Towards a digital model of zebrafish embryogenesis. Integration of Cell Tracking and Gene Expression Quantification

Castro González, Carlos and Luengo Oroz, Miguel Ángel and Douloquin, Louise and Savy, Thierry and Melani, Camilo and Desnoulez, Sophie and Ledesma Carbayo, María Jesús and Bourgine, Paul and Peyrieras, Nadine and Santos Lleo, Andres de (2010). Towards a digital model of zebrafish embryogenesis. Integration of Cell Tracking and Gene Expression Quantification. In: "32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society", 31/08/2010 - 04/09/2010, Buenos Aires, Argentina. ISBN 978-1-4244-4123-5.

Description

Title: Towards a digital model of zebrafish embryogenesis. Integration of Cell Tracking and Gene Expression Quantification
Author/s:
  • Castro González, Carlos
  • Luengo Oroz, Miguel Ángel
  • Douloquin, Louise
  • Savy, Thierry
  • Melani, Camilo
  • Desnoulez, Sophie
  • Ledesma Carbayo, María Jesús
  • Bourgine, Paul
  • Peyrieras, Nadine
  • Santos Lleo, Andres de
Item Type: Presentation at Congress or Conference (Article)
Event Title: 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Event Dates: 31/08/2010 - 04/09/2010
Event Location: Buenos Aires, Argentina
Title of Book: Proceedings of the 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Date: 2010
ISBN: 978-1-4244-4123-5
Subjects:
Faculty: E.T.S.I. Telecomunicación (UPM)
Department: Ingeniería Electrónica
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

We elaborate on a general framework composed of a set of computational tools to accurately quantificate cellular position and gene expression levels throughout early zebrafish embryogenesis captured over a time-lapse series of in vivo 3D images. Our modeling strategy involves nuclei detection, cell geometries extraction, automatic gene levels quantification and cell tracking to reconstruct cell trajectories and lineage tree which describe the animal development. Each cell in the embryo is then precisely described at each given time t by a vector composed of the cell 3D spatial coordinates (x; y; z) along with its gene expression level g. This comprehensive description of the embryo development is used to assess the general connection between genetic expression and cell movement. We also investigate genetic expression propagation between a cell and its progeny in the lineage tree. More to the point, this paper focuses on the evolution of the expression pattern of transcriptional factor goosecoid (gsc) through the gastrulation process between 6 and 9 hours post fertilization (hpf)

More information

Item ID: 6941
DC Identifier: http://oa.upm.es/6941/
OAI Identifier: oai:oa.upm.es:6941
Official URL: http://embc2010.embs.org/
Deposited by: Memoria Investigacion
Deposited on: 10 May 2011 11:46
Last Modified: 20 Apr 2016 16:03
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