| Literature DB >> 32386544 |
Quanxin Wang1, Song-Lin Ding1, Yang Li1, Josh Royall1, David Feng1, Phil Lesnar1, Nile Graddis1, Maitham Naeemi1, Benjamin Facer1, Anh Ho1, Tim Dolbeare1, Brandon Blanchard1, Nick Dee1, Wayne Wakeman1, Karla E Hirokawa1, Aaron Szafer1, Susan M Sunkin1, Seung Wook Oh1, Amy Bernard1, John W Phillips1, Michael Hawrylycz1, Christof Koch1, Hongkui Zeng1, Julie A Harris2, Lydia Ng3.
Abstract
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/).Entities:
Keywords: 3D brain atlas; CCFv3; average mouse brain; brain anatomy; brain parcellation; common coordinate framework; fiber tracts; mouse cortex; reference atlas; transgenic mice
Mesh：
Year: 2020 PMID： 32386544 DOI： 10.1016/j.cell.2020.04.007
Source DB: PubMed Journal: Cell ISSN： 0092-8674 Impact factor: 41.582