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Allen Reference Atlas
The Allen Mouse Brain Reference Atlas is a full-color, high-resolution, Web-based digital brain atlas accompanied by a systematic, hierarchically organized taxonomy of mouse brain structures. The Allen Mouse Brain Atlas and Reference Atlases' data are obtained, using identical methodology, from 8-week old C57Bl/6J male mouse brain(s) prepared as unfixed, fresh-frozen tissue.
The Allen Mouse Brain Reference Atlas was designed to:
  1. Allow users to directly compare gene expression patterns to neuroanatomical structures in the Web application
  2. Serve as a template for the development of 3D computer graphic models of the mouse brain, providing a foundation for the development of informatics based annotation tools
  3. Provide a standard neuroanatomical ontology for determining structural annotation and aid in the construction of a detailed searchable gene expression database
For more information, please refer to the documentation.
Coronal Atlas   132 coronal sections evenly spaced at 100 µm intervals and annotated to a detail of numerous brain structures
Sagittal Atlas   21 representative sagittal sections spaced at 200 µm, annotated for 71 major brain regions identified at the top level(s) of the brain structure hierarchal tree
Coronal Legend   Search for a specific structure or browse the coronal reference atlas
Sagittal Legend   Search for a specific structure or browse the sagittal reference atlas