Scientific workflows: More e-science mileage from cyberinfrastructure

e-Science 2006 - Second IEEE International Conference on e-Science and Grid Computing

Volumn , Issue , 2006, Pages

  Ludäscher, Bertram ^a,b   Bowers, Shawn ^b   McPhillips, Timothy ^b   Podhorszki, Norbert ^a  

^a University of California Davis   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

E-SCIENCE MILEAGE; SCIENTIFIC WORKFLOWS;

CYBERNETICS; DATA ACQUISITION; DATA STRUCTURES; INFORMATION TECHNOLOGY; MATHEMATICAL MODELS;

DATA FLOW ANALYSIS;

EID: 38449097128     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/E-SCIENCE.2006.261078     Document Type: Conference Paper

References (30)

1. Computational Thinking Seminar. http://www. inf.ed.ac.uk/research/ programmes/ comp-think/, 2006. University of Edinburgh.
2. PTOLEMY II project and system. Department of EECS, UC Berkeley, 2006. http: //ptolemy.eecs.berkeley. edu/ptolemyII/.
3. D. E. Atkins, et al. Revolutionizing Science and Engineering Through Cyberinfrastructure: Report of the National Science Foundation Blue-Ribbon Advisory Panel on Cyberinfrastructure, January 2003.
4. S. Bowers and B. Ludäscher. An Ontology Driven Framework for Data Transformation in Scientific Workflows. In International Workshop on Data Integration in the Life Sciences (DILS), LNCS 2994, Leipzig, Germany, March 2004.
5. S. Bowers and B. Ludäscher. Actor-Oriented Design of Scientific Workflows. In 24st Intl. Conference on Conceptual Modeling (ER), Klagenfurt, Austria, October 2005. Springer.
6. S. Bowers and B. Ludäscher. A Calculus for Propagating Semantic Annotations through Scientific Workflow Queries. In Query Languages and Query Processing (QLQP): 11th Intl. Workshop on Foundations of Models and Languages for Data and Objects, LNCS, Munich, Germany, March 2006.
7. S. Bowers, T. McPhillips, B. Ludäscher, S. Cohen, and S. B. Davidson. A Model for User-Oriented Data Provenance in Pipelined Scientific Workflows. In Moreau and Foster [25],
8. P Buneman, S. Naqvi, V. Tannen, and L. Wong. Principles of Programming with Complex Objects and Collection Types. Theoretical Computer Science, 149(1):3-48, 1995.
9. H. Casanova, G. Obertelli, F. Berman, and R. Wolski. The AppLeS Parameter Sweep Template: User-Level Middle-ware for the Grid. In IEEE/ACM Supercomputing Conference, Dallas, TX, 2000.
10. S. B. Davidson, G. C. Overton, V. Tannen, and L. Wong. BioKleisli: A Digital Library for Biomedical Researchers. Int. J. on Digital Libraries, 1(1):36-53, 1997.
11. S.R.Eddy. Antedisciplinary Science. PLoS Computational Biology, 1(1), 2005.
12. G. C. Fox and D. Gannon, editors. Concurrency and Computation: Practice & Experience, Special Issue: Workflow in Grid Systems, volume 18. Wiley, August 2006.
13. T. Grust. Monad Comprehensions: A Versatile Representation for Queries. In P. M. Gray, L. Kerschberg, P. J. King, and A. Poulovassilis, editors, The Functional Approach to Data Management: Modeling, Analyzing and Integrating Heterogeneous Data. Springer, 2003.
14. J. Hughes. Generalising Monads to Arrows. Science of Computer Programming, 37(1-3):67-111, 2000.
15. D. Hull, R. Stevens, P Lord, C. Wroe, and C. Goble. Treating "Shimantic Web" Syndrome with Ontologies. In First AKT Workshop on Semantic Web Services, The Open University, Milton Keynes, UK, 2004.
16. G. Kahn. The Semantics of a Simple Language for Parallel Programming. In J. L. Rosenfeld, editor, Proc. of the IFIP Congress 74, pages 471-475. North-Holland, 1974.
17. S. A. Klasky, B. Ludäscher, and M. Parashar. The Center for Plasma Edge Simulation Workflow Requirements. In PostICDE Workshop on Workflow and Data Flow for Scientific Applications (SciFlow), Atlanta, GA, April 2006.
18. E. A. Lee and S. Neuendorffer. Actor-Oriented Models for Codesign: Balancing Re-Use and Performance, pages 33-56, 2004.
19. E. A. Lee and T. Parks. Dataflow Process Networks. Proceedings of the IEEE, 83(5):773-799, May 1995.
20. B. Ludäscher and I. Altintas. On Providing Declarative Design and Programming Constructs for Scientific Workflows based on Process Networks. Technical Report SciDAC-SPA-TN-2003-01, San Diego Supercomputer Center, 2003.
21. B. Ludäscher, I. Altintas, C. Berkley, D. Higgins, E. Jaeger, M. Jones, E. A. Lee, J. Tao, and Y. Zhao. Scientific Workflow Management and the Kepler System. [12], pages 1039-1065.
22. B. Ludäscher and C. A. Goble. Guest Editors' Introduction to the Special Section on Scientific Workflows. SIGMOD Record, 34(3), 2005.
23. T. McPhillips, S. Bowers, and B. Ludäscher. Collection-Oriented Scientific Workflows for Integrating and Analyzing Biological Data. In 3rd Intl. Workshop on Data Integration in the Life Sciences (DILS), LNCS, European Bioinformatics Institute, Hinxton, UK, July 2006. Springer.
24. T. M. McPhillips and S. Bowers. An Approach for Pipelining Nested Collections in Scientific Workflows. SIGMOD Record, 34(3):12-17, 2005.
25. L. Moreau and I. Foster, editors. Intl. Provenance and Annotation Workshop (IPAW), LNCS, Chicago, May 2006. Springer.
26. T. Oinn, M. Greenwood, M. Addis, M. N. Alpdemir, J. Ferris, K. Glover, C. Goble, A. Goderis, D. Hull, D. Marvin, P. Li, P Lord, M. R. Pocock, M. Senger, R. Stevens, A. Wipat, and C. Wroe. Taverna: Lessons in Creating a Workflow Environment for the Life Sciences. [12].
27. L. Peterson, E. Yin, D. Nelson, I. Altintas, B. Ludäscher, T. Critehlow, A. J. Wyrobek, and M. A. Coleman. Mining the Frequency Distribution of Transcription Factor Binding Sites of Ionizing Radiation Responsive Genes. In New Horizons in Genomics, DOE/SC-0071, Santa Fe, New Mexico, 2003.
28. H. J. Reekie. Realtime Signal Processing: Dataflow, Visual, and Functional Programming. PhD thesis, School of Electrical Engineering, University of Technology, Sydney, 1995.
29. I. J. Taylor, E. Deelman, D. B. Gannon, and M. Shields, editors. Workflows for e-Science: Scientific Workflows for Grids. Springer, 2006.
30. P. Wadler. XQuery: A Typed Functional Language for Querying XML. In J. Jeuring and S. L. P Jones, editors, Advanced Functional Programming, volume 2638 of Lecture Notes in Computer Science, pages 188-212. Springer, 2002.