IP08: Gold-Standard Ontology-Based Annotation of Concepts in Biomedical Text in the CRAFT Corpus: Updates and Extensions

TitleIP08: Gold-Standard Ontology-Based Annotation of Concepts in Biomedical Text in the CRAFT Corpus: Updates and Extensions
Publication TypeConference Paper
Year of Publication2016
AuthorsBada M, Vasilevsky N, Haendel M, Hunter L
Conference NameInternational Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)
Date Published11/30/16
PublisherCEUR-ws.org Volume 1747
Other NumbersVol-1747|urn:nbn:de:0074-1747-1
Abstract

Ontologies are increasingly used for semantic integration across disparate curated biomedical resources, while gold-standard annotated corpora are needed for accurate training and evaluation of text-mining tools. Bringing together the respective power of these, we created the Colorado Richly Annotated Full-Text (CRAFT) Corpus, a collection of full-length, open-access biomedical journal articles that have been manually annotated both syntactically and semantically with select Open Biomedical Ontologies (OBOs), the first release of which includes  100,000 annotations of concepts mentioned in the text of 67 articles and mapped to the classes of eight prominent OBOs. Here we present our continuing work on the corpus, including updated versions of these annotations with newer versions of the ontologies, new annotations made with two additional OBOs, annotations made with newly created extension classes defined in terms of existing classes of the ontologies, and new annotations of roots of prefixed and suffixed words.

URLhttp://ceur-ws.org/Vol-1747/IP08_ICBO2016.pdf