TY - JOUR
T1 - Cellular 3D-reconstruction and analysis in the human cerebral cortex using automatic serial sections
AU - Larsen, Nick Y.
AU - LI, Xixia
AU - Tan, Xueke
AU - Ji, Gang
AU - Lin, Jing
AU - Rajkowska, Grazyna
AU - Møller, Jesper
AU - Vihrs, Ninna
AU - Sporring, Jon
AU - Sun, Fei
AU - Nyengaard, Jens R.
N1 - © 2021. The Author(s).
PY - 2021/9/2
Y1 - 2021/9/2
N2 - Techniques involving three-dimensional (3D) tissue structure reconstruction and analysis provide a better understanding of changes in molecules and function. We have developed AutoCUTS-LM, an automated system that allows the latest advances in 3D tissue reconstruction and cellular analysis developments using light microscopy on various tissues, including archived tissue. The workflow in this paper involved advanced tissue sampling methods of the human cerebral cortex, an automated serial section collection system, digital tissue library, cell detection using convolution neural network, 3D cell reconstruction, and advanced analysis. Our results demonstrated the detailed structure of pyramidal cells (number, volume, diameter, sphericity and orientation) and their 3D spatial organization are arranged in a columnar structure. The pipeline of these combined techniques provides a detailed analysis of tissues and cells in biology and pathology.
AB - Techniques involving three-dimensional (3D) tissue structure reconstruction and analysis provide a better understanding of changes in molecules and function. We have developed AutoCUTS-LM, an automated system that allows the latest advances in 3D tissue reconstruction and cellular analysis developments using light microscopy on various tissues, including archived tissue. The workflow in this paper involved advanced tissue sampling methods of the human cerebral cortex, an automated serial section collection system, digital tissue library, cell detection using convolution neural network, 3D cell reconstruction, and advanced analysis. Our results demonstrated the detailed structure of pyramidal cells (number, volume, diameter, sphericity and orientation) and their 3D spatial organization are arranged in a columnar structure. The pipeline of these combined techniques provides a detailed analysis of tissues and cells in biology and pathology.
KW - Cerebral Cortex/anatomy & histology
KW - Humans
KW - Imaging, Three-Dimensional/methods
KW - Microscopy
KW - Microscopy, Electron
KW - Microtomy
UR - http://www.scopus.com/inward/record.url?scp=85114639285&partnerID=8YFLogxK
U2 - 10.1038/s42003-021-02548-6
DO - 10.1038/s42003-021-02548-6
M3 - Journal article
C2 - 34475516
SN - 2399-3642
VL - 4
JO - Communications Biology
JF - Communications Biology
IS - 1
M1 - 1030
ER -