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- Live5/17/2026, 4:35:28 PM
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{ "kind": "infographic", "prompt": "The rapid scaling of single-cell transcriptomic atlases from thousands to millions of cells, with each generation revealing finer-grained PV interneuron subtypes. Earlier studies (2020) found 28 met-types from 4,200 cells; the latest (2023-2024) resolve >5,000 clusters from millions of cells.", "provider": "other", "raw_fields": { "papers": [ { "n": 4200, "doi": "10.1016/j.cell.2020.09.057", "value": "4200", "method": "10x Chromium scRNA-seq + patch-clamp", "metric": "Number of GABAergic interneurons profiled (transcriptomics)", "n_analyzed": "4200", "ci_or_error": null, "text_access": "fulltext", "n_definition": "cells profiled with scRNA-seq", "scope_region": "visual cortex only", "study_system": "mouse visual cortex", "taxonomic_level": "28 met-types", "scope_population": "GABAergic interneurons only", "value_source_sentence": "we characterized the transcriptomes and intrinsic physiological properties of over 4,200 mouse visual cortical GABAergic interneurons", "experimental_conditions": "acute brain slices, Patch-seq" }, { "n": 1300000, "doi": "10.1016/j.cell.2021.04.021", "value": "1300000", "method": "10x Chromium scRNA-seq", "metric": "Number of cells profiled (transcriptomics)", "n_analyzed": "1300000", "ci_or_error": null, "text_access": "fulltext", "n_definition": "cells profiled with scRNA-seq", "scope_region": "isocortex and hippocampal formation", "study_system": "mouse isocortex and hippocampal formation", "taxonomic_level": "subclass level (Pvalb = 1 subclass with 3 supertypes)", "scope_population": "all cell types", "value_source_sentence": "We profiled ~1.3 million cells covering the entire adult mouse isocortex and HPF", "experimental_conditions": "10x Chromium scRNA-seq" }, { "n": 11300000, "doi": "10.1038/s41586-023-06812-z", "value": "11300000", "method": "10x scRNA-seq + MERFISH spatial transcriptomics", "metric": "Number of cells profiled (scRNA-seq + MERFISH)", "n_analyzed": "11300000", "ci_or_error": null, "text_access": "abstract_only", "n_definition": "cells profiled across both modalities", "scope_region": "whole brain", "study_system": "whole adult mouse brain", "taxonomic_level": "5,200 clusters in whole brain", "scope_population": "all cell types", "value_source_sentence": "a single-cell RNA-sequencing (scRNA-seq) dataset of ~7 million cells profiled, and a spatially resolved transcriptomic dataset of ~4.3 million cells using MERFISH", "experimental_conditions": "scRNA-seq + MERFISH" }, { "n": 611423, "doi": "10.1101/2024.06.18.599583", "value": "611423", "method": "scRNA-seq", "metric": "Number of GABAergic cells profiled", "n_analyzed": "611423", "ci_or_error": null, "text_access": "fulltext", "n_definition": "GABAergic neuronal cells profiled", "scope_region": "whole telencephalon", "study_system": "mouse whole telencephalon", "taxonomic_level": "1,051 GABAergic clusters in 52 subclasses", "scope_population": "GABAergic neurons only", "value_source_sentence": "utilizing 611,423 single-cell transcriptomes from the comprehensive and high-resolution transcriptomic and spatial cell type atlas", "experimental_conditions": "scRNA-seq extracted from whole brain atlas" } ], "comparison_id": "cell-type-atlas-scale-comparison", "comparison_name": "Scale of cell type atlases: number of cells profiled and types identified across major PV-relevant studies", "comparison_type": "timeline", "what_it_reveals": "The rapid scaling of single-cell transcriptomic atlases from thousands to millions of cells, with each generation revealing finer-grained PV interneuron subtypes. Earlier studies (2020) found 28 met-types from 4,200 cells; the latest (2023-2024) resolve >5,000 clusters from millions of cells.", "homogeneity_check": { "caveats": [ "Studies cover different brain regions: visual cortex only vs isocortex vs whole brain", "Different studies profile all cells vs only GABAergic cells", "Taxonomic resolution varies from 28 met-types to 5,200 clusters", "The whole-brain atlases include non-neuronal cell types" ], "n_definition_uniform": "true", "scope_region_uniform": "false", "taxonomic_level_uniform": "false", "scope_population_uniform": "false" }, "suggested_plot_type": "timeline" }, "section_id": "section_02_evidence_package", "source_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewPV/blob/df9fc7e8d455b084152c9d713558dae0013cef21/evidence/section_02_evidence_package.json", "target_ref": "wiki_page:computationalreviewpv-02", "review_repo": "ComputationalReviewPV", "section_ref": "wiki_page:computationalreviewpv-02", "source_path": "evidence/section_02_evidence_package.json", "source_refs": [ "paper:paper-pm-33186530", "paper:paper-4dfe44516146", "paper:1f98e15e-de06-42f7-9da8-1faa69bba835", "paper:paper-ead55baa2bf0" ], "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": "df9fc7e8d455b084152c9d713558dae0013cef21", "source_repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewPV" }, "generation_status": "complete", "review_bundle_ref": "analysis_bundle:ab-e6261c8263e7", "origin_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewPV/blob/df9fc7e8d455b084152c9d713558dae0013cef21/evidence/section_02_evidence_package.json", "commit_sha": "df9fc7e8d455b084152c9d713558dae0013cef21", "created_by": "persona-jerome-lecoq-gbo-neuroscience", "repository_url": "https://github.com/AllenNeuralDynamics/ComputationalReviewPV" }