Center for in vivo Microscopy

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Supplemental Material for:

High-throughput morphologic phenotyping of the mouse brain with magnetic resonance histology

G. Allan Johnson, Anjum Ali-Sharief, Alexandra Badea, Jeffrey Brandenburg, Gary Cofer, Boma Fubara, Sally Gewalt, Laurence W. Hedlund, Lucy Upchurch

NeuroImage, 37(1): 82-89, 2007

Files in This Data Supplement

Representative volume data for one C57BL/6J wild-type specimen:

Snapshot of MBAT application screen
  • (34 MB), a ZIP archive containing T1 and T2-weighted image data, label data and metadata, along with the MBAT (Mouse BIRN Atlas Tool) viewer. The version of MBAT included here will automatically open the representative dataset upon launch.

    You may also download the data and MBAT separately:
    MBAT is also available directly from BIRN via this link.

  • (453 MB), a ZIP archive containing a full-resolution (512x512x1024) T1 volume in Analyze format.

You may browse all these datasets via the CIVMSpace Web portal, a browser-based tool that lets you view slices without downloading the entire dataset.

Select any thumbnail to browse slices from the corresponding dataset. To view structure labels, select "Open in VoxStation" from the pull-down menu at the upper right corner of the CIVMSpace page, then select the "Go" button; this will launch VoxPort, a Java Web Start application that lets you view structure labels individually or as a group.

Snapshot of CIVMSPACE portal page


  • This work was has been made possible though collaboration with the Biomedical Informatics Research Network, under NIH/NCRR grants P41 RR005959 (G. A. Johnson) and U24 RR021760i (A. W. Toga).



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