Journal
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
Volume 120, Issue 17, Pages -Publisher
NATL ACAD SCIENCES
DOI: 10.1073/pnas.2218617120
Keywords
magnetic resonance histology; light sheet microscopy; connectome; mouse brain
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We have developed workflows to align 3D magnetic resonance histology (MRH) of the mouse brain with light sheet microscopy (LSM) and 3D delineations of the same specimen. The result is a high-dimensional integrated volume with registration (HiDiver) with alignment precision better than 50 μm. HiDiver is being used in quantitative studies of the impact of gene variants and aging on mouse brain cytoarchitecture and connectomics.
We have developed workflows to align 3D magnetic resonance histology (MRH) of the mouse brain with light sheet microscopy (LSM) and 3D delineations of the same specimen. We start with MRH of the brain in the skull with gradient echo and diffu-sion tensor imaging (DTI) at 15 & mu;m isotropic resolution which is -1,000 times higher than that of most preclinical MRI. Connectomes are generated with superresolution tract density images of -5 & mu;m. Brains are cleared, stained for selected proteins, and imaged by LSM at 1.8 & mu;m/pixel. LSM data are registered into the reference MRH space with labels derived from the ABA common coordinate framework. The result is a high-dimensional integrated volume with registration (HiDiver) with alignment precision better than 50 & mu;m. Throughput is sufficiently high that HiDiver is being used in quantitative studies of the impact of gene variants and aging on mouse brain cytoarchitecture and connectomics.
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