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Neuroscience

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JoVE Journal Neuroscience
A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells
 

A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells

Article DOI: 10.3791/59444-v • 12:49 min • September 28th, 2019
September 28th, 2019 •
1, 1, 2, 1, 1, 2, 1
1Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, 2Visual Computing Center, King Abdullah University of Science and Technology

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The described pipeline is designed for the segmentation of electron microscopy datasets larger than gigabytes, to extract whole-cell morphologies. Once the cells are reconstructed in 3D, customized software designed around individual needs can be used to perform a qualitative and quantitative analysis directly in 3D, also using virtual reality to overcome view occlusion.

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Keywords: 3D Reconstruction Virtual Reality Analysis Glial Cells Neuronal Cells Automated Serial Section Electron Microscopy Image Processing Segmentation TrakEM2 Ilastik 3D Modeling Tissue Analysis Structural Impairments Diagnostic Strategy Image Stitching Image Downsampling
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