IEEE Internet Computing
A reference ontology for biomedical informatics: the foundational model of anatomy
Journal of Biomedical Informatics - Special issue: Unified medical language system
The design and implementation of Grid database services in OGSA-DAI: Research Articles
Concurrency and Computation: Practice & Experience - Grid Performance
An agent- and ontology-based system for integrating public gene, protein, and disease databases
Journal of Biomedical Informatics
Bio2RDF: Towards a mashup to build bioinformatics knowledge systems
Journal of Biomedical Informatics
Enabling Cross Constraint Satisfaction in RDF-Based Heterogeneous Database Integration
ICTAI '08 Proceedings of the 2008 20th IEEE International Conference on Tools with Artificial Intelligence - Volume 02
Journal of Biomedical Informatics
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This paper presents RDFBuilder, a tool that enables RDF-based access to MAGE-ML-compliant microarray databases. We have developed a system that automatically transforms the MAGE-OM model and microarray data stored in the ArrayExpress database into RDF format. Additionally, the system automatically enables a SPARQL endpoint. This allows users to execute SPARQL queries for retrieving microarray data, either from specific experiments or from more than one experiment at a time. Our system optimizes response times by caching and reusing information from previous queries. In this paper, we describe our methods for achieving this transformation. We show that our approach is complementary to other existing initiatives, such as Bio2RDF, for accessing and retrieving data from the ArrayExpress database.