Laurent Noé

Identifiants chercheurs

IdHAL :

noe

ORCID :

0000-0002-1170-8376

IdRef :

093601948

arXiv :

noe_l_1

Présentation

http://cristal.univ-lille.fr/~noe

Publications

Article dans une revue (22)

Porechop_ABI: discovering unknown adapters in Oxford Nanopore Technology sequencing reads for downstream trimming Quentin Bonenfant,Laurent Noé,Hélène Touzet Bioinformatics Advances, 2022, 3 (1), pp.vbac085. ⟨10.1093/bioadv/vbac085⟩ Article dans une revue hal-03932719v1
Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k -mer Hashing Enrico Petrucci,Laurent Noé,Cinzia Pizzi,Matteo Comin Journal of Computational Biology, 2020, 27 (2), pp.223-233. ⟨10.1089/cmb.2019.0298⟩ Article dans une revue hal-02910076v1
Minimally-overlapping words for sequence similarity search Martin Frith,Laurent Noé,Gregory Kucherov Bioinformatics, 2020, ⟨10.1093/bioinformatics/btaa1054⟩ Article dans une revue hal-03087470v1
DiNAMO: highly sensitive DNA motif discovery in high-throughput sequencing data Chadi Saad,Laurent Noé,Hugues Richard,Julie Leclerc,Marie-Pierre Buisineet al. BMC Bioinformatics, 2018, 19 (1), pp.223. ⟨10.1186/s12859-018-2215-1⟩ Article dans une revue hal-01881466v1
Faster exact distributions of pattern statistics through sequential elimination of states Donald E. K. Martin,Laurent Noé Annals of the Institute of Statistical Mathematics, 2017, 69 (1), pp.231--248. ⟨10.1007/s10463-015-0540-y⟩ Article dans une revue hal-01237045v1
Best hits of 11110110111: model-free selection and parameter-free sensitivity calculation of spaced seeds Laurent Noé Algorithms for Molecular Biology, 2017, 12 (1), ⟨10.1186/s13015-017-0092-1⟩ Article dans une revue hal-01467970v1
Smiles2Monomers: a link between chemical and biological structures for polymers Yoann Dufresne,Laurent Noé,Valérie Leclère,Maude Pupin Journal of Cheminformatics, 2015, 7, ⟨10.1186/s13321-015-0111-5⟩ Article dans une revue hal-01250619v1
Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing Areski Flissi,Yoann Dufresne,Juraj Michalik,Laurie Tonon,Stéphane Janotet al. Nucleic Acids Research, 2015, ⟨10.1093/nar/gkv1143⟩ Article dans une revue hal-01235996v1
A Coverage Criterion for Spaced Seeds and Its Applications to Support Vector Machine String Kernels and $k$-Mer Distances Laurent Noé,Donald E. K. Martin Journal of Computational Biology, 2014, 21 (12), pp.28. ⟨10.1089/cmb.2014.0173⟩ Article dans une revue hal-01083204v1
Improved search heuristics find 20 000 new alignments between human and mouse genomes. Martin Frith,Laurent Noé Nucleic Acids Research, 2014, 42 (7), pp.e59. ⟨10.1093/nar/gku104⟩ Article dans une revue hal-00958207v1
SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data. Evguenia Kopylova,Laurent Noé,Héléne Touzet Bioinformatics, 2012, 28 (24), pp.3211-3217. ⟨10.1093/bioinformatics/bts611⟩ Article dans une revue hal-00748990v1
Efficient alternatives to PSI-BLAST Michal Startek,Slawomir Lasota,Maciej Sykulski,Adam Bulak,Laurent Noéet al. Bulletin of the Polish Academy of Sciences: Technical Sciences, 2012, 60 (3), pp.495-505. ⟨10.2478/v10175-012-0063-0⟩ Article dans une revue hal-00749016v1
Back-translation for discovering distant protein homologies in the presence of frameshift mutations Marta Gîrdea,Laurent Noé,Gregory Kucherov Algorithms for Molecular Biology, 2010, 5 (1), pp.6. ⟨10.1186/1748-7188-5-6⟩ Article dans une revue hal-00784444v1
Designing Efficient Spaced Seeds for SOLiD Read Mapping. Laurent Noé,Marta Gîrdea,Gregory Kucherov Advances in Bioinformatics, 2010, ⟨10.1155/2010/708501⟩ Article dans une revue inria-00527029v1
On subset seeds for protein alignment Mikhail A. Roytberg,Anna Gambin,Laurent Noé,Slawomir Lasota,Eugenia Furletovaet al. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2009, 6 (3), pp.483-494. ⟨10.1109/TCBB.2009.4⟩ Article dans une revue inria-00354773v1
Optimal neighborhood indexing for protein similarity search Pierre Peterlongo,Laurent Noé,Dominique Lavenier,van Hoa Nguyen,Gregory Kucherovet al. BMC Bioinformatics, 2008, 9 (534), ⟨10.1186/1471-2105-9-534⟩ Article dans une revue inria-00340510v1
Reconsidering the significance of genomic word frequencies. Miklós Csűrös,Laurent Noé,Gregory Kucherov Trends in Genetics, 2007, 23 (11), pp.543-6. ⟨10.1016/j.tig.2007.07.008⟩ Article dans une revue inria-00448737v1
A unifying framework for seed sensitivity and its application to subset seeds. Gregory Kucherov,Laurent Noé,Mihkail Roytberg Journal of Bioinformatics and Computational Biology, 2006, 4 (2), pp.553-69. ⟨10.1142/S0219720006001977⟩ Article dans une revue hal-00018114v2
YASS: enhancing the sensitivity of DNA similarity search. Laurent Noé,Gregory Kucherov Nucleic Acids Research, 2005, 33 (Web Server issue), pp.W540-W543. ⟨10.1093/nar/gki478⟩ Article dans une revue inria-00448742v1
Multiseed Lossless Filtration Gregory Kucherov,Laurent Noé,Mikhail A. Roytberg IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2005, 2 (1), pp.51-61. ⟨10.1109/TCBB.2005.12⟩ Article dans une revue inria-00354810v1
Multi-seed lossless filtration Gregory Kucherov,Laurent Noé,Mikhail Roytberg IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2005, 2 (1), pp.51--61. ⟨10.1109/TCBB.2005.12⟩ Article dans une revue inria-00000718v1
Improved hit criteria for DNA local alignment. Laurent Noé,Gregory Kucherov BMC Bioinformatics, 2004, 5 (149), pp.1-9. ⟨10.1186/1471-2105-5-149⟩ Article dans une revue inria-00448743v1

Communication dans un congrès (22)

Iterative Spaced Seed Hashing: Closing the Gap Between Spaced Seed Hashing and k-mer Hashing Enrico Petrucci,Laurent Noé,Cinzia Pizzi,Matteo Comin 15th International Symposium on Bioinformatics Research and Applications (ISBRA), Jun 2019, Barcelona, Spain. pp.208-219, ⟨10.1007/978-3-030-20242-2_18⟩ Communication dans un congrès hal-02146404v1
DiNAMO: Exact method for degenerate IUPAC motifs discovery, characterization of sequence-specific errors Chadi Saad,Laurent Noé,Hugues Richard,Julie Leclerc,Marie-Pierre Buisineet al. JOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2017, Lille, France Communication dans un congrès hal-01574630v1
SortMeRNA 2: ribosomal RNA classification for taxonomic assignation Evguenia Kopylova,Laurent Noé,Pierre Pericard,Mikaël Salson,Hélène Touzet Workshop on Recent Computational Advances in Metagenomics, ECCB 2014, Sep 2014, Strasbourg, France Communication dans un congrès hal-01094011v1
Non Ribosomal Peptides : A monomeric puzzle Yoann Dufresne,Valérie Leclère,Philippe Jacques,Laurent Noé,Maude Pupin JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2013, Toulouse, France. pp.143-150 Communication dans un congrès hal-00843827v1
SortMeRNA: a new software to filter total RNA for metatranscriptomic or RNA analysis Evguenia Kopylova,Laurent Noé,Helene Touzet JOBIM - Journées Ouvertes en Biologie, Informatique et Mathématiques - 2012, Jul 2012, Rennes, France Communication dans un congrès hal-00763792v1
Subset seed extension to Protein BLAST Anna Gambin,Slawomir Lasota,Michal Startek,Maciej Sykulski,Laurent Noéet al. Bioinformatics 2011 - International Conference on Bioinformatics Models, Methods and Algorithms, Jan 2011, Rome, Italy. pp.149-158, ⟨10.5220/0003147601490158⟩ Communication dans un congrès inria-00609791v1
Seed design framework for mapping SOLiD reads Laurent Noé,Marta L. Gîrdea,Gregory Kucherov RECOMB, Aug 2010, Lisbon, Portugal. pp.384-396, ⟨10.1007/978-3-642-12683-3_25⟩ Communication dans un congrès inria-00484642v1
Back-translation for discovering distant protein homologies Marta L. Gîrdea,Laurent Noé,Gregory Kucherov the 9th International Workshop in Algorithms in Bioinformatics (WABI), Sep 2009, Philadelphia, United States. pp.108-120, ⟨10.1007/978-3-642-04241-6_10⟩ Communication dans un congrès inria-00448741v1
Improved sensitivity and reliability of anchor based genome alignment Raluca Uricaru,Célia Michotey,Laurent Noé,Helene H. Chiapello,Eric Rivals JOBIM - Journées Ouvertes en Biologie Informatique Mathématiques2009 - Nantes :, Jun 2009, Nantes, France. 259 p Communication dans un congrès hal-02751358v1
Improved Sensitivity And Reliability Of Anchor Based Genome Alignment Raluca Uricaru,Célia Michotey,Laurent Noé,Hélène Chiapello,Eric Rivals JOBIM 2009 - 10es Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2009, Nantes, France. pp.31-36 Communication dans un congrès lirmm-00407215v1
Efficient seeding techniques for protein similarity search Mihkail Roytberg,Anna Gambin,Laurent Noé,Slawomir Lasota,Eugenia Furletovaet al. Proceedings of the 2nd International Conference BIRD, Jul 2008, Vienna, Austria. pp.466-478, ⟨10.1007/978-3-540-70600-7⟩ Communication dans un congrès inria-00335564v1
Protein similarity search with subset seeds on a dedicated reconfigurable hardware Pierre Peterlongo,Laurent Noé,Dominique Lavenier,Gilles Georges,Julien Jacqueset al. Parallel Bio-Computing, Sep 2007, Gdansk,, Poland Communication dans un congrès inria-00178325v1
Subset seed automaton Gregory Kucherov,Laurent Noé,Mihkail Roytberg CIAA 2007, Jul 2007, Prague, Czech Republic. pp.180-191, ⟨10.1007/978-3-540-76336-9_18⟩ Communication dans un congrès inria-00170414v1
A unifying framework for seed sensitivity and its application to subset seeds (Extended abstract) Gregory Kucherov,Laurent Noé,Mikhail Roytberg WABI, 2005, Majorca/Spain, Spain Communication dans un congrès inria-00001164v1
Recherches de motifs et de similarités en bioinformatique : modélisations, solutions logicielles et matérielles Mathieu Giraud,Laurent Noé,Gregory Kucherov,Dominique Lavenier MajecSTIC 2005 : Manifestation des Jeunes Chercheurs francophones dans les domaines des STIC, IRISA – IETR – LTSI, Nov 2005, Rennes/France, pp.18--37 Communication dans un congrès inria-00001036v1
YASS : Enhancing the sensitivity of DNA similarity search Laurent Noé,Gregory Kucherov Proceedings of the 4th International conference on Bioinformatics of Genome Regulation and Structure - BGRS'2004, Institute of Cytology and Genetics, 2004, Novosibirsk, Russia, pp.289-292 Communication dans un congrès inria-00100004v1
Estimating seed sensitivity on homogeneous alignments Gregory Kucherov,Laurent Noé,Yann Ponty 4th Symposium on Bioinformatics and bioengineering - BIBE'2004, May 2004, Taichung, Taiwan. pp.387-394, ⟨10.1109/BIBE.2004.1317369⟩ Communication dans un congrès inria-00001163v1
Improved hit criteria for DNA local alignment Laurent Noé,Gregory Kucherov Proceedings of the 5th Open Days in Biology, Computer Science and Mathematics - JOBIM'2004, 2004, Montreal, Canada, 11 p Communication dans un congrès inria-00099999v1
Computer analysis of multiple repeats in bacteria Alexey Vitreschak,Laurent Noé,Gregory Kucherov The fourth International Conference on Bioinformatics of Genome Regulation and Structure - BGRS'2004, 2004, Novosibirsk, Russia, 5 p Communication dans un congrès inria-00100088v1
Multi-seed lossless filtration (Extended abstract) Gregory Kucherov,Laurent Noé,Mikhail A. Roytberg Proceedings of the 15th Annual Symposium on Combinatorial Pattern Matching - CPM'2004, Jul 2004, Istambul, Turkey. pp.297-310, ⟨10.1007/11557067_21⟩ Communication dans un congrès inria-00001162v1
YASS : similarity search in DNA sequences Gregory Kucherov,Laurent Noé The Seventh Annual International Conference on Research in Computational Molecular Biology - RECOMB'03, Apr 2003, Berlin, Germany, 1 p Communication dans un congrès inria-00099599v1
A new method of finding similarity regions in DNA sequences Laurent Noé,Gregory Kucherov European Conference on Computational Biology - ECCB'2002, Oct 2002, Saarbrücken, Germany, pp.173-174 Communication dans un congrès inria-00100859v1

Chapitre d'ouvrage (2)

Sequence Alignment Laurent Noé From Sequences to Graphs: Discrete Methods and Structures for Bioinformatics, 3, Wiley, 2022, 9781789450668. ⟨10.1002/9781394169641.ch3⟩ Chapitre d'ouvrage hal-04304829v1
Deciphering metatranscriptomic data Evguenia Kopylova,Laurent Noé,Corinne da Silva,Jean-Frédéric Berthelot,Adriana A. Albertiet al. Methods in Molecular Biology, 1269, Springer, pp.279-291, 2015, RNA Bioinformatics, 978-1-4939-2290-1. ⟨10.1007/978-1-4939-2291-8_17⟩ Chapitre d'ouvrage hal-01104015v1

Pré-publication, Document de travail (2)

Porechop_ABI: discovering unknown adapters in ONT sequencing reads for downstream trimming Quentin Bonenfant,Laurent Noé,Hélène Touzet 2022 Pré-publication, Document de travail hal-03865464v1
Minimally-overlapping words for sequence similarity search Martin Frith,Laurent Noé,Gregory Kucherov 2020 Pré-publication, Document de travail hal-03049398v1

Rapport (4)

A unifying framework for seed sensitivity and its application to subset seeds Gregory Kucherov,Laurent Noé,Mikhail Roytberg [Research Report] RR-5374, INRIA. 2004, pp.21 Rapport (rapport de recherche) inria-00070629v1
YASS: Similarity search in DNA sequences Laurent Noé,Gregory Kucherov [Research Report] RR-4852, INRIA. 2003, pp.20 Rapport (rapport de recherche) inria-00071731v1
Estimating seed sensitivity on homogeneous alignments Gregory Kucherov,Laurent Noé,Yann Ponty [Research Report] RR-5047, INRIA. 2003, pp.17 Rapport (rapport de recherche) inria-00071536v1
Recherche de répétitions distantes dans les séquences Laurent Noé [Stage] A02-R-296 || noe02b, 2002, 30 p Rapport inria-00100902v1

Thèse (1)

Recherche de similarités dans les séquences d'ADN : modèles et algorithmes pour la conception de graines efficaces Laurent Noé Informatique [cs]. Université Henri Poincaré - Nancy 1, 2005. Français. ⟨NNT : 2005NAN10118⟩ Thèse tel-01748141v3