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Section: Dissemination

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.

  • 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)

  • Programmation Python, 20h, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (J. Bernauer)

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

  • Theoretical Computer Science, 28h, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (A. Denise)

  • Algorithmics and Programming in C, 48h, M1 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (A. Denise)

  • Biological Networks and Systems Biology, 6h, M1 Bibs (Bioinformatics and BioStatistics), Paris-Sud University/École Polytechnique, France (A. Denise)

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

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

  • Combinatorics, Algorithms, Structure and Models; 28 hours, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University, France (Y. Ponty, M. Regnier, J.-M. Steyaert).

  • Advanced Algorithms and Optimization; 28 hours, M2 Bibs (Bioinformatics and BioStatistics), Paris-Sud University, France (J. M. Steyaert).

  • Introduction à l'informatique, 40h, L3, École Polytechnique, France. (Y. Ponty)

  • Modélisation et bioinformatique de l'ARN, 16h, M2 BioInformatique et Modélisation (Bim ), UPMC, France. (Y. Ponty)

PhD students and Post-Doctoral fellows gave the following courses.

  • Langages et Programmation, 40 hours, L1, Ecole Polytechnique, France (S. Sheikh).

M. Régnier gave a 5 hours course “Mots et motifs: combinatoire et asymptotique” at CIRM meeting “Algorithmique et programmation” for CPGE teachers http://www.cirm.univ-mrs.fr/Site_test/?rubrique2&EX=info_rencontre&annee=2011&id_renc=628 . She serves in the committee of French Agregation of Mathematics (Computer Science option).

  • Mahsa Behzadi, A Mathematical Model of Phospholipid Biosynthesis, Ecole Polytechnique, 12/07/2011, Jean-Marc Steyaert

  • Van Du Tran Thuong, Modeling and Predicting Super-secondary Structures of Transmembrane Beta-barrel Proteins, Ecole Polytechnique, 10/12/2011, Jean-Marc Steyaert.

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

  • PhD in progress: Feng Lou, Etude et conception d'algorithmes de prédiction de la structure secondaire des molécules d'ARN, 01/10/2008, Alain Denise and Peter Clote.

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

  • PhD in progress: Jiuqiang Chen, Mining and Integration of heterogeneous data in e-science environments, 01/10/2011, S. Cohen-Boulakia and Ch. Froidevaux.

  • PhD in progress :Philippe Rinaudo, RNA sequence-structure alignements: a parametrized complexity approach, 01/10/2009, A. Denise.

  • PhD in progress : Cong Zeng, Identification of Structural Motifs in Messenger RNAs, 01/10/2011, A. Denise.

  • PhD in progress :Bo Yang, RNA tertiary structure prediction, 01/10/2011, A. Denise.

  • PhD in progress: Evgenia Furletova, Calculation of statistical significance of biological sequences, 01/12/2008, M. Roytberg (Moscow) and M. Régnier.

A. Denise served as a referee for the PhD dissertations of Florian Sikora (Marne la Vallée), José António Almeida Costa da Cruz (Strasbourg), Emmanuel Bénard (Strasbourg), Anne-Laure Gaillard (Bordeaux) and for Cédric Chauve's Habilitation à Diriger des Recherches (Bordeaux 2011). He served as a jury member in the PhD defence of Loïc Magnin's (Paris-Sud), Wael Khemiri (Paris-Sud), Tom Dreyfus (Sophia Antipolis) and in Marie-Hélène Mucchielli's Habilitation à Diriger des Recherches (Paris-Sud).

Ch. Froidevaux was a referee for D. Heitzler’s PhD (Univ. Tours), S. Benabderrahmane’s PhD (Loria , Nancy) and J Wollbrett’s PhD (Cirad , Montpellier) and served as a jury member in F. Hamdi’s PhD defense (Univ. Paris Sud).

Y. Ponty served as a jury member in A. Saffarian's PhD defence at Université Lille 1.

M. Régnier served as a jury member in M. Behzadi's and Van-Du Thuong Tran PhD defence (Ecole Polytechnique) and was a referee for C. Loi's PhD (Ecole Centrale).