An automatic quantification and registration strategy to create a gene expression atlas of zebrafish embryogenesis.

Carlos Castro-González (1) , Miguel Angel Luengo-Oroz (1) , Sophie Desnoulez (2, 3) , Louise Duloquin (3, 2) , Laura Fernandez-De-Manuel (1) , Sara Montagna (4) , María Jesús Ledesma-Carbayo (5) , Paul Bourgine (6) , Nadine Peyriéras (3, 2) , Andrés Santos (5)

1 Biomedical Image Technologies, ETSITelecomunicación
2 DEPSN - Développement, évolution et plasticité du système nerveux
3 INAF - Institut de Neurobiologie Alfred Fessard
4 Department of Electronics, Informatics and Systems
5 CIBER-BBN - Biomedical Image Technologies, Biomedical Research Center
6 CREA - Centre de recherche en épistémologie appliquée

In order to properly understand and model the gene regulatory networks in animals development, it is crucial to obtain detailed measurements, both in time and space, about their gene expression domains. In this paper, we propose a complete computational framework to fulfill this task and create a 3D Atlas of the early zebrafish embryogenesis annotated with both the cellular localizations and the level of expression of different genes at different developmental stages. The strategy to construct such an Atlas is described here with the expression pattern of 5 different genes at 6 hours of development post fertilization.

Domaines: Neurosciences [q-bio.NC]

Carlos Castro-González, Miguel Angel Luengo-Oroz, Sophie Desnoulez, Louise Duloquin, Laura Fernandez-De-Manuel, et al.. An automatic quantification and registration strategy to create a gene expression atlas of zebrafish embryogenesis.. Conference proceedings : .. Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference, 2009, 1, pp.1469-72. ⟨10.1109/IEMBS.2009.5332436⟩. ⟨hal-00444514⟩