Introduction

This web site provides the supplementary source code and data for the following manuscript:

Pre-print can be downloaded by clicking this link: EDGE2Preprint.pdf

The published manuscript can be found here:
Quantitative 4D analyses of epithelial folding during Drosophila gastrulation, Z. Khan, Y.-C. Wang, E. F. Wieschaus and M. Kaschube. July 2014 Development 141, 2895-2900.

Quantitative 4D analyses of epithelial folding during Drosophila gastrulation

Zia Khan1, Yu-Chiun Wang2, Eric F. Wieschaus3,4, and Matthias Kaschube5

1Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
2RIKEN Center for Developmental Biology, 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe-shi, Hyogo-ken 650-0047, Japan
3Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA 
4The Howard Hughes Medical Institute, Moffett Laboratory 435, Princeton University, Princeton, NJ 08544, USA
5Frankfurt Institute for Advanced Studies, Faculty of Computer Science and Mathematics, Goethe University, D-60438 Frankfurt am Main, Germany

Abstract

It remains technically challenging to obtain quantitative measurements of dynamic shapes and behaviors of cells and tissues in a rapidly developing metazoan embryo using time-lapse 3D microscopy. We developed EDGE4D, a software tool for segmenting and tracking membrane labeled cells in multi-photon microscopy data in the early Drosophila embryo. The tool enables quantification of the dynamics of cell shape changes, cell interfaces, and neighbor relations, at single-cell resolution during a complex epithelial folding event.