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Supplemental Material for:

Genetic Dissection of the Mouse Brain Using High-Field Magnetic Resonance Microscopy

A. Badea1, G.A. Johnson1, R.W. Williams2

1Center for In Vivo Microscopy, Duke University Medical Center, Durham, NC, USA
2Department of Anatomy and Neurobiology, University of Tennessee Health Science Center, Memphis, TN, USA

Submitted to NeuroImage, December 2008

Magnetic resonance (MR) imaging has demonstrated that variation in brain structure is associated with differences in behavior and disease state. However, it has rarely been practical to prospectively test causal models that link anatomical and functional differences in humans. In the present study we have combined classical mouse genetics with high-field MR to systematically explore and test such structure-functional relations across multiple brain regions. We segmented 33 regions in two parental strains -- C57BL/6J (B) and DBA/2J (D) -- and in nine BXD recombinant inbred strains. All strains have been studied extensively for more than 20 years using a battery of genetic, functional, anatomical, and behavioral assays. We compared levels of variation within and between strains and sexes, by region, and by system. Average within-strain variation had a coefficient of variation (CV) of 1.6% for the whole brain; while the CV ranged from 2.3 -- 3.6% for olfactory bulbs, cortex and cerebellum, and up to ~18% for septum and laterodorsal thalamic nucleus. Variation among strains averages ranged from 6.7% for cerebellum, 7.6% for whole brain, 9.0% for cortex, up to ~26% for the ventricles, laterodorsal thalamic nucleus, and the interpeduncular nucleus. Heritabilities averaged 0.60 +/- 0.18. Sex differences were not significant with the possible (and unexpected) exception of the pons (~20% larger in males). A correlation matrix of regional volumes revealed high correlations among functionally related parts of the CNS (e.g., components of the limbic system), and several high correlations between regions that are not anatomically connected, but that may nonetheless be functionally or genetically coupled.

Files in This Data Supplement

All datasets associated with this publication are available from CIVMSpace, our Web-based data portal. The datasets represent a collection of 22 brains, one male and one female from each of 11 strains : C57BL/6, DBA2, and 9 BXD strains selected for large hippocampal volume variations. The images are high resolution three-dimensional (3D) MR data acquired at 21.5-micron isotropic resolution (T1) and matched 43-micron resolution MEFIC processed scans (T2). The results of automated segmentation into 33 structures are also provided.

System Requirements:
CIVMSpace is designed to work on the Microsoft Windows and Mac OS X platforms. Supported browsers on Windows are Internet Explorer versions 6.0 and above, and Mozilla Firefox versions 1.0 and above. On the Mac, Safari versions 1.3 and above and Mozilla Firefox versions 1.0 and above are supported.

VoxStation requires a working Java installation. It has been tested with Java 1.4, 1.5 and 1.6 on Windows, and Java 1.4 and 1.5 on Mac OS X.

From CIVMSpace, 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 VoxStation, a Java Web Start application that lets you view datasets in three planes.

Datasets are also available in MBAT (Mouse BIRN Atlasing Toolkit) format. To view them using MBAT, follow the appropriate "Open in MBAT" link from CIVMSpace. Alternatively, you can
download the MBAT viewing tool, then download individual datasets (as ZIP archives) from CIVMSpace:


Related References

  • (pending)


  • This work was made possible through collaborations with the Mouse Biomedical Informatics Research Network (MBIRN), NIH/NCRR grant U24 RR021760 (A. W. Toga). All experiments were conducted at the Duke Center for In Vivo Microscopy, an NCRR/NCI National Biomedical Technology Resource Center, under grants P41-RR005959 and R24-CA092656 (G. A. Johnson).



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