The volume of publicly available genomic scale data is increasing. Genomic datasets in public repositories are annotated with free-text fields describing the pathological state of the studied sample. These annotations are not mapped to concepts in any ontology, making it difficult to integrate these datasets across repositories. We have previously developed methods to map text-annotations of tissue microarrays to concepts in the NCI thesaurus and SNOMED-CT.
['Nigam H. Shah', 'Clement Jonquet', 'Annie P. Chiang', 'Atul J. Butte', 'Rong Chen', 'Mark A. Musen']
Ontology-driven indexing of public datasets for translational bioinformatics