Learning formal definitions for biomedical concepts

Research output: Contribution to journalConference articleContributedpeer-review

Abstract

Ontologies such as the SNOMED Clinical Terms (SNOMED CT), and the Medical Subject Headings (MeSH) play a major role in life sciences. Modeling formally the concepts and the roles in this domain is a crucial process to allow for the integration of biomedical knowledge across applications. In this direction we propose a novel methodology to learn formal definitions for biomedical concepts from unstructured text. We evaluate experimentally the suggested methodology in learning formal definitions of SNOMED CT concepts, using their text definitions from MeSH. The evaluation is focused on the learning of three roles which are among the most populated roles in SNOMED CT: Associated Morphology, Finding Site and Causative Agent. Results show that our methodology may provide an Accuracy of up to 75%. For the representation of the instances three main approaches are suggested, namely, Bag of Words, word n-grams and character n-grams.

Details

Original languageEnglish
JournalCEUR Workshop Proceedings
Volume1080
Publication statusPublished - 2013
Peer-reviewedYes

Conference

Title10th International Workshop on OWL: Experiences and Directions, OWLED 2013 - Co-located with 10th Extended Semantic Web Conference, ESWC 2013
Duration26 - 27 May 2013
CityMontpellier
CountryFrance

External IDs

ORCID /0000-0003-2848-6949/work/141543342
ORCID /0000-0002-4049-221X/work/142247965

Keywords

ASJC Scopus subject areas