Section: Dissemination

Teaching - Supervision - Juries

Teaching

Our research work finds also its expression in a strong commitment in pedagogical activities at the University Lille 1. For several years, members of the project have been playing a leading role in the development and the promotion of bioinformatics (more than 400 teaching hours per year). We are involved in several graduate diplomas (research master degree) in computer science and biology (master biologie-santé, master génomique et protéomique, master biologie-biotechnologie) in an Engineering School (Polytech'Lille), as well as in permanent education (for researchers, engineers and technicians).

• M. Pupin, M. Salson, Introduction to programming (OCaml), 96h, L1 (licence “Computer science”, univ. Lille 1)

• M. Salson, Coding and information theory, 36h, L2 (licence “Computer science”, univ. Lille 1)

• J.-S. Varré Programming with Caml, 55h, L2 (licence “Sciences for Engineers”, univ. Lille 1)

• J.-S. Varré Algorithms and Data structures, 50h, L2 (licence “Computer science”, univ. Lille 1)

• L. Noé, Algorithms (Ada), 58h, L3 (licence “Computer science”, univ. Lille 1)

• L. Noé, Networks, 36h, L3 (licence “Computer science”, univ. Lille 1)

• L. Noé, System, 36h, L3 (licence “Computer science”, univ. Lille 1)

• M. Pupin, Databases, 36h, L3 (licence “Computer science”, univ. Lille 1)

• M. Pupin, Professional project, 18h, L3 (licence “Computer science”, univ. Lille 1)

• M. Salson, C programming, 42h, L3 (licence “Computer science”, univ. Lille 1)

• S. Janot, Introduction to programming, 50h, first year of engineering school (L3) (Polytech'Lille, univ. Lille1)

• S. Janot, Introduction to databases, 30h, first year of engineering school (L3) (Polytech'Lille, univ. Lille1)

• A. Ouangraoua Programming with MATLAB, 36h, L1 (licence “Mechanical Engineering”, École de Technologie Supérieure de Montréal)

• L. Noé, Bioinformatics, 54h, M1 (master “Génomique Protéomique”, univ. Lille 1)

• L. Noé, Individual project, organiser, M1 (master “Computer science”, univ. Lille 1)

• M. Pupin, Introduction to programming (JAVA), 30h, M1 (master “Mathématiques et finance”, univ. Lille 1)

• M. Salson, J.-S. Varré, Bioinformatics, 100h, M1 (master “Biology and Biotechnologies”, univ. Lille 1)

• S. Blanquart, Algorithms and applications in bioinformatics, 24h, M1 (master “Computer Science”, univ. Lille 1)

• S. Janot, Databases, 12h, second year of engineering school (M1) (Polytech'Lille, univ. Lille1)

• S. Janot, Introduction to artificial intelligence, 25h, second year of engineering school (M1) (Polytech'Lille, univ. Lille1)

• M. Pupin, J.-S. Varré Computational biology, 30h, M2 (master “Modèles complexes, algorithmes et données”, univ. Lille 1)

• M. Pupin, Practical bioinformatics, 35h, M2 (master “Génomique Protéomique”, univ. Lille 1)

• S. Blanquart, Methods in phylogenetics, 4h, M2 (master “Ecology Environment”, univ. Lille 1)

• M. Giraud, L. Noé, M. Pupin, High-performance bioinformatics, 28h, M2 (master “Calcul Scientifique”, univ. Lille 1)

• M. Pupin, J.-S. Varré, ISN - Computer science for secondary school, 30h, second-level teachers.

Supervision

• PhD : Tuan Tu Tran, Bioinformatics Sequence Comparisons on Manycore Processors, Univ. Lille 1, defense scheduled on 21 December 2012, co-directed by J.-S. Varré and M. Giraud

• PhD : Aurélien Vanvlassenbroeck, Experimental and in silico study of the nonribosomal synthesis done by fluorescent Pseudomonas, Université Lille 1, 17 July 2012, co-directed by M. Pupin, V. Leclère (ProBioGEM lab) and P. Jacques (ProBioGEM lab)

• PhD in progress : Antoine Thomas, Algorithms for genome rearrangement with duplications, Université Lille 1, co-directed by J-S. Varré and A. Ouangraoua.

• PhD in progress : Evguenia Kopylova, New algorithmic and bioinformatic approaches for the analysis of data from next-generation sequencing, Université Lille 1, co-directed by H. Touzet and L. Noé.

• PhD in progress : Christophe Vroland, microRNA repertoire and target evolution: developing efficient indexing techniques and comparison between close plant species, Université Lille 1, co-directed by H. Touzet, M. Salson from Bonsai and V. Castric (“Genetics and evolution in plants” laboratory).

Juries

• Member of the thesis committee of W. Abdelwahed (Univ. Lille 1, M. Pupin) and S. Benabderrahmane (Univ. Nancy 1, M. Pupin), Ph. Bordron, (Univ. Nantes, J-S. Varré, L. Noé), Benoit Groz (Univ. Lille 1, H. Touzet), Tarek El Falah (Univ. Rouen, J.-S. Varré)

• Member of the habilitation committee of J. Bourdon (Univ. Nantes, H. Touzet)

Administrative activities

• National representative (chargée de mission) for the Institute for Computer Sciences (INS2I) in CNRS (CNRS: National Center for Scientific Research). She is more specifically in charge of relationships between the Institute and life sciences (H. Touzet)

• Member of the Inria evalution commitee (M. Giraud)

• Member of the Inria local committee for scientific grants (H. Touzet)

• Scientific secretary of the Gilles Kahn PhD award commitee (M. Giraud)

• Member of ITMO Genetics, Genomics and Bioinformatics of AVIESAN (H. Touzet)

• Member of CSS MBIA (mathematics, bioinformatics and artificial intelligence) at INRA (H. Touzet)

• Head of PPF bioinformatics – University Lille 1 (H. Touzet)

• Head of Bilille, Lille bioinformatics platform (M. Pupin)

• Head of ReNaBi-NE (pôle Nord-Est du Réseaux National de Bioinformatique), a cluster of 4 bioinformatics platforms (M. Pupin)

• Member of UFR IEEA council (M. Pupin)

• Head of the GIS department (Statistics and Computer Sciences) of Polytech'Lille (S. Janot)

• Member of the LIFL Laboratory council (L. Noé, H. Touzet)

• Member of hiring committee (jury d’audition) of Univ. Lille 1 (M. Pupin, H. Touzet), Univ. Pierre et Marie Curie (L. Noé), ENS Bio (H. Touzet), Université Aix-Marseille (H. Touzet), Univ. Bordeaux 1 (M. Giraud)