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A new fingerprint to predict nonribosomal peptides activity.

 Ammar Hasan Abdo , Ségolène Caboche , Valérie Leclère , Philippe Jacques , Maude Pupin
Journal of Computer-Aided Molecular Design, 2012, 26 (10), pp.1187-94. ⟨10.1007/s10822-012-9608-4⟩
Article dans une revue hal-00750002v1
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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
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CRAC: an integrated approach to the analysis of RNA-seq reads

 Nicolas Philippe , Mikaël Salson , Thérèse Commes , Eric Rivals
Genome Biology, 2013, 14 (3), pp.R30. ⟨10.1186/gb-2013-14-3-r30⟩
Article dans une revue inserm-00850972v1

Detecting MicroRNAs in Plant Genomes with miRkwood

 Sylvain Legrand , Isabelle Guigon , Hélène Touzet
Alejandro Pereira-Santana; Samuel David Gamboa-Tuz; Luis Carlos Rodríguez-Zapata. Plant Comparative Genomics, 2512, Springer; Humana, pp.103-120, 2022, Methods in Molecular Biology, 978-1-0716-2428-9. ⟨10.1007/978-1-0716-2429-6_8⟩
Chapitre d'ouvrage hal-03952910v1
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Tandem Halving Problems by DCJ

 Antoine Thomas , Aïda Ouangraoua , Jean-Stéphane Varré
Workshop on Algorithms in Bioinformatics, Sep 2012, Ljubljana, Slovenia. pp.417-429, ⟨10.1007/978-3-642-33122-0_33⟩
Communication dans un congrès hal-00749019v1
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Genome Halving by Block Interchange

 Antoine Thomas , Aïda Ouangraoua , Jean-Stéphane Varré
BIOINFORMATICS, Feb 2012, Lisboa, Portugal. pp.58-65
Communication dans un congrès hal-00749026v1
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Evidence for the Existence of Elaborate Enzyme Complexes in the Paleoarchean Era

 Bernd Reisinger , Josef Sperl , Alexandra Holinski , Veronika Schmid , Chitra Rajendran , et al.
Journal of the American Chemical Society, 2014, pp.122-9. ⟨10.1021/ja4115677⟩
Article dans une revue hal-00924047v1

A 2-Approximation for the Minimum Duplication Speciation Problem

 Aïda Ouangraoua , Krister M. Swenson , Cedric Chauve
Journal of Computational Biology, 2011, 18 (9), pp.1041-1053. ⟨10.1089/cmb.2011.0108⟩
Article dans une revue inria-00635025v1

Genome scaffolding with PE-contaminated mate-pair libraries

 Kristoffer Sahlin , Rayan Chikhi , Lars Arvestad.
WABI 2015, 2015, Atlanta, United States. ⟨10.1101/025650⟩
Communication dans un congrès hal-01236176v1
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Norine: a powerful resource for novel nonribosomal peptide discovery

 Maude Pupin , Qassim Esmaeel , Areski Flissi , Yoann Dufresne , Philippe Jacques , et al.
Synthetic and Systems Biotechnology, 2015, ⟨10.1016/j.synbio.2015.11.001⟩
Article dans une revue hal-01250614v1

Bioinformatics Tools for the Discovery of New Nonribosomal Peptides

 Valérie Leclère , Tilmann Weber , Philippe Jacques , Maude Pupin
Bradley S. Evans. Nonribosomal Peptide and Polyketide Biosynthesis, 1401, Humana Press, pp.209-232, 2016, Methods in Molecular Biology, 978-1-4939-3373-0 978-1-4939-3375-4. ⟨10.1007/978-1-4939-3375-4_14⟩
Chapitre d'ouvrage hal-01398960v1

A time- and cost-effective strategy to sequence mammalian Y Chromosomes: an application to the de novo assembly of gorilla Y

 Marta Tomaszkiewicz , Samarth Rangavittal , Monika Cechova , Rebeca Campos Sanchez , Howard William Fescemyer , et al.
Genome Research, 2016, 26 (4), pp.530 - 540. ⟨10.1101/gr.199448.115⟩
Article dans une revue hal-01395702v1

Bipartite Graphs of Small Readability

 Rayan Chikhi , Vladan Jovičić , Stefan Kratsch , Paul Medvedev , Martin Milanic , et al.
COCOON 2018 - The 24th International Computing and Combinatorics Conference, Jul 2018, Qingdao, China
Communication dans un congrès hal-01935562v1

Perfect Hashing Structures for Parallel Similarity Searches

 Tuan Tu Tran , Mathieu Giraud , Jean-Stéphane Varré
International Workshop on High Performance Computational Biology (HiCOMB 2015) / International Parallel and Distributed Processing Symposium (IPDPS 2015), 2015, Hyderabad, India. pp.332-341, ⟨10.1109/IPDPSW.2015.105⟩
Communication dans un congrès hal-01153893v1

Nonribosomal peptide synthetase with a unique iterative-alternative-optional mechanism catalyzes amonabactin synthesis in Aeromonas

 Qassim Esmaeel , Mickael Chevalier , Gabrielle Chataigne , Rathinasamy Subashkumar , Philippe Jacques , et al.
Applied Microbiology and Biotechnology, 2016, 100 (19), pp.8453-8463. ⟨10.1007/s00253-016-7773-4⟩
Article dans une revue hal-01601408v1

Algorithms for bioinformatics

 Hélène Touzet
Mihai Pop; Hélène Touzet. WABI, Sep 2015, Atlanta, United States. 9289, Springer Verlag, 2015, 15th International Workshop, WABI 2015, Atlanta, GA, USA, September 10-12, 2015, Proceedings, ⟨10.1007/978-3-662-48221-6⟩
Proceedings/Recueil des communications hal-01228138v1
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Algebraic Dynamic Programming 2.0

 Robert Giegerich , Hélène Touzet
Workshop Haskell-Treffen an der Universität Leipzig, Jun 2013, Leipzig, Germany
Communication dans un congrès hal-00857801v1
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Searching for alternate RNA structures in genomic sequences

 Azadeh Saffarian , Mathieu Giraud , Hélène Touzet
Computational Methods for Structural RNAs, CMSR'14, Sep 2014, Strasbourg, France. pp.13-24, ⟨10.15455/CMSR.2014.0002⟩
Communication dans un congrès hal-01084319v1

TFM-Explorer: mining cis-regulatory regions in genomes

 Tonon Laurie , Hélène Touzet , Jean-Stéphane Varré
Nucleic Acids Research, 2010, 38 (S2), pp.W286-W292. ⟨10.1093/nar/gkq473⟩
Article dans une revue hal-00823465v1

Vidjil

 Aurélien Béliard , Marc Duez , Mathieu Giraud , Ryan Herbert , Tatiana Rocher , et al.
2018, ⟨swh:1:dir:919b1f80b59a0d7139e816a8acd45b5139032f55;origin=https://gitlab.inria.fr/vidjil/vidjil;visit=swh:1:snp:291e56d00815773ebeae2102804ef8be5eb62b86;anchor=swh:1:rev:5d5ebe597a7271b8c4296da422de1ad81bee0804⟩
Logiciel hal-04453057v1
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Proteomic characterisation of leech microglia extracellular vesicles (EVs): comparison between differential ultracentrifugation and Optiprep™ density gradient isolation

 T Arab , A Raffo-Romero , C van Camp , Q Lemaire , F Le Marrec-Croq , et al.
Journal of Extracellular Vesicles, 2019, 8 (1), pp.1603048. ⟨10.1080/20013078.2019.1603048⟩
Article dans une revue inserm-02941660v1

A dataset of sequences with manually curated V(D)J designations

 Mikael Salson , Aurélie Caillault , Marc Duez , Yann Ferret , Alice Fievet , et al.
2016
Autre publication scientifique hal-01331556v1

Reconstructing the architecture of the ancestral amniote genome.

 Aïda Ouangraoua , Eric Tannier , Cedric Chauve
Bioinformatics, 2011, 27, 27 (19), pp.2664-2671. ⟨10.1093/bioinformatics/btr461⟩
Article dans une revue inria-00635016v1
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Prediction of Monomer Isomery in Florine: A Workflow Dedicated to Nonribosomal Peptide Discovery

 Thibault Caradec , Maude Pupin , Aurélien Vanvlassenbroeck , Marie-Dominique Devignes , Malika Smaïl-Tabbone , et al.
PLoS ONE, 2014, 9 (1), pp.e85667. ⟨10.1371/journal.pone.0085667⟩
Article dans une revue hal-01090619v1

BioacPepFinder: Discovery of bioactive peptides from protein digestion.

 Carlos Bathich , Isabelle Guigon , Hélène Touzet , Barbara Deracinois , Laurence Guimas , et al.
One Health International Days, Jun 2022, Villeneuve d’Ascq, France
Poster de conférence hal-04547618v1
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A Scalable Indexing Solution to Mine Huge Genomic Sequence Collections

 Eric Rivals , Nicolas Philippe , Mikael Salson , Martine Léonard , Thérèse Commes , et al.
ERCIM News, 2012, 2012 (89), pp.20-21
Article dans une revue lirmm-00712653v1
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On the readability of overlap digraphs

 Rayan Chikhi , Paul Medvedev , Martin Milanič , Sofya Raskhodnikova
Discrete Applied Mathematics, 2016, 205, pp.35-44. ⟨10.1016/j.dam.2015.12.009⟩
Article dans une revue hal-01729749v1
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Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing

 Areski Flissi , Yoann Dufresne , Juraj Michalik , Laurie Tonon , Stéphane Janot , et al.
Nucleic Acids Research, 2015, ⟨10.1093/nar/gkv1143⟩
Article dans une revue hal-01235996v1

Traitement des données - introduction

 Iovka Boneva , Héléne Touzet
Les Big Data à découvert, 2016
Chapitre d'ouvrage hal-01574692v1
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On the Levenshtein Automaton and the Size of the Neighborhood of a Word

 Hélène Touzet
LATA 2016 - 10th International Conference on Language and Automata Theory and Applications, Mar 2016, Prague, Czech Republic. pp.207-218, ⟨10.1007/978-3-319-30000-9_16⟩
Communication dans un congrès hal-01360482v1
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