Abstract
Semantic Web technologies offer the possibility of increased accuracy and completeness in search and retrieval operations. In recent years, curators of data resources have begun favouring the use of ontologies over the use of free text entries. Generally this has been done by marking up existing database records with “annotations” that contain ontology term references. Although there are a number of tools available for develo** ontologies, there are few generic resources for enabling this annotation process. This paper examines the requirements for such an annotation tool, and describes the design and implementation of the Pedro Ontology Service Framework, which seeks to fulfill these requirements.
Chapter PDF
Similar content being viewed by others
Keywords
- Description Logic
- Control Vocabulary
- Data Provider
- Microarray Gene Expression Data
- Williams Beuren Syndrome
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
References
Aitken, S., Baldock, R., Bard, J., Burger, A., Davidson, D., Hayamizu, T., Parkinson, H., Rector, A., Ringwald, M., Rogers, J., Rosse, C., Stoeckert, C.: The SOFG Anatomy Entry List (SAEL): an annotation tool for functional genomics data. Comparative and Functional Genomics (2005) (In Press)
Bada, M., Stevens, R., Goble, C., Gil, Y., Ashburner, M., Blake, J.A., Cherry, J.M., Harris, M., Lewis, S.: A Short Study on the Success of the Gene Ontology. Accepted for publication in the Journal of Web Semantics (2004)
Bechhofer, S., Möller, R., Crowther, P.: The dig description logic interface. In: Description Logics. CEUR Workshop Proceedings (2003)
Knublauch, H., Fergerson, R.W., Noy, N.F., Musen, M.A.: The protégé owl plugin: An open development environment for semantic web applications. In: McIlraith, S.A., Plexousakis, D., van Harmelen, F. (eds.) ISWC 2004. LNCS, vol. 3298, pp. 229–243. Springer, Heidelberg (2004)
Knublauch, H., Musen, M.A., Rector, A.L.: Editing description logic ontologies with the Protégé owl plugin. In: International Workshop on Description Logics, Whistler, BC, Canada (2004)
Lord, P., Alper, P., Wroe, C., Goble, C.: Feta: A light-weight architecture for user oriented semantic service discovery. In: Gómez-Pérez, A., Euzenat, J. (eds.) ESWC 2005. LNCS, vol. 3532, pp. 17–31. Springer, Heidelberg (2005)
Lord, P., Bechhofer, S., Wilkinson, M.D., Schiltz, G., Gessler, D., Hull, D., Goble, C., Stein, L.: Applying semantic web services to bioinformatics: Experiences gained, lessons learnt. In: McIlraith, S.A., Plexousakis, D., van Harmelen, F. (eds.) ISWC 2004. LNCS, vol. 3298, pp. 350–364. Springer, Heidelberg (2004)
Spellman, P.T., et al.: Design and implementation of microarray gene expression markup language (mage-ml). Genome Biology, 3(9) (2002), research0046.1–0046.9
Stevens, R.D., Tipney, H.J., Wroe, C.J., Oinn, T.M., Senger, M., Lord, P.W., Goble, C.A., Brass, A., Tassabehji, M.: Exploring Williams Beuren Syndrome Using myGrid. In: Bioinformatics, Intelligent Systems for Molecular Biology (ISMB), vol. 20, pp. i303–i310 (2004)
Stoeckert, C.J., Parkinson, H.: The mged ontology: a framework for describing functional genomics experiments. Comp. Funct. Genom. 4, 127–132 (2003)
Taylor, C.F., et al.: A systematic approach to modeling, capturing and disseminating proteomics experimental data. Nature Biotech. 21(3), 247–254 (2003)
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2005 Springer-Verlag Berlin Heidelberg
About this paper
Cite this paper
Garwood, K., Lord, P., Parkinson, H., Paton, N.W., Goble, C. (2005). Pedro Ontology Services: A Framework for Rapid Ontology Markup. In: Gómez-Pérez, A., Euzenat, J. (eds) The Semantic Web: Research and Applications. ESWC 2005. Lecture Notes in Computer Science, vol 3532. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11431053_39
Download citation
DOI: https://doi.org/10.1007/11431053_39
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-26124-7
Online ISBN: 978-3-540-31547-6
eBook Packages: Computer ScienceComputer Science (R0)