Using Partial Reference Alignments to Align Ontologies

  • Patrick Lambrix
  • Qiang Liu
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5554)


In different areas ontologies have been developed and many of these ontologies contain overlapping information. Often we would therefore want to be able to use multiple ontologies. To obtain good results, we need to find the relationships between terms in the different ontologies, i.e. we need to align them.

Currently, there already exist a number of ontology alignment systems. In these systems an alignment is computed from scratch. However, recently, some situations have occurred where a partial reference alignment is available, i.e. some of the correct mappings between terms are given or have been obtained. In this paper we investigate whether and how a partial reference alignment can be used in ontology alignment. We use partial reference alignments to partition ontologies, to compute similarities between terms and to filter mapping suggestions. We test the approaches on previously developed gold standards and discuss the results.


Correct Mapping Reference Alignment Ontology Match Alignment Strategy Consistent Group 
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.


  1. 1.
    Chen, B., Tan, H., Lambrix, P.: Structure-based filtering for ontology alignment. In: Proc. IEEE WETICE Workshop on Semantic Technologies in Collaborative Applications, pp. 364–369 (2006)Google Scholar
  2. 2.
    The Gene Ontology Consortium. Gene ontology: tool for the unification of biology. Nature Genetics 25(1), 25–29 (2000)Google Scholar
  3. 3.
    Ehrig, M., Staab, S.: QOM - quick ontology mapping. In: McIlraith, S.A., Plexousakis, D., van Harmelen, F. (eds.) ISWC 2004. LNCS, vol. 3298, pp. 683–697. Springer, Heidelberg (2004)CrossRefGoogle Scholar
  4. 4.
    Euzenat, J., Shvaiko, P.: Ontology Matching. Springer, Heidelberg (2007)zbMATHGoogle Scholar
  5. 5.
    Jasper, R., Uschold, M.: A framework for understanding and classifying ontology applications. In: Proc. IJCAI Workshop on Ontologies and Problem-Solving Methods: Lessons Learned and Future Trends (1999)Google Scholar
  6. 6.
    Kalfoglou, Y., Schorlemmer, M.: Ontology mapping: the state of the art. The Knowledge Engineering Review 18(1), 1–31 (2003)CrossRefzbMATHGoogle Scholar
  7. 7.
    Lambrix, P., Tan, H.: SAMBO - a system for aligning and merging biomedical ontologies. Journal of Web Semantics 4(3), 196–206 (2006)Google Scholar
  8. 8.
    Lambrix, P., Tan, H., Liu, Q.: SAMBO and SAMBOdtf results for the ontology alignment evaluation initiative 2008. In: Proc. 3rd International Workshop on Ontology Matching (2008)Google Scholar
  9. 9.
    Lambrix, P., Tan, H., Xu, W.: Literature-based alignment of ontologies. In: Proc. 3rd International Workshop on Ontology Matching (2008)Google Scholar
  10. 10.
    Meilicke, C., Stuckenschmidt, H.: Anatomy track at the Ontology Alignment Evaluation Initiative (2008),
  11. 11.
    MeSH. Medical subject headings,
  12. 12.
    Noy, N.F.: Semantic integration: A survey of ontology-based approaches. Sigmod Record 33(4), 65–70 (2004)Google Scholar
  13. 13.
    Noy, N.F., Griffith, N., Musen, M.: Collecting community-based mappings in an ontology repository. In: Proc. 7th International Semantic Web Conference, pp. 371–386 (2008)Google Scholar
  14. 14.
    Shvaiko, P., Euzenat, J.: A survey of schema-based matching approaches. Journal on Data Semantics IV, 146–171 (2005)zbMATHGoogle Scholar
  15. 15.
    Shvaiko, P., Euzenat, J.: Ten challenges for ontology matching. In: Proc. 7th International Conference on Ontologies, Databases, and Applications of Semantics (2008)Google Scholar
  16. 16.
    Takai-Igarashi, T., Nadaoka, Y., Kaminuma, T.: A database for cell signaling networks. Journal of Computational Biology 5(4), 747–754 (1998)Google Scholar
  17. 17.
    Tan, H., Jakonienė, V., Lambrix, P., Aberg, J., Shahmehri, N.: Alignment of biomedical ontologies using life science literature. In: Bremer, E.G., Hakenberg, J., Han, E.-H(S.), Berrar, D., Dubitzky, W. (eds.) KDLL 2006. LNCS (LNBI), vol. 3886, pp. 1–17. Springer, Heidelberg (2006)CrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2009

Authors and Affiliations

  • Patrick Lambrix
    • 1
  • Qiang Liu
    • 1
  1. 1.Department of Computer and Information ScienceLinköpings universitetLinköpingSweden

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