MorphoGraphX: A platform for quantifying morphogenesis in 4D.

Details

Serval ID
serval:BIB_496F1EEE867E
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
MorphoGraphX: A platform for quantifying morphogenesis in 4D.
Journal
Elife
Author(s)
Barbier de Reuille P., Routier-Kierzkowska A.L., Kierzkowski D., Bassel G.W., Schüpbach T., Tauriello G., Bajpai N., Strauss S., Weber A., Kiss A., Burian A., Hofhuis H., Sapala A., Lipowczan M., Heimlicher M.B., Robinson S., Bayer E.M., Basler K., Koumoutsakos P., Roeder A.H., Aegerter-Wilmsen T., Nakayama N., Tsiantis M., Hay A., Kwiatkowska D., Xenarios I., Kuhlemeier C., Smith R.S.
ISSN
2050-084X (Electronic)
ISSN-L
2050-084X
Publication state
Published
Issued date
2015
Volume
4
Pages
05864
Language
english
Abstract
Morphogenesis emerges from complex multiscale interactions between genetic and mechanical processes. To understand these processes, the evolution of cell shape, proliferation and gene expression must be quantified. This quantification is usually performed either in full 3D, which is computationally expensive and technically challenging, or on 2D planar projections, which introduces geometrical artifacts on highly curved organs. Here we present MorphoGraphX ( www.MorphoGraphX.org), a software that bridges this gap by working directly with curved surface images extracted from 3D data. In addition to traditional 3D image analysis, we have developed algorithms to operate on curved surfaces, such as cell segmentation, lineage tracking and fluorescence signal quantification. The software's modular design makes it easy to include existing libraries, or to implement new algorithms. Cell geometries extracted with MorphoGraphX can be exported and used as templates for simulation models, providing a powerful platform to investigate the interactions between shape, genes and growth.
Pubmed
Web of science
Open Access
Yes
Create date
12/05/2015 21:42
Last modification date
20/08/2019 14:56
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