A Semantics-Based Approach to Retrieving Biomedical Information

Troels Andreasen; Henrik Bulskov; Sine Zambach; Tine Lassen; Bodil Nistrup Madsen; Per Anker Jensen; Hanne Erdman Thomsen; Jørgen Fischer Nilsson

doi:10.1007/978-3-642-24764-4_10

A Semantics-Based Approach to Retrieving Biomedical Information

Troels Andreasen, Henrik Bulskov, Sine Zambach, Tine Lassen, Bodil Nistrup Madsen, Per Anker Jensen, Hanne Erdman Thomsen, Jørgen Fischer Nilsson

Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review

Abstract

This paper describes an approach to representing, organising, 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 specialised 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 distinct in its attempt to provide a formal underpinning of conceptual similarity or relatedness of meaning.

Original language	English
Title of host publication	Flexible Query Answering Systems : 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings
Publisher	Springer
Publication date	2011
Pages	108-118
ISBN (Print)	978-3-642-24763-7
ISBN (Electronic)	978-3-642-24764-4
DOIs	https://doi.org/10.1007/978-3-642-24764-4_10
Publication status	Published - 2011
Event	9th International Conference on Flexible Query Answering Systems - Ghent, Belgium Duration: 26 Oct 2011 → 28 Oct 2011 Conference number: 9 http://fqas2011.ugent.be/drupal6/

Conference

Conference	9th International Conference on Flexible Query Answering Systems
Number	9
Country	Belgium
City	Ghent
Period	26/10/2011 → 28/10/2011
Internet address	http://fqas2011.ugent.be/drupal6/

Series	Lecture Notes in Artificial Intelligence
Volume	7022
ISSN	0302-9743

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Andreasen, T., Bulskov, H., Zambach, S., Lassen, T., Madsen, B. N., Jensen, P. A., Thomsen, H. E., & Nilsson, J. F. (2011). A Semantics-Based Approach to Retrieving Biomedical Information. In Flexible Query Answering Systems: 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings (pp. 108-118). Springer. Lecture Notes in Artificial Intelligence Vol. 7022 https://doi.org/10.1007/978-3-642-24764-4_10

Andreasen, Troels ; Bulskov, Henrik ; Zambach, Sine ; Lassen, Tine ; Madsen, Bodil Nistrup ; Jensen, Per Anker ; Thomsen, Hanne Erdman ; Nilsson, Jørgen Fischer. / A Semantics-Based Approach to Retrieving Biomedical Information. Flexible Query Answering Systems: 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings. Springer, 2011. pp. 108-118 (Lecture Notes in Artificial Intelligence, Vol. 7022).

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abstract = "This paper describes an approach to representing, organising, 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 {\textquoteleft}generative ontologies{\textquoteright}, i.e., ontologies providing increasingly specialised 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 distinct in its attempt to provide a formal underpinning of conceptual similarity or relatedness of meaning.",

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Andreasen, T, Bulskov, H, Zambach, S, Lassen, T, Madsen, BN, Jensen, PA, Thomsen, HE & Nilsson, JF 2011, A Semantics-Based Approach to Retrieving Biomedical Information. in Flexible Query Answering Systems: 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings. Springer, Lecture Notes in Artificial Intelligence, vol. 7022, pp. 108-118, 9th International Conference on Flexible Query Answering Systems, Ghent, Belgium, 26/10/2011. https://doi.org/10.1007/978-3-642-24764-4_10

A Semantics-Based Approach to Retrieving Biomedical Information. / Andreasen, Troels; Bulskov, Henrik; Zambach, Sine; Lassen, Tine; Madsen, Bodil Nistrup; Jensen, Per Anker; Thomsen, Hanne Erdman; Nilsson, Jørgen Fischer.

Flexible Query Answering Systems: 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings. Springer, 2011. p. 108-118 (Lecture Notes in Artificial Intelligence, Vol. 7022).

Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review

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Andreasen T, Bulskov H, Zambach S, Lassen T, Madsen BN, Jensen PA et al. A Semantics-Based Approach to Retrieving Biomedical Information. In Flexible Query Answering Systems: 9th International Conference, FQAS 2011 Ghent, Belgium, October 26-28, 2011 Proceedings. Springer. 2011. p. 108-118. (Lecture Notes in Artificial Intelligence, Vol. 7022). https://doi.org/10.1007/978-3-642-24764-4_10