Version history

{
  "scope": "Mouse V1 (visual cortex); layer L2/3/L4",
  "claim_text": "L2/3 excitatory neurons in mouse V1 form a continuous transcriptomic gradient from pial surface to L4 boundary, paralleled by ~30,000 ATAC-accessible regions varying continuously along this axis.",
  "raw_fields": {
    "n": 30000,
    "doi": "10.1101/2025.09.22.677893",
    "claim": "L2/3 excitatory neurons in mouse V1 form a continuous transcriptomic gradient from pial surface to L4 boundary, paralleled by ~30,000 ATAC-accessible regions varying continuously along this axis.",
    "cite_key": "Yoo2025",
    "evidence": "Single-cell RNA-seq plus spatial transcriptomics combined with paired EASI-FISH and barcoded AAV mapping in mouse V1.",
    "effect_size": "~30,000 genomic regions vary continuously along the L2/3 axis",
    "text_access": "fulltext",
    "study_system": "Mouse V1 (visual cortex); layer L2/3/L4",
    "argument_role": "supporting",
    "replication_status": "replication_unknown",
    "claim_source_sentence": "Single-cell profiling and spatial transcriptomics studies have shown that L2/3 excitatory neurons in the mouse primary visual cortex (V1) and other sensory cortices form a continuum of cell identities from the pial surface to the boundary between L2/3 and L4.",
    "source_provenance_status": "ok",
    "replication_evidence_dois": [],
    "effect_size_source_sentence": "A similar structure is also evident in ATAC-seq data at P21, with chromatin accessibility profiles at ~30,000 genomic regions varying continuously along the L2/3 transcriptomic continuum (–,–)."
  },
  "section_id": "section_06",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_06_evidence_package.json",
  "effect_size": "~30,000 genomic regions vary continuously along the L2/3 axis",
  "review_repo": "ComputationalReviewRecurrence",
  "section_ref": "wiki_page:computationalreviewrecurrence-06-connectomic-micons",
  "source_kind": "review_finding",
  "source_path": "evidence/section_06_evidence_package.json",
  "source_refs": [
    "paper:paper-694de09631a7"
  ],
  "source_span": "Single-cell profiling and spatial transcriptomics studies have shown that L2/3 excitatory neurons in the mouse primary visual cortex (V1) and other sensory cortices form a continuum of cell identities from the pial surface to the boundary between L2/3 and L4.",
  "study_system": "Mouse V1 (visual cortex); layer L2/3/L4",
  "evidence_refs": [
    {
      "ref": "paper:paper-694de09631a7"
    }
  ],
  "section_title": "6. Connectomic resolution — MICrONS mouse V1/HVA millimetre-scale EM volume; pyramidal-pyramidal wiring statistics derived from it; reconciliation with paired-recording estimates",
  "source_policy": {
    "mode": "public_source_pointer_with_short_context",
    "notes": [
      "Local review repositories are read-only inputs.",
      "SciDEX stores paper metadata, structured evidence, file pointers, and short citation contexts; it does not copy full review prose."
    ],
    "source_commit_sha": "79ce062d54a924ce05953ec90aa9d26044d2b48f",
    "source_repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence"
  },
  "evidence_summary": "Single-cell RNA-seq plus spatial transcriptomics combined with paired EASI-FISH and barcoded AAV mapping in mouse V1.",
  "review_bundle_ref": "analysis_bundle:ab-d9c479db9be9",
  "replication_status": "replication_unknown",
  "review_package_ref": "analysis_bundle:ab-d9c479db9be9",
  "source_artifact_ref": "wiki_page:computationalreviewrecurrence-06-connectomic-micons",
  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_06_evidence_package.json",
  "commit_sha": "79ce062d54a924ce05953ec90aa9d26044d2b48f",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence"
}