Emmanuelle Becker
Associate professor, Univ. Rennes 1
CNU Section 64, no HDR.
ORCID ID: 0000-0002-7673-0582
Researcher ID : H-2523-2015
Dyliss team, Irisa / Inria Rennes-Bretagne Atlantique,
Campus de Beaulieu, 35042 Rennes Cedex, France.
Tel: +33 (0) 2 99 84 75 95
Fax: +33 (0) 2 99 84 71 71
Email: [prenom.nom@irisa.fr or prenom.nom@univ-rennes1.fr]
Short presentation
Assistant professor at University Rennes 1 since 2009 and Dyliss member since 2019. I am co-head of the Bioinformatics master, with my colleague Olivier Dameron. My research interests are focused on bioinformatics : modelling knowledge, integrating heterogeneous data and reasonning on molecular biological data.
Keywords : -omic data integration ; protein-protein interactions ; applications for fundamental biology, environment and health.
On-going collaborators outside Dyliss :
- Institut de Génétique du Développement de Rennes (IGDR, institut CNRS), for the master thesis of Camille Juigne and the PhD of Marc Melkonian : Gwenaël Rabut
- Laboratoire de Physiologie et Génomique des Poissons (LPGP, institut INRAE), for the master 2 of Fanny Casse and in the Phenomir project : Julien Bobe, Violette Thermes, Emilie Cardonna, Cervin Guyomard, Fabrice Legeai
- Physiologie, Envionnement et Génétique pour l’
Animal et les Systèmes d’Élevage (PEGASE, institut INRAE), for the master thesis of Quentin Delhon and the PhD of Camille Juigne : Florence Gondret, François Moreews - Paris Brain Institute (ICM, unité Inserm) & Aramis project team (INRIA), for the PhD of Virgilio Kmetzsch inside the IPL Neuromarker project : Olivier Colliot, Dr. Isabelle Le Ber, Dr. Dario Saracino
- Sanofi, for the PhD of Méline Wery : Charles Bettembourg
Current PhD students
Camille Juigné (december 2020 – december 2023)
Title : “Analysis of heterogeneous biological data modelled with multiplex graphs applied to understand feeding efficiency”
Funding INRAe-Région Bretagne, co-supervized with Florence Gondret (50%, INRAe, HDR)
Virgilio Kmetzsch (october 2019 – october 2022)
Title : « Multimodal analysis of neuroimaging and transcriptomic data in genetic fronto-temporal dementia ».
INRIA IPL Neuromarker, co-supervized with Olivier Colliot (50%, INRIA et ICM, HDR).
Méline Wery (october 2017 – october 2020)
Title : « Data Integration and reasonning-based analysis : methodology at each step of drug development »
CIFRE Sanofi-IRISA, co-supervized with Olivier Dameron (25%, IRISA, HDR), Anne Siegel (25%, CNRS, HDR), and Charles Bettembourg (Sanofi).
Master students at Dyliss
Quentin Delhon (february 2020 – july 2020)
« Discovery of key genes in multi-layered biological graphs », co-supervized with François Moreews (ingénieur d’étude INRAe). Quentin was a second year master student in Bioinformatics, section Informatique et Biologie Intégrative (Univ Rennes).
Marc Melkonian (february 2020 – july 2020)
« Detection of redundancies in protein-protein interaction databases encoded by different PSI-MI identifiers using semantic web technologies ». Marc is a MD, and was a second year master student in Bioinformatics, section Informatique et Biologie Intégrative (Univ Rennes). Co-supervized with Olivier Dameron (IRISA). Marc will start a PhD in 2020.
Camille Juigné (may 2019 – october 2019)
« Intégration de données et analyse formelle du réseau d’interactions entre enzymes d’ubiquitination », co-supervized with Gwenaël Rabut (Institut de Génétique du Développement de Rennes). Camille was a last year student at ENSAT (École Nationale Supérieure des Sciences Appliquées et de Technologie). Camille will start a PhD in 2020.
Fanny Casse (january 2019 – july 2019)
« Régulation par les miARNs des gènes régulant la fécondité et le développement embryonnaire précoce chez le poisson médaka ». Fanny was a second year master student in Bioinformatics, section Informatique et Biologie Intégrative (Univ Rennes), co-supervized with Julien Bobe (LPGP INRAe) and Fabrice Legeai (IGEPP INRAe). Fanny found a contrat as a engineer at the ICM (Institut du Cerveau et de la Moëlle, Paris).
Hugo Simon (july 2019 – august 2019)
Intership for the Licence d’informatique de l’école Mines-Paris Tech.
Teaching
Co-head of the Master in Bioinformatics, with my colleague Olivier Dameron.
Co-supervizer of conferences dedicated to professional insertion (2019, 2018, 2017), with Stéphanie Le Bras.
Responsible of the courses (2017-2022) :
- Atelier de Biostatistiques (L2 Sciences de la Vie, 250 students) ;
- Statistiques Appliquées (L3 Informatique ENS Rennes, 20 students, up to 2019) ;
- Advanced R for Data Analysis (M1 Bioinformatique + M1 Ecologues, 80 students) ;
- Object Oriented Programming (M1 Bioinformatique, 50 students) ;
- Introduction to Computational Ecology (M2 Ecologues, 45 students) ;
- Systems Biology (M2 Bioinformatique, 35 students) ;
- Method (since 2019, M2 Informatique, 20 students).