Recently, semantic web technologies have been adopted by the life sciences community for this purpose. However, while these new technologies provide us with methods, they do not provide us with an exact solution. Open PHACTS uses these methods to solve problems in linking preclinical knowledge from databases like Uniprot, ChEMBL, and WikiPathways. Problems that are discussed and for which our solutions will be presented include: 1. approaches to map data between the databases using the Vocabulary of Interlinked Dataset, including identifier mapping with BridgeDB, appropriate choices of mapping predicates, and ontologies to cover provenance, such as the Provenance Authoring and Versioning ontology; 2. deal with different units for experimental data using the Quantities, Units, Dimensions and Data (QUDT) ontology for (on the fly) quantity conversion; and 3. how all this is linked to user-oriented graphical user interfaces.

Open PHACTS: Meaningful linking of preclinical drug discovery knowledge

245th National Meeting (2013)

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