Section: Dissemination

Teaching - Supervision - Committees

Teaching

Four members of the IBIS team are either full professor, associate professor or assistant professor at the Université Grenoble Alpes. They therefore have a full teaching service (at least 192 hours per year) and administrative duties related to the organization and evaluation of the university course programs on all levels (from BSc to PhD). Besides the full-time academic staff in IBIS, the following people have contributed to courses last year.

Eugenio Cinquemani

• Master: Stochastic modelling of gene regulatory networks, M2, BIM, INSA de Lyon (6 h)

• Master: Statistics for systems biology, M1, Master Approches Interdisciplinaires du Vivant, CRI/Université Paris Descartes (24 h)

• Master: Modelling and identification of metabolic networks, M1, Phelma, INP Grenoble (4 h)

Hidde de Jong

• Master: Modeling and simulation of gene regulatory networks, M2, BIM, INSA de Lyon (20 h)

• Master: Integrated models of the cell: metabolism, gene expression, signalling, M2, ENS Paris (6 h)

• Master: Integrated models of the cell: metabolism, gene expression, signalling, M2, Institut de Technologie et d'Innovation, Paris Sciences Lettres (PSL) (6 h)

Nils Giordano

• Bachelor: La bio-informatique : de l'analyse du génome à la modélisation, L2, Université Grenoble Alpes (9 h)

François Rechenmann

• E-learning: MOOC Bioinformatique : algorithmes et génomes (https://www.fun-mooc.fr/courses/inria/41003S02/session02/about)

• French language version of Bioinformatics MOOC published last year, including the possibility to run the algorithms by means of a dedicated Python notebook (in collaboration with Thierry Parmentelat from Inria Sophia-Antipolis - Méditerranée).

Delphine Ropers

• Master: Modelling in systems biology, M1, Phelma, INP Grenoble (16 h)

• Master: Modeling and simulation of genetic regulatory networks, M1, Université Grenoble Alpes (6 h)

• Master: Modeling and simulation of genetic regulatory networks, M2, INSA de Toulouse (4 h)

Supervision

• PhD in progress: Stefano Casagranda, Analysis and control of cell growth models. Supervisors: Jean-Luc Gouzé (BIOCORE) and Delphine Ropers

• PhD in progress: Nils Giordano, Régulation de la croissance chez Escherichia coli : étude théorique et expérimentale à l'aide de modèles coûts-bénéfices. Supervisors: Hidde de Jong and Johannes Geiselmann

• PhD in progress: Bernard Chielli Ponce de Leon, Stochasticity of gene expression in strains of E. coli with a controlled growth rate and number of chromosomes. Supervisors: Irina Mihalcescu (Université Grenoble Alpes) and Johannes Geiselmann

• PhD in progress: Thibault Etienne, Analyse intégrative de la coordination entre stabilité des ARNm et physiologie cellulaire chez Escherichia coli. Supervisors: Delphine Ropers and Muriel Cocaign-Bousquet (INRA Toulouse)

• PhD in progress: Joël Espel: RNA engineering: Design of the dynamical folding of RNA and of RNA switches. Supervisors: Alexandre Dawid (Université Grenoble Alpes) and Johannes Geiselmann

PhD thesis committees, PhD advisory committees, and habilitation committees

PhD thesis committees

Table 25.

IBIS member	Role	PhD student	University	Date
Hidde de Jong	Rapporteur	Jetse Scholma	University of Twente, the Netherlands	July 2016
Hidde de Jong	Rapporteur	Jean-Baptiste Lugagne	Université Paris Descartes	December 2016
Hidde de Jong	Président	José Morales Morales	Université de Grenoble	December 2016
Hidde de Jong	Rapporteur	Sébastien Raguideau	AgroParisTech	December 2016
Johannes Geiselmann	Président	Jessica Penin	Université de Grenoble	April 2016
Johannes Geiselmann	Rapporteur	Minyeong Yoo	Université Paul Sabatier Toulouse	May 2016
Johannes Geiselmann	Président	Ramachandran Boopathi	ENS de Lyon	May 2016
Johannes Geiselmann	Rapporteur	Ayyappasamy Sudalaiyadum Perumal	Université de Montpellier	June 2016
Stéphan Lacour	Examinateur	Simon Léonard	Université de Lyon	September 2016
Stéphan Lacour	Examinateur	Alice Berry	Université de Grenoble	November 2016

Habilitation (HDR) committees

Table 26.

IBIS member	Role	PhD student	University	Date
Hidde de Jong	Examinateur	Morgan Magnin	Université de Nantes	Avril 2016
Johannes Geiselmann	President	Jan Bednar	Université de Grenoble	December 2015

PhD advisory committees

Table 27.

IBIS member	PhD student	University
Johannes Geiselmann	Jean-Baptiste Lugagne	Université Paris Descartes

Teaching adminstration

Yves Markowicz is director of the BSc department at Université Grenoble Alpes.

Michel Page is coordinator of the master Systèmes d'information et d'organisation at the Institut d'Adminstration des Entreprises (IAE), Université Grenoble Alpes.

Eugenio Cinquemani organizes a module on statistics in systems biology at CRI/Université Paris Descartes.

Delphine Ropers organizes a module on the mathematical modeling of biological systems at PHELMA, INP Grenoble.

Hidde de Jong organizes with Daniel Kahn a module on the modeling of genetic and metabolic networks at INSA de Lyon.