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A Method for 3D Reconstruction and Virtual Reality Analysis of Glial and Neuronal Cells
JoVE 杂志
神经科学
This content is Free Access.
JoVE 杂志 神经科学
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

DOI:
10.3791/59444-v

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12:49 min

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September 28, 2019

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, , , , , ,
1Biological and Environmental Sciences and Engineering Division,King Abdullah University of Science and Technology, 2Visual Computing Center,King Abdullah University of Science and Technology

Chapters

  • 00:04Title
  • 01:02Image Processing Using Fiji
  • 03:58Segmentation (Semi-Automated) and Reconstruction Using Ilastik 1.3.2
  • 07:433D Analysis
  • 09:41Results: 3D Reconstruction and Virtual Reality Analysis
  • 11:40Conclusion

Summary

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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.

Tags

3D ReconstructionVirtual Reality AnalysisGlial CellsNeuronal CellsAutomated Serial Section Electron MicroscopyImage ProcessingSegmentationTrakEM2Ilastik3D ModelingStructural ImpairmentsDiagnostic StrategyImage StitchingImage Downsampling

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