Experimental determination of intrinsic drosophila embryo coordinates by evolutionary computation

Authors:
Alexander V. Spirov;Carlos E. Vanario-Alonso;Ekaterina N. Spirova;David M. Holloway
Affiliations:
Computer Science and Center of Excellence in Wireless and Information Technology, Stony Brook University, NY;Applied Mathematics and Statistics and Center for Developmental Genetics, Stony Brook University, NY;The I.M.Sechenov Institute of Evolutionary Physiology & Biochemistry, St.-Petersburg, Russia,Applied Mathematics and Statistics and Center for Developmental Genetics, Stony Brook University, N ...;Mathematics Department, British Columbia Institute of Technology, Burnaby, B.C., Canada
Venue:
PRIB'13 Proceedings of the 8th IAPR international conference on Pattern Recognition in Bioinformatics
Year:
2013

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Abstract

Early fruit fly embryo development begins with the formation of a chemical blueprint that guides cellular movements and the development of organs and tissues. This blueprint sets the intrinsic spatial coordinates of the embryo. The coordinates are curvilinear from the start, becoming more curvilinear as cells start coherent movements several hours into development. This dynamic aspect of the curvature is an important characteristic of early embryogenesis: characterizing it is crucial for quantitative analysis and dynamic modeling of development. This presents a number of methodological problems for the elastic deformation of 3D and 4D data from confocal microscopy, to standardize images and follow temporal changes. The parameter searches for these deformations present hard optimization problems. Here we describe our evolutionary computation approaches to these problems. We outline some of the immediate applications of these techniques to crucial problems in Drosophila developmental biology.