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2013 IEEE 29th International Conference on Data Engineering Workshops (ICDEW) (2006)
Atlanta, Georgia
Apr. 3, 2006 to Apr. 7, 2006
ISBN: 0-7695-2571-7
pp: 67
Terry Gaasterland , University of California, San Diego
Maria Esther Vidal , Universidad Simon Bolivar, Venezuela
Barbara A. Eckman , IBM Healthcare & Life Sciences
Ben Snyder , University of Maryland
Louiqa Raschid , University of Maryland
Zo? Lacroix , Arizona State University
We address the challenges of supporting scientific workflow design for a bioinformatics pipeline (BIP) to detect alternative splicing of an organism?s genes. Scientific workflows depend significantly on the selection of the resources (data sources and applications) selected for their implementation. In addition, each implementation of a workflow may offer different costs and benefits. We present the details of a hard-coded BIP and then discuss the process of implementing a BIP on a database management system (DBMS) enabled mediator platform. Such a solution supports biologists as they customize the pipeline, choosing relevant resources and implementations for operators and applications. We discuss cost and benefit metrics to compare these alternative BIP choices.
Terry Gaasterland, Maria Esther Vidal, Barbara A. Eckman, Ben Snyder, Louiqa Raschid, Zo? Lacroix, "Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices", 2013 IEEE 29th International Conference on Data Engineering Workshops (ICDEW), vol. 00, no. , pp. 67, 2006, doi:10.1109/ICDEW.2006.66
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