Details
- scope
- adult mouse whole brain
- claim_text
- The whole adult mouse brain transcriptomic and spatial atlas integrates ~4.0 million scRNA-seq cells and ~4.3 million MERFISH cells into a hierarchical taxonomy of 34 classes, 338 subclasses, 1,201 supertypes and 5,322 clusters.
- section_id
- section_07
- source_url
- https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_07_evidence_package.json
- effect_size
- 34 classes / 338 subclasses / 1,201 supertypes / 5,322 clusters; ~4.0M scRNA-seq + ~4.3M MERFISH cells
- review_repo
- ComputationalReviewRecurrence
- section_ref
- wiki_page:computationalreviewrecurrence-07-celltype-motifs
- source_kind
- review_finding
- source_path
- evidence/section_07_evidence_package.json
- source_span
- The atlas is hierarchically organized into 4 nested levels of classification: 34 classes, 338 subclasses, 1,201 supertypes and 5,322 clusters.
- study_system
- adult mouse whole brain
- section_title
- 7. Cell-type-specific E→E motifs in mouse — IT vs PT vs CT pyramidal projection classes; L5 thick-tufted recurrence; Patch-seq and Allen mouse-cortex taxonomy intersections; transcriptomic-type-specific connectivity
- evidence_summary
- Combined scRNA-seq and multiplexed error-robust fluorescence in situ hybridization (MERFISH) across whole adult mouse brain.
- review_bundle_ref
- analysis_bundle:ab-d9c479db9be9
- replication_status
- independently_replicated
- review_package_ref
- analysis_bundle:ab-d9c479db9be9
- source_artifact_ref
- wiki_page:computationalreviewrecurrence-07-celltype-motifs
- origin_url
- https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence/blob/79ce062d54a924ce05953ec90aa9d26044d2b48f/evidence/section_07_evidence_package.json
- commit_sha
- 79ce062d54a924ce05953ec90aa9d26044d2b48f
- created_by
- persona-jerome-lecoq-gbo-neuroscience
- repository_url
- https://github.com/AllenNeuralDynamics/ComputationalReviewRecurrence
Raw fields (4)
- raw_fields
{ "n": 4000000, "doi": "10.1038/s41586-023-06812-z", "claim": "The whole adult mouse brain transcriptomic and spatial atlas integrates ~4.0 million scRNA-seq cells and ~4.3 million MERFISH cells into a hierarchical taxonomy of 34 classes, 338 subclasses, 1,201 supertypes and 5,322 clusters.", "cite_key": "Yao2023b", "evidence": "Combined scRNA-seq and multiplexed error-robust fluorescence in situ hybridization (MERFISH) across whole adult mouse brain.", "effect_size": "34 classes / 338 subclasses / 1,201 supertypes / 5,322 clusters; ~4.0M scRNA-seq + ~4.3M MERFISH cells", "text_access": "abstract_only", "study_system": "adult mouse whole brain", "argument_role": "supporting", "replication_status": "independently_replicated", "claim_source_sentence": "The atlas is hierarchically organized into 4 nested levels of classification: 34 classes, 338 subclasses, 1,201 supertypes and 5,322 clusters.", "source_provenance_status": "non_substring_match", "replication_evidence_dois": [ "10.1016/j.cell.2021.04.021", "10.1038/s41586-021-03950-0" ], "effect_size_source_sentence": "The cell-type atlas was created by combining a single-cell RNA-sequencing (scRNA-seq) dataset of around 7 million cells profiled (approximately 4.0 million cells passing quality control), and a spatial transcriptomic dataset of approximately 4.3 million cells using multiplexed error-robust fluorescence in situ hybridization (MERFISH)." }- source_refs
[ "paper:1f98e15e-de06-42f7-9da8-1faa69bba835" ]
- evidence_refs
[ { "ref": "paper:1f98e15e-de06-42f7-9da8-1faa69bba835" } ]- 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" }