ATOL: The multi-species livestock trait ontology

Communications in Computer and Information Science

Volumn 343 CCIS, Issue , 2012, Pages 289-300

  Golik, Wiktoria ^a   Dameron, Olivier ^b   Bugeon, Jérôme ^c   Fatet, Alice ^d   Hue, Isabelle ^a   Hurtaud, Catherine ^e   Reichstadt, Matthieu ^f   Salaün, Marie Christine ^e   Vernet, Jean ^f   Joret, Léa ^c   Papazian, Frédéric ^a   Nédellec, Claire ^a   Le Bail, Pierre Yves ^c  

^a INRA Institut National de la Recherche Agronomique   (France)

^b UNIVERSITÉ DE RENNES 1   (France)

^c Campus de Beaulieu   (France)

^d UMR85 PHYSIOLOGIE DE LA REPRODUCTION ET DES COMPORTEMENTS   (France)

^e AGROCAMPUS OUEST   (France)

^f VETAGRO SUP   (France)

Author keywords

animal trait; livestock; ontology; terminological analysis

Indexed keywords

ANIMAL PRODUCTION; CROSS-SPECIES; DOMAIN EXPERTS; LIVESTOCK; MEAT QUALITY; MILK PRODUCTION; MULTI-SPECIES; PHENOTYPE DATABASE; REFERENCE SOURCE; SCIENTIFIC PAPERS; TERMINOLOGICAL ANALYSIS;

ANIMALS; METADATA; ONTOLOGY; RESEARCH; SEMANTICS; TERMINOLOGY;

AGRICULTURE;

EID: 84869799996     PISSN: 18650929     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-3-642-35233-1_28     Document Type: Conference Paper

References (18)

1. Blake, J., Bult, C.: Beyond the data deluge: Data integration and bio-ontologies. Journal of Biomedical Informatics 39(3), 314-320 (2006)
2. Hocquette, J.-F., Capel, C., David, V., Guéméné, D., Bidanel, J., Ponsart, C., Gastinel, P.-L., Le Bail, P.-Y., Monget, P., Mormède, P., Barbezant, M., Guillou, F., Peyraud, J.-L.: Objectives and applications of phenotyping network setup for livestock. Animal Science Journal 83, 517-528 (2012)
3. Cimino, J.J., Zhu, X.: The practical impact of ontologies on biomedical informatics. Methods of Information in Medicine (2006)
4. Shah, N.H., Jonquet, C., Chiang, A.P., Butte, A.J., Chen, R., Musen, M.A.: Ontology-driven indexing of public datasets for translational bioinformatics. BMC Bioinformatics 10(suppl. 2), S1 (2009)
5. Bard, J.B.L., Rhee, S.Y.: Ontologies in biology: design, applications and future challenges. Nature Reviews. Genetics 5(3), 213-222 (2004)
6. Shimoyama, M., Nigam, R., Sanders McIntosh, L., Nagarajan, R., Rice, T., Rao, D.C., Dwinell, M.R.: Three ontologies to define phenotype measurement data. Frontiers in Genetics 3, 87 (2012)
7. Smith, C.L., Goldsmith, C.-A.W., Eppig, J.T.: The mammalian phenotype ontology as a tool for annotating, analyzing and comparing phenotypic information. Genome Biology 6(1), 7 (2004)
8. Hughes, L.M., Bao, J., Hu, Z.-L., Honavar, V., Reecy, J.M.: Animal trait ontology: The importance and usefulness of a unified trait vocabulary for animal species. Journal of Animal Science 86(6), 1485-1491 (2008)
9. Park, C., Bello, S., Smith, C., Hu, Z.-L., Munzenmaier, D., Shimoyama, M., Eppig, J., Reecy, J.: The vertebrate trait ontology: A controlled vocabulary to facilitate cross-species comparison of trait data. In: Proceedings of the 20th Conference on Plant and Animal Genomes, San Diego, CA (2012)
10. Uschold, M., King, M.: Towards a methodology for building ontologies. In: IJCAI 1995 Workshop on Basic Ontological Issues in Knowledge Sharing (1995)
11. Nédellec, C., Golik, W., Aubin, S., Bossy, R.: Building Large Lexicalized Ontologies from Text: A Use Case in Automatic Indexing of Biotechnology Patents. In: Cimiano, P., Pinto, H.S. (eds.) EKAW 2010. LNCS, vol. 6317, pp. 514-523. Springer, Heidelberg (2010)
12. Mondary, T., Nazarenko, A., Zargayouna, H., Barreaux, S.: The quaero evaluation campaign on term extraction. In: Proceedings of the Eighth International Conference on Language Resources and Evaluation, LREC (2012)
13. Aussenac-Gilles, N., Després, S., Szulman, S.: The terminae method and platform for ontology engineering from texts. In: Bridging the Gap between Text and Knowledge - Selected Contributions to Ontology Learning and Population from Text, pp. 199-223 (2008)
14. Jacquemin, C.: A Symbolic and Surgical Acquisition of Terms Through Variation. In: Wermter, S., Scheler, G., Riloff, E. (eds.) IJCAI-WS 1995. LNCS, vol. 1040, pp. 425-438. Springer, Heidelberg (1996)
15. Nédellec, C., Nazarenko, A., Bossy, R.: Information Extraction. In: Ontology Handbook, pp. 663-686. Springer (2008)
16. Miller, G.A., Beckwith, R., Fellbaum, C.D., Gross, D., Miller, K.: WordNet: An online lexical database. Int. J. Lexicograph. 3(4), 235-244 (1990)
17. Bossy, R., Kotoujansky, A., Golik, W., Aubin, S., Nédellec, C.: Close integration of ML and NLP tools in BioAlvis for semantic search in bacteriology. In: Proc. of the Workshop on Semantic Web Applications and Tools for Life Sciences (2008)
18. AlvisIR for ANIMAL, http://bibliome.jouy.inra.fr/test/alvisir/animal/