bcnQL: A query language for biochemical networks

Authors:
H. Yang;R. Sunderraman;H. Tian
Affiliations:
Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA.;Department of Computer Science, Georgia State University, Atlanta, GA 30303, USA.;Chronic Viral Diseases Branch Centers for Disease Control and Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA
Venue:
International Journal of Data Mining and Bioinformatics
Year:
2010

Citing 4
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A query language for biological networks

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Abstract

This paper proposes a graph data model that can represent information present in Biochemical Networks. The study presented in this paper also proposes a query language, called bcnQL, which empowers users to query entities, interactions, processes and pathways with arbitrary conditions. We then discuss the query-processing techniques, more specifically, the translation of bcnQL queries into G-algebra and a set of algebraic operators on graph objects. Some query examples are presented to demonstrate the applicability of the language for this specific domain. Finally, we provide details of a prototype implementation for the query language.