Reconstruction of three-dimensional nerve fiber orientations from histological brain sections in three-dimensional polarized light imaging / vorgelegt von: Daniel Schmitz ; Bergische Universität Wuppertal, Forschungszentrum Jülich. Wuppertal, März 2020
Inhalt
- The challenge of investigating the human brain's nerve fiber tracts
- Foundations of Three-Dimensional Polarized Light Imaging
- Polarization and birefringence
- Optical properties of brain tissue
- Preparation of histological brain sections
- Polarimetric setups
- The biophysical model of 3D-PLI
- Established signal analysis techniques
- A review of existing approaches for the analysis of birefringence experiments from oblique views
- Foundations of Bayesian data analysis
- A Least Squares Approach for the derivation of Nerve Fiber Orientations
- The Robust Orientation Fitting via Least Squares algorithm
- Evaluation for synthetic data
- Evaluation for experimental data
- Development of a high performance implementation of the fitting algorithm
- Maximum A Posteriori Estimation of Nerve Fiber Orientations
- Uncertainty estimation in 3D-PLI
- Measurements from Oblique Views in Microscopic 3D-PLI
- Experimental characterization of the LMP3D
- Application of the Bayesian framework at the microscale
- Validation of 3D-PLI fiber orientations based on TPFM measurements
- Conclusion and Outlook
- Acknowledgments
- Appendix Mathematical derivations for the ROFL algorithm
- Rotation matrices of the tilted measurements
- Error propagation from camera noise to the normalized light intensity
- Gradient of the objective function
- Appendix Volumetric reconstruction of the brain sections
- Appendix System configuration for the runtime benchmarks
- Appendix Optimization experiments for the LOriE algorithm
- Appendix Complementary data
- List of Symbols
- List of Abbreviations
- List of Figures
- List of Tables
- References