Advanced querying interface for biochemical network databases

Authors:
Brendan Elliott;Stephen Mayes;Ali Cakmak;Gultekin Ozsoyoglu;Z. Meral Ozsoyoglu
Affiliations:
Case Western Reserve University, Cleveland, OH;Case Western Reserve University, Cleveland, OH;Case Western Reserve University, Cleveland, OH;Case Western Reserve University, Cleveland, OH;Case Western Reserve University, Cleveland, OH
Venue:
Proceedings of the 2010 ACM Symposium on Applied Computing
Year:
2010

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Abstract

Querying biochemical networks in flexible ways over the web is important to facilitate ongoing biological research. In this paper, we present a querying interface for biological networks, more specifically, metabolic networks. The interface allows for the specification of a large class of containment, path, and neighborhood queries with ease from a web browser. The query specification process is user-friendly, employs hierarchically arranged relationships among biological entities, and uses autocomplete features. The interface is provided as part of PathCase, a system to store, query, visualize and analyze metabolic pathways at different levels of detail.