Using the NCBO Web Services for Concept Recognition and Ontology Annotation of Expression Datasets.

To provide enhanced access to expression datasets housed in the NCBI’s Gene Expression Omnibus database and to enable new opportunities for data mining we are using the NCBO’s Open Biomedical Annotator service to identify concepts and ontology terms in GEO records. Based on this first pass annotation we are curating these datasets using a variety of ontologies covering concepts of relevance to rat researchers, these include anatomy, rat strains, phenotypes and disease. We have built Gminer (http://gminer.mcw.edu) as a data exploration and curation tool for this work. Data from this project and the Rat Genome Database are available as RDF via the GMiner website for integration with other semantic web tools.