User:Timothee Flutre: Difference between revisions

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* Timothée Flutre
* Timothée Flutre
* Affiliation 1: University of Chicago (Department of Human Genetics)
* Affiliation 1: University of Chicago (Department of Human Genetics), CLSC, 5801 S Ellis Ave, Chicago, IL 60637, USA
* Address 1: CLSC, 5801 S Ellis Ave, Chicago, IL 60637, USA
* Affiliation 2: INRA (Department of Plant Breeding), URGI, Route de Saint Cyr, Versailles, 78026, France
* Affiliation 2: INRA (Department of Plant Breeding)
* Address 2: URGI, Route de Saint Cyr, Versailles, 78026, France
* [[Special:Emailuser/Timothee Flutre|Email me through OpenWetWare]]
* [[Special:Emailuser/Timothee Flutre|Email me through OpenWetWare]]


I am doing a postdoc with [http://stephenslab.uchicago.edu/ Matthew Stephens] at the University of Chicago.  I learned about [[OpenWetWare]] thanks to [http://igem.org/Team.cgi?id=18 friends] participating in iGEM a few years ago, and I've joined because OpenWetWare seems to be a great project, and I like the idea of promoting more openness in science. Thus I would like to give it a try.
I am doing a postdoc with [http://stephenslab.uchicago.edu/ Matthew Stephens] at the University of Chicago.  I learned about [[OpenWetWare]] thanks to [http://igem.org/Team.cgi?id=18 friends] participating in [http://igem.org iGEM] a few years ago. I joined OpenWetWare because it seems to be a great project, and I like the idea of promoting more openness in science.


==Education==
==Education==
Line 22: Line 20:


==Publications==
==Publications==
* ''TriAnnot: A versatile and high performance pipeline for the automated annotation of plant genomes.''
*: Leroy P, Guilhot N, Sakai H, Bernard A, Choulet F, Theil S, Reboux S, Amano N, '''Flutre T''', Pelegrin C, Ohyanagi H, Seidel M, Giacomoni F, Reichstadt M, Alaux M, Gicquello E, Legeai F, Cerutti L, Numa H, Tanaka T, Mayer K, Itoh T, Quesneville H, Feuillet C.
*: Frontiers in Plant Science. 2012 ([http://dx.doi.org/10.3389/fpls.2012.00005 DOI])
* ''In search of lost trajectories: Recovering the diversification of transposable elements.''
* ''In search of lost trajectories: Recovering the diversification of transposable elements.''
*: '''Flutre T''', Permal E, Quesneville H.
*: '''Flutre T''', Permal E, Quesneville H.
*: Mob Genet Elements. 2011 (PMID=[http://www.ncbi.nlm.nih.gov/pubmed/22016865 22016865])
*: Mob Genet Elements. 2011 ([http://dx.doi.org/10.4161/mge.1.2.17094 DOI], [http://www.ncbi.nlm.nih.gov/pubmed/22016865 Pubmed])


* ''Considering transposable element diversification in de novo annotation approaches.''
* ''Considering transposable element diversification in de novo annotation approaches.''
*: '''Flutre T''', Duprat E, Feuillet C, Quesneville H.
*: '''Flutre T''', Duprat E, Feuillet C, Quesneville H.
*: PLoS One. 2011 (PMID=[http://www.ncbi.nlm.nih.gov/pubmed/21304975 21304975])
*: PLoS One. 2011 ([http://dx.doi.org/10.1371/journal.pone.0016526 DOI], [http://www.ncbi.nlm.nih.gov/pubmed/21304975 Pubmed])


* ''Extensive synteny conservation of holocentric chromosomes in Lepidoptera despite high rates of local genome rearrangements.''
* ''Extensive synteny conservation of holocentric chromosomes in Lepidoptera despite high rates of local genome rearrangements.''
*: d'Alençon E, Sezutsu H, Legeai F, Permal E, Bernard-Samain S, Gimenez S, Gagneur C, Cousserans F, Shimomura M, Brun-Barale A, '''Flutre T''', Couloux A, East P, Gordon K, Mita K, Quesneville H, Fournier P, Feyereisen R.
*: d'Alençon E, Sezutsu H, Legeai F, Permal E, Bernard-Samain S, Gimenez S, Gagneur C, Cousserans F, Shimomura M, Brun-Barale A, '''Flutre T''', Couloux A, East P, Gordon K, Mita K, Quesneville H, Fournier P, Feyereisen R.
*: Proc Natl Acad Sci U S A. 2010 (PMID=[http://www.ncbi.nlm.nih.gov/pubmed/20388903 20388903])
*: Proc Natl Acad Sci U S A. 2010 ([http://dx.doi.org/10.1073/pnas.0910413107 DOI], [http://www.ncbi.nlm.nih.gov/pubmed/20388903 Pubmed])


* ''Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita.''
* ''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.
*: 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 (PMID=[http://www.ncbi.nlm.nih.gov/pubmed/18660804 18660804])
*: Nat. Biotechnol. 2008 ([http://dx.doi.org/10.1038/nbt.1482 DOI], [http://www.ncbi.nlm.nih.gov/pubmed/18660804 Pubmed])


==My useful links==
==My useful links==
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* bibliography: [http://www.citeulike.org/user/timflutre/ CiteULike]
* bibliography: [http://www.citeulike.org/user/timflutre/ CiteULike]
* labs: [http://urgi.versailles.inra.fr/ PhD], [http://stephenslab.uchicago.edu/ postdoc]
* labs: [http://urgi.versailles.inra.fr/ PhD], [http://stephenslab.uchicago.edu/ postdoc]
 
* volunteering: [http://www.paris-montagne.org/ Paris-Montagne], [http://www.scientificredcards.org/ Scientific Red Cards]
==Other useful links==
*[[OpenWetWare:Welcome|Introductory tutorial]]
*[[Help|OpenWetWare help pages]]

Revision as of 12:17, 26 February 2012

Contact Info

Timothee Flutre (an artistic interpretation)
  • Timothée Flutre
  • Affiliation 1: University of Chicago (Department of Human Genetics), CLSC, 5801 S Ellis Ave, Chicago, IL 60637, USA
  • Affiliation 2: INRA (Department of Plant Breeding), URGI, Route de Saint Cyr, Versailles, 78026, France
  • Email me through OpenWetWare

I am doing a postdoc with Matthew Stephens at the University of Chicago. I learned about OpenWetWare thanks to friends participating in iGEM a few years ago. I joined OpenWetWare because it seems to be a great project, and I like the idea of promoting more openness in science.

Education

  • 2007-2010, PhD, Université Paris Diderot (FDV)
  • 2006-2007, MS, Université Paris Diderot (AIV)
  • 2003-2007, BS+MS, AgroParisTech

Research interests

  1. Genetics and genomics
  2. Transposable elements
  3. Statistical modeling (especially Bayesian)

Publications

  • TriAnnot: A versatile and high performance pipeline for the automated annotation of plant genomes.
    Leroy P, Guilhot N, Sakai H, Bernard A, Choulet F, Theil S, Reboux S, Amano N, Flutre T, Pelegrin C, Ohyanagi H, Seidel M, Giacomoni F, Reichstadt M, Alaux M, Gicquello E, Legeai F, Cerutti L, Numa H, Tanaka T, Mayer K, Itoh T, Quesneville H, Feuillet C.
    Frontiers in Plant Science. 2012 (DOI)
  • In search of lost trajectories: Recovering the diversification of transposable elements.
    Flutre T, Permal E, Quesneville H.
    Mob Genet Elements. 2011 (DOI, Pubmed)
  • Considering transposable element diversification in de novo annotation approaches.
    Flutre T, Duprat E, Feuillet C, Quesneville H.
    PLoS One. 2011 (DOI, Pubmed)
  • Extensive synteny conservation of holocentric chromosomes in Lepidoptera despite high rates of local genome rearrangements.
    d'Alençon E, Sezutsu H, Legeai F, Permal E, Bernard-Samain S, Gimenez S, Gagneur C, Cousserans F, Shimomura M, Brun-Barale A, Flutre T, Couloux A, East P, Gordon K, Mita K, Quesneville H, Fournier P, Feyereisen R.
    Proc Natl Acad Sci U S A. 2010 (DOI, Pubmed)
  • 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 (DOI, Pubmed)

My useful links

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