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A diffusion MRI tractography connectome of the mouse brain and comparison with neuronal tracer data

Evan Calabrese, Alexandra Badea, Gary Cofer, Yi Qi, G. Allan Johnson
Center for In Vivo Microscopy, Duke University Medical Center

Published in Cerebral Cortex (E-pub ahead of print) June 5, 2015 (PMID: 26048951) - Free full text through Open Access

Interest in structural brain connectivity has grown with the understanding that abnormal neural connections may play a role in neurologic and psychiatric diseases. Small-animal connectivity mapping techniques are particularly important for identifying aberrant connectivity in disease models. Diffusion MRI tractography can provide non-destructive, 3D, digital, brain-wide connectivity maps, but has historically been limited by low spatial resolution, low signal-to-noise ratio, and the difficulty in estimating multiple fiber orientations within a single image voxel. Small-animal diffusion tractography can be substantially improved through the combination of ex-vivo MRI with exogenous contrast agents, advanced diffusion acquisition and reconstruction techniques, and probabilistic fiber tracking. Here, we present a comprehensive, probabilistic tractography connectome of the mouse brain at microscopic resolution. This work serves as a reference database for future tractography studies in the mouse brain, and demonstrates an automated pipeline for assessing brain-wide connectivity in mouse models of human brain diseases.

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View Tractography Data as 2D Color Overlays

Use the button below to view probabilistic tractography data as 2D color overlays on MRI anatomic image data in the coronal plane.

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View Tractography vs ABA Injectome Data in 3D

Use the button below to acces the CIVM online data visualization page, where you can interactively visualize and compare probabilistic tractography data and Allen Brain Atlas neuronal tracer connectivity data in 3D. Please watch the tutorial video below for help with controls.

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Use the button below to access the online data sharing portal. There you can download all of the data associated with this study including:
  • Raw Image Data
  • Estimated Fiber Data (BEDPOSTX)
  • Probabilistic Tractography data (PROBTRACKX)
  • Connectivity Matrix Graph Data
  • Data Analysis/Processing Code
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CIVM makes all data from published studies available for research. We ask that you provide contact information, and agree to give credit to the Duke Center for In Vivo Microscopy for any written or oral presentation using data from this site. Please use the following acknowledgement: Imaging data provided by the Duke Center for In Vivo Microscopy NIH/NIBIB (P41 EB015897) with additional support from (1S10OD010683-1).

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All Supplementary Data:

Acknowledgements:

All imaging was performed at the Duke Center for In Vivo Microscopy, an NIH/NIBIB National Biomedical Technology Resource Center (P41 EB015897). This project was also supported by NIH/Office of the Director (1S10OD010683-1).

 

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