Section: Dissemination

Teaching - Supervision - Juries

Teaching

The Master of Bioinformatics and Biostatistics, which is a joint master between University Paris-Sud and Ecole Polytechnique http://www.bibs.u-psud.fr , is co-headed by members of the group.

J.-M. Steyaert organizes Bibs (M1 and M2) at Ecole Polytechnique. A. Denise has co-headed the Master (M1 and M2) at the University Paris Sud until end August. C. Froidevaux is co-heading it at the University since September 2012.

Most team members are teaching in this master.

• Master Bibs : J. Bernauer, Informatique théorique et Programmation Python, 20h, M2, Université Paris-Sud, France

• Cycle Ingénieur Polytechnicien: J. Bernauer, Modal Bioinformatique, 18h, 2ème année, École Polytechnique, France

• Cycle Ingénieur Polytechnicien: J. Bernauer, PSC, encadrement, 2ème année, Ecole Polytechnique, France

• Cycle Ingénieur Agro Paris Tech: J. Bernauer, Module AAB, cours invité, 3ème année, Agro Paris Tech, France

• Master Bim : Y. Ponty, Modélisation et bioinformatique de l'ARN, 8h de cours, M2, Université Paris-Sud, France

• Master Bibs : Y. Ponty, M. Regnier, J.-M. Steyaert, Combinatoire, Algorithmes, Séquences et Modélisation (Casm ), 32h, M2, Université Paris-Sud, France

• Doctorat : M. Régnier, Combinatorics on genome, 20h, El-Farabi University, Kazakhstan

• Master : J.-M. Steyaert, X cycle ingénieur INF582- Datamining, 35h, M1, Ecole Polytechnique, France

• Licence : J.-M. Steyaert, X cycle ingénieur Modal-BioInformatique, 45h, L3, Ecole Polytechnique, France

• Master : J.-M. Steyaert, Bibs Algorithmique avancée et optimisation, 25h, M2, X-Orsay, M2, Ecole Polytechnique, France

• Data Bases, 48h, M1 Bibs (Bioinformatics and BioStatistics), Paris-Sud University, France (C. Froidevaux)

• Advanced Algorithmics, 48h, M1 Bibs (Bioinformatics and BioStatistics), Paris-Sud University, France (C. Froidevaux)

• Integration and Analysis of heterogeneous data from the Web, 24h, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (J. Azé, S. Cohen Boulakia, C. Froidevaux)

• Advanced Data Bases and Data Mining, 42h, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (S. Cohen Boulakia, C. Froidevaux).

• Initiation to Research, 6h, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University, France (C. Froidevaux)

• Software Engineering for Bioinformatics, 48h, M2 BIBS (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (P. Amar)

• Modelling and Simulation of Biological Processes, 24h, M2 BIBS (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (P. Amar)

• Biological Networks and Systems Biology, 9h, M1 BIBS (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (P. Amar)

• RNAomics and RNA Bioinformatics, 12h, M2 BIBS (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (A.Denise)

• Theoretical Computer Science, 30h, M2 BIBS (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (A.Denise)

Supervision

• HdR : Jérôme Azé, Prédiction d'Interactions et Amarrage Protéine-Protéine par combinaison de classifieurs, Paris-Sud University, 16/11/2012

• PhD : Feng Lou, Algorithms for studying RNA secondary structures and sequence alignments, Univ. Paris-Sud, 30/01/2012, P. Clote (Boston) and A. Denise.

• PhD : Philippe Rinaudo, Algorithmics of RNA structure-sequence alignment: a general and parameterized approach, Univ. Paris-Sud, 05/12/2012, D. Barth (Univ. Versailles) and A. Denise.

• PhD in progress : Bryan Brancotte, Ranking biological and biomedical data: algorithms and applications, Université Paris Sud, 01/10/2012, S. Cohen-Boulakia and A. Denise

• PhD in progress : Jiuqiang Chen, Mining and Integrating heterogeneous data in e-science environments, 10/09/2011, Université Paris Sud, S. Cohen-Boulakia and C. Froidevaux

• PhD in progress: Adrien Guilhot-Gaudeffroy, Modelling and scoring of protein-RNA complexes, 01/10/2011, J. Azé, J. Bernauer, C. Froidevaux

• PhD in progress: Daria Iakovishina, A Combinatorial Approach to Assembly Algorithms, 01/11/2011, M. Régnier

• PhD in progress : Cécile Pereira, Bioinformatics approaches for a comparative study of metabolic networks and their evolution, 01/10/2011, A. Denise and O. Lespinet (Igm , Univ. Paris-Sud)

• PhD in progress : Antoine Soulé, Evolutionary study of RNA-RNA interactions in yeast, 01/09/2012, J.-M. Steyaert, Y. Ponty, and J. Waldispühl (University McGill, Canada)

• PhD in progress : Bo Yang, Bioinformatics approaches for studying the relations between RNA structure and pre-messenger RNA splicing, 01/10/2011, A. Denise and Fu Xiangdong (Wuhan University, China)

• PhD in progress : Cong Zeng, Identification of structural motifs in messenger RNAs, 01/10/2011, A. Denise

• PhD in progress : Mélanie Boudard, Game theory and stochastic learning for predicting the three-dimensional structure of large RNA molecules , 15/10/2012, J. Cohen (CNRS, Univ. Versailles) and A. Denise.

Juries

A. Denise served as referee and jury member for Sylvain Sené's HDR defence (Univ. Evry, November 2012), Amine Ghozlane's PhD defence (Univ. Bordeaux I, December 2012) and Romain Pogorelcnik's PhD Defence (Univ. Blaise Pascal - Clermont II, December 2012). He served as the head of the jury member in Leandro Montero's PhD defence (Univ. Paris-Sud, December 2012). He served as a jury member in the hiring committee for a Maître de Conférence sur chaire CNRS position at Ecole Centrale de Nantes.

C. Froidevaux was a referee for Johan Estellon's PhD defence(Univ. Grenoble). She served as a member of the Comité de thèse of Pauline Gloaguen (INRA Tours, Feb 2012) and as a jury member for the defence of her PhD (Univ. Tours, Dec 2012). She served as the head of the jury in Konstantinos Karanasos' PhD defence (Paris Sud, July 2012). She was member of the HDR de Jérôme Azé (Univ. Paris-Sud).

Ch. Froidevaux took part as an external jury member in the hiring committee of an Assistant Professor position at IGM (Univ. Paris Sud, Orsay). She is member of the Commission Consultative de Spécialistes (CCSU, 27th section) of the University Paris Sud.

M. Régnier served as a jury member in Jérémie Bourdon's HDR defence (Nantes University). She was a member of the hiring committee for Maître de Conférence position at Bordeaux University (LaBRI).

S. Peres served as a jury member in the PhD defense committee of Chamseddine KIFAGI at Sfax University (Tunisia).

Y. Ponty served as a jury member in the hiring committee for a Maître de Conférence position at Université de Versailles St Quentin. He served as a jury member in the PhD defense committee of Azadeh Saffarian at Université de Lille 1 (LIFL /Inria Lille).