Julie Thompson
- Research director CNRS, at Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie, Université de Strasbourg, Unité Mixte de Recherche CNRS 7357.
- Joint head of LBGI Bioinformatique et Génomique Intégratives.
- Scientific leader of bioinformatics platform BISTRO.
Research
My research interests are mainly focused on the development of robust, automated and integrated in silico approaches (analytical / statistical approaches, data integration and mining, extraction and representation of knowledge ...) to study the evolution and behavior of complex biological systems ("hyperstructures", networks) in humans and various animal models. Taking advantage of our integrated computational approaches and in the context of collaborations at the international, national and local level, we participate in the analysis of complex systems involved in various human diseases, including the study of functional impairments associated with retinal or brain diseases, identification of genetic variations related to ciliopathies and characterization of the genomic and transcriptomic context in various cancers.
On-going Projects
- Implication in the European Infrastructures project: [www.structuralbiology.eu/ INSTRUCT]
- Implication in the ANR Infrastructures project: BIPBIP: Paradigme d'Inference Bayesienne pour la Biologie Structurale in silico
- Implication in the UniTwin Complex Systems Digital Campus de l'UNESCO project
- Evolutionary analyses of protein sequences from NGS data, applied to human health in collaboration with Data mining and stochastic optimisation themes.
- GREMSAP (GRid Evolutionary Multiple Sequence Alignment Platform), in collaboration with the theme stochastic optimisation, l’Institut des Systèmes Complexes Paris Île de France, l’Institut de Neurobiologie Albert Fressard.
- Social Network Clinical Database for Intellectual Disabilities : Implementation of a social network for patients with genetic disorders leading to intelectual disabilities, in collaboration with the theme stochastic optimisation, the team Médecine translationnelle et neurogénétique, IGBMC and l’Université Cheikh Anta Diop, Senegal.
- Big data infrastructure for the translational analysis of mutations involved in human genetic diseases. The goal of BIRD/SM2PH-central is the integration of heterogeneous data (genomic, phenotypic, evolution, cellular networks, …), with data mining methods (association rules, inductive logic programming, …), and includes the design of a semantic query language (BIRD-QL) and the development of novel graphical interfaces.
Publications
Other activities
Book editor “Functional proteomics: Methods and protocols”, Springer Humana Press, USA
Editorial board Current Bioinformatics, Molecular Biotechnology
Reviewing Bioinformatics, BMC Bioinformatics, BMC Evolutionary Biology, Nucleic Acids Research, Proteins: Structure, Function and Bioinformatics, Journal of Molecular Evolution Grant reviews for ANR Membre du committee, ‘Gravitation’ program, Netherlands Organisation for Scientific Research, 2012Evaluator, Partnership Programme, PCCA 2011, Romanian National Council for Development and Innovation Member of Comité National, CNRS (2007-2008) Member of thesis Jury: E Bresso, Univeristé de Lorraine, 2013; C Kemena, CRG, Barcelona 2012, P Gouret Univ Provence 2010, France; M Vanhulsel Hasselt University, Belgium, 2009;
Organisation of conferences European Conference Computational Biology (ECCB) 2014. Journées Ouvertes en Biologie, Informatique et Mathématiques JOBIM 2010-2012. ACS/IEEE International Conference on Computer Systems and Applications AICCSA'10.
Teaching Bioinformatics and comparative genomics course, Unioversité de la Réunion. (~20 H) (2013) Bioinformatics and comparative genomics course, Institut Pasteur Paris. (~20 H) (2010) Bioinformatics and comparative genomics course, organised by Institut Pasteur and EMBO. Brazil. (~20 H) (2008) Bioinformatics courses for IGBMC PhD program and Université de Strasbourg. (~10 H) (since 2007) Organisation of bioinformatics courses for IGBMC PhD programme and Université de Strasbourg (since 2007)
Student supervision Post-docs: Prosdocimi F 2008-2009; Ruano-Rubio V 2008-2009;
PhD thesis: Bermejo C 2013-2016; Vanhoutrève 2013-2106; Linard B 2009-2012; Aniba MR 2007-2010; Masters: Lahure A 2011; Tankari A 2009; Karstens K 2008; Aniba MR 2007.
Prizes ISI Web of Science, highly cited researcher in Biology and Biochemistry (isihighlycited.com, >75,000 citations); Prix Madeleine Lecoq de l’Académie des Sciences (2007); Prix Cristal du CNRS (2005)
Contact
Dr. Julie Thompson ICube, UMR CNRS 7357 Faculté de Médecine Bât. 3 5ième étage, 11 rue Humann F-67000 Strasbourg
Mailing address: Faculté de Médecine ICube, UMR 7357 LBGI 4, rue Kirschleger F- 67085 Strasbourg cedex
Tel : +33 (0)3 68 85 32 96
Mail : thompson@unistra.fr