A global pharmaceutical company recognized the potential of the huge volumes of bioassay data that they had generated but struggled to gain insights from this valuable resource. A lack of standardization across their data repositories, including LIMS and other bioassay databases, had resulted in different ways to describe the same thing, for example, ‘mouse’, ’mice’, ‘Mus musculus’ and ‘m. musculus’, making it hard to collate data for a particular species. This was compounded by the fact that some database fields were sparsely populated fields while others contained useful information buried in long assay descriptions.
We enriched our species, gene, and bioassay vocabularies with customer-specific terms and synonyms to ensure all relevant information would be recognized. We then analysed the assay names from the legacy database and extracted the different entities within each one. Each entity was extracted and mapped to a single, standard vocabulary term to normalize the data.
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