Data structures based on k -mers for querying large collections of sequencing data sets
Camille Marchet
,
Christina Boucher
,
Simon Puglisi
,
Paul Medvedev
,
Mikaël Salson
et al.
Article dans une revue
hal-03165261v1
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MAGNOLIA: multiple alignment of protein-coding and structural RNA sequences.
Arnaud Fontaine
,
Antoine de Monte
,
Hélène Touzet
Article dans une revue
hal-00823594v1
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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
Article dans une revue
hal-01083204v1
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Computational identification of protein-coding sequences by comparative analysis
Arnaud Fontaine
,
Hélène Touzet
Article dans une revue
hal-00823601v1
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Assisted transcriptome reconstruction and splicing orthology
Samuel Blanquart
,
Jean-Stéphane Varré
,
Paul Guertin
,
Amandine Perrin
,
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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ProCARs: Progressive Reconstruction of Ancestral Gene Orders
Amandine Perrin
,
Jean-Stéphane Varré
,
Samuel Blanquart
,
Aïda Ouangraoua
ISCB-Latin America , Oct 2014, Belo Horizonte, Brazil
Communication dans un congrès
hal-01083841v1
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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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Diagnostic et suivi des leucémies aiguës lymphoblastiques (LAL) par séquençage haut-débit (HTS)
Nathalie Grardel
,
Mikaël Salson
,
Aurélie Caillault
,
Marc Duez
,
Céline Villenet
et al.
Congrès de la Société Française d'Hématologie (SFH) , 2014, Paris, France
Communication dans un congrès
hal-01100152v1
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Assessment of Common and Emerging Bioinformatics Pipelines for Targeted Metagenomics
Léa Siegwald
,
Hélène Touzet
,
Yves Lemoine
,
David Hot
,
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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Prediction of New Bioactive Molecules using a Bayesian Belief Network
Ammar Abdo
,
Valérie Leclère
,
Philippe Jacques
,
Naomie Salim
,
Maude Pupin
et al.
Article dans une revue
hal-01090611v1
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Biomanycores, open-source parallel code for many-core bioinformatics
Mathieu Giraud
,
Stéphane Janot
,
Jean-Frédéric Berthelot
,
Charles Deltel
,
Laetitia Jourdan
et al.
Bioinformatics Open Source Conference (BOSC 2011) , 2011, Vienne, Austria
Communication dans un congrès
inria-00623390v1
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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
,
Brice Goglin
,
Céline Acharian
,
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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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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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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Subset seed extension to Protein BLAST
Anna Gambin
,
Slawomir Lasota
,
Michal Startek
,
Maciej Sykulski
,
Laurent Noé
et 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
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Standardized next-generation sequencing of immunoglobulin and T-cell receptor gene recombinations for MRD marker identification in acute lymphoblastic leukaemia; a EuroClonality-NGS validation study
Monika Brüggemann
,
Michaela Kotrova
,
Henrik Knecht
,
Jack Bartram
,
Myriam Boudjogrha
et al.
Article dans une revue
hal-02169053v1
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High-Throughput Immunogenetics for Clinical and Research Applications in Immunohematology: Potential and Challenges.
Anton W Langerak
,
Monika Brüggemann
,
Frédéric Davi
,
Nikos Darzentas
,
Jacques J M van Dongen
et al.
Article dans une revue
hal-01516289v1
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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
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From Sequences to Graphs: Discrete Methods and Structures for Bioinformatics
Annie Chateau
,
Mikaël Salson
Ouvrages
hal-03920813v1
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Indexer un ensemble de séquences ADN annotées
Tatiana Rocher
,
Mathieu Giraud
,
Mikael Salson
JOBIM , Jun 2016, Lyon, France
Communication dans un congrès
hal-01576319v1
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Best hits of 11110110111: model-free selection and parameter-free sensitivity calculation of spaced seeds
Laurent Noé
Article dans une revue
hal-01467970v1
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Fast and scalable minimal perfect hashing for massive key sets
Antoine Limasset
,
Guillaume Rizk
,
Rayan Chikhi
,
Pierre Peterlongo
16th International Symposium on Experimental Algorithms , Jun 2017, London, United Kingdom. pp.1 - 11
Communication dans un congrès
hal-01566246v1
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Efficient approximations of RNA kinetics landscape using non-redundant sampling
Juraj Michálik
,
Hélène Touzet
,
Yann Ponty
ISMB/ECCB - 25th Annual international conference on Intelligent Systems for Molecular Biology/16th European Conference on Computational Biology - 2017 , Jul 2017, Prague, Czech Republic. pp.i283 - i292,
⟨10.1093/bioinformatics/btx269⟩
Communication dans un congrès
hal-01500115v1
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