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A rat brain MRI template with digital stereotaxic atlas of fine anatomical delineations in paxinos space and its automated application in voxel-wise analysis

Authors

  • Binbin Nie,

    1. Key Laboratory of Nuclear Analytical Techniques, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
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    • Binbin Nie and Kewei Chen contributed equally to this article.

  • Kewei Chen,

    1. Banner Alzheimer's Institute, Banner Good Samaritan Positron Emission Tomography Center, Phoenix, Arizona
    2. Department of Mathematics and Statistics, Arizona State University, Tempe, Arizona
    3. Department of Radiology, University of Arizona, Tucson, Arizona
    4. Arizona Alzheimer's Consortium, Phoenix, Arizona
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  • Shujun Zhao,

    1. Nuclear Technology and Application Department, Physical Science and Technology College, Zhengzhou University, Zhengzhou 450052, China
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  • Junhua Liu,

    1. Key Laboratory of Developmental Genes and Human Diseases, MOE, School of Medicine, Southeast University, Nanjing 210009, China
    2. Institute of Brain Science, Southeast University, Nanjing 210009, China
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  • Xiaochun Gu,

    1. Key Laboratory of Developmental Genes and Human Diseases, MOE, School of Medicine, Southeast University, Nanjing 210009, China
    2. Institute of Brain Science, Southeast University, Nanjing 210009, China
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  • Qunli Yao,

    1. Jiangsu Key Lab of Molecule Imaging and Functional Imaging, Medical School of Southeast University, Nanjing 210009, China
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  • Jiaojie Hui,

    1. School of Clinical Medicine, Southeast University, Nanjing 210009, China
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  • Zhijun Zhang,

    1. School of Clinical Medicine, Southeast University, Nanjing 210009, China
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  • Gaojun Teng,

    1. Jiangsu Key Lab of Molecule Imaging and Functional Imaging, Medical School of Southeast University, Nanjing 210009, China
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  • Chunjie Zhao,

    1. Key Laboratory of Developmental Genes and Human Diseases, MOE, School of Medicine, Southeast University, Nanjing 210009, China
    2. Institute of Brain Science, Southeast University, Nanjing 210009, China
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  • Baoci Shan

    Corresponding author
    1. Key Laboratory of Nuclear Analytical Techniques, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
    • Professor, Key Laboratory of Nuclear Analytical Techniques, Institute of High Energy Physics, Chinese Academy of Sciences, Beijing 100049, China
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    • Tel.: +8610-8823-3185.


Abstract

This study constructs a rat brain T2-weighted magnetic resonance imaging template including olfactory bulb and a compatible digital atlas. The atlas contains 624 carefully delineated brain structures based on the newest (2005) edition of rat brain atlas by Paxinos and Watson. An automated procedure, as an SPM toolbox, was introduced for spatially normalizing individual rat brains, conducting statistical analysis and visually localizing the results in the Atlas coordinate space. The brain template/atlas and the procedure were evaluated using functional images between rats with the right side middle cerebral artery occlusion (MCAO) and normal controls. The result shows that the brain region with significant signal decline in the MCAO rats was consistent with the occlusion position. Hum Brain Mapp, 2013. © 2012 Wiley Periodicals, Inc.

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