Automatic concept recognition using the human phenotype ontology reference and test suite corpora.

ABSTRACT: Concept recognition tools rely on the availability of textual corpora to assess their performance and enable the identification of areas for improvement. Typically, corpora are developed for specific purposes, such as gene name recognition. Gene and protein name identification are longstanding goals of biomedical text mining, and therefore a number of different corpora exist. However, phenotypes only recently became an entity of interest for specialized concept recognition systems, and hardly any annotated text is available for performance testing and training. Here, we present a unique corpus, capturing text spans from 228 abstracts manually annotated with Human Phenotype Ontology (HPO) concepts and harmonized by three curators, which can be used as a reference standard for free text anno

SUBMITTER: Groza T 

PROVIDER: S-EPMC4343077 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature