Portrait Ieb Name: Mallet, Ludovic

Status: Postdoc

Email: ludovic.mallet@uni-muenster.de

Tel.: +49-(0)251-83-

Room:


PhD in Bioinformatics "Genome Analysis and Molecular Modeling", University of Paris Diderot-Paris VII

Research interests:

    • Comparative and evolutionary genomics with bioinformatic approaches.

    • Evolutionary dynamics of horizontal transfers, mobile/transposable elements and structural variations.

    • Genomic events forming and shaping new domains and new genes.

Also:

    • Linux / GridEngine Administrator

Curriculum vitæ:

  • 2013 – 2016   Post-Doc in Erich Bornberg-Bauer's lab. Evolutionary Bioinformatics, Westfälische Wilhelms-Universität Münster.
  • 2011 – 2012   Post-Doc at INRA MIG & URGI, Jouy-en-Josas and Versailles, France. "Evolutionary Genomics of Magnaporthe oryzae "
  • 2008 – 2011   PhD at the University PARIS VII Denis Diderot and INSERM U-973 MTi, France. "Evolution of Mycobacteria and emergence of the pathogenicity of the Mycobacterium tuberculosis complex"
  • 2007 – 2008   MSc : Science, Health and Applications, major in Bioinformatics, University PARIS VII Denis Diderot.
  • 2006 – 2007   Maîtrise: Science, Health and Applications, major in Bioinformatics, University PARIS VII Denis Diderot.
  • 2005 – 2006   BSc: Life Science, major in Bioinformatics, University PARIS VII Denis Diderot.
  • 2003 – 2005   Higher National Diploma from a University Institute of Technology (DUT). Life sciences, major in Bioinformatics, University Institute of Technology of Clermont‑Ferrand I, Aurillac, France.

Teaching:

  • R for Bioinformaticians: Introduction to programming, charts, basics in statistics.
  • Unix, C, SQL: Computer system, console, script programming, compilation, creation and usage of databases.
  • Biostatistics: Probability, tests, correlation, regression.
  • Computer Sc.: Introduction to computer science and bioinformatics to biologists. Computer system, genomics, imaging, molecular visualization, spreadsheet.

Publications:

Posters and presentations:

    • 2015 Ludovic Mallet, Cyprien Guérin, Joelle Amselem, Elisabeth Fournier, Hélène Chiapello Hitchhiking DNA in Magnaporthe oryzae . Poster. SMBE, Vienna, Austria.
    • 2015 Ludovic Mallet, Cyprien Guérin, Joelle Amselem, Elisabeth Fournier, Hélène Chiapello The GEMO project: Hitchhiking DNA in Magnaporthe oryzae . Poster. JOBIM, Clermont-Ferrand, France.
    • 2013 Ludovic Mallet, Helene Chiapello, Cyprien Guerin, Marc-Henri Lebrun, Elisabeth Fournier, Didier Tharreau and Joelle Amselem. Comparative analysis of transposable elements in the Magnaporthe oryzae/grisea clade.. Poster. PAG XXI (Plant and Animal Genomes), San Diego (CA, USA), 12-16/01/2013
    • 2012 Mallet L, Guérin C, Martin V, Ortega-Abboud E, Kreplak J, Amselem J, Gendrault A, Lebrun MH, Kroj T, Tharreau D, Fournier E and Chiapello H. The GEMO project: Genomic Evolution of the fungal pathogen Magnaporthe oryzae. Poster. Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM), Rennes, France.
    • 2012 Mallet L, Menigaud S and Deschavanne P. Horizontally acquired adaptation and pathogenicity of Mycobacterium tuberculosis. Poster. JOBIM, Rennes, France.
    • 2012 Mallet L, Ménigaud S, Picord G, Churlaud C, Borrel A, Deschavanne P. GOHTAM: a website for 'Genomic Origin of Horizontal Transfers, Alignment and Metagenomics'. Poster. JOBIM, Rennes, France.
    • 2010 Mallet L, Becq J, Deschavanne P. Whole genome evaluation of horizontal transfers for the pathogenic fungus Aspergillus fumigatus. Poster. Evolutionary Biology Meeting (EBM), Marseille, France.
    • 2009 Mallet L, Becq J, Deschavanne P. Whole genome evaluation of horizontal transfers for the pathogenic fungus Aspergillus fumigatus. Poster. JOBIM, Nantes, France.
    • 2008 Becq J, Mallet L, Deschavanne P. A benchmark of parametric methods for horizontal transfers detection. Poster and flash presentation. JOBIM, Lille, France.
Funding:

         DFG SPP 1399 Project

Students:

    Master thesis

      Sabine Ménigaud, 2010-2011, Webservices

    Bachelor thesis

      Marcel Friedrichs, 2015, Non phylogenetic detection of horizontal transfers in eukaryotes
      Nicolas Arning, 2014, de novo gene characterisation
      Karina Jasinski, 2014, de novo gene detectection
Misceleanous and awards :
    • Travel grant from the French Society of Bioinformatics to attend JOBIM 2015. I am very thankful for all the opportunities this travel created by meeting people and attending the conference.

    • Funniest question, IEB internal conference, 2014. For a question about the special valentine's day treatment for mating drosophila. :) prize: A nice book.