Mathieu Giraud

CHARGE DE RECHERCHE EPST - Informatique
mathieu_giraud.jpg

Mathieu Giraud

CHARGE DE RECHERCHE EPST - Informatique

Publications


Article dans des revues

  • Monika Brüggemann, Michaela Kotrova, Henrik Knecht, Jack Bartram, Myriam Boudjogrha, et al.. 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. Leukemia, Nature Publishing Group: Open Access Hybrid Model Option B, 2019, ⟨10.1038/s41375-019-0496-7⟩. ⟨hal-02169053⟩
  • Tatiana Rocher, Mathieu Giraud, Mikaël Salson. Indexing labeled sequences. PeerJ Computer Science, PeerJ, 2018, 4, pp.1-14. ⟨10.7717/peerj-cs.148⟩. ⟨hal-01743104⟩
  • Anton W Langerak, Monika Brüggemann, Frédéric Davi, Nikos Darzentas, Jacques J M van Dongen, et al.. High-Throughput Immunogenetics for Clinical and Research Applications in Immunohematology: Potential and Challenges.. Journal of Immunology, Publisher : Baltimore : Williams & Wilkins, c1950-. Latest Publisher : Bethesda, MD : American Association of Immunologists, 2017, pp.1602050. ⟨10.4049/jimmunol.1602050 ⟩. ⟨hal-01516289⟩
  • Mikael Salson, Mathieu Giraud, Aurélie Caillault, Nathalie Grardel, Nicolas Duployez, et al.. High-throughput sequencing in acute lymphoblastic leukemia: Follow-up of minimal residual disease and emergence of new clones. Leukemia Research, Elsevier, 2017, 53, pp.1-7. ⟨10.1016/j.leukres.2016.11.009⟩. ⟨hal-01404817⟩
  • Marc Duez, Mathieu Giraud, Ryan Herbert, Tatiana Rocher, Mikael Salson, et al.. Vidjil: A Web Platform for Analysis of High-Throughput Repertoire Sequencing. PLoS ONE, Public Library of Science, 2016, 11 (11), ⟨10.1371/journal.pone.0166126⟩. ⟨hal-01397079⟩
  • Yann Ferret, Aurélie Caillault, Shéhérazade Sebda, Marc Duez, Nathalie Grardel, et al.. Multi-loci diagnosis of acute lymphoblastic leukaemia with high-throughput sequencing and bioinformatics analysis. British Journal of Haematology, Wiley, 2016, 173 (3), pp.413-420. ⟨10.1111/bjh.13981⟩. ⟨hal-01279160⟩
  • Michaela Kotrova, Katerina Muzikova, Ester Mejstrikova, Michaela Novakova, Violeta Bakardjieva-Mihaylova, et al.. The predictive strength of next-generation sequencing MRD detection for relapse compared with current methods in childhood ALL.. Blood, American Society of Hematology, 2015, 126 (8), pp.1045-7. ⟨10.1182/blood-2015-07-655159⟩. ⟨hal-01241663⟩
  • Lucile Lefèvre, Hanin Omeiri, Ludivine Drougat, Constanze Hantel, Mathieu Giraud, et al.. Combined transcriptome studies identify AFF3 as a mediator of the oncogenic effects of β-catenin in adrenocortical carcinoma. Oncogenesis, Nature Publishing Group: Open Access Journals - Option C, 2015, 4 (7), pp.e161. ⟨10.1038/oncsis.2015.20⟩. ⟨inserm-01182372⟩
  • Azadeh Saffarian, Mathieu Giraud, Hélène Touzet. Modeling alternate RNA structures in genomic sequences.. Journal of computational biology : a journal of computational molecular cell biology, Mary Ann Liebert 2015, 22 (3), pp.190-204. ⟨hal-01228130⟩
  • Mathieu Giraud, Marc Rigaudière. Algorithmes pour l’analyse de la musique tonale. Revue des Sciences et Technologies de l'Information - Série TSI : Technique et Science Informatiques, Lavoisier, 2014, Informatique musicale, 33 (7-8), pp.567-586. ⟨10.3166/tsi.33.567-586 ⟩. ⟨hal-01107721⟩
  • Mathieu Giraud, Mikaël Salson, Marc Duez, Céline Villenet, Sabine Quief, et al.. Fast multiclonal clusterization of V(D)J recombinations from high-throughput sequencing. BMC Genomics, BioMed Central, 2014, 15 (1), pp.409. ⟨10.1186/1471-2164-15-409⟩. ⟨hal-01009173⟩
  • Azadeh Saffarian, Mathieu Giraud, Antoine de Monte, Hélène Touzet. RNA Locally Optimal Secondary Structures. Journal of Computational Biology, Mary Ann Liebert, 2012, 19 (10), pp.1120-1133. ⟨10.1089/cmb.2010.0178⟩. ⟨hal-00756249⟩
  • Mathieu Giraud, Mikaël Salson. Les séquenceurs à haut débit. Interstices, INRIA, 2011, ⟨https://interstices.info/jcms/int_63223/les-sequenceurs-a-haut-debit⟩. ⟨hal-01350176⟩
  • Mathieu Giraud, Philippe Veber, Dominique Lavenier. Path-equivalent developments in acyclic weighted automata. International Journal of Foundations of Computer Science, World Scientific Publishing, 2007, 18 (4), pp.799-812. ⟨10.1142/S012905410700498X⟩. ⟨inria-00271646⟩
  • Nicolas Deroche, Mathieu Giraud. Symbiologik : jouez avec les gènes. Interstices, INRIA, 2006, ⟨https://interstices.info/jcms/c_15964/symbiologik-jouez-avec-les-genes⟩. ⟨hal-01352610⟩
  • Sandrine Pawlicki, Anne-Sophie Valin, Mathieu Giraud, Gilles Georges, Christian Delamarche, et al.. Découverte et analyse de signatures à grande échelle dans les protéines amyloïdes.. Regard sur la biochimie, 2006, pp.1-12. ⟨hal-00456604⟩

Communication dans un congrès

  • Bryan Deliencourt, Mathieu Giraud, Julien Miranda, Stanislas Larnier, Ariane Herbulot, et al.. Génération photo-réaliste de défauts sur des images de surfaces extérieures d'avions acquises par un drone autonome. ORASIS, journées francophones des jeunes chercheurs en vision par ordinateur, May 2019, Saint-Dié-des-Vosges, France. ⟨hal-02164953⟩
  • Laurent Feisthauer, Louis Bigo, Mathieu Giraud. Modeling and learning structural breaks in sonata forms. International Society for Music Information Retrieval Conference 2019, Utrecht, Netherlands. ⟨hal-02162936⟩
  • Ling Ma, Mathieu Giraud, Emmanuel Leguy. Realtime collaborative annotation of music scores with Dezrann. International Symposium on Computer Music Modeling and Retrieval (CMMR 2019), 2019, Marseille, France. ⟨hal-02162935⟩
  • Mathieu Giraud, Richard Groult, Emmanuel Leguy. Dezrann, a Web Framework to Share Music Analysis. International Conference on Technologies for Music Notation and Representation (TENOR 2018), May 2018, Montréal, Canada. pp.104-110. ⟨hal-01796787⟩
  • Louis Bigo, Laurent Feisthauer, Mathieu Giraud, Florence Levé. Relevance of musical features for cadence detection. International Society for Music Information Retrieval Conference (ISMIR 2018), 2018, Paris, France. ⟨hal-01801060⟩
  • Louis Bigo, Mathieu Giraud, Richard Groult, Nicolas Guiomard-Kagan, Florence Levé. Sketching Sonata Form Structure in Selected Classical String Quartets. ISMIR 2017 - International Society for Music Information Retrieval Conference, 2017, Suzhou, China. ⟨hal-01568703⟩
  • Julien Debove, David Durand, Marion Giraud, Mathieu Giraud, Richard Groult, et al.. Les pierres musicales, un dispositif pédagogique interactif. Journées d'Informatique Musicale (JIM 2017), 2017, Paris, France. ⟨hal-01517519⟩
  • Nicolas Guiomard-Kagan, Mathieu Giraud, Richard Groult, Florence Levé. Improving voice separation by better connecting contigs. International Society for Music Information Retrieval Conference (ISMIR 2016), Aug 2016, New York, United States. ⟨hal-01331551⟩
  • Tatiana Rocher, Mathieu Giraud, Mikael Salson. Indexer un ensemble de séquences ADN annotées. JOBIM, Jun 2016, Lyon, France. ⟨hal-01576319⟩
  • Nicolas Guiomard-Kagan, Mathieu Giraud, Richard Groult, Florence Levé. Comparing Voice and Stream Segmentation Algorithms. International Society for Music Information Retrieval Conference (ISMIR 2015), Oct 2015, Malaga, Spain. pp.493-499. ⟨hal-01246693⟩
  • Mathieu Giraud, Sławek Staworko. Modeling Musical Structure with Parametric Grammars. Mathematics and Computation in Music (MCM 2015), Jun 2015, London, United Kingdom. pp.85-96, ⟨10.1007/978-3-319-20603-5_8⟩. ⟨hal-01205422⟩
  • Tuan Tu Tran, Mathieu Giraud, Jean-Stéphane Varré. Perfect Hashing Structures for Parallel Similarity Searches. 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⟩. ⟨hal-01153893⟩
  • Azadeh Saffarian, Mathieu Giraud, Hélène Touzet. Searching for alternate RNA structures in genomic sequences. Computational Methods for Structural RNAs, CMSR'14, Sep 2014, Strasbourg, France. pp.13-24, ⟨10.15455/CMSR.2014.0002⟩. ⟨hal-01084319⟩
  • Nathalie Grardel, Mikaël Salson, Aurélie Caillault, Marc Duez, Céline Villenet, et al.. Diagnostic et suivi des leucémies aiguës lymphoblastiques (LAL) par séquençage haut-débit (HTS). Congrès de la Société Française d'Hématologie (SFH), 2014, Paris, France. ⟨hal-01100152⟩
  • Mathieu Giraud, Florence Levé, Florent Mercier, Marc Rigaudière, Donatien Thorez. Towards Modeling Texture in Symbolic Data. International Society for Music Information Retrieval Conference - ISMIR, 2014, Taipei, Taiwan. pp.59-64. ⟨hal-01057017⟩
  • Laurent David, Mathieu Giraud, Richard Groult, Florence Levé, Corentin Louboutin. Vers une analyse automatique des formes sonates. Journées d'Informatique Musicale (JIM 2014), 2014, Bourges, France. pp.113-118. ⟨hal-01009166⟩
  • Mathieu Giraud, Ken Déguernel, Emilios Cambouropoulos. Fragmentations with pitch, rhythm and parallelism constraints for variation matching. International Symposium on Computer Music Multidisciplinary Research (CMMR), Oct 2013, Marseille, France. pp.298-312, ⟨10.1007/978-3-319-12976-1_19⟩. ⟨hal-00906462v2⟩
  • Mathieu Giraud, Mikaël Salson, Marc Duez, Jean-Stéphane Varré, Céline Villenet, et al.. Suivi de la leucémie résiduelle par séquençage haut-débit. JOBIM, Jul 2013, Toulouse, France. ⟨hal-00857581⟩
  • Christina Anagnostopoulou, Mathieu Giraud, Nick Poulakis. Melodic contour representations in the analysis of children's songs. 3rd International Workshop on Folk Music Analysis, Jun 2013, Amsterdam, Netherlands. pp.40-43. ⟨hal-00826427⟩
  • Mathieu Giraud, Richard Groult, Florence Levé. Detecting Episodes with Harmonic Sequences for Fugue Analysis. ISMIR - International Society for Music Information Retrieval Conference - 2012, 2012, Porto, Portugal. ⟨hal-00712565⟩
  • Mathieu Giraud, Richard Groult, Florence Levé. Subject and counter-subject detection for analysis of the Well-Tempered Clavier fugues. International Symposium on Computer Music Modelling and Retrieval (CMMR 2012), 2012, United Kingdom. pp.661-673. ⟨hal-00712554⟩
  • Jean-Frédéric Berthelot, Charles Deltel, Mathieu Giraud, Stéphane Janot, Laetitia Jourdan, et al.. biomanycores.org: a repository of interoperable open-source code for many-core bioinformatics. JOBIM 2011, Jul 2011, Paris, France. ⟨hal-00637847⟩
  • Tuan Tu Tran, Mathieu Giraud, Jean-Stéphane Varré. Bit-Parallel Multiple Pattern Matching. Parallel Processing and Applied Mathematics / Parallel Biocomputing Conference (PPAM / PBC 11), 2011, Torun, Poland. ⟨inria-00637227⟩
  • Mathieu Giraud, Stéphane Janot, Jean-Frédéric Berthelot, Charles Deltel, Laetitia Jourdan, et al.. Biomanycores, open-source parallel code for many-core bioinformatics. Bioinformatics Open Source Conference (BOSC 2011), 2011, Vienne, Austria. ⟨inria-00623390⟩
  • Peter Steffen, Robert Giegerich, Mathieu Giraud. GPU Parallelization of Algebraic Dynamic Programming. Parallel Processing and Applied Mathematics / Parallel Biocomputing Conference (PPAM / PBC 09), Sep 2009, Wroclaw, Poland. ⟨inria-00438219⟩
  • Mathieu Giraud, Jean-Stéphane Varré. Parallel Position Weight Matrices Algorithms. International Symposium on Parallel and Distributed Computing (ISPDC 2009), Jul 2009, Lisboa, Portugal. pp.65-69, ⟨10.1109/ISPDC.2009.31⟩. ⟨inria-00438215⟩
  • Jean-Stéphane Varré, Stéphane Janot, Mathieu Giraud. Biomanycores, a repository of interoperable open-source code for many-cores bioinformatics. Bioinformatics Open Source Conference (BOSC), Jun 2009, Stockholm, Sweden. ⟨inria-00438224⟩
  • Mathieu Giraud. Not so many runs in strings. 2nd International Conference on Language and Automata Theory and Applications (LATA 2008), Mar 2008, Tarragona, Spain. ⟨inria-00271630⟩
  • Jean-Eudes Duchesne, Mathieu Giraud, Nadia El-Mabrouk. Seed-Based Exclusion Method for Non-coding RNA Gene Search. 13th Annual International Computing and Combinatorics Conference (COCOON 2007), Jul 2007, Banff, Canada. pp.27-39, ⟨10.1007/978-3-540-73545-8_6⟩. ⟨inria-00271642⟩
  • Ghizlane Bana, Roman Kolpakov, Mathieu Giraud, Ralph Rabbat, Gregory Kucherov. mreps: a program for exhaustive search for tandem repeats in DNA sequences. Sixth Annual International Conference on Research in Computational Biology - RECOMB 2002, Apr 2002, Washington, DC, US. ⟨inria-00100869⟩

Poster

  • Laurent Feisthauer, Louis Bigo, Mathieu Giraud, Florence Levé. Vers une recherche automatisée du parcours tonal. Les sciences de la musique, 2019, Paris, France. ⟨https://sites.google.com/view/symposium2019⟩. ⟨hal-01972701⟩
  • Mathieu Giraud. Using Dezrann in Musicology and MIR Research. Digital Libraries for Musicology (DLfM 2018), 2018, Paris, France. ⟨hal-01871713⟩
  • Emmanuel Leguy, Richard Groult, Mathieu Giraud. Une application web interactive pour l'analyse musicale. European Music Analysis Conference (EuroMAC 2017), 2017, Strasbourg, France. 2017. ⟨hal-01517517⟩

Chapitre d'ouvrage

Direction d'ouvrage, Proceedings

Autre publication

  • Yoel Greenberg, Beate Kutschke, Mathieu Giraud, David Huron. Fixing the Horse before the Cart: Reconstructing the Genesis of Classical Forms through Big Data and Computational Methods. 2018. ⟨hal-01972691⟩
  • Mikael Salson, Aurélie Caillault, Marc Duez, Yann Ferret, Alice Fievet, et al.. A dataset of sequences with manually curated V(D)J designations. 2016. ⟨hal-01331556⟩

Pré-publication, Document de travail

  • Mathieu Giraud, Florent Jacquemard. Weighted Automata Computation of Edit Distances with Consolidations and Fragmentations. 2018. ⟨hal-01857267v3⟩

Rapport

  • Antoine Rousseau, Aurélie Darnaud, Brice Goglin, Céline Acharian, Christine Leininger, et al.. Médiation Scientifique : une facette de nos métiers de la recherche. [Interne] none. 2013, pp.34. ⟨hal-00804915⟩

HDR

  • Mathieu Giraud. Compter les globules blancs, analyser les partitions. Informatique [cs]. Université de Lille 1 – Sciences et Technologies, 2016. ⟨tel-01577763⟩