Version history

{
  "scope": "mouse V1 paired sn/scRNA-seq benchmark",
  "claim_text": "Matched single-nucleus and single-cell RNA-seq from mouse visual cortex showed that, despite ~11,000 genes detected per whole cell vs ~7,000 per nucleus, closely related neuronal types can be similarly discriminated by snRNA-seq when intronic reads are retained.",
  "raw_fields": {
    "n": null,
    "doi": "10.1371/journal.pone.0209648",
    "claim": "Matched single-nucleus and single-cell RNA-seq from mouse visual cortex showed that, despite ~11,000 genes detected per whole cell vs ~7,000 per nucleus, closely related neuronal types can be similarly discriminated by snRNA-seq when intronic reads are retained.",
    "title": null,
    "cite_key": "Bakken2018",
    "evidence": "Matched snRNA-seq and scRNA-seq from mouse V1; comparison of cell-type discrimination power and per-cell gene detection.",
    "effect_size": null,
    "text_access": "abstract_only",
    "study_system": "mouse V1 paired sn/scRNA-seq benchmark",
    "target_section": "section_02",
    "_source_cluster": "cluster_01_molecular_taxonomy",
    "replication_status": "single_study",
    "_source_cluster_index": 53,
    "claim_source_sentence": "Although more transcripts are detected in individual whole cells (~11,000 genes) than nuclei (~7,000 genes), we demonstrate that closely related neuronal cell types can be similarly discriminated with both methods if intronic sequences are included in snRNA-seq analysis."
  },
  "section_id": "section_01",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_01_evidence_package.json",
  "effect_size": null,
  "review_repo": "ComputationalReviewVIP",
  "section_ref": "wiki_page:computationalreviewvip-01-introduction",
  "source_kind": "review_finding",
  "source_path": "evidence/section_01_evidence_package.json",
  "source_refs": [
    "paper:paper-pm-30586455"
  ],
  "source_span": "Although more transcripts are detected in individual whole cells (~11,000 genes) than nuclei (~7,000 genes), we demonstrate that closely related neuronal cell types can be similarly discriminated with both methods if intronic sequences are included in snRNA-seq analysis.",
  "study_system": "mouse V1 paired sn/scRNA-seq benchmark",
  "evidence_refs": [
    {
      "ref": "paper:paper-pm-30586455"
    }
  ],
  "section_title": "Introduction",
  "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": "Matched snRNA-seq and scRNA-seq from mouse V1; comparison of cell-type discrimination power and per-cell gene detection.",
  "review_bundle_ref": "analysis_bundle:ab-2ce40c33e827",
  "replication_status": "single_study",
  "review_package_ref": "analysis_bundle:ab-2ce40c33e827",
  "source_artifact_ref": "wiki_page:computationalreviewvip-01-introduction",
  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_01_evidence_package.json",
  "commit_sha": "95e761177f7d2ec565983d3307c14ec238f9677c",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP"
}