picture Pierre-Yves Bourguignon

Pierre-Yves Bourguignon
Max-Planck-Institut für Mathematik in den Naturwissenschaften
Inselstr. 22
04103 Leipzig
Germany

Office: B 04
Contact:
Phone:
+49 341 9959 558
Fax:
+49 341 9959 658
Email

Pierre-Yves Bourguignon

Short Curriculum Vitae

I graduated in applied mathematics in december 2008 from the University of Evry. My Ph.D. is titled Parsimony in Markovian models and applications to the analysis of biological sequences, and was done in the Statistics and Genomes lab of the University of Evry under the supervision of Pr. Bernard Prum.

Current and previous positions

since 2009 - Post-doctoral fellow within the program in Systems Biology supported jointly by the French National Center for Scientific Research (CNRS) and the Max-Planck Society.

2005-2008 - Research fellow within the Computational Systems Biology group at the French Genome Center (Genoscope, CEA).

2002-2005 - Ph.D. fellow of the French government doctoral programme.

Research interests

  • Bayesian model selection
  • Information theory and geometry
  • Bioinformatics:
    • Identification of transcription factor binding sites
    • Metabolic modelling
    • Phylogenetics

Publications

  • Journal articles:
    • Core and Panmetabolism in Escherichia coli. G. Vieira, V. Sabarly, P.-Y. Bourguignon, M. Durot, F. Le Fèvre, D. Mornico, D. Vallenet, O. Bouvet, E. Denamur, V. Schachter and C. Médigue. Journal of Bacteriology, March 2011, Vol. 193, No. 6.
    • Challenges in experimental data integration within genome-scale metabolic models (in press). P.-Y. Bourguignon, A. Samal, F. Képès, J. Jost and O. Martin. Algorithms in Molecular Biology.
    • Genome-scale models of bacterial metabolism: reconstruction and applications. M. Durot, P.-Y. Bourguignon and V. Schachter. FEMS Microbiology Reviews, 2009 Jan;33(1):164-90.
    • An EM algorithm for estimation in the Mixture Transition Distribution model. S. Lèbre and P.-Y. Bourguignon. Journal of Statistical Computation and Simulation, Volume 78, Issue 8 2008 , pages 713 - 729.
    • Property-driven statistics of biological networks. P.-Y. Bourguignon, V. Danos, S. Smidtas, F. Képès and V. Schachter. Transactions in Computational Systems Biology IV, 2006.
    • Variation in crossing-over rates across chromosome 4 of Arabidopsis thaliana reveals the presence of meiotic recombination “hot spots". J. Drouaud, C. Camilleri, P.-Y. Bourguignon, A. Canaguier, A. Bérard, D. Vezon, S. Giancola, D. Brunel, V. Colot, B. Prum, H. Quesneville, and C. Mézard. Genome Res. 2006. 16: 106-114.
    • Seq++: analyzing biological sequences with a range of Markov models. V. Miele, P.-Y. Bourguignon, D. Robelin, G. Nuel and H. Richard. Bioinformatics, 2005, Volume 21, Number 11, Pp. 2783-2784.

Collaborations

  • Synthetic biology:
    • Philippe Marlière, Isthmus SARL
    • Rupert Mutzel, Freie Universität Berlin
  • Bayesian identification of transcription factor binding sites:
    • Pr. Ivo Grosse's group, Martin-Luther University of Halle-Wittenberg.
    • Vincent Hakim's group, Laboratoire de Physique Statistique, CNRS/Univ. Paris VI-VII/ENS.
    • Christian P. Robert, CEREMADE, Université Paris Dauphine
  • Modelisation of microbial metabolism
    • Christine Dillmann's group, Ferme du Moulon, CNRS/INRA/Univ. Paris XI.
    • C. Médigue's group, Laboratoire de Génomique Comparative, Genoscope, CNRS/CEA/Univ. Evry.
    • E. Denamur and O. Bouvet, Ecology and Evolution of Microorganisms, INSERM/Univ. Paris VI-XIII.
12.04.2011, 11:49