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Yannick DE OLIVEIRAPortrait de Yannick de Oliveira


Ingénieur bioinformatique / Bioinformatics Engineer

Génétique Quantitative et Évolution - Le Moulon
INRA - Université Paris-Sud - CNRS - AgroParisTech
Ferme du Moulon
F-91190 Gif-sur-Yvette
e-mail : Cette adresse email est protégée contre les robots des spammeurs, vous devez activer Javascript pour la voir.
(33) 1 69 33 23 76


> Education and positions

BioInformatics engineer (2009-…), Java/Python-Django SHiNeMaS and BioMercator projects, INRA
Head of development (2007-2009), Java-J2EE/Python-Django development and customer support of a LIMS solution, SibioBioInformatics engineer (2004-2007), Java/Perl developer on FLAGdb++ and UTILLdb, INRA
Master degree in BioInformatics (2004) « Etude de Génomes Outils Informatiques et Statistiques », Rouen.


> Current projects

I'm at head of two development projects in the team:

SHiNeMaS (Seeds History and network Management System), a database dedicated to seed lots history, phenotyping data and field practices,
BioMercator, a complete framework to integrate QTL, meta-QTL, genome annotation and genome-wide association studies.

I'm also involved in other development projects:

Thaliadb, A database dedicated to association genetic in plants,
Bakery, an ANR project focused on diversity and interactions in a low-input « Wheat/Human/Sourdough » agro-food ecosystem in which I develop a new database.

> Skills


Programming & framework

Python – Django, Java – Spring & Hibernate, Perl – BioPerl

Javascript, Jquery, HTML
DBMS & NoSQL Technologies PostgreSQL, Oracle, Mongodb





> Publications

Dalmais M., Schmidt J., Le Signor C., Moussy F., Burstin J., Savois V., Aubert G., Brunaud G., de Oliveira Y., Guichard C., Thompson R., and Bendahmane A. (2008) UTILLdb, a Pisum sativum in silico forward and reverse genetics tool. Genome Biol. 2008; 9(2): R43.

Samson F., Brunaud V., Duchêne S., de Oliveira Y., Caboche M., Lecharny A., Aubourg S. (2004) FLAGdb++: a database for the functional analysis of the Arabidopsis genome. Nucleic Acids Res. 32, Database issue, 347-50.

Schiex T., Gouzy J., Moisan A., de Oliveira Y. (2003) FrameD: a flexible program for quality check and gene prediction in prokaryotic genomes and noisy matured eukaryotic sequences. Nucleic Acids Res., 31,3738-41.