A controlled vocabulary for livestock phenotyping: The ATOL ontology;Un langage de référence pour le phénotypage des animaux d'élevage: L'ontologie ATOL

Productions Animales

Volumn 27, Issue 3, 2014, Pages 195-208

  Le Bail, P Y ^a   Bugeon, J ^a   Dameron, O ^b   Fatet, A ^c,d,e,f   Golik, W ^g   Hocquette, J F ^h,i   Hurtaud, C ^j   Hue, I ^k   Jondreville, C ^l   Joret, L ^a   Meunier Salaun M C ^j   Vernet, J ^h,i   Nedellec, C ^g   Reichstadt, M ^h,i   Chemineau, P ^c,d,e,f  

^a Campus de Beaulieu   (France)

^b UNIVERSITÉ DE RENNES 1   (France)

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

^d CNRS   (France)

^e UNIVERSITÉ DE TOURS   (France)

^f IFCE   (France)

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

^h UMR1213 HERBIVORES   (France)

ⁱ UNIVERSITÉ CLERMONT AUVERGNE   (France)

^j AGROCAMPUS OUEST   (France)

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

^l UNIVERSITÉ DE LORRAINE   (France)

more..

Author keywords

[No Author keywords available]

Indexed keywords

ANIMALIA;

EID: 84920794732     PISSN: 09900632     EISSN: 11525428     Source Type: Journal    
DOI: None     Document Type: Article

References (27)

1. Bard J.B.L., Rhee S.Y., 2004. Ontologies in biology: design, applications and future challenges. Nat. Rev. Genet., 5, 213-222.
2. Blake J.A., Bult C.J., 2006. Beyond the data deluge: data integration and bio-ontologies. J. Biomed. Inform., 39, 314-320.
3. Bodenreider O., Stevens R., 2006. Bio-ontologies: current trends and future directions. Brief Bioinform., 7, 256-274.
4. Cimino J.J., Zhu X., 2006. The practical impact of ontologies on biomedical informatics. Yearb Med. Inform., 124-135.
5. Corcho O., 2006. Ontology based document annotation: trends and open research problems. Int. J. Metadata Semant. Ontologies, 1, 47-57.
6. De Rochambeau H., 2007. Les principes de l'amélioration génétique des animaux domestiques. C. R. Acad. Agric. Fr., 93, 1-9.
7. Elek P., Newbold J.R., Gall T., Wagner L., Husventh F., 2008. Effects of rumen protected choline supplementation on milk production and choline supply of periparturient dairy cows. Animal, 2, 1595-1601.
8. th Metadata and Semantics Research Conference, Springer Verlag Communications in Computer and Information Science Serie. Cadiz, Espagne, 289-300.
9. Golik W., Bossy R., Ratkovic Z., Nédellec C., 2013. Improving term extraction with linguistic analysis in the biomedical domain. Res. Comp. Sci., 129-143.
10. Groth P., Leser U., Weiss B., 2011. Phenotype mining for functional genomics and gene discovery. Methods Mol. Biol., 760, 159-173.
11. Hocquette J.F., Renand G., Levéziel H., Picard B., Cassar-Malek I., 2006. The potential benefits of genetics and genomics to improve beef quality. Anim. Sci. Papers and Reports, 24, 173-189.
12. Hocquette J.F., Boudra H., Cassar-Malek I., Leroux C., Picard B., Savary I., Bernard L., Cornu A., Durand D., Ferlay A., Gruffat D., Morgavi D., Terlouw C., 2009. Perspectives offertes par les approches en « omique » pour l'amélioration de la durabilité de l'élevage des herbivores. INRA Prod. Anim., 22, 385-396.
13. Hocquette J.F., Meurice P., Brun J.P., Jurie C., Denoyelle C., Bauchart D., Renand G., Nute G.R., Picard B., 2011. The challenge and limitations of combining data: a case study examining the relationship between intramuscular fat content and flavour intensity based on the BIF-BEEF database. Anim. Prod. Sci., 51, 975-981.
14. 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., 2012. Objectives and applications of phenotyping network set-up for livestock. Anim. Sci. J., 83, 517-528.
15. Hu Z.L., Dracheva S., Jang W., Maglott D., Bastiaansen J., Rothschild M.F., Reecy J.M., 2005. A qtl resource and comparison tool for pigs: PigQTLDB. Mamm. Genome, 16, 792-800.
16. Hughes L.M., Bao J., Hu Z.L., Honavar V., Reecy J. M., 2008. Animal trait ontology: The importance and usefulness of a unified trait vocabulary for animal species. J. Anim. Sci., 86, 1485-1491.
17. Jacquemin C., 1999. Syntagmatic and paradigmatic representations of term variation. In: Proc. ACL'99, 341-348.
18. Miller G.A., Beckwith R., Fellbaum C.D., Gross D., Miller K., 1990. WordNet: An online lexical database. Int. J. Lexicograph., 4, 235-244.
19. Monget P., Le Bail P.Y., 2009. Le phénotypage des animaux: le nouveau défi? Animal phenotyping: the new challenge. Renc. Rech. Rum., 16, 407-409.
20. Mungall C.J., Gkoutos G.V., Smith C.L., Haendel M.A., Lewis S.E., Ashburner M., 2010. Integrating phenotype ontologies across multiple species. Genome Biol., 11, R2.
21. Nédellec C., Golik W., Aubin S., Bossy R., 2010. Building Large Lexicalized Ontologies from Text: a Use Case in Indexing Biotechnology Patents. EKAW 2010. 514-523, Springer Verlag. Lisbon, Portugal, Oct. 11-15, 2010.
22. Park C.A., Bello S.M., Smith C.L., Hu Z.L., Munzenmaier D.H., Nigam R., Smith J.R., Shimoyama M., Eppig J.T., Reecy J.M., 2013. The Vertebrate Trait Ontology: a controlled vocabulary for the annotation of trait data across species. J. Biomed. Semantics, 4, 13.
23. Robinson P.N., Mundlos S., 2010. The Human Phenotype Ontology. Clin. Genet., 77, 525-534.
24. Shimoyama M., Nigam R., Sanders McIntosh L., Nagarajan R., Rice T., Rao D.C., Dwinell M.R., 2013. Three ontologies to define phenotype measurement data. Front. Genet., Vol 3, Art. 87, 10p.
25. Smith C.L., Goldsmith C.A.W., Eppig J.T., 2005. The Mammalian Phenotype Ontology as a tool for annotating, analysing and comparing phenotypic information. Genome Biol., 6, R7.
26. Teletchea F., Fostier, A., Le Bail P.Y., Jalabert B., Gardeur J.N., Fontaine P., 2007. STOREFISH: A new database dedicated to the reproduction of temperate freshwater teleost fishes. Cybium, 31, 227-235.
27. Watson R., Gee A., Polkinghorne R., Porter M., 2008. Consumer assessment of eating quality-development of protocols for Meat Standards Australia (MSA) testing. Aust. J. Exp. Agric., 48, 1360-1367.