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Tissue Morphogenesis: Methods and Protocols highlights major techniques, both experimental and computational, for the study of tissue morphogenesis, divided into several sections, with specific focus on techniques to image, manipulate, model and analyze tissue morphogenesis. Chapters focus on imagining analysis of tissue morphogenesis, culture models of tissue morphogenesis, manipulating cells and tissues in vivo, novel model systems to investigate issue morphogenesis and computational models.
Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Tissue Morphogenesis: Methods and Protocols serves as a primary resource for both fundamental and practical understanding of the techniques used to uncover the basis of tissue morphogenesis.
PART I IMAGING MORPHOGENESIS
Chapter 1. Probing Regional Mechanical Properties of Embryonic Tissue Using Microindentation and Optical Coherence Tomography Benjamin A. Filas, Gang Xu, and Larry A. Taber
Chapter 2. Hemodynamic Flow Visualization of Early Embryonic Great Vessels using mPIV Selda Goktas, Chia-Yuan Chen, William J. Kowalski, and Kerem Pekkan
Chapter 3. Using Correlative Light and Electron Microscopy to Study Zebrafish Vascular Morphogenesis Jacky G. Goetz, Fabien Monduc, Yannick Schwab, and Julien Vermot
Chapter 4. Micro/Nano-Computed Tomography Technology for Quantitative Dynamic, Multi-scale Imaging of Morphogenesis Chelsea L. Gregg, Andrew K. Recknagel, and Jonathan T. Butcher
Chapter 5. Imaging the Dorsal-Ventral Axis of Live and Fixed Drosophila melanogaster Embryos Sophia N. Carrell and Gregory T. Reeves
Chapter 6. Light-Sheet-Based Imaging and Analysis of Early Embryogenesis in the Fruit Fly Khaled Khairy, William Lemon, Fernando Amat, and Philipp J. Keller
Chapter 7. Quantitative Image Analysis of Cell Behavior and Molecular Dynamics During Tissue Morphogenesis Chun Yin Bosco Leung and Rodrigo Fernandez-Gonzalez
Chapter 8. A Multiplex Fluorescent in situ Hybridization Protocol for Clonal Analysis of Drosophila Oogenesis Lily S. Cheung and Stanislav Shvartsman
Chapter 9. Active Cell and ECM Movements During Development Anastasiia Aleksandrova, Brenda J. Rongish, Charles D. Little, and Andras Czirok
PART II CULTURE MODELS OF MORPHOGENESIS
Chapter 10. 3D Culture Assays of Murine Mammary Branching Morphogenesis and Epithelial Invasion Kim-Vy Nguyen-Ngoc, Eliah R. Shamir, Robert J. Huebner, Jennifer N. Beck, Kevin J. Cheung, and Andrew J. Ewald
Chapter 11. Culture of Mouse Embryonic Foregut Explants Felicia Chen and Wellington V. Cardoso
Chapter 12. Investigating Human Vascular Tube Morphogenesis and maturation using endothelial cell-pericyte co-cultures and a doxycycline-inducible genetic system in 3D extracellular matrices Stephanie L. K. Bowers, Chun-Xia Meng, Matthew T. Davis, and George E. Davis
Chapter 13. Three-Dimensional Traction Force Microscopy of Engineered Epithelial Tissues Alexandra S. Piotrowski, Victor D. Varner, Nikolce Gjorevski, and Celeste M. Nelson
PART III MANIPULATING CELLS AND TISSUES IN VIVO
Chapter 14. Probing Cell Mechanics with Sub-Cellular Laser Dissection of Actomyosin Networks in the Early Developing Drosophila Embryo M. Rauzi and P.-F. Lenne
Chapter 15. UV Laser Ablation to Measure Cell and Tissue-Generated Forces in the Zebrafish Embryo in vivo and ex vivo Michael Smutny, Martin Behrndt, Pedro Campinho, Verena Ruprecht, and Carl-Philipp Heisenberg
Chapter 16. Measurement of Intercellular Cohesion by Tissue Surface Tension Ramsey A. Foty
Chapter 17. Quail-Chick Chimeras and Eye Development Sinu Jasrapuria Agrawal and Peter Y. Lwigale
PART IV EMERGING MODELS OF TISSUE MORPHOGENESIS
Chapter 18. Studying Epithelial Morphogenesis in Dictyostelium Daniel J. Dickinson, W. James Nelson, and William I. Weis
Chapter 19. Primary Cell Cultures of Regenerating Holothurian Tissues Samir A. Bello, Ricardo J. Abreu-Irizarry, and Jose E. Garcia-Arraras
PART V COMPUTATIONAL MODELS OF TISSUE MORPHOGENESIS
Chapter 20. Large-Scale Parameter Studies of Cell-Based Models of Tissue Morphogenesis Using CompuCell3D or VirtualLeaf Margriet M. Palm and Roeland M. H. Merks
Chapter 21. Simulating Tissue Morphogenesis and Signaling Dagmar Iber, Simon Tanaka, Patrick Fried, Philipp Germann, and Denis Menshykau
Chapter 22. Elasticity-Based Targeted Growth Models of Morphogenesis Patrick W. Alford
