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hal-01826564v1  Conference papers
Tony Ribeiro, Maxime Folschette, Magnin Morgan, Olivier Roux, Katsumi Inoue. Learning Dynamics with Synchronous, Asynchronous and General Semantics
28th International Conference on Inductive Logic Programming, Fabrizio Riguzzi; Elena Bellodi; Riccardo Zese, Sep 2018, Ferrara, Italy. ⟨10.1007/978-3-319-99960-9_8⟩
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hal-01807842v1  Journal articles
Méziane Aite, Marie Chevallier, Clémence Frioux, Camille Trottier, Jeanne Got et al.  Traceability, reproducibility and wiki-exploration for "à-la-carte" reconstructions of genome-scale metabolic models
PLoS Computational Biology, Public Library of Science, 2018, 14 (5), pp.e1006146. ⟨10.1371/journal.pcbi.1006146⟩
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hal-02399723v1  Preprints, Working Papers, ...
Daniel Richter, Romain Watteaux, Thomas Vannier, Jade Leconte, Paul Frémont et al.  Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems
2020
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hal-01946860v1  Conference papers
Clémence Frioux, Enora Fremy, Camille Trottier, Anne Siegel. Scalable and exhaustive screening of metabolic functions carried out by microbial consortia
ECCB - 2018 - 17th European Conference on Computational Biology, Sep 2018, Athènes, Greece. pp.i934-i943
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hal-01897020v1  Journal articles
Misbah Razzaq, Loïc Paulevé, Anne Siegel, Julio Saez-Rodriguez, Jérémie Bourdon et al.  Computational Discovery of Dynamic Cell Line Specific Boolean Networks from Multiplex Time-Course Data
PLoS Computational Biology, Public Library of Science, 2018, 14, pp.1-23. ⟨10.1371/journal.pcbi.1006538⟩
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hal-01449100v1  Journal articles
Sylvain Prigent, Clémence Frioux, Simon Dittami, Sven Thiele, Abdelhalim Larhlimi et al.  Meneco, a Topology-Based Gap-Filling Tool Applicable to Degraded Genome-Wide Metabolic Networks
PLoS Computational Biology, Public Library of Science, 2017, 13 (1), pp.32. ⟨10.1371/journal.pcbi.1005276⟩
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hal-01558001v1  Preprints, Working Papers, ...
Aymeric Antoine-Lorquin, Ahmed Arnaoty, Sassan Asgari, Martine Batailler, Linda Beauclair et al.  First landscape of binding to chromosomes for a domesticated mariner transposase in the human genome: diversity of genomic targets of SETMAR isoforms in two colorectal cell lines
2017
hal-01575603v1  Book sections
Damien Eveillard, Anne Siegel, Philippe Vandenkoornhuyse. L'écologie des systèmes
Mokrane Bouzeghoub et Rémy Mosseri. Les Big Data à Découvert, CNRS éditions, 2017, 978-2-271-11464-8
hal-01576743v1  Conference papers
Victoria Potdevin, Marie Chevallier, Ruben Garrido Oter, Anne Siegel, Stéphane Hacquard et al.  Toward a better understanding of the plant microbiota
4ème colloque de Génomique Environnementale, GDR Génomique Environnementale, Sep 2017, Marseille, France
hal-01576484v1  Conference papers
Claire Lippold, Camille Trottier, Clémence Frioux, Marie Chevallier, Simon Dittami et al.  Toward the study of metabolic functions in algal holobionts
4ème Colloque de Génomique Environnementale, Sep 2017, Marseille, France
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hal-02513295v1  Conference papers
Maël Guilleme, Simon Malinowski, Romain Tavenard, Xavier Renard. Localized Random Shapelets
International Workshop on Advanced Analysis and Learning on Temporal Data, 2019, Wurzburg, Germany. pp.85-97, ⟨10.1007/978-3-030-39098-3_7⟩
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hal-02557351v1  Reports
Aurélien Cornet, Christian Barillot, Olivier Dameron, Alban Gaignard, Camille Maumet et al.  État des lieux MoDaL (Multi-Scale Data Links)
[Rapport de recherche] IRISA, Inria Rennes. 2020
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hal-02095930v4  Journal articles
Maxime Folschette, Vincent Legagneux, Arnaud Poret, Lokmane Chebouba, Carito Guziolowski et al.  A pipeline to create predictive functional networks: application to the tumor progression of hepatocellular carcinoma
BMC Bioinformatics, BioMed Central, 2020, 21 (1), pp.18. ⟨10.1186/s12859-019-3316-1⟩
hal-02462675v1  Book sections
Denis Béchet, Annie Foret. On Categorial Grammatical Inference and Logical Information Systems
Logic and Algorithms in Computational Linguistics 2018, Series: Advances in Intelligent Systems and Computing, Volume 860, pp.125-153, 2019, ⟨10.1007/978-3-030-30077-7_6⟩
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hal-01655644v3  Book sections
Tony Ribeiro, Sophie Tourret, Maxime Folschette, Magnin Morgan, Domenico Borzacchiello et al.  Inductive Learning from State Transitions over Continuous Domains
27th International Conference on Inductive Logic Programming, LNCS, volume 10759, Springer, Cham, pp.124-139, 2018, Inductive Logic Programming, ⟨10.1007/978-3-319-78090-0_9⟩
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hal-02500622v1  Journal articles
Mathilde Cheray, Amandine Etcheverry, Camille Jacques, Romain Pacaud, Gwenola Bougras-Cartron et al.  Cytosine methylation of mature microRNAs inhibits their functions and is associated with poor prognosis in glioblastoma multiforme
Molecular Cancer, BioMed Central, 2020, 19 (1), pp.1-36. ⟨10.1186/s12943-020-01155-z⟩
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inserm-02507799v4  Reports
Aurélien Cornet, Christian Barillot, Olivier Dameron, Alban Gaignard, Camille Maumet et al.  Atelier MoDaL (Multi-Scale Data Links)
[Rapport de recherche] IRISA, Inria Rennes. 2020
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hal-01635688v1  Journal articles
Julie Laniau, Clémence Frioux, Jacques Nicolas, Caroline Baroukh, Maria-Paz Cortés et al.  Combining graph and flux-based structures to decipher phenotypic essential metabolites within metabolic networks
PeerJ, PeerJ, 2017, 5, pp.e3860. ⟨10.7717/peerj.3860⟩
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hal-02929424v1  Journal articles
Ulysse Guyet, Ngoc Nguyen, Hugo Doré, Julie Haguait, Justine Pittera et al.  Synergic Effects of Temperature and Irradiance on the Physiology of the Marine Synechococcus Strain WH7803
Frontiers in Microbiology, Frontiers Media, 2020, 11, ⟨10.3389/fmicb.2020.01707⟩
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hal-03171577v1  Journal articles
Yiru Zhang, Tassadit Bouadi, Yewan Wang, Arnaud Martin. A distance for evidential preferences with application to group decision making
Information Sciences, Elsevier, 2021, 568, pp.113-132. ⟨10.1016/j.ins.2021.03.011⟩
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hal-03025671v1  Conference papers
Yichang Wang, Rémi Emonet, Elisa Fromont, Simon Malinowski, Romain Tavenard. Adversarial Regularization for Explainable-by-Design Time Series Classification
ICTAI 2020 - 32th International Conference on Tools with Artificial Intelligence, Nov 2020, online, Greece. pp.1-9
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hal-03385429v1  Journal articles
Aymeric Antoine-Lorquin, Peter Arensburger, Ahmed Arnaoty, Sassan Asgari, Martine Batailler et al.  Two repeated motifs enriched within some enhancers and origins of replication are bound by SETMAR isoforms in human colon cells
Genomics, Elsevier, 2021, 113 (3), pp.1589-1604. ⟨10.1016/j.ygeno.2021.03.032⟩
hal-03527581v1  Conference papers
Denis Béchet, Annie Foret. Categorial Dependency Grammars: Analysis and Learning (Invited Talk)
Logic and Algorithms in Computational Linguistics 2021 (LACompLing2021), Dec 2021, Montpellier, France
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hal-02395080v1  Journal articles
Delphine Nègre, Méziane Aite, Arnaud Belcour, Clémence Frioux, Loraine Brillet-Guéguen et al.  Genome–Scale Metabolic Networks Shed Light on the Carotenoid Biosynthesis Pathway in the Brown Algae Saccharina japonica and Cladosiphon okamuranus
Antioxidants , MDPI, 2019, 8 (11), pp.564. ⟨10.3390/antiox8110564⟩
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hal-02268004v1  Conference papers
Yichang Wang, Rémi Emonet, Elisa Fromont, Simon Malinowski, Etienne Menager et al.  Classification de séries temporelles basée sur des "shapelets" interprétables par réseaux de neurones antagonistes
CAp 2019 - Conférence sur l'Apprentissage automatique, Jul 2019, Toulouse, France. pp.1-2