Laurent Noé
Maître de conférences
CNU : SECTION 27 - INFORMATIQUE
Laboratoire / équipe
Contact
laurent.noe[chez]univ-lille[point].fr
+33 3 28 77 85 66 / +33 3 28 77 84 66
207 (Bâtiment M3 extension) ou Bâtiment Esprit
Publications
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"citationFull_s":"Quentin Bonenfant, Laurent Noé, Hélène Touzet. Porechop_ABI: discovering unknown adapters in Oxford Nanopore Technology sequencing reads for downstream trimming. <i>Bioinformatics Advances</i>, 2023, <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioadv/vbac085\">⟨10.1093/bioadv/vbac085⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03932719\">⟨hal-03932719⟩</a>",
"title_s":["Porechop_ABI: discovering unknown adapters in Oxford Nanopore Technology sequencing reads for downstream trimming"],
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"citationFull_s":"Quentin Bonenfant, Laurent Noé, Hélène Touzet. Porechop_ABI: discovering unknown adapters in ONT sequencing reads for downstream trimming. 2022. <a target=\"_blank\" href=\"https://hal.science/hal-03865464\">⟨hal-03865464⟩</a>",
"title_s":["Porechop_ABI: discovering unknown adapters in ONT sequencing reads for downstream trimming"],
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"Laurent Noé",
"Hélène Touzet"],
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"citationRef_s":"<i>From Sequences to Graphs: Discrete Methods and Structures for Bioinformatics</i>, 1, Wiley, 2022, <a target=\"_blank\" href=\"https://dx.doi.org/10.1002/9781394169641.ch3\">⟨10.1002/9781394169641.ch3⟩</a>",
"citationFull_s":"Laurent Noé. Sequence Alignment. <i>From Sequences to Graphs: Discrete Methods and Structures for Bioinformatics</i>, 1, Wiley, 2022, <a target=\"_blank\" href=\"https://dx.doi.org/10.1002/9781394169641.ch3\">⟨10.1002/9781394169641.ch3⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03932710\">⟨hal-03932710⟩</a>",
"title_s":["Sequence Alignment"],
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"citationRef_s":"<i>Bioinformatics</i>, 2020, <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/btaa1054\">⟨10.1093/bioinformatics/btaa1054⟩</a>",
"citationFull_s":"Martin Frith, Laurent Noé, Gregory Kucherov. Minimally-overlapping words for sequence similarity search. <i>Bioinformatics</i>, 2020, <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/btaa1054\">⟨10.1093/bioinformatics/btaa1054⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-03087470\">⟨hal-03087470⟩</a>",
"title_s":["Minimally-overlapping words for sequence similarity search"],
"authFullName_s":["Martin Frith",
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"Gregory Kucherov"],
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"citationFull_s":"Martin Frith, Laurent Noé, Gregory Kucherov. Minimally-overlapping words for sequence similarity search. 2020. <a target=\"_blank\" href=\"https://hal.science/hal-03049398\">⟨hal-03049398⟩</a>",
"title_s":["Minimally-overlapping words for sequence similarity search"],
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"citationRef_s":"<i>Journal of Computational Biology</i>, 2020, 27 (2), pp.223-233. <a target=\"_blank\" href=\"https://dx.doi.org/10.1089/cmb.2019.0298\">⟨10.1089/cmb.2019.0298⟩</a>",
"citationFull_s":"Enrico Petrucci, Laurent Noé, Cinzia Pizzi, Matteo Comin. Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k -mer Hashing. <i>Journal of Computational Biology</i>, 2020, 27 (2), pp.223-233. <a target=\"_blank\" href=\"https://dx.doi.org/10.1089/cmb.2019.0298\">⟨10.1089/cmb.2019.0298⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-02910076\">⟨hal-02910076⟩</a>",
"title_s":["Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k -mer Hashing"],
"authFullName_s":["Enrico Petrucci",
"Laurent Noé",
"Cinzia Pizzi",
"Matteo Comin"],
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"citationFull_s":"Enrico Petrucci, Laurent Noé, Cinzia Pizzi, Matteo Comin. Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing. <i>15th International Symposium on Bioinformatics Research and Applications (ISBRA)</i>, Jun 2019, Barcelona, Spain. pp.208-219, <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/978-3-030-20242-2_18\">⟨10.1007/978-3-030-20242-2_18⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-02146404\">⟨hal-02146404⟩</a>",
"title_s":["Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing"],
"authFullName_s":["Enrico Petrucci",
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"Matteo Comin"],
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"citationRef_s":"<i>BMC Bioinformatics</i>, 2018, 19 (1), <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s12859-018-2215-1\">⟨10.1186/s12859-018-2215-1⟩</a>",
"citationFull_s":"Chadi Saad, Laurent Noé, Hugues Richard, Julie Leclerc, Marie-Pierre Buisine, et al.. DiNAMO: highly sensitive DNA motif discovery in high-throughput sequencing data. <i>BMC Bioinformatics</i>, 2018, 19 (1), <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s12859-018-2215-1\">⟨10.1186/s12859-018-2215-1⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01881466\">⟨hal-01881466⟩</a>",
"title_s":["DiNAMO: highly sensitive DNA motif discovery in high-throughput sequencing data"],
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"Laurent Noé",
"Hugues Richard",
"Julie Leclerc",
"Marie-Pierre Buisine",
"Hélène Touzet",
"Martin Figeac"],
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"citationRef_s":"<i>JOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques</i>, Jul 2017, Lille, France",
"citationFull_s":"Chadi Saad, Laurent Noé, Hugues Richard, Julie Leclerc, Marie-Pierre Buisine, et al.. DiNAMO: Exact method for degenerate IUPAC motifs discovery, characterization of sequence-specific errors. <i>JOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques</i>, Jul 2017, Lille, France. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01574630\">⟨hal-01574630⟩</a>",
"title_s":["DiNAMO: Exact method for degenerate IUPAC motifs discovery, characterization of sequence-specific errors"],
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"Laurent Noé",
"Hugues Richard",
"Julie Leclerc",
"Marie-Pierre Buisine",
"Helene Touzet",
"Martin Figeac"],
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"citationRef_s":"<i>Algorithms for Molecular Biology</i>, 2017, 12 (1), <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s13015-017-0092-1\">⟨10.1186/s13015-017-0092-1⟩</a>",
"citationFull_s":"Laurent Noé. Best hits of 11110110111: model-free selection and parameter-free sensitivity calculation of spaced seeds. <i>Algorithms for Molecular Biology</i>, 2017, 12 (1), <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s13015-017-0092-1\">⟨10.1186/s13015-017-0092-1⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01467970\">⟨hal-01467970⟩</a>",
"title_s":["Best hits of 11110110111: model-free selection and parameter-free sensitivity calculation of spaced seeds"],
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"citationRef_s":"<i>Annals of the Institute of Statistical Mathematics</i>, 2017, 69 (1), pp.231--248. <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/s10463-015-0540-y\">⟨10.1007/s10463-015-0540-y⟩</a>",
"citationFull_s":"Donald E. K. Martin, Laurent Noé. Faster exact distributions of pattern statistics through sequential elimination of states. <i>Annals of the Institute of Statistical Mathematics</i>, 2017, 69 (1), pp.231--248. <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/s10463-015-0540-y\">⟨10.1007/s10463-015-0540-y⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01237045\">⟨hal-01237045⟩</a>",
"title_s":["Faster exact distributions of pattern statistics through sequential elimination of states"],
"authFullName_s":["Donald E. K. Martin",
"Laurent Noé"],
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"citationRef_s":"<i>Journal of Cheminformatics</i>, 2015, 7, <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s13321-015-0111-5\">⟨10.1186/s13321-015-0111-5⟩</a>",
"citationFull_s":"Yoann Dufresne, Laurent Noé, Valérie Leclère, Maude Pupin. Smiles2Monomers: a link between chemical and biological structures for polymers. <i>Journal of Cheminformatics</i>, 2015, 7, <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/s13321-015-0111-5\">⟨10.1186/s13321-015-0111-5⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01250619\">⟨hal-01250619⟩</a>",
"title_s":["Smiles2Monomers: a link between chemical and biological structures for polymers"],
"authFullName_s":["Yoann Dufresne",
"Laurent Noé",
"Valérie Leclère",
"Maude Pupin"],
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"citationRef_s":"<i>Nucleic Acids Research</i>, 2015, <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/nar/gkv1143\">⟨10.1093/nar/gkv1143⟩</a>",
"citationFull_s":"Areski Flissi, Yoann Dufresne, Juraj Michalik, Laurie Tonon, Stéphane Janot, et al.. Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing. <i>Nucleic Acids Research</i>, 2015, <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/nar/gkv1143\">⟨10.1093/nar/gkv1143⟩</a>. <a target=\"_blank\" href=\"https://hal.science/hal-01235996\">⟨hal-01235996⟩</a>",
"title_s":["Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing"],
"authFullName_s":["Areski Flissi",
"Yoann Dufresne",
"Juraj Michalik",
"Laurie Tonon",
"Stéphane Janot",
"Laurent Noé",
"Philippe Jacques",
"Valérie Leclère",
"Maude Pupin"],
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"citationRef_s":"<i>Methods in Molecular Biology</i>, 1269, Springer, pp.279-291, 2015, RNA Bioinformatics, 978-1-4939-2290-1. <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/978-1-4939-2291-8_17\">⟨10.1007/978-1-4939-2291-8_17⟩</a>",
"citationFull_s":"Evguenia Kopylova, Laurent Noé, Corinne da Silva, Jean-Frédéric Berthelot, Adriana A. Alberti, et al.. Deciphering metatranscriptomic data. <i>Methods in Molecular Biology</i>, 1269, Springer, pp.279-291, 2015, RNA Bioinformatics, 978-1-4939-2290-1. <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/978-1-4939-2291-8_17\">⟨10.1007/978-1-4939-2291-8_17⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01104015\">⟨hal-01104015⟩</a>",
"title_s":["Deciphering metatranscriptomic data"],
"authFullName_s":["Evguenia Kopylova",
"Laurent Noé",
"Corinne da Silva",
"Jean-Frédéric Berthelot",
"Adriana A. Alberti",
"Jean-Marc Aury",
"Helene Touzet"],
"halId_s":"hal-01104015",
"docType_s":"COUV",
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"citationRef_s":"<i>Journal of Computational Biology</i>, 2014, 21 (12), pp.28. <a target=\"_blank\" href=\"https://dx.doi.org/10.1089/cmb.2014.0173\">⟨10.1089/cmb.2014.0173⟩</a>",
"citationFull_s":"Laurent Noé, Donald E. K. Martin. A Coverage Criterion for Spaced Seeds and Its Applications to Support Vector Machine String Kernels and $k$-Mer Distances. <i>Journal of Computational Biology</i>, 2014, 21 (12), pp.28. <a target=\"_blank\" href=\"https://dx.doi.org/10.1089/cmb.2014.0173\">⟨10.1089/cmb.2014.0173⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-01083204\">⟨hal-01083204⟩</a>",
"title_s":["A Coverage Criterion for Spaced Seeds and Its Applications to Support Vector Machine String Kernels and $k$-Mer Distances"],
"authFullName_s":["Laurent Noé",
"Donald E. K. Martin"],
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"citationRef_s":"<i>Workshop on Recent Computational Advances in Metagenomics, ECCB 2014</i>, Sep 2014, Strasbourg, France",
"citationFull_s":"Evguenia Kopylova, Laurent Noé, Pierre Pericard, Mikaël Salson, Hélène Touzet. SortMeRNA 2: ribosomal RNA classification for taxonomic assignation. <i>Workshop on Recent Computational Advances in Metagenomics, ECCB 2014</i>, Sep 2014, Strasbourg, France. <a target=\"_blank\" href=\"https://hal.science/hal-01094011\">⟨hal-01094011⟩</a>",
"title_s":["SortMeRNA 2: ribosomal RNA classification for taxonomic assignation"],
"authFullName_s":["Evguenia Kopylova",
"Laurent Noé",
"Pierre Pericard",
"Mikaël Salson",
"Hélène Touzet"],
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"citationRef_s":"<i>Nucleic Acids Research</i>, 2014, 42 (7), pp.e59. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/nar/gku104\">⟨10.1093/nar/gku104⟩</a>",
"citationFull_s":"Martin Frith, Laurent Noé. Improved search heuristics find 20 000 new alignments between human and mouse genomes.. <i>Nucleic Acids Research</i>, 2014, 42 (7), pp.e59. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/nar/gku104\">⟨10.1093/nar/gku104⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00958207\">⟨hal-00958207⟩</a>",
"title_s":["Improved search heuristics find 20 000 new alignments between human and mouse genomes."],
"authFullName_s":["Martin Frith",
"Laurent Noé"],
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"citationRef_s":"<i>JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques</i>, Jul 2013, Toulouse, France. pp.143-150",
"citationFull_s":"Yoann Dufresne, Valérie Leclère, Philippe Jacques, Laurent Noé, Maude Pupin. Non Ribosomal Peptides : A monomeric puzzle. <i>JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques</i>, Jul 2013, Toulouse, France. pp.143-150. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00843827\">⟨hal-00843827⟩</a>",
"title_s":["Non Ribosomal Peptides : A monomeric puzzle"],
"authFullName_s":["Yoann Dufresne",
"Valérie Leclère",
"Philippe Jacques",
"Laurent Noé",
"Maude Pupin"],
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"citationRef_s":"<i>Bioinformatics</i>, 2012, 28 (24), pp.3211-3217. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/bts611\">⟨10.1093/bioinformatics/bts611⟩</a>",
"citationFull_s":"Evguenia Kopylova, Laurent Noé, Héléne Touzet. SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data.. <i>Bioinformatics</i>, 2012, 28 (24), pp.3211-3217. <a target=\"_blank\" href=\"https://dx.doi.org/10.1093/bioinformatics/bts611\">⟨10.1093/bioinformatics/bts611⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00748990\">⟨hal-00748990⟩</a>",
"title_s":["SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data."],
"authFullName_s":["Evguenia Kopylova",
"Laurent Noé",
"Héléne Touzet"],
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"citationRef_s":"<i>JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques - 2012</i>, Jul 2012, Rennes, France",
"citationFull_s":"Evguenia Kopylova, Laurent Noé, Helene Touzet. SortMeRNA: a new software to filter total RNA for metatranscriptomic or RNA analysis. <i>JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques - 2012</i>, Jul 2012, Rennes, France. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00763792\">⟨hal-00763792⟩</a>",
"title_s":["SortMeRNA: a new software to filter total RNA for metatranscriptomic or RNA analysis"],
"authFullName_s":["Evguenia Kopylova",
"Laurent Noé",
"Helene Touzet"],
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"citationRef_s":"<i>Bulletin of the Polish Academy of Sciences: Technical Sciences</i>, 2012, 60 (3), pp.495-505. <a target=\"_blank\" href=\"https://dx.doi.org/10.2478/v10175-012-0063-0\">⟨10.2478/v10175-012-0063-0⟩</a>",
"citationFull_s":"Michal Startek, Slawomir Lasota, Maciej Sykulski, Adam Bulak, Laurent Noé, et al.. Efficient alternatives to PSI-BLAST. <i>Bulletin of the Polish Academy of Sciences: Technical Sciences</i>, 2012, 60 (3), pp.495-505. <a target=\"_blank\" href=\"https://dx.doi.org/10.2478/v10175-012-0063-0\">⟨10.2478/v10175-012-0063-0⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00749016\">⟨hal-00749016⟩</a>",
"title_s":["Efficient alternatives to PSI-BLAST"],
"authFullName_s":["Michal Startek",
"Slawomir Lasota",
"Maciej Sykulski",
"Adam Bulak",
"Laurent Noé",
"Gregory Kucherov",
"Anna Gambin"],
"halId_s":"hal-00749016",
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"citationRef_s":"<i>Bioinformatics 2011 - International Conference on Bioinformatics Models, Methods and Algorithms</i>, Jan 2011, Rome, Italy. pp.149-158, <a target=\"_blank\" href=\"https://dx.doi.org/10.5220/0003147601490158\">⟨10.5220/0003147601490158⟩</a>",
"citationFull_s":"Anna Gambin, Slawomir Lasota, Michal Startek, Maciej Sykulski, Laurent Noé, et al.. Subset seed extension to Protein BLAST. <i>Bioinformatics 2011 - International Conference on Bioinformatics Models, Methods and Algorithms</i>, Jan 2011, Rome, Italy. pp.149-158, <a target=\"_blank\" href=\"https://dx.doi.org/10.5220/0003147601490158\">⟨10.5220/0003147601490158⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/inria-00609791\">⟨inria-00609791⟩</a>",
"title_s":["Subset seed extension to Protein BLAST"],
"authFullName_s":["Anna Gambin",
"Slawomir Lasota",
"Michal Startek",
"Maciej Sykulski",
"Laurent Noé",
"Gregory Kucherov"],
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"producedDateY_i":2011},
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"citationRef_s":"<i>RECOMB</i>, Aug 2010, Lisbon, Portugal. pp.384-396, <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/978-3-642-12683-3_25\">⟨10.1007/978-3-642-12683-3_25⟩</a>",
"citationFull_s":"Laurent Noé, Marta L. Gîrdea, Gregory Kucherov. Seed design framework for mapping SOLiD reads. <i>RECOMB</i>, Aug 2010, Lisbon, Portugal. pp.384-396, <a target=\"_blank\" href=\"https://dx.doi.org/10.1007/978-3-642-12683-3_25\">⟨10.1007/978-3-642-12683-3_25⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/inria-00484642\">⟨inria-00484642⟩</a>",
"title_s":["Seed design framework for mapping SOLiD reads"],
"authFullName_s":["Laurent Noé",
"Marta L. Gîrdea",
"Gregory Kucherov"],
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"citationRef_s":"<i>Algorithms for Molecular Biology</i>, 2010, 5 (1), pp.6. <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/1748-7188-5-6\">⟨10.1186/1748-7188-5-6⟩</a>",
"citationFull_s":"Marta Gîrdea, Laurent Noé, Gregory Kucherov. Back-translation for discovering distant protein homologies in the presence of frameshift mutations. <i>Algorithms for Molecular Biology</i>, 2010, 5 (1), pp.6. <a target=\"_blank\" href=\"https://dx.doi.org/10.1186/1748-7188-5-6\">⟨10.1186/1748-7188-5-6⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/hal-00784444\">⟨hal-00784444⟩</a>",
"title_s":["Back-translation for discovering distant protein homologies in the presence of frameshift mutations"],
"authFullName_s":["Marta Gîrdea",
"Laurent Noé",
"Gregory Kucherov"],
"halId_s":"hal-00784444",
"docType_s":"ART",
"producedDateY_i":2010},
{
"citationRef_s":"<i>Advances in Bioinformatics</i>, 2010, <a target=\"_blank\" href=\"https://dx.doi.org/10.1155/2010/708501\">⟨10.1155/2010/708501⟩</a>",
"citationFull_s":"Laurent Noé, Marta Gîrdea, Gregory Kucherov. Designing Efficient Spaced Seeds for SOLiD Read Mapping.. <i>Advances in Bioinformatics</i>, 2010, <a target=\"_blank\" href=\"https://dx.doi.org/10.1155/2010/708501\">⟨10.1155/2010/708501⟩</a>. <a target=\"_blank\" href=\"https://inria.hal.science/inria-00527029\">⟨inria-00527029⟩</a>",
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"citationFull_s":"Laurent Noé. Recherche de répétitions distantes dans les séquences. [Stage] A02-R-296 || noe02b, 2002, 30 p. <a target=\"_blank\" href=\"https://hal.inria.fr/inria-00100902\">⟨inria-00100902⟩</a>",
"title_s":["Recherche de répétitions distantes dans les séquences"],
"authFullName_s":["Laurent Noé"],
"halId_s":"inria-00100902",
"docType_s":"REPORT",
"producedDateY_i":2002}]
}}