A Formal Framework on the Semantics of Regulatory Relations and Their Presence as Verbs in Biomedical Texts

Sine Zambach

Research output: Contribution to journalConference articleResearchpeer-review

Abstract

Relations used in biomedical ontologies and expressed in biomedical texts can be very general or very specific. Regulatory relations are used widely in regulatory networks, for example, and therefore they appear systematically and highly frequently in biomedical texts. This work focuses on the logical properties of positive and negative regulations, both as formal relations and the frequency of their usage as verbs in texts. The paper discusses whether there exists a weak transitivity-like property for the relations. Our corpora consist of biomedical patents, Medline abstracts and the British National Corpus (BNC). Finally, the paper discusses the use of the relations for semantic indexing in information retrieval.

Original languageEnglish
Book seriesLecture Notes in Computer Science
Pages (from-to)443-452
Number of pages10
ISSN0302-9743
DOIs
Publication statusPublished - 2009
EventFQAS 2009 - Flexible Query Answering Systems - Roskilde, Denmark
Duration: 26 Oct 200928 Oct 2009
Conference number: 8

Conference

ConferenceFQAS 2009 - Flexible Query Answering Systems
Number8
CountryDenmark
CityRoskilde
Period26/10/200928/10/2009

Keywords

  • Formal relations
  • Biochemical pathways
  • domain ontologies

Cite this

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A Formal Framework on the Semantics of Regulatory Relations and Their Presence as Verbs in Biomedical Texts. / Zambach, Sine.

In: Lecture Notes in Computer Science, 2009, p. 443-452.

Research output: Contribution to journalConference articleResearchpeer-review

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AB - Relations used in biomedical ontologies and expressed in biomedical texts can be very general or very specific. Regulatory relations are used widely in regulatory networks, for example, and therefore they appear systematically and highly frequently in biomedical texts. This work focuses on the logical properties of positive and negative regulations, both as formal relations and the frequency of their usage as verbs in texts. The paper discusses whether there exists a weak transitivity-like property for the relations. Our corpora consist of biomedical patents, Medline abstracts and the British National Corpus (BNC). Finally, the paper discusses the use of the relations for semantic indexing in information retrieval.

KW - Formelle relationer

KW - Biokemiske pathways

KW - Domæne ontologier

KW - Formal relations

KW - Biochemical pathways

KW - domain ontologies

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JF - Lecture Notes in Computer Science

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