version française

International publications

  • [High-throughput sequencing: towards a genome-based diagnosis in infectious diseases] Article in French
    Audebert C; Hot D; Lemoine Y; Caboche S
    Médecine/Sciences (Paris), 2014, 30(12):1144-51. doi: 10.1051/medsci/20143012018. ( abstract )

  • Bioinformatics bolster a renaissance.
    Caboche S
    Nature Chemical biology, 2014, 10(10):798-800 ; doi:10.1038/nchembio.1634 ( abstract )

  • Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data
    Caboche S; Audebert C; Lemoine Y; Hot D
    BMC Genomics, 2014, 15(1) :264 ( abstract )

  • High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology
    Caboche S; Audebert C; Hot D
    Pathogens, 2014, 3(2) :258-279 ( abstract )

  • LeView: automatic and interactive generation of 2D diagrams for biomacromolecule/ligand interactions
    Caboche S;
    Journal of Cheminformatics 2013, 5:40; doi:10.1186/1758-2946-5-40 ( abstract )

  • A new fingerprint to predict nonribosomal peptides activity
    Abdo A; Caboche S; Leclère V; Jacques P; Pupin M;
    Journal of Computer-Aided Molecular Design 2012; DOI: 10.1007/s10822-012-9608-4 ( abstract )

  • PDBe: Protein Data Bank in Europe
    Velankar S. et al.
    Nucleic Acids Research - Database issue, 2012, 40:D445-52 ( abstract )

  • PDBe: Protein Data Bank in Europe
    Velankar S. et al.
    Nucleic Acids Research - Database issue, 2011, 39:D402-10 ( abstract )
    article selected in 5% of exceptional scientific articles

  • Diversity of monomers in nonribosomal peptides: towards the prediction of origin and biological activity
    Caboche S; Leclère V; Pupin M; Kucherov G; Jacques P
    Journal of Bacteriology 2010; Oct:192(19):5143-50 (abstract)
    article selection for "Journal Highlights" section of Microbe which selects the best articles of the month

  • Structural pattern matching of nonribosomal peptides
    Caboche S; Pupin M; Leclère V; Jacques P; Kucherov G
    BMC Structural Biology 2009; 9(1):15. (abstact)

  • NORINE: a database of nonribosomal peptides
    Caboche S; Pupin M; Leclere V; Fontaine A; Jacques P; Kucherov G
    Nucleic Acids Research - Database issue, 2008, 36:D326-31 (abstract,PDF)

National Publication

  • La synthèse peptidique non-ribosomiale, source de biodiversité de composés actifs
    Jacques P; Gancel F; Chollet-Imbert M; Guez JS; Béchet M; Caboche S; Coucheney F; Coutte F; Tapi A; Leclère V
    SFM letter, 2007

International communications with selection board

  • Comparison of mapping algorithms used in high-throughput sequencing: application to Ion Torrent data
    Caboche S; Audebert C; Lemoine Y; Hot D
    European Conference on Computational Biology, Strasbourg (France), 2014

  • Bioinformatics tools to decrypt NonRibosomal Peptide diversity in Bacilli
    Leclère V; Pupin M; Hussein W; Béchet M; Gancel F; Chollet M; Caboche S; Jacques P
    BACELL, Gottingen (Germany), 2010

  • Novel approaches to isolate antimicrobial peptides using bioinformatics and molecular tools
    Jacques P; Froidevaux R; Chollet-Imbert M; Tapi A; Caboche S; Pupin M; Kucherov G; Dhulster P; Le Flem G; Vercaigne-Marko D; Leclère V
    Second International Symposium on Antimicrobial Peptides, Saint Malo (France) 2009, communication

  • Relationships between producing organisms, activities and monomers incorporated into NRPS peptides
    Leclère V; Caboche S; Pupin M; Kucherov G; Jacques P
    FEMS, congress of european microbiologists, Gothenburg (Sweden), 2009, communication et poster

National communications with selection board

  • La synthèse non-ribosomiale chez les actinomycètes
    Leclère V, Tonon L, Caboche S, Pupin M and Jacques P
    Journées Actinomycètes, Paris (France), 2010

  • Database and comparison of non ribosomal peptides
    Caboche S, Leclère V, Jacques P, Pupin M and Kucherov G
    JOBIM 2006, (Bordeaux, France)(PDF, présentation)

Invited speaker

  • Norine : a public ressource dedicated to nonribosomal peptides
    Caboche S,
    Séminaire Invité, Genome Campus, Cambridge (UK), 2010, communication.

  • Generation of 2D diagrams for visualizing protein/ligand interactions
    Caboche S
    Séminaire Invité, LIFL, Lille, 2010, communication.

Posters

  • Bacillus mojavensis A21 a new strain for non-ribosomal peptide production
    Ben Ayed H, Hmidet N, Haddar A, Jacques P, Leclère V, Caboche S, Hot D, Béchet M, Chollet M and Nasri M
    Third international symposium on antimicrobial peptides (AMP), Lille (France), 2012.

  • Discovery and annotation strategies of nonribosomal peptide synthetases from bacterial genomes
    Saci Z, Pupin M, Deravel J, Krier F, Caboche S, Jacques P and Leclère
    European Congress on Computational Biology (ECCB), Gent (Belgium), 2010.

  • Stratégie de recherche et d'annotations de nouvelles synthétases non-ribosomiales à partir génomes bactériens
    Saci Z, Pupin M, Deravel J, Krier F, Caboche S, Jacques P and Leclère V
    JOBIM, Montpellier (France), 2010.

  • Statistical approach of monomer diversity in non ribosomal peptides
    Caboche S, Leclère, Pupin M, Kucherov G and Jacques P
    Systems Biology of Microorganisms Conference, Paris (France), 2010.

  • Relationships between producing organisms, activities and monomers incorporated into NRPS peptides
    Leclère V, Caboche S, Pupin M, Kucherov G and Jacques P
    FEMS, congress of european microbiologists, Gothenburg (Sweden), 2009.

  • Norine: database and efficient algorithms dedicated to nonribosomal peptides
    Caboche S; Pupin M; Leclere V; Jacques P; Kucherov G
    ECCB 2008, Cagliari (Ilatly) 2008, poster

  • Norine: a public resource of nonribosomal peptides
    Caboche S; Pupin M; Leclere V; Jacques P; Kucherov G
    EMBnet Conference 2008, Martina Franca (Italy) 2008, poster

  • Norine: a platform dedicated to nonribosomal peptides
    Caboche S; Pupin M; Leclere V; Jacques P; Kucherov G
    JOBIM 2008 (Lille, France), poster

  • Norine: une nouvelle base de données qui met en exergue la biodiversité des structures et des activités des peptides synthétisés par la voie non-ribosomale (NRPS)
    Caboche S, Leclère V, Pupin M, Kucherov G and Jacques P
    Poster 7ième congrés de la Société Francaise de Microbiologie, Nantes, 2007
    Prix du meilleur Poster (sur plus de 300 posters)

  • NORINE: a recent database highlighting a large biodiversity among NRPS peptide structures and activities
    Leclère V, Caboche S, Pupin M, Kucherov G and Jacques P.
    RSC conference, Chemical Biology: directing biosynthesis, 2006 (PDF)