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Atlanta, Georgia
Apr. 3, 2006 to Apr. 7, 2006
ISBN: 0-7695-2571-7
pp: 67
Barbara A. Eckman , IBM Healthcare & Life Sciences
Terry Gaasterland , University of California, San Diego
Zo? Lacroix , Arizona State University
Louiqa Raschid , University of Maryland
Ben Snyder , University of Maryland
Maria Esther Vidal , Universidad Simon Bolivar, Venezuela
ABSTRACT
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.
INDEX TERMS
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CITATION
Barbara A. Eckman, Terry Gaasterland, Zo? Lacroix, Louiqa Raschid, Ben Snyder, Maria Esther Vidal, "Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices", ICDEW, 2006, 2013 IEEE 29th International Conference on Data Engineering Workshops (ICDEW), 2013 IEEE 29th International Conference on Data Engineering Workshops (ICDEW) 2006, pp. 67, doi:10.1109/ICDEW.2006.66
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