2010.bib

@comment{{This file has been generated by bib2bib 1.97}}
@comment{{Command line: bib2bib -oc cite2010 -ob 2010.bib 2010.bib}}
@inbook{VarreSchmidtJanotGiraud,
  author = {Jean-St{\'e}phane Varr{\'e} and Bertil Schmidt and St{\'e}phane Janot and Mathieu Giraud},
  chapter = {Manycore High-Performance Computing in Bioinformatics},
  title = {Advances in Genomic Sequence Analysis and Pattern Discovery},
  publisher = {World Scientific},
  year = {2010},
  pages = {179-207},
  isbn = {978-981-4327-72-5},
  url = {http://www.worldscibooks.com/lifesci/7972.html},
  doi = {10.1142/9789814327732_0008},
  inria = {Sequoia},
  labo = {dans},
  x-pays = {SG},
  x-international-audience = {yes}
}
@inbook{Pisanti10:fast,
  author = {Nadia Pisanti and Mathieu Giraud and Pierre Peterlongo},
  chapter = {Filters and Seeds Approaches for Fast Homology Searches in Large Datasets},
  editor = {Mourad Elloumi and Albert Y. Zomaya},
  publisher = {Wiley},
  title = {Algorithms in Computational Molecular Biology: Techniques, Approaches and Applications},
  year = {2010},
  isbn = {978-0-470-50519-9},
  url = {http://eu.wiley.com/WileyCDA/WileyTitle/productCd-0470505192.html},
  doi = {10.1002/9780470892107.ch15},
  inria = {Sequoia},
  labo = {dans},
  x-pays = {IT},
  x-international-audience = {yes}
}
@article{OB-10,
  author = {A. Ouangraoua and
               A. Bergeron},
  title = {Combinatorial structure of genome rearrangements scenarios},
  journal = {Journal of Computational Biology},
  year = {2010},
  month = {September},
  volume = {2010},
  pages = {1129-1144},
  doi = {10.1089/cmb.2010.0126},
  url = {http://www.liebertonline.com/doi/full/10.1089/cmb.2010.0126},
  pdf = {http://www.liebertonline.com/doi/pdfplus/10.1089/cmb.2010.0126},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {CA},
  aeres = {ACL},
  selectif = {oui}
}
@article{CGOT-10b,
  author = {C. Chauve and
               H. Gavranovic and
               A. Ouangraoua and
               E. Tannier},
  title = {Yeast ancestral genome reconstructions: the possibilities of computational methods},
  journal = {Journal of Computational Biology},
  year = {2010},
  month = {September},
  volume = {2010},
  pages = {1097-1112},
  doi = {10.1089/cmb.2010.0092},
  url = {http://www.liebertonline.com/doi/full/10.1089/cmb.2010.0092},
  pdf = {http://www.liebertonline.com/doi/pdfplus/10.1089/cmb.2010.0092},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {CA},
  aeres = {ACL},
  selectif = {oui}
}
@article{GiraudVarreParco10,
  author = {Mathieu Giraud and Jean-St{\'e}phane Varr{\'e}},
  title = {Parallel Position Weight Matrices Algorithms},
  journal = {Parallel Computing},
  year = {2010},
  doi = {10.1016/j.parco.2010.10.001},
  url = {http://dx.doi.org/10.1016/j.parco.2010.10.001},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  aeres = {ACL},
  selectif = {oui}
}
@article{NoeGirdeaKucherovABI10,
  author = {No{\'e}, L. and G{\^i}rdea, M. and Kucherov, G.},
  title = {Designing efficient spaced seeds for {SOLiD} read mapping},
  journal = {Advances in Bioinformatics},
  year = {2010},
  month = {July},
  volume = {2010},
  pages = {ID 708501},
  doi = {10.1155/2010/708501},
  url = {http://www.hindawi.com/journals/abi/2010/708501.html},
  pdf = {http://downloads.hindawi.com/journals/abi/2010/708501.pdf},
  pubmed-url = {http://www.ncbi.nlm.nih.gov/pubmed/20936175},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {RU},
  aeres = {ACL},
  selectif = {oui}
}
@article{DarracqVarreTouzetBMC10,
  author = {Aude Darracq and Jean-St{\'e}phane Varr{\'e} and Pascal Touzet},
  title = {A scenario of mitochondrial genome evolution in maize based on rearrangement events},
  journal = {BMC Genomics},
  year = {2010},
  volume = {11},
  number = {233},
  month = {April},
  doi = {10.1186/1471-2164-11-233},
  url = {http://www.biomedcentral.com/1471-2164/11/233},
  pdf = {http://www.biomedcentral.com/content/pdf/1471-2164-11-233.pdf},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  aeres = {ACL},
  selectif = {oui}
}
@article{GirdeaNoeKucherovAMB10,
  author = {G{\^i}rdea, M. and Kucherov, G. and No{\'e}, L.},
  title = {Back-translation for discovering distant protein homologies in the presence of frameshift mutations},
  journal = {Algorithms for Molecular Biology},
  year = {2010},
  volume = {5},
  number = {6},
  month = {January},
  doi = {10.1186/1748-7188-5-6},
  url = {http://www.almob.org/content/5/1/6},
  pdf = {http://www.almob.org/content/pdf/1748-7188-5-6.pdf},
  hal-url = {http://hal.inria.fr/inria-00456458},
  pubmed-url = {http://www.ncbi.nlm.nih.gov/pubmed/20047662},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {RU},
  aeres = {ACL},
  selectif = {oui}
}
@article{TononTouzetVarreNAR10,
  title = {{TFM-Explorer:} mining cis-regulatory regions in genomes},
  shorttitle = {{TFM-Explorer}},
  url = {http://nar.oxfordjournals.org/cgi/content/abstract/38/suppl_2/W286},
  doi = {10.1093/nar/gkq473},
  pdf = {http://nar.oxfordjournals.org/cgi/reprint/38/suppl_2/W286.pdf},
  journal = {Nucleic Acids Research},
  author = {Tonon,Laurie and Touzet,H\'el\`ene and Varr\'e, Jean-St\'ephane},
  year = {2010},
  month = {June},
  volume = {38},
  number = {suppl_2},
  pages = {W286-292},
  optpubmed-url = {},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  aeres = {ACL},
  selectif = {oui}
}
@article{CabocheEtAlJbact10,
  author = {Caboche, S. and Lecl{\`e}re, V. and Pupin, M. and Kucherov, G. Jacques, P.},
  title = {Diversity of monomers in nonribosomal peptides: towards the prediction of origin and biological activity},
  journal = {Journal of bacteriology},
  year = {2010},
  month = {October},
  volume = {192},
  number = {19},
  pages = {5143-5150},
  url = {http://jb.asm.org/cgi/content/abstract/192/19/5143},
  optpubmed-url = {http://www.ncbi.nlm.nih.gov/pubmed/20693331},
  doi = {10.1128/JB.00315-10},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {RU},
  aeres = {ACL},
  selectif = {oui}
}
@inproceedings{OSC-10,
  author = {A. Ouangraoua and
               K. Swenson and
               C. Chauve
               },
  title = {An approximation algorithm for computing a parsimonious first speciation in the gene duplication model},
  booktitle = {RECOMB-Comparative Genomics, LNBI 6398},
  year = {2010},
  month = {October},
  editor = {Tannier, E.},
  volume = {6398},
  series = {Lecture Notes in Bioinformatics},
  pages = {290-302},
  inria = {Sequoia},
  doi = {10.1007/978-3-642-16181-0_24},
  x-editorial-board = {yes},
  x-proceedings = {yes},
  x-international-audience = {yes},
  selectif = {oui}
}
@inproceedings{OBS-10,
  author = {A. Ouangraoua and
               A. Bergeron and
               K. Swenson 
               },
  title = {Ultra-perfect Sorting Scenarios},
  booktitle = {RECOMB-Comparative Genomics, LNBI 6398},
  year = {2010},
  month = {October},
  editor = {Tannier, E.},
  volume = {6398},
  series = {Lecture Notes in Bioinformatics},
  pages = {50-61},
  doi = {10.1007/978-3-642-16181-0_5},
  inria = {Sequoia},
  x-editorial-board = {yes},
  x-proceedings = {yes},
  x-international-audience = {yes},
  selectif = {oui}
}
@inproceedings{Bannai10:ternary,
  author = {Hideo Bannai and Mathieu Giraud and Kazuhiko Kusano and Wataru Matsubara and Ayumi Shinohara and Jamie Simpson},
  booktitle = {Prague Stringology Conference 2010 (PSC 2010)},
  title = {The Number of Runs in a Ternary Word},
  year = {2010},
  url = {http://www.stringology.org/event/2010/p16.html},
  x-pays = {JP,AU},
  x-international-audience = {yes},
  x-proceedings = {yes}
}
@inproceedings{NoeGirdeaKucherovRECOMB10,
  author = {No{\'e}, L. and G{\^i}rdea, M. and Kucherov, G.},
  title = {Seed design framework for mapping {SOLiD} reads},
  booktitle = {Proceedings of the 14th Annual International Conference on Research in Computational Molecular Biology ({RECOMB}), April 25-28, 2010, Lisbon (Portugal)},
  pages = {384--396},
  year = {2010},
  month = {April},
  editor = {Berger, B.},
  volume = {6044},
  series = {Lecture Notes in Computer Science},
  doi = {10.1007/978-3-642-12683-3_25},
  url = {http://www.springerlink.com/content/41535x341gu34131/},
  pdf = {http://www.lifl.fr/~noe/files/pp_RECOMB10.pdf},
  postscript = {http://www.lifl.fr/~noe/files/pp_RECOMB10.ps.gz},
  eprint = {1006.2625},
  publisher = {Springer},
  inria = {Sequoia},
  labo = {dans},
  x-editorial-board = {yes},
  x-international-audience = {yes},
  x-pays = {RU},
  x-proceedings = {yes},
  aeres = {ACT},
  selectif = {oui},
  optnote = {(submitted: 176, accepted: 36, acceptance rate: 0.20)}
}
@phdthesis{darracq:tel-00833144,
  hal_id = {tel-00833144},
  url = {http://tel.archives-ouvertes.fr/tel-00833144},
  title = {{{\'E}volution des g{\'e}nomes mitochondriaux de plantes : approche de g{\'e}nomique comparative chez Zea mays et Beta vulgaris}},
  author = {Darracq, Aude},
  affiliation = {G{\'e}n{\'e}tique et {\'e}volution des populations v{\'e}g{\'e}tales - GEPV , BONSAI - INRIA Lille - Nord Europe , Laboratoire d'Informatique Fondamentale de Lille - LIFL},
  school = {Universit{\'e} Lille 1},
  type = {THESE},
  year = {2010},
  month = jul,
  pdf = {http://tel.archives-ouvertes.fr/tel-00833144/PDF/these_aude_darracq_-_copie.pdf}
}
@phdthesis{girdea:tel-00833311,
  hal_id = {tel-00833311},
  url = {http://tel.archives-ouvertes.fr/tel-00833311},
  title = {{De nouvelles m{\'e}thodes pour l'alignement des s{\'e}quences biologiques}},
  author = {G{\^\i}rdea, Marta L.},
  school = {Universit{\'e} Lille 1},
  type = {THESE},
  year = {2010},
  month = dec,
  pdf = {http://tel.archives-ouvertes.fr/tel-00833311/PDF/50376-2010-Girdea.pdf}
}

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