Ontobee: A linked ontology data server to support ontology term dereferencing, linkage, query and integration

Nucleic Acids Research

Volumn 45, Issue D1, 2017, Pages D347-D352

  Ong, Edison ^a   Xiang, Zuoshuang ^a   Zhao, Bin ^a   Liu, Yue ^a   Lin, Yu ^a   Zheng, Jie ^b   Mungall, Chris ^c   Courtot, Mélanie ^d   Ruttenberg, Alan ^e   He, Yongqun ^a  

^a UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

^b UNIVERSITY OF PENNSYLVANIA   (United States)

^c LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^d EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Italy)

^e UNIVERSITY AT BUFFALO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER INTERFACE; INFORMATION PROCESSING; INFORMATION TECHNOLOGY; INTERNET; LINKAGE ANALYSIS; MEDICAL INFORMATION SYSTEM; MEDICAL ONTOLOGY; MEDICAL TERMINOLOGY; ONTOBEE; PUBLISHING; SYSTEM ANALYSIS; BIOLOGICAL ONTOLOGY; FACTUAL DATABASE; SOFTWARE; WEB BROWSER;

BIOLOGICAL ONTOLOGIES; DATABASES, FACTUAL; SOFTWARE; WEB BROWSER;

EID: 85016134777     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkw918     Document Type: Article

References (12)

1. Ashburner, M., Ball, C.A., Blake, J.A., Botstein, D., Butler, H., Cherry, J.M., Davis, A.P., Dolinski, K., Dwight, S.S., Eppig, J.T. et al. (2000) Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet., 25, 25-29.
2. Smith, B., Ashburner, M., Rosse, C., Bard, J., Bug, W., Ceusters, W., Goldberg, L.J., Eilbeck, K., Ireland, A., Mungall, C.J. et al. (2007) The OBO Foundry: Coordinated evolution of ontologies to support biomedical data integration. Nat. Biotechnol., 25, 1251-1255.
3. Bizer, C., Heath, T. and Berners-Lee, T. (2009) Linked Data-The story so far. Int. J. Semantic Web Inf. Syst., 5, 1-22.
4. He, Y., Cowell, L., Diehl, A.D., Mobley, H.L., Peters, B., Ruttenberg, A., Scheuermann, R.H., Brinkman, R.R., Courtot, M., Mungall, C. et al. (2009) VO: Vaccine Ontology. The 1st International Conference on Biomedical Ontology (ICBO-2009). Nature Precedings, Buffalo.
5. Bandrowski, A., Brinkman, R., Brochhausen, M., Brush, M.H., Bug, B., Chibucos, M.C., Clancy, K., Courtot, M., Derom, D., Dumontier, M. et al. (2016) The ontology for biomedical investigations. PloS one, 11, e0154556.
6. Courtot, M., Bug, W., Gibson, F., Lister, A.L., Malone, J., Schober, D., Brinkman, R.R. and Ruttenberg, A. (2008) The OWL of Biomedical Investigations. OWL Experiences and Directions (OWLED) 2008. Karlsruhe.
7. Xiang, Z., Courtot, M., Brinkman, R.R., Ruttenberg, A. and He, Y. (2010) OntoFox: web-based support for ontology reuse. BMC Res. Notes, 3, 1-12.
8. Zheng, J., Xiang, Z., Stoeckert, C.J. Jr and He, Y. (2014) Ontodog: A web-based ontology community view generation tool. Bioinformatics, 30, 1340-1342.
9. Cote, R.G., Jones, P., Martens, L., Apweiler, R. and Hermjakob, H. (2008) The Ontology Lookup Service: more data and better tools for controlled vocabulary queries. Nucleic Acids Res., 36, W372-W376.
10. Hoehndorf, R., Slater, L., Schofield, P.N. and Gkoutos, G.V. (2015) Aber-OWL: a framework for ontology-based data access in biology. BMC Bioinformatics, 16, 26.
11. Salvadores, M., Alexander, P.R., Musen, M.A. and Noy, N.F. (2013) BioPortal as a Dataset of Linked Biomedical Ontologies and Terminologies in RDF. Semantic Web, 4, 277-284.
12. Jonquet, C., Lependu, P., Falconer, S., Coulet, A., Noy, N.F., Musen, M.A. and Shah, N.H. (2011) NCBO Resource Index: Ontology-based search and mining of biomedical resources. Web Semant., 9, 316-324.