Analysis of Expression Gradients of Developmental Regulators in Arabidopsis thaliana Roots -- Detection and Quantification of the Bicoid Concentration Gradient in Drosophila Embryos -- Imaging Cytonemes in Drosophila Embryos -- Measuring Dorsoventral Pattern and Morphogen Signaling Profiles in the Growing Neural Tube -- Fluorescence Correlation and Cross-Correlation Spectroscopy in Zebrafish -- FRAP Analysis of Extracellular Diffusion in Zebrafish Embryos -- Generation of Ectopic Morphogen Gradients in the Zebrafish Blastula -- Polarizing Region Tissue Grafting in the Chick Embryo Limb Bud -- Analysis of PLETHORA Gradient Formation by Secreted Peptides during Root Development -- Live Imaging of mRNA Transcription in Drosophila Embryos -- LiveFly: A Toolbox for the Analysis of Transcription Dynamics in Live Drosophila Embryos -- Discrete-State Stochastic Modeling of Morphogen Gradient Formation -- Simulation of Morphogen and Tissue Dynamics -- Mechanisms and Measurements of Scale Invariance of Morphogen Gradients -- Scaling of Morphogenetic Patterns -- Modeling Time-Dependent Acquisition of Positional Information.

This detailed book presents methods focusing on the visualization of morphogen gradients, the analysis of their biophysical and biological properties, and the theoretical aspects underlying their functions. The study of morphogen gradients combines biophysics, cell and developmental biology, and applied mathematics approaches to understand their formation, their biological functions, and the prediction of their behavior in space and time, and this volume serves as a practical, hands-on guide to the field. Written for the highly successful Methods in Molecular Biology series, 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 helpful, Morphogen Gradients: Methods and Protocols is an ideal collection for researchers in this vital area of study.