Version history

{
  "scope": "mouse V1 cortex; ATAC-seq + AAV GRE screening",
  "claim_text": "Hrvatin et al. (2019) developed PESCA, a scalable platform combining ATAC-seq with viral barcoding to identify cell-type-specific enhancers, generating viral reagents that target SST cortical interneurons and providing transferable methodology for VIP and PV subtype-specific genetic access.",
  "raw_fields": {
    "n": null,
    "doi": "10.7554/elife.48089",
    "claim": "Hrvatin et al. (2019) developed PESCA, a scalable platform combining ATAC-seq with viral barcoding to identify cell-type-specific enhancers, generating viral reagents that target SST cortical interneurons and providing transferable methodology for VIP and PV subtype-specific genetic access.",
    "title": null,
    "cite_key": "Hrvatin2019",
    "evidence": "ATAC-seq on FACS-purified PV, SST, VIP cortical nuclei → 323,369 putative GREs → 287 SST-specific candidates screened via AAV in mouse V1; produces enhancer-AAV toolkit applicable to VIP types as used in subsequent Patch-seq studies (Jorstad 2023).",
    "effect_size": null,
    "text_access": "fulltext",
    "study_system": "mouse V1 cortex; ATAC-seq + AAV GRE screening",
    "target_section": "section_11",
    "_source_cluster": "cluster_01_molecular_taxonomy",
    "replication_status": "single_study",
    "_source_cluster_index": 39,
    "claim_source_sentence": "We validated the efficacy of PESCA in the murine primary visual cortex by identifying GREs that confine AAV expression to somatostatin (SST)-expressing interneurons and showed that these vectors can be used to modulate neuronal activity selectively in SST neurons. These datasets can be used as a resource to identify putative gene regulatory elements as candidates for driving cell-type-specific gene expression for the numerous subtypes of SST, PV or VIP-expressing intraneurons across diverse cortical regions."
  },
  "section_id": "section_02",
  "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_02_evidence_package.json",
  "effect_size": null,
  "review_repo": "ComputationalReviewVIP",
  "section_ref": "wiki_page:computationalreviewvip-02-classification",
  "source_kind": "review_finding",
  "source_path": "evidence/section_02_evidence_package.json",
  "source_refs": [
    "paper:paper-04bb600a01a5"
  ],
  "source_span": "We validated the efficacy of PESCA in the murine primary visual cortex by identifying GREs that confine AAV expression to somatostatin (SST)-expressing interneurons and showed that these vectors can be used to modulate neuronal activity selectively in SST neurons. These datasets can be used as a resource to identify putative gene regulatory elements as candidates for driving cell-type-specific gene expression for th...",
  "study_system": "mouse V1 cortex; ATAC-seq + AAV GRE screening",
  "evidence_refs": [
    {
      "ref": "paper:paper-04bb600a01a5"
    }
  ],
  "section_title": "Molecular Identity and Transcriptomic Taxonomy",
  "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": "ATAC-seq on FACS-purified PV, SST, VIP cortical nuclei → 323,369 putative GREs → 287 SST-specific candidates screened via AAV in mouse V1; produces enhancer-AAV toolkit applicable to VIP types as used in subsequent Patch-seq studies (Jorstad 2023).",
  "review_bundle_ref": "analysis_bundle:ab-2ce40c33e827",
  "replication_status": "single_study",
  "review_package_ref": "analysis_bundle:ab-2ce40c33e827",
  "source_artifact_ref": "wiki_page:computationalreviewvip-02-classification",
  "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP/blob/95e761177f7d2ec565983d3307c14ec238f9677c/evidence/section_02_evidence_package.json",
  "commit_sha": "95e761177f7d2ec565983d3307c14ec238f9677c",
  "created_by": "persona-jerome-lecoq-gbo-neuroscience",
  "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewVIP"
}