The Allen Mouse Brain Common Coordinate Framework: A 3D Reference Atlas.
3D brain atlas
CCFv3
average mouse brain
brain anatomy
brain parcellation
common coordinate framework
fiber tracts
mouse cortex
reference atlas
transgenic mice
Journal
Cell
ISSN: 1097-4172
Titre abrégé: Cell
Pays: United States
ID NLM: 0413066
Informations de publication
Date de publication:
14 05 2020
14 05 2020
Historique:
received:
02
05
2019
revised:
12
12
2019
accepted:
03
04
2020
pubmed:
11
5
2020
medline:
5
1
2021
entrez:
11
5
2020
Statut:
ppublish
Résumé
Recent large-scale collaborations are generating major surveys of cell types and connections in the mouse brain, collecting large amounts of data across modalities, spatial scales, and brain areas. Successful integration of these data requires a standard 3D reference atlas. Here, we present the Allen Mouse Brain Common Coordinate Framework (CCFv3) as such a resource. We constructed an average template brain at 10 μm voxel resolution by interpolating high resolution in-plane serial two-photon tomography images with 100 μm z-sampling from 1,675 young adult C57BL/6J mice. Then, using multimodal reference data, we parcellated the entire brain directly in 3D, labeling every voxel with a brain structure spanning 43 isocortical areas and their layers, 329 subcortical gray matter structures, 81 fiber tracts, and 8 ventricular structures. CCFv3 can be used to analyze, visualize, and integrate multimodal and multiscale datasets in 3D and is openly accessible (https://atlas.brain-map.org/).
Identifiants
pubmed: 32386544
pii: S0092-8674(20)30402-5
doi: 10.1016/j.cell.2020.04.007
pmc: PMC8152789
mid: NIHMS1585864
pii:
doi:
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
936-953.e20Subventions
Organisme : NIMH NIH HHS
ID : U01 MH105982
Pays : United States
Organisme : NIMH NIH HHS
ID : U19 MH114830
Pays : United States
Organisme : NIMH NIH HHS
ID : U24 MH114827
Pays : United States
Informations de copyright
Copyright © 2020 Elsevier Inc. All rights reserved.
Déclaration de conflit d'intérêts
Declaration of Interests D.F. is an employee Tableau Software. B.B. is an employee of 343 Industries. A.S. is an employee of Microsoft Corporation. S.W.O. is an employee of MDimune (Korea).
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