An Approach to Automatic Ontology-Based Annotation of Biomedical Texts

  • Gayo Diallo
  • Michel Simonet
  • Ana Simonet
Part of the Lecture Notes in Computer Science book series (LNCS, volume 4031)


Sharing and enriching of documents is expected and is made possible nowadays with tools enabling users to perform different kinds of annotations. We propose an Ontology-based approach to automate the semantic annotation of texts; Ontologies are represented in OWL (Web Ontology Language). OWL is supported by Semantic Web tools such as Racer for reasoning purpose and Jena. The tool for automatic semantic annotation supporting word-based and stem-based pre-indexing techniques is presented and its evaluation is made on three medical corpora both in English and French (brain disease area, cardiology and OHSUMED collection). The evaluation shows difference in the results obtained according to the pre-indixng mode used.


Domain Ontology Semantic Annotation Prefer Term Biomedical Text Anatomical Ontology 
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.


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© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • Gayo Diallo
    • 1
  • Michel Simonet
    • 1
  • Ana Simonet
    • 1
  1. 1.Laboratoire TIMCUniversité Grenoble 1, Faculté de MédecineLa TroncheFrance

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