research-article

Biomedical CyberInfrastructure challenges

Authors:

Claudiu Farcas,

Natasha Balac,

Lucila Ohno-MachadoAuthors Info & Claims

XSEDE '13: Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery

Article No.: 6, Pages 1 - 4

https://doi.org/10.1145/2484762.2484767

Published: 22 July 2013 Publication History

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Abstract

Biomedical research traverses a new era of advancements through the adoption of massive computing and big-data solutions to major scientific problems. However, the road ahead is far from "a walk in a park" -- many obstacles exist in the standardization, adoption, and evolution of methods, practices, algorithms, tools, and ultimately knowledge, that would mature along this road. In this article, we discuss such challenges that we encountered in this field and possible solutions from the iDASH program that closely engages this community.

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National Institutes of Health, NIH Roadmap for Medical Research, Grant U54 HL10846. iDASH - integrating Data for Analysis, Anonymization and Sharing. http://idash.ucsd.edu

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L. Ohno-Machado, V. Bafna, A. A Boxwala, B. E Chapman, W. W Chapman, K. Chaudhuri, M. E Day, C. Farcas, N. D Heintzman, X. Jiang, H. Kim, J. Kim, M. E Matheny, F. S Resnic, and S. A Vinterbo, "iDASH: integrating data for analysis, anonymization, and sharing," Journal of the American Medical Informatics Association, Nov. 2011

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M. Arrott, B. Demchak, V. Ermagan, C. Farcas, E. Farcas, I. H. Krüger, and M. Menarini, "Rich Services: The Integration Piece of the SOA Puzzle," in Proceedings of the IEEE International Conference on Web Services (ICWS), Salt Lake City, Utah, USA. IEEE, Jul. 2007, pp. 176--183.

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B. Demchak, V. Ermagan, C. Farcas, E. Farcas, I. H. Krüger, and M. Menarini, "Rich Services: Addressing Challenges of Ultra-Large-Scale Software-Intensive Systems," in Proceedings of the ICSE 2nd International Workshop on Ultra-Large-Scale Software-Intensive Systems (ULSSIS 2008), Leipzig, Germany. New York, NY, USA: ACM, May 2008, pp. 29--32.

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Xie ZChen YSpeer JWalters TTarazaga PKasarda MBogen PAllard SMercer HBeck MCunningham SGoh DHenry G(2015)Towards Use And Reuse Driven Big Data ManagementProceedings of the 15th ACM/IEEE-CS Joint Conference on Digital Libraries10.1145/2756406.2756924(65-74)Online publication date: 21-Jun-2015
https://dl.acm.org/doi/10.1145/2756406.2756924
Xie ZChen YJiang TSpeer JWalters TTarazaga PKasarda M(2015)On-Demand Big Data Analysis in Digital RepositoriesProceedings of the 17th International Conference on Asia-Pacific Digital Libraries - Volume 946910.1007/978-3-319-27974-9_29(274-277)Online publication date: 9-Dec-2015
https://dl.acm.org/doi/10.1007/978-3-319-27974-9_29

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XSEDE '13: Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery

July 2013

433 pages

ISBN:9781450321709

DOI:10.1145/2484762

General Chair:
Nancy Wilkins-Diehr
San Diego Supercomputer Center

Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than the author(s) must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected].

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Association for Computing Machinery

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Published: 22 July 2013

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XSEDE '13

XSEDE '13: Extreme Science and Engineering Discovery Environment: Gateway to Discovery

July 22 - 25, 2013

California, San Diego, USA

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Xie ZChen YSpeer JWalters TTarazaga PKasarda MBogen PAllard SMercer HBeck MCunningham SGoh DHenry G(2015)Towards Use And Reuse Driven Big Data ManagementProceedings of the 15th ACM/IEEE-CS Joint Conference on Digital Libraries10.1145/2756406.2756924(65-74)Online publication date: 21-Jun-2015
https://dl.acm.org/doi/10.1145/2756406.2756924
Xie ZChen YJiang TSpeer JWalters TTarazaga PKasarda M(2015)On-Demand Big Data Analysis in Digital RepositoriesProceedings of the 17th International Conference on Asia-Pacific Digital Libraries - Volume 946910.1007/978-3-319-27974-9_29(274-277)Online publication date: 9-Dec-2015
https://dl.acm.org/doi/10.1007/978-3-319-27974-9_29

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Adapting cyberinfrastructure to new science: tensions and strategies

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