A GRAPH DATABASE WITH VISUAL QUERIES FOR GENOMICS

GREG BUTLER, GUANG WANG, YUE WANG, LIQIAN ZOU
2005 Proceedings of the 3rd Asia-Pacific Bioinformatics Conference  
Effective management of data is a major issue in genomics. Genomics data consists of highly interrelated information about genes, proteins, patterns, classifications, and interactions. Graph databases, which model graphs or networks of data, seem a natural way to manage genomics data. Graph databases can support visualization of both queries and results by drawing on the broader field of graph visualization, and the visual paradigm is natural for scientists working in genomics. We have
more » ... ed a graph database system that supports visual queries and visualization of query result sets. Our system uses Java, XML, C++, CORAL, and MySQL to implement the GraphLog language. We have validated its applicability to genomics data through a case study, and have done initial studies on the systems performance and the effect of several optimization strategies. We describe the system and its application to genomics.
doi:10.1142/9781860947322_0004 fatcat:4bybvphm4vaa7l4tof4klnykhq