Team CSTB : Complex Systems and Translational Bioinformatics

Julie Thompson

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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 (with funding)

  • Partner, FRM project: 1000 exomes against myopathies: integrated identification and analysis of novel genes (2014-2017)
  • Partner, ANR infrastructure project: “ReNaBi-IFB : Structural bioinformatics" (2013-2020)
  • Task leader, ANR infrastructure project BIPBIP: ‘Bayesian inference paradigm: Biology in processors’ (2012-2017)
  • Bioinformatics development for INSTRUCT : European Strategy Forum for Research Infrastructures (ESFRI) (2011-2016)
  • Bioinformatics development for ‘French Infrastructure for Integrated Structural Biology’ (FRISBI) (2011-2016)
  • Task leader, ANR project: EvolHHuPro, “Definition of evolutionary histories for the human proteome” (2007-2010)
  • Task leader, AFM Décrypthon project: “Large-scale identification of transcriptional networks during myogenesis" (2007-2009)
  • Partner, FP7 project: SPINE2-Complexes (From Receptor to Gene: Structures of complexes from signalling pathways linking immunology, neurobiology and cancer) (2006-2009)

On-going Projects (without funding)


Other activities

French representative for Elixir European infrastructure, Programmes of Work : (i) ‘data interoperability strategy’ et (ii) ‘training’ Alternate member of the steering committee for the French Bioinformatics Institute (IFB)

Book editor “Functional proteomics: Methods and protocols”, Springer Humana Press, USA

Editorial board BMC Bioinformatics, Current Bioinformatics, PeerJ

Reviewing Bioinformatics, BMC Bioinformatics, BMC Evolutionary Biology, Nucleic Acids Research, Proteins: Structure, Function and Bioinformatics, Journal of Molecular Evolution

Expertise

HCERES (LBMC, Lyon; 2015)

ANR, project expertise

Member of steering committee: FRM bioinformatics analysis, 2014

Member of committee, ‘Gravitation’ program, Netherlands Organisation for Scientific Research, 2012

Evaluator, Partnership Programme, PCCA 2011, Romanian National Council for Development and Innovation

Member of Comité National, CNRS (2007-2008)

Jury member for HDR defence : M Smail, 2014

Jury member for thesis defence : Mokaddem A, Université de Tunis, 2014; 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, Université 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 PhD thesis: Aouled El Haj Mohamed S 2014-2017; Bermejo C 2013-2016; Vanhoutrève R 2013-2106; Linard B 2009-2012; Aniba MR 2007-2010;

Masters: Gass H 2016; Gilg M 2016; Bruxelles T 2015; Khenoussi W 2014; Bermejo C 2012; Schneider 2012; 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)

Publications

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