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Semantic Indexing of French Biomedical Data Resources - mobility


Two years later: the landscape of vocabularies and ontologies in the AgroPortal

Author(s): Jonquet, Clement; Toulet, Anne; Emonet, Vincent
Published in: 5th International Workshop on sources and data integration in agriculture, food and environment using ontologies (IN-OVIVE @ EFITA 2017), 2017
Publisher: EFITA

ICD-10 coding of death certificates with the NCBO and SIFR Annotators at CLEF eHealth 2017

Author(s): Tchechmedjiev, Andon; Abdaoui, Amine; Emonet, Vincent; Jonquet, Clement
Published in: Working Notes of CLEF eHealth Evaluation Lab, 2017
Publisher: CEUR

AgroPortal: an ontology repository for agronomy

Author(s): Jonquet, Clement
Published in: European conference dedicated to the future use of ICT in the agri-food sector, bioresource and biomass sector, EFITA'17, demonstration session, 2017
Publisher: EFITA

Enrichment of French Biomedical Ontologies with UMLS Concepts and Semantic Types for Biomedical Named Entity Recognition Though Ontological Semantic Annotation

Author(s): Tchechmedjiev, Andon; Jonquet, Clement
Published in: Language, Ontology, Terminology and Knowledge Structures Workshop (LOKTS 2017), 2017
Publisher: NA

PGxO: A very lite ontology to reconcile pharmacogenomic knowledge units

Author(s): Monnin, Pierre; Jonquet, Clément; Legrand, Joël; Napoli, Amedeo; Coulet, Adrien
Published in: Methods, tools & platforms for Personalized Medicine in the Big Data Era (NETTAB 2017 Workshop), Issue 1, 2017
Publisher: PeerJ

French ConText: Détecter la négation, la temporalité et le sujet dans les textes cliniques Français

Author(s): Abdaoui, Amine; Tchechmedjiev, Andon; Digan, William; Bringay, Sandra; Jonquet, Clement
Published in: 4ème Symposium sur l'Ingénierie de l'Information Médicale, SIIM'17, 2017
Publisher: IRIT

Challenges for ontology repositories and applications to biomedicine & agronomy

Author(s): Jonquet , Clement
Published in: SIMBig: Symposium on Information Management and Big Data, Issue 1, 2017
Publisher: None

MuEVo, a breast cancer Consumer Health Vocabulary built out of web forums

Author(s): Jonquet, Clement; Tapi-Nzali, Mike-Donald; Bringay, Sandra; TAPI NZALI, Mike Donald; Eholié, Solène
Published in: A. Paschke; A. Burger; A. Splendiani; M.S. Marshall; P. Romano. SWAT4LS: Semantic Web Applications and Tools for Life Sciences, 2016, Amsterdam, Netherlands. 9th International Semantic Web Applications and Tools for Life Sciences, 2016, Issue 1, 2016, Page(s) 10
Publisher: none

Maitriser une technologie de gestion des ontologies et vocabulaires en France : défis et enjeux

Author(s): Jonquet , Clement
Published in: SemWebPro Conference, Issue 1, 2018, Page(s) 2
Publisher: SemWebPro

Projet VisaTM : l'interconnexion OpenMinTeD – AgroPortal – ISTEX, un exemple de service de Text et Data Mining pour les scientifiques français

Author(s): Kettani , Fabienne; Schneider , Stéphane; Aubin , Sophie; Bossy , Robert; François , Claire; Jonquet , Clement; Tchechmedjiev , Andon; Toulet , Anne; Nédellec , Claire
Published in: 29es Journées Francophones d'Ingénierie des Connaissances, Session poster, Issue 1, 2018, Page(s) 247-249
Publisher: AFIA

YAM-BIO – Results for OAEI 2017

Author(s): Amina Annane, Zohra Bellahsene, Faiçal Azouaou, Clement Jonquet
Published in: System paper Ontology Alignment Evaluation Initiative 2017 Campaign, 2017, Page(s) 5
Publisher: NA

Assessing the Practice of Ontology Metadata: A Survey Result

Author(s): Anne Toulet; Biswanath Dutta; Clement Jonquet
Published in: Issue 1, 2018
Publisher: University of Montpellier and Indian Statistical Institute
DOI: 10.5281/zenodo.3484530

NCBO Ontology Recommender 2.0: an enhanced approach for biomedical ontology recommendation

Author(s): Marcos Martínez-Romero, Clement Jonquet, Martin J. O’Connor, John Graybeal, Alejandro Pazos, Mark A. Musen
Published in: Journal of Biomedical Semantics, Issue 8/1, 2017, Page(s) Journal of Biomedical Semantics, ISSN 2041-1480
Publisher: BMC
DOI: 10.1186/s13326-017-0128-y

AgroPortal: A vocabulary and ontology repository for agronomy

Author(s): Clément Jonquet, Anne Toulet, Elizabeth Arnaud, Sophie Aubin, Esther Dzalé Yeumo, Vincent Emonet, John Graybeal, Marie-Angélique Laporte, Mark A. Musen, Valeria Pesce, Pierre Larmande
Published in: Computers and Electronics in Agriculture, Issue 144, 2018, Page(s) 126-143, ISSN 0168-1699
Publisher: Elsevier BV
DOI: 10.1016/j.compag.2017.10.012

Building an effective and efficient background knowledge resource to enhance ontology matching

Author(s): Amina Annane, Zohra Bellahsene, Faiçal Azouaou, Clement Jonquet
Published in: Journal of Web Semantics, Issue 51, 2018, Page(s) 51-68, ISSN 1570-8268
Publisher: Elsevier BV
DOI: 10.1016/j.websem.2018.04.001

Enhanced functionalities for annotating and indexing clinical text with the NCBO Annotator+

Author(s): Andon Tchechmedjiev, Amine Abdaoui, Vincent Emonet, Soumia Melzi, Jitendra Jonnagaddala, Clement Jonquet
Published in: Bioinformatics, Issue 34/11, 2018, Page(s) 1962-1965, ISSN 1367-4803
Publisher: Oxford University Press
DOI: 10.1093/bioinformatics/bty009

Developing data interoperability using standards: A wheat community use case

Author(s): Esther Dzale Yeumo, Michael Alaux, Elizabeth Arnaud, Sophie Aubin, Ute Baumann, Patrice Buche, Laurel Cooper, Hanna Ćwiek-Kupczyńska, Robert P. Davey, Richard Allan Fulss, Clement Jonquet, Marie-Angélique Laporte, Pierre Larmande, Cyril Pommier, Vassilis Protonotarios, Carmen Reverte, Rosemary Shrestha, Imma Subirats, Aravind Venkatesan, Alex Whan, Hadi Quesneville
Published in: F1000Research, Issue 6, 2017, Page(s) 1843, ISSN 2046-1402
Publisher: F1000 Research Ltd.
DOI: 10.12688/f1000research.12234.1

Harnessing the Power of Unified Metadata in an Ontology Repository: The Case of AgroPortal

Author(s): Clement Jonquet, Anne Toulet, Biswanath Dutta, Vincent Emonet
Published in: Journal on Data Semantics, 2018, Page(s) 1-31, ISSN 1861-2032
Publisher: Springer
DOI: 10.1007/s13740-018-0091-5

PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison

Author(s): Pierre Monnin, Joël Legrand, Graziella Husson, Patrice Ringot, Andon Tchechmedjiev, Clément Jonquet, Amedeo Napoli, Adrien Coulet
Published in: BMC Bioinformatics, Issue 20/S4, 2019, ISSN 1471-2105
Publisher: BioMed Central
DOI: 10.1186/s12859-019-2693-9

SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes

Author(s): Andon Tchechmedjiev, Amine Abdaoui, Vincent Emonet, Stella Zevio, Clement Jonquet
Published in: BMC Bioinformatics, Issue 19/1, 2018, ISSN 1471-2105
Publisher: BioMed Central
DOI: 10.1186/s12859-018-2429-2

New Generation Metadata Vocabulary for Ontology Description and Publication

Author(s): Biswanath Dutta, Anne Toulet, Vincent Emonet, Clement Jonquet
Published in: Metadata and Semantic Research, Issue 755, 2017, Page(s) 173-185, ISBN 978-3-319-70862-1
Publisher: Springer International Publishing
DOI: 10.1007/978-3-319-70863-8_17

Proceedings of the 2nd International Workshop on Semantics for Biodiversity, S4BioDiv'17

Author(s): Algergawy, Alsayed; Karam, Naouel; Klan, Friederike; Jonquet, Clement
Published in: 2nd International Workshop on Semantics for Biodiversity (S4BioDiv 2017), 2017
Publisher: CEUR

Semantic Indexing of French Biomedical Data Resources

Author(s): Clement Jonquet
Published in: Project Repository Journal, Issue 3, 2019, Page(s) 16-19, ISSN 2632-4067
Publisher: EDMA

Ontology Repository and Ontology-Based Services – Challenges, contributions and applications to biomedicine & agronomy

Author(s): Clement Jonquet
Published in: University of Montpellier HDR manuscript, 2019
Publisher: University of Montpellier

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