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Matching Pharmacogenomic Knowledge: Particularities, Results, and Perspectives

Pierre Monnin , Adrien Coulet
17th International Workshop on Ontology Matching : OM-2022, Oct 2022, Virtual, China
Conference papers hal-03835712v1
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PGxCorpus and PGxLOD: two shared resources for knowledge management in pharmacogenomics

Pierre Monnin , Joël Legrand , Adrien Coulet
JOBIM 2022 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2022, Rennes, France. , JOBIM 2022 Proceedings - Posters, Démos
Poster communications hal-03754888v1
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Combiner plongements de graphes et clustering pour l'alignement de connaissances pharmacogénomiques

Pierre Monnin , Chedy Raïssi , Amedeo Napoli , Adrien Coulet
Santé & IA 2022 - Journée Santé et Intelligence Artificielle (Evènement affilié à PFIA 2022), Jun 2022, Saint-Etienne, France
Conference papers hal-03754776v1
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Projet ANR (2016-2021) « PractiKPharma » : extraction, comparaison et découverte de connaissances en pharmacogénomique

Pierre Monnin , Adrien Coulet
1024 : Bulletin de la Société Informatique de France, 2022, 19, pp.109 - 120. ⟨10.48556/sif.1024.19.109⟩
Journal articles hal-03669026v1
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Étudier les mécanismes des effets indésirables des médicaments avec l'IA explicable : expériences avec la fouille de graphes de connaissances

Pierre Monnin , Adrien Coulet
Bulletin de l'Association Française pour l'Intelligence Artificielle, 2022
Journal articles hal-03669065v1
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Discovering alignment relations with Graph Convolutional Networks: A biomedical case study

Pierre Monnin , Chedy Raïssi , Amedeo Napoli , Adrien Coulet
Semantic Web – Interoperability, Usability, Applicability, 2022, pp.1-20. ⟨10.3233/SW-210452⟩
Journal articles hal-03452182v1

Syntax-based transfer learning for the task of biomedical relation extraction

Joël Legrand , Yannick Toussaint , Chedy Raïssi , Adrien Coulet
Journal of Biomedical Semantics, 2021, 12 (1), ⟨10.1186/s13326-021-00248-y⟩
Journal articles hal-03330823v1
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Investigating ADR mechanisms with Explainable AI: a feasibility study with knowledge graph mining

Emmanuel Bresso , Pierre Monnin , Cédric Bousquet , François-Elie Calvier , Ndeye-Coumba Ndiaye , et al.
BMC Medical Informatics and Decision Making, 2021, 21 (1), pp.171. ⟨10.1186/s12911-021-01518-6⟩
Journal articles hal-03240476v1
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Expérimentations autour des architectures d'apprentissage par transfert pour l'extraction de relations biomédicales

Walid Hafiane , Joël Legrand , Yannick Toussaint , Adrien Coulet
EGC 2021 - 21ème édition de la conférence "Extraction et Gestion des Connaissances", Jan 2021, Montpellier / Virtuel, France
Conference papers hal-03073601v1
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French FastContext: a Publicly Accessible System for Detecting Negation, Temporality and Experiencer in French Clinical Notes

Mehdi Mirzapour , Amine Abdaoui , Andon Tchechmedjiev , William Digan , Sandra Bringay , et al.
Journal of Biomedical Informatics, 2021, 117, pp.103733. ⟨10.1016/j.jbi.2021.103733⟩
Journal articles hal-03184001v1
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Matching and mining in knowledge graphs of the Web of data - Applications in pharmacogenomics

Pierre Monnin
Databases [cs.DB]. Université de Lorraine, 2020. English. ⟨NNT : 2020LORR0212⟩
Theses tel-03122326v1
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Knowledge-Based Matching of $n$-ary Tuples

Pierre Monnin , Miguel Couceiro , Amedeo Napoli , Adrien Coulet
ICCS 2020 - 25th International Conference on Conceptual Structures, Sep 2020, Bolzano / Virtual, Italy. pp.48-56, ⟨10.1007/978-3-030-57855-8_4⟩
Conference papers hal-02493067v1
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Tackling scalability issues in mining path patterns from knowledge graphs: a preliminary study

Pierre Monnin , Emmanuel Bresso , Miguel Couceiro , Malika Smaïl-Tabbone , Amedeo Napoli , et al.
ALGOS 2020 - 1st International Conference on Algebras, Graphs and Ordered Sets, Aug 2020, Nancy, France
Conference papers hal-02913224v1

Integrating the Comparative Toxicogenomic Database in a Human Pharmacogenomic Resource.

François-Élie Calvier , Cedric Bousquet
30th Medical Informatics Europe conference (MIE), Apr 2020, Geneva, Switzerland. pp.267-271, ⟨10.3233/SHTI200164⟩
Conference papers hal-03130189v1

PGxCorpus, a manually annotated corpus for pharmacogenomics

Joël Legrand , Romain Gogdemir , Cedric Bousquet , Kevin Dalleau , Marie-Dominique Devignes , et al.
Scientific Data , 2020, 7, pp.3. ⟨10.1038/s41597-019-0342-9⟩
Journal articles hal-02547607v1
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Mises en correspondances de données, textes et connaissances pour la découverte de connaissances biomédicales

Adrien Coulet
Base de données [cs.DB]. Université de Lorraine, 2019
Habilitation à diriger des recherches tel-02429926v2
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Evaluating the impact of text duplications on a corpus of more than 600,000 clinical narratives in a French Hospital

William Digan , Maxime Wack , Vincent Looten , Antoine Neuraz , Anita Burgun , et al.
medinfo 2019, Aug 2019, Lyon, France
Conference papers hal-02265124v1
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Providing Molecular Characterization for Unexplained Adverse Drug Reactions

François-Élie Calvier , Pierre Monnin , Miguel Boland , Patryk Jarnot , Emmanuel Bresso , et al.
2019
Preprints, Working Papers, ... hal-02196134v1
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Knowledge Reconciliation with Graph Convolutional Networks: Preliminary Results

Pierre Monnin , Chedy Raïssi , Amedeo Napoli , Adrien Coulet
DL4KG2019 - Workshop on Deep Learning for Knowledge Graphs, Jun 2019, Portoroz, Slovenia
Conference papers hal-02155546v1
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PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison

Pierre Monnin , Joël Legrand , Graziella Husson , Patrice Ringot , Andon Tchechmedjiev , et al.
BMC Bioinformatics, 2019, 20 (S4), ⟨10.1186/s12859-019-2693-9⟩
Journal articles hal-02103899v1
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Discovering and Comparing Relational Knowledge, the Example of Pharmacogenomics

Pierre Monnin
Proceedings of the EKAW Doctoral Consortium 2018 co-located with the 21st International Conference on Knowledge Engineering and Knowledge Management (EKAW 2018), 2019
Other publications hal-01955424v1
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Cooperation of bio-ontologies for the classification of genetic intellectual disabilities : a diseasome approach

Gabin Personeni , Marie-Dominique Devignes , Malika Smaïl-Tabbone , Philippe Jonveaux , Céline Bonnet , et al.
Proceedings of the 11th International Conference on Semantic Web Applications and Tools for Healthcare and Life Sciences (SWAT4HCLS 2018), Dec 2018, Antwerp, Belgium
Conference papers hal-01925471v1
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SIFR Annotator: Ontology-Based Semantic Annotation of French Biomedical Text and Clinical Notes

Andon Tchechmedjiev , Amine Abdaoui , Vincent Emonet , Stella Zevio , Clement Jonquet
BMC Bioinformatics, 2018, 19 (1), pp.405-431. ⟨10.1186/s12859-018-2429-2⟩
Journal articles lirmm-01934127v1
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Syntax-based Transfer Learning for the Task of Biomedical Relation Extraction

Joël Legrand , Yannick Toussaint , Chedy Raïssi , Adrien Coulet
LOUHI 2018 - The Ninth International Workshop on Health Text Mining and Information Analysis, Oct 2018, Brussels, Belgium
Conference papers hal-01869071v1
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Predicting the need for a reduced drug dose, at first prescription

Adrien Coulet , Nigam H. Shah , Maxime Wack , Mohammad Chawki , Nicolas Jay , et al.
Scientific Reports, 2018, 8 (1), ⟨10.1038/s41598-018-33980-0⟩
Journal articles hal-01901566v1
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Building an effective and efficient background knowledge resource to enhance ontology matching

Amina Annane , Zohra Bellahsene , Faical Azouaou , Clement Jonquet
Journal of Web Semantics, 2018, 51, pp.51-68. ⟨10.1016/j.websem.2018.04.001⟩
Journal articles hal-01809627v2
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Combining Concept Annotation and Pattern Structures for Guiding Ontology Mapping

Pierre Monnin , Amedeo Napoli , Adrien Coulet
FCA4AI@IJCAI2018 - 6th International Workshop "What can FCA do for Artificial Intelligence?", Jul 2018, Stockholm, Sweden
Conference papers hal-01858391v1
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Découverte d'associations entre Evénements Indésirables Médicamenteux par les structures de patrons et les ontologies

Gabin Personeni , Emmanuel Bresso , Marie-Dominique Devignes , Michel Dumontier , Malika Smaïl-Tabbone , et al.
Journée I.A. et Santé, Jul 2018, Nancy, France
Conference papers hal-01872312v1
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Enhanced Functionalities for Annotating and Indexing Clinical Text with the NCBO Annotator+

Andon Tchechmedjiev , Amine Abdaoui , Vincent Emonet , Soumia Melzi , Jitendra Jonnagaddala , et al.
Bioinformatics, 2018, 34 (11), pp.1962-1965. ⟨10.1093/bioinformatics/bty009⟩
Journal articles lirmm-01680514v1
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Data-Interlinking: the Seed of Knowledge Reconciliation in Pharmacogenomics

Pierre Monnin , Amedeo Napoli , Adrien Coulet
2018
Preprints, Working Papers, ... hal-01955262v1