Version history

{
  "scope": "mouse, isocortex + HPF (adult, scRNA-seq)",
  "claim_text": "A 1.3-million-cell scRNA-seq taxonomy of adult mouse isocortex and hippocampal formation organizes GABAergic interneurons into two developmental-origin neighborhoods (CGE and MGE), with the CGE neighborhood divided into Lamp5, Sncg and Vip subclasses (4, 5, and 6 supertypes respectively) and the MGE neighborhood into Sst Chodl, Sst, and Pvalb (1, 11, and 3 supertypes); identifies six Vip supertypes as the developmentally CGE-derived Vip lineage backbone.",
  "raw_fields": {
    "n": 1300000,
    "doi": "10.1016/j.cell.2021.04.021",
    "claim": "A 1.3-million-cell scRNA-seq taxonomy of adult mouse isocortex and hippocampal formation organizes GABAergic interneurons into two developmental-origin neighborhoods (CGE and MGE), with the CGE neighborhood divided into Lamp5, Sncg and Vip subclasses (4, 5, and 6 supertypes respectively) and the MGE neighborhood into Sst Chodl, Sst, and Pvalb (1, 11, and 3 supertypes); identifies six Vip supertypes as the developmentally CGE-derived Vip lineage backbone.",
    "title": null,
    "cite_key": "Yao2021a",
    "evidence": "~1.3 million cells from entire adult mouse isocortex and HPF profiled by 10x scRNA-seq; integrated UMAP and hierarchical clustering; supertype/subclass nomenclature.",
    "effect_size": "6 Vip supertypes (CGE), 5 Sncg supertypes, 4 Lamp5 supertypes",
    "figure_data": [
      {
        "type": "cell_type_count",
        "unit": "supertypes",
        "value": 6,
        "metric": "Number of CGE Vip supertypes in mouse cortex+HPF",
        "source": "Yao 2021 Fig. 2D / Table S3",
        "context": "out of 1.3M cells; CGE neighborhood = Lamp5/Sncg/Vip"
      }
    ],
    "text_access": "fulltext",
    "study_system": "mouse, isocortex + HPF (adult, scRNA-seq)",
    "_source_cluster": "cluster_02_development_lineage",
    "replication_status": "primary",
    "_source_cluster_index": 103,
    "claim_source_sentence": "GABAergic cell type taxonomy The GABAergic inhibitory neuronal class is divided into two neighborhoods that correlate with distinct developmental origins: caudal ganglionic eminence (CGE) ( Fig. 2A – E ) and medial ganglionic eminence (MGE) ( Fig. 2F – J ). Each neighborhood is further divided into 3 subclasses: Lamp5, Sncg and Vip in CGE, and Sst Chodl, Sst and Pvalb in MGE. In the CGE neighborhood, the Lamp5 (mostly neurogliaform cells), Sncg and Vip subclasses are divided into 4, 5 (one containing Vip cells), and 6 supertypes, respectively ( Fig. 2D , Table S3 ).",
    "replication_evidence_dois": [
      "10.1038/s41586-018-0654-5"
    ],
    "effect_size_source_sentence": "In the CGE neighborhood, the Lamp5 (mostly neurogliaform cells), Sncg and Vip subclasses are divided into 4, 5 (one containing Vip cells), and 6 supertypes, respectively ( Fig. 2D , Table S3 )."
  },
  "section_id": "section_03",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_03_evidence_package.json",
  "effect_size": "6 Vip supertypes (CGE), 5 Sncg supertypes, 4 Lamp5 supertypes",
  "review_repo": "ComputationalReviewVIP",
  "section_ref": "wiki_page:computationalreviewvip-03-development",
  "source_kind": "review_finding",
  "source_path": "evidence/section_03_evidence_package.json",
  "source_refs": [
    "paper:paper-4dfe44516146"
  ],
  "source_span": "GABAergic cell type taxonomy The GABAergic inhibitory neuronal class is divided into two neighborhoods that correlate with distinct developmental origins: caudal ganglionic eminence (CGE) ( Fig. 2A – E ) and medial ganglionic eminence (MGE) ( Fig. 2F – J ). Each neighborhood is further divided into 3 subclasses: Lamp5, Sncg and Vip in CGE, and Sst Chodl, Sst and Pvalb in MGE. In the CGE neighborhood, the Lamp5 (most...",
  "study_system": "mouse, isocortex + HPF (adult, scRNA-seq)",
  "evidence_refs": [
    {
      "ref": "paper:paper-4dfe44516146"
    }
  ],
  "section_title": "Developmental Origins and Postnatal Maturation",
  "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": "95e761177f7d2ec565983d3307c14ec238f9677c",
    "source_repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP"
  },
  "evidence_summary": "~1.3 million cells from entire adult mouse isocortex and HPF profiled by 10x scRNA-seq; integrated UMAP and hierarchical clustering; supertype/subclass nomenclature.",
  "review_bundle_ref": "analysis_bundle:ab-2ce40c33e827",
  "replication_status": "primary",
  "review_package_ref": "analysis_bundle:ab-2ce40c33e827",
  "source_artifact_ref": "wiki_page:computationalreviewvip-03-development",
  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_03_evidence_package.json",
  "commit_sha": "95e761177f7d2ec565983d3307c14ec238f9677c",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP"
}