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Enhancing the signal interpretation and microscopical hardware concept of 3D polarized light imaging / vorgelegt von: Hendrik Wiese. Wuppertal, August 2016
Content
A short Introduction to Brain Mapping
Basics of Birefringence Polarimetry
Polarized Light and its Mathematical Description in Experiments
Birefringence of Nerve Fibers
Established Experimental Methods in 3D-PLI
3D-PLI Data Visualization
Preparation of Histological Brain Slides and Volumetric Reconstruction
Polarimetric Calibration of the LAP
The Standard Intensity Based Calibration in 3D-PLI
Accounting for Non-Ideal Polarization Filters
Determination of the Filter Properties
Discussion of the Polarimetric Calibration
Deriving Fiber Orientations from Tiltable Specimen Stage Experiments
A Review on Ambiguities in 3D-PLI
Basic Theory of the Tiltable Specimen Stage Data Acquisition
An Analytical Solution to Calculate the Inclination of a Uniaxial Indicatrix
Deriving the Inclination from Measurement Data
Validation for Simulated Datasets
Validation for Experimental Datasets
Maximum Likelihood Estimation of the Birefringence Parameters
Noise Sensitivity of the LAP Imaging System
Theoretical Model of the 3D-PLI Data Acquisition Process
The Likelihood Orientation Estimation Algorithm
Simulative Examination of the Noise Stability
Simulation of Crossing Fibers
Validation of the LOriE Algorithm for Experimental Datasets
Discussion
Conclusion
Developing an Oblique Illumination System for 3D-PLI Microscopy
Microscopic Techniques to Complement Planar 3D-PLI Measurements
Basics of Geometrical Optics
Simulating the Optical Train
Designing an Oblique Koehler Illumination
The Standard Koehler Illumination
Realizing an Oblique Illumination
Engineering and Optimization of the Optical Design
Validating the Oblique Illumination System for 3D-PLI
Conclusion
Impact on Future 3D-PLI Data Interpretation Techniques
Acknowledgments
Mathematical Derivations
Derivation of ne()-no(nE- no)cos2()
The Intensity Profile for Imperfect Polarization Filters
Proof of Bijectivity for ,trelsin(), sin()/
Transformation between Tilting Coordinate Systems.
The Derivation of the Phase Retardance Signal and Its Analysis
Error Propagation of Detection Noise
Complementary Data
A Direct Comparison between the LOriE and the DFT-based Algorithm
Angular Spectrum of the Diffuser
Shape of the Condenser Lens
Influence of the Resolution
List of Symbols
List of Abbreviations
List of Figures
List of Tables
References