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Resource Name
Allen Mouse Brain Common Coordinate Framework
RRID:SCR_020999 RRID Copied      
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Allen Mouse Brain Common Coordinate Framework (RRID:SCR_020999)
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Resource Information

URL: https://atlas.brain-map.org/

Proper Citation: Allen Mouse Brain Common Coordinate Framework (RRID:SCR_020999)

Description: 3D reference atlas to use with online datasets or as standalone resources. Can be used to analyze, visualize, and integrate multimodal and multiscale datasets in 3D. Intensity and shape population average template brain serves as basis of reference space and coordinate system. Average was constructed at 10 um voxel resolution by interpolating high resolution serial two photon tomography images from young adult C57BL/6J mice. Using multimodal reference data, entire brain was directly parcellated in 3D, labeling every voxel with brain structure from Allen Mouse Reference Atlas Ontology. In the 2017 release, the parcellation spanned 43 isocortical areas and their layers, 329 subcortical gray matter structures, 81 fiber tracts, and 8 ventricular structures.

Abbreviations: Allen CCF, CCFv3

Synonyms: The Allen Mouse Brain Common Coordinate Framework: A 3D Reference Atlas

Resource Type: atlas, data or information resource, reference atlas

Defining Citation: PMID:32386544

Keywords: 3D anatomical reference atlas, brain anatomy, adult mouse brain images

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