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URGI Bioinformatics Publications

URGI members are underlined in authors list. In the talks sections, names in bold are the speakers.
papers with reading comittee (ACL), papers in books (ACT), invited talks (INV), talks (COM), posters (COM)

2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003

Year 2010

International:

    • INV (talks)

    Wheat mapping and annotation data at URGI - A. Alaux , International Workshop on 'IWGSC Physical Mapping Standard Protocol', during the 'Databases and online tools for displaying the anchored physical maps' session. Plant & Animal Genome (PAG) XVIII Conference , January 12, 2010, Town & Country Convention Center in San Diego, California, USA. Abstract [Download pdf :
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    When repeats meet chromatin: Relationship between repeats and heterochromatin dynamics - A.-S. Fiston - Lavier, C. Vejnar, H. Quesneville , International Workshop on 'Tranposable elements' at Plant & Animal Genome (PAG) XVIII Conference , January 11, 2010, Town & Country Convention Center in San Diego, California, USA. Abstract [Download pdf : 14 Ko]

    • COM (posters)

    Wheat genomic data in GnpIS, the URGI Information System - M.Alaux, D. Verdelet, A.-O. Keliet, E.Kimmel, B. Brault, N. Mohellibi, B. Hiselberger, S. Durand, I.Luyten, S. Reboux, D.Steinbach and H.Quesneville, PAG XVII Jan 2009, San Diego, USA [Download pdf :
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    REPET: pipelines for the identification and annotation of transposable elements in genomic sequences - T. Flutre , O. Inizan, C. Hoede, H.Quesneville, PAG XVII Jan 2009, San Diego, USA [Download pdf : 607 Ko]

National:

  • Talks (COM)

Rise and fall of structural variants among transposable element families in sequenced genomes - T.Flutre "Génomique Evolutive, Bioinformatique, Alignement et Phylogénie
Groupe de Travail en Génomique Comparative", Rencontres ALPHY, Feb 2010, Marseille, France

Year 2009

International:

    • ACL

    Hunting down fungal secretomes using liquid-phase IEF prior to high resolution 2-DE. - D. Vincent , M.-H. Balesdent, J. Gibon, S. Claverol, D. Lapaillerie, A.-M. Lomenech, F. Blaise, T. Rouxel, F. Martin, M. Bonneu, J. Amselem, V. Dominguez, B.-J. Howlett, P. Wincker, J. Joets, M.-H. Lebrun, C. Plomion
    Electrophoresis, December, 2009, 30 (23): 4118-36. Abstract

    • INV (talks)

    The URGI bioinformatic platform: an original information system to bridge genetic and genomic plant and fungal data - H. Quesneville , D. Steinbach, J. Amselem, M. Alaux, F. Alfama-Depauw, B. Brault, N. Choisne, V. Domingez-Del Angel, S. Durand , B. Hiselberger, O. Inizan, V. Jamilloux, A.-O. Keliet, E. Kimmel, N. Lapalu, I. Luyten, N. Mohellibi , C. Pommier, D. Verdelet, S. Reboux, M.-H. Lebrun. 1st International Workshop on Information SYstems for Insect Pests (ISYIP) , November 16, 2009, INRIA, Rennes, France. Abstract [Download pdf : 50 Ko]

    Genomes and transposable elements - H. Quesneville "GDR de Bioinformatique" Conference, November 12-13, 2009, Institut Henri Poincaré, Paris, France. Abstract [Download pdf : 5 Ko]

    Wheat data on GnpIS, the INRA URGI plant information system - M. Alaux , D. Steinbach, E. Kimmel, S. Durant, C. Pommier, N. Mohellibi, D. Verdelet, I. Luyten, S. Reboux, H. Quesneville . 19th International Triticeae Mapping Initiative - 3rd COST Tritigen, August 31th - September 4th 2009, Clermont-Ferrand, France. [Download pdf : 1396 Ko]

    Comparative analysis of transposable elements in several fungal genomes - J. Amselem, T. Flutre., V. Dominguez Del Angel., S. Ghignone,  M.H. Lebrun, C. Cuomo, M. Dickman., F. Martin, T. Rouxel, P. Spanu, and H. Quesneville. Fungal Genetics Conference, March 17-22, 2009, Asilomar, CA, USA

    REPET: pipelines for the identification and annotation of transposable elements in genomic sequences - T.Flutre, E.Permal, E. Duprat, H. Quesneville, Genomic Impact of Eukaryotic Transposable Elements, February 6-10, 2009, Asilomar, CA, USA

    Genomic and genetic data integration : The high throughput challenge - D.Steinbach, M.Alaux, J.Amselem, S.Durand, E.Kimmel, I.Luyten, N.Mohellibi, C.Pommier, S.Reboux, H.Quesneville, SFG and SFGH meeting: "Genetics and Epigenetics. New Approaches in Genomics", 22nd and 23rd Jan 2009, Pasteur Institute, France

    • COM (demo)

      • GnpIS, the plant information system of INRA URGI bioinformatics platform - M.Alaux, D.Steinbach, E.Kimmel, S.Derozier, S.Durand, C.Pommier, I.Luyten, N.Mohellibi, D.Verdelet, S.Reboux and H.Quesneville, PAG XVII Jan 2009, San Diego, USA.
      Online demo part1 (9 min) and part2 (9 min).

    • COM (posters)

    SIReGal: The INRA Plant Genetic Ressources Information System - S. Durant , E. Kimmel,C. Pommier, J. - M. Prosperi, D. Steinbach, H. Quesneville, TDWG 2009 Annual conference, November 9-13, 2009, Montpellier, France. [Download pdf : 2317 Ko]

    Ephesis: Environment and Phenotypes Information System, a GnpIS module. - C. Pommier , E. Kimmel, P. Roumet, D. Steinbach , H. Quesneville, TDWG 2009 Annual conference, November 9-13, 2009, Montpellier, France. [Download pdf : 855 Ko]

    The URGI grape genome manual annotation distributed system - N. Choisne, B. Hilselberger, A.-O. Keliet, B. Brault, J. Amselem, M. Alaux, S. Reboux, I. Luyten, H. Quesneville, Plant Genomics European Meetings, October 7-10, 2009, Lisbon, Portugal. [Download pdf : 1096 Ko]

    GnpIS update: two new query tools to bridge plant genetics and genomics data - D. Steinbach, E. Kimmel, A.-O. Keliet, M. Alaux, J. Amselem, S. Durant, C. Pommier, I. Luyten, N. Mohellibi, D. Verdelet, S. Reboux, H. Quesneville, Plant Genomics European Meetings, October 7-10, 2009, Lisbon, Portugal. [Download pdf : 490 Ko]

    GnpIS: Focus on wheat genomic data - M. Alaux, D. Verdelet, A.-O. Keliet, E. Kimmel, B. Brault, N. Mohellibi, B. Hilselberger, S. Durant, I. Luyten, S. Reboux, D. Steinbach, Plant Genomics European Meetings, October 7-10, 2009, Lisbon, Portugal. [Download pdf : 619 Ko]

    The “S-MART” toolbox: a Short-reads MART or how to handle the mapping of your RNA/ChIP-Seq data? - M. Zytnicki, H. Quesneville, First Workshop of the StatSeq Cost project, October 4-5, 2009, Barcelona, Spain. [Download pdf : 320 Ko]

    Structural variants and the diversification of transposable element families. - T. Flutre , H. Quesneville, JOBIM 2009, Nantes, France

    The URGI plants and bioagressors genomic annotation system. - B.Brault, M. Alaux, F. Legeai, S. Reboux, I.Luyten, Stéphanie SidibeBocs, Delphine Steinbach, H. Quesneville and J. Amselem, JOBIM 2009, Nantes, France [Download pdf : 4716 Ko]

    GnpIS, the plant information system of INRA URGI bioinformatics platform - D.Steinbach, M.Alaux, E.Kimmel, S.Derozier, S.Durand, C.Pommier, I.Luyten, N.Mohellibi, D.Verdelet, S.Reboux and H.Quesneville, PAG XVII Jan 2009, San Diego, USA [Download pdf : 544 Ko]

    The URGI bioinformatics platform: focus on genomic annotation databases and tools - M.Alaux, J. Amselem, C.Pommier, E.Kimmel, I.Luyten, D.Steinbach and H.Quesneville, PAG XVII Jan 2009, San Diego, USA [Download pdf : 634 Ko]

     

Year 2008

International:

  • ACL

A physical map of the 1-gigabase bread wheat chromosome 3B - Paux E, Sourdille P, Salse J, Saintenac C, Choulet F, Leroy P, Korol A, Michalak M, Kianian S, Spielmeyer W, Lagudah E, Somers D, Kilian A, Alaux M, Vautrin S, Bergès H, Eversole K, Appels R, Safar J, Simkova H, Dolozel J, Bernard M, Feuillet C
Science. 2008 Oct 3;322(5898):101-4.

Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. - Abad P, Gouzy J, Aury JM, Castagnone-Sereno P, Danchin EG, Deleury E, Perfus-Barbeoch L, Anthouard V, Artiguenave F, Blok VC, Caillaud MC, Coutinho PM, Dasilva C, De Luca F, Deau F, Esquibet M, Flutre T, Goldstone JV, Hamamouch N, Hewezi T, Jaillon O, Jubin C, Leonetti P, Magliano M, Maier TR, Markov GV, McVeigh P, Pesole G, Poulain J, Robinson-Rechavi M, Sallet E, Ségurens B, Steinbach D, Tytgat T, Ugarte E, van Ghelder C, Veronico P, Baum TJ, Blaxter M, Bleve-Zacheo T, Davis EL, Ewbank JJ, Favery B, Grenier E, Henrissat B, Jones JT, Laudet V, Maule AG, Quesneville H, Rosso MN, Schiex T, Smant G, Weissenbach J, Wincker P.
Nat Biotechnol. 2008 Aug; 26(8):909-15. Epub 2008 Jul 27. Abstract

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis. - Martin F, Aerts A, Ahrén D, Brun A, Danchin EG, Duchaussoy F, Gibon J, Kohler A, Lindquist E, Pereda V, Salamov A, Shapiro HJ, Wuyts J, Blaudez D, Buée M, Brokstein P, Canbäck B, Cohen D, Courty PE, Coutinho PM, Delaruelle C, Detter JC, Deveau A, DiFazio S, Duplessis S, Fraissinet-Tachet L, Lucic E, Frey-Klett P, Fourrey C, Feussner I, Gay G, Grimwood J, Hoegger PJ, Jain P, Kilaru S, Labbé J, Lin YC, Legué V, Le Tacon F, Marmeisse R, Melayah D, Montanini B, Muratet M, Nehls U, Niculita-Hirzel H, Oudot-Le Secq MP, Peter M, Quesneville H, Rajashekar B, Reich M, Rouhier N, Schmutz J, Yin T, Chalot M, Henrissat B, Kües U, Lucas S, Van de Peer Y, Podila GK, Polle A, Pukkila PJ, Richardson PM, Rouzé P, Sanders IR, Stajich JE, Tunlid A, Tuskan G, Grigoriev IV.
Nature. 2008 Mar 6; 452(7183):88-92. Abstract

Genome Annotation in Plants and fungi : Eugene as a model platform - S. Foissac, J. Gouzy, S. Rombauts, C. Mathé, J. Amselem, Y. Van de Peer , P. Rouzé, T. Schiex T. Curr Bioinf 2008 3:87-97

    • COM (talks)

      • Tuber melanosporum manual Annotation Roundtrip. J. Amselem and  B. Setterblad. 3rd Tuber Genome Workshop, November. 27-28, 2008, Parma, Italie,

      The fungal genomic annotation platform - J. Amselem, C. Hoede, E. Quevillon, A. Simon, I. Luyten, S. Reboux, H. Quesneville and M.H. Lebrun. 3rd Botrytis Genome Workshop, September 2008, Tenerife, Canary Island, Spain [Download pdf : 4635 Ko]

    • COM (posters)

    A comparative analysis of de novo methods for identification of transposable elements in Drosophilidae genomes. - T. Flutre, E. Duprat and H. Quesneville, JOBIM 2008, Lille, France [Download pdf : 631 Ko]

    Characterization of transposable elements unsing the REPET de nove pipeline in the pea aphid Acyrtosiphon pisum genome - E. Permal, T. Flutre, H. Quesneville, 4th Aphid Workshop, July 2008, Princeton, New Jersey, U.S.A

    A comparative analysis of de novo methods for identification of transposable elements in Drosophilidae genomes. - T. Flutre, E. Duprat and H. Quesneville, SMBE June 2008, Barcelona, Spain [Download pdf : 631 Ko]

    A comparative analysis of de novo methods for identification of transposable elements in Drosophilidae genomes. - T. Flutre, E. Duprat and H. Quesneville, ICTE April 2008, Saint-Malo, France [Download pdf : 493 Ko]

National:

  • INV (talks)

Genomic and genetic data integration : the high throughput challenge. - Hadi Quesneville, 8th Seminar "Bio-Informatique Ligérienne" (BIL), 4th of December 2008, LERIA (Laboratoire d'Etude et de Recherche en Informatique d'Angers), UFR Sciences - Campus de Belle Beille, 2 boulevard Lavoisier 49045 Angers Cedex 01, France

Introduction on the laboratory: Genomics and genetics data integration at URGI. - Hadi Quesneville, "Journées scientifiques IJPB/URGV", 17th of November 2008, INRA Versailles center, France

The fungal genomic annotation platform. - Joëlle Amselem, 3rd Botrytis Genome Workshop, September 2008, Tenerife, Canary Island, Spain
  • COM (talks)

A comparative analysis of de novo methods for identification of transposable elements in Drosophilidae genomes. - T. Flutre, E. Duprat and H. Quesneville, JOBIM 2008, Lille, France

  • COM (demo)

    GnpGenome : the URGI genomic annotation database. - M. Alaux, I. Blanc-Lenfle, C. Pommier, J. Amselem, I. Luyten, D. Steinbach and H. Quesneville, JOBIM 2008, Lille, France

    GnpSNP: the URGI polymorphism database dedicated to plant. - N. Mohellibi, F. Granier, D. Steinbach, E. Kimmel, C. Pommier, D. Brunel and H. Quesneville, JOBIM 2008, Lille, France

  • COM (posters)

A comparative analysis of de novo methods for identification of transposable elements in Drosophilidae genomes. - T. Flutre, E. Duprat and H. Quesneville, JOBIM 2008, Lille, France [Download pdf : 631 Ko]

GnpGenome : the URGI genomic annotation database. - M. Alaux, I. Blanc-Lenfle, C. Pommier, J. Amselem, I. Luyten, D. Steinbach and H. Quesneville, JOBIM 2008, Lille, France

GnpSNP: the URGI polymorphism database dedicated to plant. - N. Mohellibi, F. Granier, D. Steinbach, E. Kimmel, C. Pommier, D. Brunel and H. Quesneville, JOBIM 2008, Lille, France

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Year 2007

  • International:

    • ACL

      • Physical mapping in large genomes: accelerating anchoring of BAC contigs to genetic maps through in silico analysis - Paux E, Legeai F, Guilhot N, Adam-Blondon AF, Alaux M, Salse J, Sourdille P, Leroy P, Feuillet C. Funct Integr Genomics 2007, DOI 10.1007/s10142-007-0068-1

      Discovering and detecting transposable elements in genome sequences. Bergman CM, Quesneville H. Brief Bioinform. 2007 Oct 10; PMID: 17932080

      The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Olivier Jaillon, Jean-Marc Aury, Benjamin Noel, Alberto Policriti, Christian Clepet, Alberto Casagrande, Nathalie Choisne, Sébastien Aubourg, Nicola Vitulo, Claire Jubin, Alessandro Vezzi, Fabrice Legeai, Philippe Hugueney, Corinne Dasilva, David Horner, Erica Mica, Delphine Jublot, Julie Poulain, Clémence Bruyère, Alain Billault, Béatrice Segurens, Michel Gouyvenoux, Edgardo Ugarte, Federica Cattonaro, Véronique Anthouard, Virginie Vico, Cristian Del Fabbro, Michaël Alaux, Gabriele Di Gaspero, Vincent Dumas, Nicoletta Felice, Sophie Paillard, Irena Juman, Marco Moroldo, Simone Scalabrin, Aurélie Canaguier, Isabelle Le Clainche, Giorgio Malacrida, Eléonore Durand, Graziano Pesole, Valérie Laucou, Philippe Chatelet, Didier Merdinoglu, Massimo Delledonne, Mario Pezzotti, Alain Lecharny, Claude Scarpelli, François Artiguenave, M. Enrico Pè, Giorgio Valle, Michele Morgante, Michel Caboche, Anne-Françoise Adam-Blondon, Jean Weissenbach, Francis Quétier, Patrick Wincker: Nature 449, 463 - 467, 27 Sep 2007

    • INV (talks)

      • The genome annotation pipeline and databases for the ascomycetes Botrytis cinerea. J. Amselem, E. Quevillon, A. Simon, S. Fillinger, E. Fournier, C. Giraud, C. Levis, J.M. Pradier, M. Viaud, F. Legeai, C. Pommier, I. Luyten, S. Reboux and M.H. Lebrun, 1st Tuber GENOMICS Workshop, April 2007, Turin, Italy

      A search for locus producing RNAi through a high-throughput analysis of heterochromatin transcription. Vitte C., Nouaud D, Desset S, Rimour S, Peyret P, Vaury C, Anxolabéhère D, Quesneville H. Meeting « RNAi in genome control », 12-14 December, 2007. Hyderabad, India

    • COM (talks)

      • Workshop Botrytis/Sclerotinia: Botrytis cinerea gene prediction and functional annotation. J. Amselem, M. Choquer, A. Couloux, S. Fillinger, E. Fournier, C. Giraud, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. SĂ©gurens, A. Simon, M. Viaud, P. Wincker & M.H. Lebrun, march 07, Asilomar (Ca, USA) 

    • COM (posters)

      • GnpSNP : a database for storing plant polymorphism data. Fabienne Granier, Nicolas Grimault, Erik Kimmel, Emmanuelle Karsenty, Cyril Pommier, Delphine Steinbach, Dominique Brunel, ECCB Vienne, 2007

      Whole genome sequencing of the fungal plant pathogens Botrytis cinerea and Sclerotinia sclerotiorum. S. Fillinger, J. Amselem, F. Artiguenave, A. Billault, M. Choquer, A. Couloux, C. Cuomo, D. DeCaprio, M. Dickman, E. Fournier, J. Galagan, C. Giraud, C. Kodira, Li. Kohn, F. Legeai, C. Levis, E. Mauceli, C. Pommier, J.M. Pradier, E. Quevillon, J. Rollins, B. SĂ©gurens, A. Simon, M. Viaud, J. Weissenbach, P. Wincker & M.H. Lebrun, 24th Fungal Genetics Conference: Mar 07, Asilomar (Ca, USA)

      Setting up of a fungal genomic annotation platform. J. Amselem, E. Quevillon, A. Simon, V. Dominguez Del Angel, S. Fillinger, E. Fournier, C. Giraud, C. Levis, J.M. Pradier, M. Viaud, F. Legeai, C. Pommier, I. Leblanc-Lenfle, I. Luyten, S. Reboux, T. Rouxel, H. Quesneville and M.H. Lebrun, ESF-EMBO, Comparative Genomics of Eukaryotic Microorganisms, Oct 07 Sant Feliu de Guixols, Spain

  • National

    • OS

      • The genome projects of the plant pathogenic fungi Botrytis cinerea and Sclerotinia sclerotiorum. Fillinger S, Amselem J, Artiguenave F, Billaut A, Choquer M, Couloux A, Cuomo C, Dickman MB, Fournier E, Gioti A, Giraud C, Kodira C, Kohn L, Legeai F, Levis C, Mauceli E, Pommier C, Pradier JM, Quevillon E, Rollins J, SĂ©gurens B, Simon A, Viaud M, Weissenbach J, Wincker P, Lebrun M-H. (2007). In: Macromolecules of grape and wines. Jeandet P, ClĂ©ment C, Conreux A (eds), Lavoisier, pp. 125-133. 

    • INV (talks)

      • URGI and the DGAP bioinformatic. Delphine Steinbach, SĂ©minaire du champs thĂ©matique 3 du dĂ©partement EFPA (Ecologie Forestière et Prairies Aquatiques), SuperBesse, France, 2007

      GnpIs et GnpArray. Delphine Steinbach, COST Vigne européen, Bordeaux, France, 2007

      BIEP Genoplante project results and perspectives. Delphine Steinbach, Genoplante ANR 2005 seminar, Paris 2007

    • COM (posters)

      • GnpMap : the mapping database 2007 update: 'the physical map'. Michael Alaux, Erik Kimmel, Emmanuelle Karsenty, Delphine Steinbach, Fabrice Legeai, Eleonore Durand, Marco Moroldo, Anne-Françoise Adam-Blondon, JOBIM 2007, Marseille, France

      Setting up a fungal genomic annotation platform. Emmanuel Quevillon, Victoria Dominguez Del Angel, Sabine Fillinger, Corinne Giraud, Fabrice Legeai, Caroline Lewis, Isabelle Luyten, Cyril Pommier, Jean-Marc Pradier, SĂ©bastien Reboux, Thierry Rouxel, Adeline Simon, Muriel Viaud, Marc-Henri Lebrun, Joelle Amselem. JOBIM 2007, Marseille, France

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Year 2006

  • International

    • ACL

      • Single-Nucleotide polymorphism frequency in a set of selected lines of bread wheat. (Triticum aestivum L ) Catherine RAVEL, SĂ©bastien Praud, Alain Murigneux, AurĂ©lie Canaguier, FrĂ©dĂ©ric Sapet, Delphine Samson, François Balfourier, Philippe Dufour, Boulos Chalhoub, Dominique Brunel, Michel BĂ©ckert, Gilles Charmet: Genome Vol 49, 9, 2006 (http://urgi.versailles.inra.fr/GnpSNP)

      Anchoring of a large set of markers onto a BAC library for the development of a draft physical map of the grapevine genome. Lamoureux D., Bernole A., Le Clainche I., Tual S., Thareau V., Paillard S., Legeai F., Dossat C., Wincker P., Oswald M., Merdinoglu D., Vignault C., Delrot S., Caboche M., Chaloub B., Adam-Blondon, A-F.: Theor Appl Genet. 2006 Jul;113(2):344-56

      Large-scale gene discovery in the pea aphid Acyrthosiphon pisum (Hemiptera). Sabater-Muñoz B., Legeai F, Rispe C., Bonhomme J, Dearden P, Dossat C., Duclert A., Gauthier J.P., Giblot Ducray D., Hunter W., Dang P., Kambhampati S., Martinez-Torres D., Cortes T., Moya A., Nakabachi, A. Philippe C., Prunier-Leterme N., Rahbé Y, Simon J.C., Stern D.L., Wincker P and Tagu D. 2006. Genome Biology 2006, 7:R21 PMID: 16542494

    • COM (Talks)

      • Whole genome sequencing of the fungal plant pathogen Botrytis cinerea: preliminary comparisons with Sclerotinia sclerotiorum genome. J. Amselem, F. Artiguenave, A. Billault, M. Choquer, A. Couloux, C. Cuomo, M. Dickman, S. Fillinger, E. Fournier, C. Giraud, L. Kohn, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. SĂ©gurens, A. Simon, M. Viaud, J. Weissenbach, P. Wincker & M.H. Lebrun, European Conference on Fungal Genetics, Vienne, Autriche 2006

    • COM (Posters)

      • Whole genome sequencing of the fungal plant pathogen Botrytis cinerea : preliminary comparisons with Sclerotinia sclerotiorum genome. J. Amselem, F. Artiguenave, A. Billault, M. Choquer, A. Couloux, C. Cuomo, M. Dickman, S. Fillinger, E. Fournier, C. Giraud, L. Kohn, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. SĂ©gurens, A. Simon, M. Viaud, J. Weissenbach, P. Wincker & M.H. Lebrun, European Conference on Fungal Genetics, Vienne, Autriche 2006

  • National

    • INV (Talks)

      • GnpIS and GnpMap database presentation. Delphine Steinbach, Inter departments seminars (GĂ©nĂ©tique animale GA / vĂ©gĂ©tale GAP): Jouy-en-Josas, France, 2006

      Siregal project. Sophie Durand, GAP department seminar, Batz-sur-mer, France, 2006

      Genoplante data integration process and results since 2000. Delphine Steinbach, Genoplante consortium seminar, Arles, France 2006

    • COM (Talks)

      • Annotation structurale et fonctionnelle de Botrytis cinerea. J. Amselem, M. Choquer, A. Couloux, S. Fillinger, E. Fournier, C. Giraud, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. SĂ©gurens, A. Simon, M. Viaud, P. Wincker & M.H. Lebrun, JJC-SFP, Rencontres de phytopathologie, mycologie, Aussois, France 2006

      Botrytis cinerea T4 genome annotation. J. Amselem, M. Choquer, A. Couloux, S. Fillinger, E. Fournier, C. Giraud, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. Ségurens, A. Simon, M. Viaud, P. Wincker & M.H. Lebrun), Workshop Botrytis/Sclerotinia, Versailles, France, 2006

      GnpMap the mapping database update : 'the cytogenetic map view'. Alaux M, Chétouani F, Samson D, Leroy P, Falque M, Adam-Blondon AF, Delourme R, Hanneton L, Karsenty E, Kimmel E, Legeai F, Thomas B, Viau L, Scala D, Artiguenave F. JOBIM 2006, Bordeaux, France

    • COM (Posters)

      • GnpArray : the GĂ©noplante expression database. Erik Kimmel, Guillaume Kerboul, FrĂ©dĂ©ric Sapet, Eric Perche, Adeline Simon, Cathy Philippe, Bruce Thomas, StĂ©phane Bourot, Farid ChĂ©touani, Delphine Samson, Aymeric Duclert. GAP department seminar, Batz-sur-mer, France, 2006 [Download pdf : 3760 Ko]

      GnpMap the mapping database update : 'the cytogenetic map view'. Michael Alaux, Farid Chétouani, Delphine Samson, Philippe Leroy, Matthieu Falque, Anne-Francoise Adam-Blondon, Regine Delourme, Laurent Hanneton, Emmanuelle Karsenty, Erik Kimmel, Fabrice Legeai, Bruce Thomas, Laurent Viau, Denis Scala, Francois Artiguenave. GAP department seminar, Batz-sur-mer, France, 2006 [Download ppt : 18313 Ko]

      GnpGenome : the Genoplante genomic database. Cyril Pommier, Fabrice Legeai, Isabelle Luyten, Delphine Steinbach-Samson, Francois Artiguenave, Bruce Thomas, Déa Giardella, Nicolas Sajot, Denis Scala, Frédéric Potier, Laurent Viau. GAP department seminar, Batz-sur-mer, France, 2006 [Download ppt : 5263 Ko]

      GnpSNP : a database for storing polymorphism data. Frédéric Sapet, Erik Kimmel, Fabienne Granier, Delphine-Steinbach-Samson, Nicolas Grimault, Farid Chétouani, Delphine Grando, Jean-Baptiste Guidier, Frédéric Potier, Jack Van-Handenhove, Laurent Viau, Francois Artiguenave, Dominique Brunel.GAP department seminar, Batz-sur-mer, France, 2006 [Download ppt : 12969 Ko]

      Platform Engineering and WEB servers maintenance. Sébastien Reboux, Frédéric Sapet, Simon Vallet, Bruno Houis, Isabelle Luyten, Aymeric Duclert, Fabrice Legeai, Delphine Samson, Francois Artiguenave. GAP department seminar, Batz-sur-mer, France, 2006 [Download ppt : 5223 Ko]

      GnpIS : Towards an integrated system around plant genomes. Emmanuelle Karsenty, Delphine Samson, Erik Kimmel, Farid Chétouani, Frédéric Sapet, Michael Alaux, Fabrice Legeai, Cyril Pommier, Sébastien Reboux, Cédric Bouttes, Guillaume Kerboul, Bruce Thomas, Eric Perche, Nicolas Sajot, Laurent Viau, Denis Scala, Francois Artiguenave. GAP department seminar, Batz-sur-mer, France, 2006 [Download ppt : 7296 Ko]

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Year 2005

  • International

    • ACL

      • Expressed sequence tags from the phytopathogenic fungus Botrytis cinerea. Viaud M., Legeai F., Pradier J.M., Brygoo Y., Bitton F., Weissenbach J., Brunet-Simon A., Duclert A., Fortini D., Lebrun I., Le PĂŞcheur P., Gioti A., Giraud C., Halary S., Samson D., Levis C. Eur J Plant Path 111:139-146.

      Gene identification in the oomycete plant pathogen Phytophthora parasitica during in vitro growth through expressed sequence tags (ESTs). Panabieres, F., J. Amselem, E. Galiana and J.-Y. LeBerre (2005). Fung. Genet. Biol. 42(7): 611-623.

      Linkage Mapping of 1454 New Maize Candidate Gene Loci. Falque M, Décousset L, Dervins D, Jacob AM, Joets J, Martinant JP, Raffoux X, Ribière N, Ridel C, Samson D, Charcosset A, Murigneux A, 2005, Genetics, 170, 1957-1966

    • ACT

      • BioFloWeb : A generic BioMoby web services aggregator. Durand S, Legeai F, Ernst R, Schoof H. Estonia Society for Bioinformatics of the Nordic countries (Socbin) conference 2005

    • COM (Talks)

      • Structural annotation. J. Amselem, M. Choquer, A. Couloux, S. Fillinger, E. Fournier, C. Giraud, F. Legeai, C. Levis, C. Pommier, J.M. Pradier, E. Quevillon, B. SĂ©gurens, A. Simon, M. Viaud, P. Wincker & M.H. Lebrun, Botrytis genome annotation meeting, october 2005, (Keiserslautern, Allemagne)

    • COM (Posters)

      • GnpMap, an environment for genetic/physical map data management, visualization and comparative analysis. Albini G., Chetouani F., RouillĂ© S., Karsenty E., Thomas B., Legeai F., Samson D., Pereira L., Arcade A., Joets J., Scala D., Viara E., Barillot E.,Duclert A. The Fourth International Conference on Bioinformatics of Genome Regulation and Structure - [Download ppt : 739 Ko]

  • National

    • COM (Posters)

      • Proteomis/GnpProt, une base de donnĂ©es protĂ©omique intĂ©grĂ©e dans un système d'informations dĂ©diĂ© Ă  la gĂ©nomique vĂ©gĂ©tale et un outil d'analyse des protĂ©omes. Bouttes C, Hotelier T, Samson D, ChĂ©touani F, Rossignol M. JOBIM 2005 Lyon France-[Download pdf : 215 Ko]

      GnpArray : the Genoplante expression database. Kimmel E, Kerboul G, Sapet F, Perche E, Simon A, Philippe C, Thomas B, Bourot S, Chétouani F, Samson D, Duclert A. JOBIM 2005 Lyon France

      Towards an integrated system around plant genomes. Samson D, Chétouani F, Legeai F, Kimmel E, Karsenty E, Sapet F, Alaux M, Kerboul G, Granier F, Larmande P, Thomas B, Falque M, Perche E, Sajot N, Giardella D, Bouttes C, Chataigner V, Pommier C, Amselem J, Houis B, Reboux S, Vallet S, Mignon D, Scala D, James E, Duclert A. JOBIM 2005 Lyon France

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Year 2004

  • International

    • ACL

      • Annotated expressed sequence tags for studies of the regulation of reproductive modes in aphids. Tagu D, Prunier-Leterme N, Legeai F, Gauthier JP, Duclert A, Sabater-Munoz B, Bonhomme J, Simon JC. Insect Biochem Mol Biol 34:809-22. PMID: 15262285

      Study of simple sequence repeat (SSR) markers from wheat expressed sequence tags (ESTs). Nicot N, Chiquet V, Gandon B, Amilhat L, Legeai F, Leroy P, Bernard M, Sourdille P. Theor Appl Genet 109(4):800-5. PMID: 15146317

      Large-scale identification of genes in the fungus Hebeloma cylindrosporum paves the way to molecular analyses of ectomycorrhizal symbiosis. Lambilliotte R., Cooke R., Samson D., Fizames C., Gaymard F., Plassard C., Tatry M.V., Berger C., Laudié M., Legeai F., Karsenty E., Delseny M., Zimmermann S., Sentenac H. New Phytologist 164: 505-513.

    • INV

      • Bioinformatics platform engineering project. Aymeric Duclert, Genoplante seminar, Lyon, France 2004

    • COM (Posters)

      • GpiIS : Towards an integrated information system around Plant genomes. Samson D, Legeai F, Albini G, Chetouani F, Karsenty E, Thomas B, Kimmel E, Rouille S, Grando D, Luyten I, Joets J, Falque M, Chataigner M, Kerboul G, Perche E, Sajot N, Bouttes C, l'Hotelier T, Sapet F, Alaux M, Gigonzac O, Scala D, James E, and Duclert A. ISMB2004/ECCB'2004 International Conference on Computational Biology - Abstract

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Year 2003

  • International

    • ACL

      • Genoplante-Info (GPI): a collection of databases and bioinformatics resssources for plant genomics. Samson D, Legeai F, Karsenty E, Reboux S, Veyrieras JP, Just J and Barillot E Nucleic Acids Res. 2003 Jan 1;31(1):179-82 PMID: 12519976

    • INV

      • Transversal bioinformatics projects. Delphine Steinbach-Samson, Genoplante seminar, Poitiers 2003

    • COM (Posters)

      • An environment for genetic/physical map storage, visualization and comparative analysis. Albini G, Chetouani F, RouillĂ© S, Karsenty E, Thomas B, Legeai F, Samson D, Pereira L, Arcade A, Joets J, Scala D, Viara E, Barillot E and Duclert A. ECCB'2003 European Conference on Computational Biology, Paris France> Abstract

      Bellerophon : Graph analysis for improved EST clustering. Just J, Halary S, Barillot E, Legeai F and Duclert A ECCB'2003 European Conference on Computational Biology, Paris France. Abstract

      ADEL : Analysis of the Distribution of ESTs in cDNA Libraries. Veyrieras JB, Créno S, Legeai F, Barillot E and Duclert A ECCB2003 European Conference on Computational Biology, Paris France. Abstract [Download pdf : 588 Ko]

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Last updated Fri, 05 Feb 2010