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Data structures based on k -mers for querying large collections of sequencing data sets
Camille Marchet
,
Christina Boucher
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Simon Puglisi
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Paul Medvedev
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Mikaël Salson
et al.
Article dans une revue
hal-03165261v1
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Assisted transcriptome reconstruction and splicing orthology
Samuel Blanquart
,
Jean-Stéphane Varré
,
Paul Guertin
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Amandine Perrin
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Anne Bergeron
et al.
BMC Genomics, 2016, Proceedings of the 14th Annual Research in Computational Molecular Biology (RECOMB) Comparative Genomics Satellite Workshop: genomics, 17 (Suppl 10), pp.786. ⟨10.1186/s12864-016-3103-6⟩
Article dans une revue
hal-01396410v1
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DE-kupl: exhaustive capture of biological variation in RNA-seq data through k-mer decomposition
Jérôme Audoux
,
Nicolas Philippe
,
Rayan Chikhi
,
Mikael Salson
,
Mélina Gallopin
et al.
Article dans une revue
hal-01728770v1
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BLight: efficient exact associative structure for k-mers
Antoine Limasset
,
Camille Marchet
,
Mael Kerbiriou
Article dans une revue
hal-03443183v1
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MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes
Pierre Pericard
,
Yoann Dufresne
,
Loïc Couderc
,
Samuel Blanquart
,
Hélène Touzet
et al.
Article dans une revue
hal-01646297v1
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STRONG: metagenomics strain resolution on assembly graphs
Antoine Limasset
,
Christopher Quince
,
Sergey Nurk
,
Sebastien Raguideau
,
Robert James
et al.
Article dans une revue
hal-03443171v1
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TgAP2IX-5 is a key transcriptional regulator of the asexual cell cycle division in Toxoplasma gondii
Asma S. Khelifa
,
Cecilia Guillen Sanchez
,
Kevin M. Lesage
,
Ludovic Huot
,
Thomas Mouveaux
et al.
Article dans une revue
hal-03107529v2
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Multi-loci diagnosis of acute lymphoblastic leukaemia with high-throughput sequencing and bioinformatics analysis
Yann Ferret
,
Aurélie Caillault
,
Shéhérazade Sebda
,
Marc Duez
,
Nathalie Grardel
et al.
Article dans une revue
hal-01279160v1
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Comparative assessment of long-read error correction software applied to Nanopore RNA-sequencing data
Leandro Lima
,
Camille Marchet
,
Ségolène Caboche
,
Corinne da Silva
,
Benjamin Istace
et al.
Article dans une revue
hal-02394395v1
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Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics
Léa Siegwald
,
Hélène Touzet
,
Yves Lemoine
,
David Hot
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Christophe Audebert
et al.
Article dans une revue
hal-01575755v1
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Bioinformatics tools for the discovery of new lipopeptides with biocontrol applications
Maude Pupin
,
Areski Flissi
,
Philippe Jacques
,
Valérie Leclère
Article dans une revue
hal-01937890v1
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Compacting de Bruijn graphs from sequencing data quickly and in low memory
Rayan Chikhi
,
Antoine Limasset
,
Paul Medvedev
Article dans une revue
hal-01395704v1
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Médiation Scientifique : une facette de nos métiers de la recherche
Antoine Rousseau
,
Aurélie Darnaud
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Brice Goglin
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Céline Acharian
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Christine Leininger
et al.
[Interne] Inria. 2013, pp.34
Rapport
hal-00804915v1
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CONSENT: Scalable self-correction of long reads with multiple sequence alignment
Pierre Morisse
,
Camille Marchet
,
Antoine Limasset
,
Thierry Lecroq
,
Arnaud Lefebvre
et al.
Recomb-Seq 2019 - 9th RECOMB Satellite Workshop on Massively Parallel Sequencing, May 2019, Washinton, United States. pp.1-9, ⟨10.1101/546630⟩
Communication dans un congrès
hal-02435116v1
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Data updates on Norine, the reference Non-Ribosomal Peptide knowledge base
Yoann Dufresne
,
Juraj Michalik
,
Areski Flissi
,
Valérie Leclère
,
Maude Pupin
et al.
JOBIM 2017 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2017, Lille, France
Poster de conférence
hal-01889117v1
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Compression et indexation de séquences annotées
Tatiana Rocher
Bio-informatique [q-bio.QM]. Université de Lille, 2018. Français. ⟨NNT : ⟩
Thèse
tel-01758361v1
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Algorithmique pour la recherche de motifs approchée et application à la recherche de cibles de microARN
Christophe Vroland
Bio-informatique [q-bio.QM]. Université Lille 1 Sciences et technologies, 2016. Français. ⟨NNT : ⟩
Thèse
tel-01576433v1
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How to make teenage girls love coding ?
Tatiana Rocher
,
Maude Pupin
,
Philippe Marquet
,
Yann Secq
womENcourage2017 - 4th ACM Europe Celebration of Women in Computing, ACM, Sep 2017, Barcelona, Spain
Communication dans un congrès
hal-01552490v1
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Dualities in Tree Representations
Rayan Chikhi
,
Alexander Schönhuth
2018
Pré-publication, Document de travail
hal-01935566v1
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LINGO-DL: a text-based approach for molecular similarity searching
Maude Pupin
,
Ammar Abdo
Article dans une revue
hal-03461046v1
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Kendrick Mass Defect Approach Combined to NORINE Database for Molecular Formula Assignment of Nonribosomal Peptides
Mickael Chevalier
,
Emma Ricart
,
Emeline Hanozin
,
Maude Pupin
,
Philippe Jacques
et al.
Article dans une revue
hal-02417587v1
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Novel components at the periphery of long read genome assembly tools
Pierre Marijon
Computer Science [cs]. University of Lille, 2019. English. ⟨NNT : ⟩
Thèse
tel-02441360v1
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Burkholderia genome mining for nonribosomal peptide synthetases reveals a great potential for novel siderophores and lipopeptides synthesis
Qassim Esmaeel
,
Maude Pupin
,
Nam Phuong Kieu
,
Gabrielle Chataigné
,
Max Béchet
et al.
Article dans une revue
hal-01398944v1
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Critical Assessment of Metagenome Interpretation – a benchmark of computational metagenomics software
Alexander Sczyrba
,
Peter Hofmann
,
Peter Belmann
,
David Koslicki
,
Stefan Janssen
et al.
Article dans une revue
hal-01633525v1
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A complete protocol for whole-genome sequencing of virus from clinical samples: Application to coronavirus OC43
Florence Maurier
,
Delphine Beury
,
Léa Fléchon
,
Jean-Stéphane Varré
,
Hélène Touzet
et al.
Article dans une revue
hal-02167880v1
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Tn-phyto: essential genomes of nine bacterial phytopathogens
Julie Baltenneck
,
Ben Moussa
,
Loïc Couderc
,
Areski Flissi
,
Jacques Pédron
et al.
4. International Ewinia workshop (IEW), Jul 2022, Assise, Italy
Poster de conférence
hal-03721522v1
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Detecting MicroRNAs in Plant Genomes with miRkwood
Sylvain Legrand
,
Isabelle Guigon
,
Hélène Touzet
Chapitre d'ouvrage
hal-03829719v1
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Algorithms and Complexity on Indexing Founder Graphs
Massimo Equi
,
Tuukka Norri
,
Jarno Alanko
,
Bastien Cazaux
,
Alexandru Tomescu
et al.
Article dans une revue
hal-03934245v1
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Décoder le génome : vers la compréhension du fonctionnement du SARS-CoV-2
Hélène Touzet
,
Mikaël Salson
,
Claire Lemaitre
Interstices, 2022
Article dans une revue
hal-03750389v1
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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
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