Preliminary Content
Acknowledgements
About
Foreword
Abbreviations
Publications
Abstract
Zusammenfassung
Einleitung
Zielsetzung
Ergebnisse
Summary
1
Introduction
1.1
Development
1.1.1
Cell Types
1.1.2
Cell Signaling
1.1.3
Morphogenesis
1.2
Model Organism and System
1.2.1
Developmental Stages
1.2.2
The Lateral Line System
1.2.3
Posterior Lateral Line Primordium
1.2.4
Shroom3 in the pLLP
1.2.5
shroom3
mutants
1.3
Open Questions and Motivation
2
Materials and Methods
2.1
Materials
2.1.1
Chemicals
2.1.2
Solutions
2.1.3
Antibodies
2.1.4
Enzymes
2.1.5
Molecular Biology Kits
2.1.6
Buffers
2.1.7
Zebrafish lines
2.1.8
ISH probes
2.1.9
Morpholinos
2.1.10
Hardware
2.1.11
Software
2.2
Methods
2.2.1
Data Strategy and Analysis
2.2.2
Zebrafish
2.2.3
Wet lab
2.2.4
Dry lab
2.3
Ground Truth
2.3.1
Cluster Analysis
2.3.2
Morphometric analysis
2.4
Image Data Sets
3
Results
3.1
Quantitative imaging and image analysis
3.1.1
A 3D-printed stamp to standardize sample mounting and semi-automatize imaging
3.1.2
anaLLzr2D - Automated 2D neuromast analysis and nuclei count
3.1.3
anaLLzr2DT - Automated 2D pLLP migration and neuromast deposition analysis through time
3.1.4
anaLLzr3D - Automated 3D single cell segmentation and A.I. analysis in the pLLP
3.1.5
Rosette Detection
3.2
Shroom3
3.2.1
Phenotype description
3.2.2
Lateral Line Morphometrics
3.2.3
Proliferation
3.2.4
Rosette Formation and Cluster Deposition
3.2.5
Apical Constriction
3.2.6
Haircell Specification
4
Discussion
4.1
Methods
4.1.1
Standardized mounting
4.1.2
Automated image analysis
4.1.3
Rosette Detection
4.2
Shroom3
4.2.1
Lateral Line
4.2.2
Rosette Formation
4.2.3
Apical Constriction
4.2.4
Hair Cell specification
4.2.5
Model
(Appendix) Appendix
Supplement
Curriculum Vitae
Statutory Declaration
References
Published with bookdown
Genetic and Mechanic Signaling in Organ Development
(Appendix) Appendix