SIABO: Semantic Information Access through Biomedical Ontologies

Troels Andreasen, Sine Zambach, Tine Lassen, Jørgen Fischer Nilsson, Bodil Nistrup Madsen, Per Anker Jensen, Hanne Erdman Thomsen, Bartlomiej Antoni Szymczak

Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review


The scientific aim of the project presented in this paper is to provide an approach to representing, organizing, and accessing conceptual content of biomedical texts using a formal ontology. The ontology is based on UMLS resources supplemented with domain ontologies developed in the project. The approach introduces the notion of ‘generative ontologies', i.e., ontologies providing increasingly specialized concepts reflecting the phrase structure of natural language. Furthermore, we propose a novel so-called ‘ontological semantics' which maps noun phrases from texts and queries into nodes in the generative ontology. This enables an advanced form of data mining of texts identifying paraphrases and concept relations and measuring distances between key concepts in texts. Thus, the project is unique in its attempt to provide a formal underpinning of conceptual similarity or relatedness of meaning.
Original languageEnglish
Title of host publicationKEOD 2009 : 1st International Conference on Knowledge Engeneering and Ontology Development
EditorsJan L. G. Dietz
Number of pages6
PublisherInstitute for Systems and Technologies of Information, Control and Communication
Publication date2009
ISBN (Print)978-989-674-012-2
Publication statusPublished - 2009
EventInternational Conference on Knowledge Engeneering and Ontology Development (KEOD) - Funchal, Portugal
Duration: 6 Oct 20098 Oct 2009


ConferenceInternational Conference on Knowledge Engeneering and Ontology Development (KEOD)


  • Domain modelling
  • Ontology engeneering
  • NLP
  • Ontological, Content-oriented text search

Cite this