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Protein name tagging in the immunological domain

Shepherd, Adrian J. and Kabiljo, R. (2008) Protein name tagging in the immunological domain. In: Proceedings of the Third Symposium on Semantic Mining in Biomedicine, September 1-3 2008, Turku, Finland.

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The research described in this paper addresses the following question: How well do generic protein/gene name taggers perform when they are applied to full-text articles from the sub-domain of immunology (a subdomain with its own distinctive protein nomenclature)? To answer this question we have created a new corpus – ImmunoTome – consisting of ten full-text immunological articles in which the names of proteins have been manually annotated. Our results show that a single tagger – ABNER trained on the BioCreAtivE corpus – performs significantly better than the other taggers we evaluated when applied to ImmunoTome. ImmunoTome is available from

Item Type: Conference or Workshop Item (UNSPECIFIED)
School or Research Centre: Birkbeck Schools and Research Centres > School of Science > Biological Sciences
Depositing User: Administrator
Date Deposited: 04 Aug 2010 14:09
Last Modified: 17 Apr 2013 12:17

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