Extending the genomic data model and the genometric query language with domain taxonomies

Abstract

In bioinformatics and biology researchers annotate experimental data in many different ways. When other researchers need to query these data, they are typically unaware of the specificity of the annotations; often they encounter possible mismatches between the granularity of the query and the granularity of the annotations. In this work, we propose an extension of the Genomic Data Model and the GenoMetric Query Language (a well established framework for biomedical data), able to search, integrate, and extend genomic data. The extension is going to be performed through domain taxonomies and by considering many external ontologies and databases. An ad-hoc software system and query language will be implemented for the storage, management, search, retrieval, and integration of biomedical data.