Georgia Inst. of Technology, Atlanta, GA (United States). Dept. of Biomedical Engineering; Emory Univ., Atlanta, GA (United States). Dept. of Biomedical Engineering; DOE/OSTI
Univ. of Chicago, IL (United States). Dept. of Neurobiology
Northwestern Univ., Chicago, IL (United States). Dept. of Physical Medicine and Rehabilitation; Rehabilitation Inst. of Chicago, IL (United States). Sensory Motor Performance Program
Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source
Johns Hopkins Univ., Baltimore, MD (United States). Dept. of Biomedical Engineering. Inst. of Computational Medicine
Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source; Northwestern Univ., Chicago, IL (United States). Dept. of Physics and Astronomy
Univ. of Pennsylvania, Philadelphia, PA (United States). Dept. of Biomedical Engineering
Univ. of Chicago, IL (United States). Dept. of Neurobiology; Argonne National Lab. (ANL), Argonne, IL (United States). Center for Nanoscale Materials
Methods for resolving the three-dimensional (3D) microstructure of the brain typically start by thinly slicing and staining the brain, followed by imaging numerous individual sections with visible light photons or electrons. In contrast, X-rays can be used to image thick samples, providing a rapid approach for producing large 3D brain maps without sectioning. Here we demonstrate the use of synchrotron X-ray microtomography (µCT) for producing mesoscale (~1 µm 3 resolution) brain maps from millimeter-scale volumes of mouse brain. We introduce a pipeline for µCT-based brain mapping that develops and integrates methods for sample preparation, imaging, and automated segmentation of cells, blood vessels, and myelinated axons, in addition to statistical analyses of these brain structures. Our results demonstrate that X-ray tomography achieves rapid quantification of large brain volumes, complementing other brain mapping and connectomics efforts.
@article{osti_1627926,
author = {Dyer, Eva L. and Gray Roncal, William and Prasad, Judy A. and Fernandes, Hugo L. and Gürsoy, Doga and De Andrade, Vincent and Fezzaa, Kamel and Xiao, Xianghui and Vogelstein, Joshua T. and Jacobsen, Chris and others},
title = {Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography},
annote = {Methods for resolving the three-dimensional (3D) microstructure of the brain typically start by thinly slicing and staining the brain, followed by imaging numerous individual sections with visible light photons or electrons. In contrast, X-rays can be used to image thick samples, providing a rapid approach for producing large 3D brain maps without sectioning. Here we demonstrate the use of synchrotron X-ray microtomography (µCT) for producing mesoscale (~1 µm 3 resolution) brain maps from millimeter-scale volumes of mouse brain. We introduce a pipeline for µCT-based brain mapping that develops and integrates methods for sample preparation, imaging, and automated segmentation of cells, blood vessels, and myelinated axons, in addition to statistical analyses of these brain structures. Our results demonstrate that X-ray tomography achieves rapid quantification of large brain volumes, complementing other brain mapping and connectomics efforts.},
doi = {10.1523/eneuro.0195-17.2017},
url = {https://www.osti.gov/biblio/1627926},
journal = {eNeuro},
issn = {ISSN 2373-2822},
number = {5},
volume = {4},
place = {United States},
publisher = {Society for Neuroscience.},
year = {2017},
month = {09}}
Argonne National Lab. (ANL), Argonne, IL (United States); Georgia Inst. of Technology, Atlanta, GA (United States); Univ. of Chicago, IL (United States); Northwestern Univ., Chicago, IL (United States)
Sponsoring Organization:
USDOE Office of Science (SC); National Inst. of Health (NIH) (United States); Intelligence Advanced Research Projects Activity (IARPA) (United States); Defense Advanced Research Projects Agency (DARPA)
2011 8th IEEE International Symposium on Biomedical Imaging (ISBI 2011), 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macrohttps://doi.org/10.1109/isbi.2011.5872394
2011 8th IEEE International Symposium on Biomedical Imaging (ISBI 2011), 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macrohttps://doi.org/10.1109/ISBI.2011.5872394