Prediction of tissue-specific cis-regulatory sequences: application to the ascidian Ciona intestinalis and the anterior neurectoderm

Informations générales
Nom
Haeussler
Prénom
Maximilian
Diplôme
Thèse
Année
2009
Détails de la thèse/HDR
Université
Jury
Sebastian Shimeld
Nicolas Pollet
Pierre CAPY
Elia Stupka
Directeur (pour les thèses)
Jean-Stéphane Joly
Résumé en anglais
 The detection and annotation of cis-regulatory sequences is a difficult problem. There is currently no generally applicable experimental procedure or computational algorithm to identify the non-coding regions of the genome that serve to activate gene expression in a given cell type. The only indicator of cis-regulatory function is the conservation of a sequence in other genomes. Regions can then be tested one-by-one in transgenic assays but this is time-consuming in vertebrates. Only a limited number of these already validated cis-regulatory sequences have been curated in biological databases. One of the main advantages of the model organism Ciona intestinalis is that cis-regulatory tests can be conducted very easily and the result is observable after one day while the animal follows the chordate body plan. However, a sequence found to be active in this organism can currently not be mapped to genomes of other animals.