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Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices
Atlanta, Georgia April 03-April 07
DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/ICDEW.2006.6622nd International Conference on Data ...
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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," Data Engineering Workshops, 22nd International Conference on, pp. 67, 22nd International Conference on Data Engineering Workshops (ICDEW'06), 2006.
 
 
BibTex
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@article{ 10.1109/ICDEW.2006.66,
author = {Barbara A. Eckman and Terry Gaasterland and Zo? Lacroix and Louiqa Raschid and Ben Snyder and Maria Esther Vidal},
title = {Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices},
journal ={Data Engineering Workshops, 22nd International Conference on},
volume = {0},
year = {2006},
isbn = {0-7695-2571-7},
pages = {67},
doi = {http://doi.ieeecomputersociety.org/10.1109/ICDEW.2006.66},
publisher = {IEEE Computer Society},
address = {Los Alamitos, CA, USA},
}
 
 
RefWorks Procite/RefMan/Endnote
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TY - CONF
JO - Data Engineering Workshops, 22nd International Conference on
TI - Implementing a Bioinformatics Pipeline (BIP) on a Mediator Platform: Comparing Cost and Quality of Alternate Choices
SN - 0-7695-2571-7
SP
EP
A1 - Barbara A. Eckman,
A1 - Terry Gaasterland,
A1 - Zo? Lacroix,
A1 - Louiqa Raschid,
A1 - Ben Snyder,
A1 - Maria Esther Vidal,
PY - 2006
KW - null
VL - 0
JA - Data Engineering Workshops, 22nd International Conference on
ER -
 
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
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.
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, pp.67, 22nd International Conference on Data Engineering Workshops (ICDEW'06), 2006
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