1. Making linked data SPARQL with the InterMine biological data warehouse
- Author
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Déraspe, M., Binkley, G., Butano, D., Chadwick, M., Cherry, J.M., Clark-Casey, J., Contrino, S., Corbeil, Jacques, Heimbach, J., Karra, K., Lyne, R., Sullivan, J., Yehudi, Y., Micklem, G., Dumontier, M., Déraspe, M., Binkley, G., Butano, D., Chadwick, M., Cherry, J.M., Clark-Casey, J., Contrino, S., Corbeil, Jacques, Heimbach, J., Karra, K., Lyne, R., Sullivan, J., Yehudi, Y., Micklem, G., and Dumontier, M.
- Abstract
InterMine is a system for integrating, analysing, and republishing biological data from multiple sources. It provides access to these data via a web user interface and programmatic web services. However, the precise invocation of services and subsequent exploration of returned data require substantial expertise on the structure of the underlying database. Here, we describe an approach that uses Semantic Web technologies to make InterMine data more broadly accessible and reusable, in accordance with the FAIR principles. We describe a pipeline to extract, transform, and load a Linked Data representation of the InterMine store. We use Docker to bring together SPARQL-aware applications to search, browse, explore, and query the InterMine-based data. Our work therefore extends interoperability of the InterMine platform, and supports new query functionality across InterMine installations and the network of open Linked Data.
- Published
- 2016