Observatorio de I+D+i UPM

Memorias de investigación
Communications at congresses:
Towards a digital model of zebrafish embryogenesis. Integration of cell tracking and gene expression quantification
Year:2010
Research Areas
  • Electronic technology and of the communications
Information
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).
International
Si
Congress
32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC 2010)
960
Place
Buenos Aires (Argentina)
Reviewers
Si
ISBN/ISSN
1557-170X
10.1109/IEMBS.2010.5626769
Start Date
31/08/2010
End Date
04/09/2010
From page
5520
To page
5523
Proceedings of the 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society
Participants
  • Autor: Carlos Castro Gonzalez (UPM)
  • Autor: Louise Douloquin (Institut de Neurobiologie Alfred Fessard CNRS)
  • Autor: Miguel Angel Luengo Oroz (UPM)
  • Autor: Sophie Desnoulez (Institut de Neurobiologie Alfred Fessard CNRS)
  • Autor: Nadine Peyriéras (Institut de Neurobiologie Alfred Fessard CNRS)
  • Autor: Tierry Savy (CREA-École Polytechnique Paris)
  • Autor: Camilo Melani (CREA-École Polytechnique Paris)
  • Autor: Paul Bourgine (CREA-École Polytechnique Paris)
  • Autor: Maria Jesus Ledesma Carbayo (UPM)
  • Autor: Andres de Santos Lleo (UPM)
Research Group, Departaments and Institutes related
  • Creador: Grupo de Investigación: Tecnología de imágenes biomédicas
  • Centro o Instituto I+D+i: Centro de tecnología Biomédica CTB
  • Departamento: Ingeniería Electrónica
S2i 2020 Observatorio de investigación @ UPM con la colaboración del Consejo Social UPM
Cofinanciación del MINECO en el marco del Programa INNCIDE 2011 (OTR-2011-0236)
Cofinanciación del MINECO en el marco del Programa INNPACTO (IPT-020000-2010-22)