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Related Experiment Video

Updated: Jun 11, 2026

A Polished and Reinforced Thinned-skull Window for Long-term Imaging of the Mouse Brain
09:49

A Polished and Reinforced Thinned-skull Window for Long-term Imaging of the Mouse Brain

Published on: March 7, 2012

Waxholm space: an image-based reference for coordinating mouse brain research.

G Allan Johnson1, Alexandra Badea, Jeffrey Brandenburg

  • 1Duke Center for In Vivo Microscopy, Radiology, Duke University Medical Center, Durham, NC 27710, USA. gjohnson@duke.edu

Neuroimage
|July 6, 2010
PubMed
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This study presents a C57BL/6 mouse brain atlas using MRI and Nissl histology. The atlas offers detailed anatomical data for enhanced neuroscience research and data sharing.

Area of Science:

  • Neuroscience
  • Medical Imaging
  • Comparative Anatomy

Background:

  • Accurate anatomical atlases are crucial for interpreting neuroimaging data.
  • Previous mouse brain atlases may lack sufficient resolution or multimodal data integration.

Purpose of the Study:

  • To create a high-resolution, multimodal atlas of the C57BL/6 mouse brain.
  • To facilitate data sharing and registration of other atlases within a standardized coordinate system.

Main Methods:

  • Magnetic resonance microscopy (MRM) was performed on 14 C57BL/6 mouse brains.
  • MRM utilized T1, T2, and T2* contrast protocols at 21.5 µm isotropic resolution.
  • Conventional Nissl histology was performed and registered to the MR data.

Main Results:

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Related Experiment Videos

Last Updated: Jun 11, 2026

A Polished and Reinforced Thinned-skull Window for Long-term Imaging of the Mouse Brain
09:49

A Polished and Reinforced Thinned-skull Window for Long-term Imaging of the Mouse Brain

Published on: March 7, 2012

Large-scale Three-dimensional Imaging of Cellular Organization in the Mouse Neocortex
09:55

Large-scale Three-dimensional Imaging of Cellular Organization in the Mouse Neocortex

Published on: September 5, 2018

Clock Scan Protocol for Image Analysis: ImageJ Plugins
07:19

Clock Scan Protocol for Image Analysis: ImageJ Plugins

Published on: June 19, 2017

  • A probabilistic atlas of 37 brain structures was generated.
  • Average atlases were created from the registered MR and Nissl data.
  • All data, including MR images and Nissl histology, is available for download.

Conclusions:

  • The developed atlas provides a valuable resource for mouse brain research.
  • The multimodal approach enhances anatomical detail and registration capabilities.
  • Open data access promotes collaborative research and data integration in neuroscience.