_edge_count": 2,
      "intake_state": "LOCAL_PARTIAL_BOUNDED_SCREEN_IDENTITY_BLOCKED",
      "readiness_state": "IDENTITY_RECOVERY_REQUIRED",
      "context_analysis_ready": false,
      "pilot_analysis_ready": null,
      "perturbation_model_ready": false,
      "inferential_unit": "screen-level or selected validation object; deposited cell metadata is not a guide-resolved perturbation truth object",
      "next_gate": "Recover author-ordered feature table, guide reference, exact cell metadata and processing contract; checksum every returned file before any expression transfer.",
      "blocked_claims": [
        "DMD candidate validation",
        "expression-level candidate transfer",
        "therapeutic efficacy"
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      "analysis_scope": null,
      "pathway_axes": [],
      "artifact_routes": [],
      "claim_ceiling": null
    },
    {
      "source_id": "GSE52529",
      "source_type": "dataset",
      "label": "Human myogenic differentiation time course",
      "route": "/resource/trajectory/",
      "role": "unperturbed temporal reference",
      "coverage_state": "RELEASED_REFERENCE",
      "mapped_node_ids": [
        "DMD-P012",
        "DMD-P013",
        "DMD-P014"
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      "mapped_edge_ids": [
        "DMD-E013",
        "DMD-E014",
        "DMD-E015",
        "DMD-E016",
        "DMD-E026"
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      "mapped_node_count": 3,
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      "intake_state": null,
      "readiness_state": null,
      "context_analysis_ready": null,
      "pilot_analysis_ready": null,
      "perturbation_model_ready": null,
      "inferential_unit": null,
      "next_gate": "No additional intake gate; retain the declared contextual or curated claim ceiling.",
      "blocked_claims": [
        "candidate perturbation response",
        "therapeutic efficacy",
        "clinical prediction"
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      "analysis_scope": null,
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      "artifact_routes": [],
      "claim_ceiling": null
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      "source_id": "DMD-MUSCLE-REVIEW",
      "source_type": "curated_evidence",
      "label": "DMD skeletal-muscle disease mechanism anchor",
      "route": "/resource/disease/dmd/",
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      "coverage_state": "CURATED_CONTEXT",
      "mapped_node_ids": [
        "DMD-P001",
        "DMD-P002",
        "DMD-P003",
        "DMD-P004",
        "DMD-P005"
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      "mapped_edge_ids": [
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        "DMD-E002",
        "DMD-E003",
        "DMD-E004",
        "DMD-E018"
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      "intake_state": null,
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      "inferential_unit": null,
      "next_gate": "No additional intake gate; retain the declared contextual or curated claim ceiling.",
      "blocked_claims": [
        "candidate perturbation response",
        "therapeutic efficacy",
        "clinical prediction"
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      "analysis_id": null,
      "analysis_scope": null,
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      "source_id": "DMD-SPATIAL-CONTEXT",
      "source_type": "curated_evidence",
      "label": "DMD spatial degeneration, regeneration and fibrosis context",
      "route": "/resource/api/v1.1/data_intake_registry.json",
      "role": "spatial/contextual support; no automatic causal edge",
      "coverage_state": "CURATED_CONTEXT",
      "mapped_node_ids": [
        "DMD-P005",
        "DMD-P006",
        "DMD-P007",
        "DMD-P008",
        "DMD-P009",
        "DMD-P010",
        "DMD-P011",
        "DMD-P016",
        "DMD-P017",
        "DMD-P018",
        "DMD-P019",
        "DMD-P020",
        "DMD-P021",
        "DMD-P022",
        "DMD-P023"
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      "mapped_edge_ids": [
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        "DMD-E006",
        "DMD-E007",
        "DMD-E008",
        "DMD-E009",
        "DMD-E010",
        "DMD-E011",
        "DMD-E012",
        "DMD-E019",
        "DMD-E020",
        "DMD-E021",
        "DMD-E022",
        "DMD-E023",
        "DMD-E024",
        "DMD-E025",
        "DMD-E026",
        "DMD-E028"
      ],
      "mapped_node_count": 15,
      "mapped_edge_count": 17,
      "intake_state": null,
      "readiness_state": null,
      "context_analysis_ready": null,
      "pilot_analysis_ready": null,
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      "inferential_unit": null,
      "next_gate": "No additional intake gate; retain the declared contextual or curated claim ceiling.",
      "blocked_claims": [
        "candidate perturbation response",
        "therapeutic efficacy",
        "clinical prediction"
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    },
    {
      "source_id": "STUDY-CARD-MANIFEST",
      "source_type": "registry",
      "label": "21 governed DMD Study Card drafts",
      "route": "/resource/api/v1.1/study_card_manifest.json",
      "role": "draft experiment handoff; no registered study or outcome",
      "coverage_state": "REGISTRY_HANDOFF",
      "mapped_node_ids": [
        "DMD-P024"
      ],
      "mapped_edge_ids": [
        "DMD-E017",
        "DMD-E027",
        "DMD-E028",
        "DMD-E029",
        "DMD-E030"
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      "mapped_node_count": 1,
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      "next_gate": "No additional intake gate; retain the declared contextual or curated claim ceiling.",
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        "therapeutic efficacy",
        "clinical prediction"
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}
