Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture

Wilfred W. Li; Kohei Ichikawa; Susumu Date; Sriram Krishnan; Kurt Mueller; Osamu Tatebe; Peter W. Arzberger; Xiaohui Wei; Zhaohui Ding; Sargis Dallakyan; Chris Misleh; Michel Sanner

doi:10.1109/CCGRID.2006.124

C
CCGRID
2006
Sixth IEEE International Symposium on Cluster Computing and the Grid Workshops (CCGRIDW'06)
Abstract - Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture

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Sixth IEEE International Symposium on Cluster Computing and the Grid Workshops (CCGRIDW'06)

Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture

Singapore

May 16-May 19

ISBN: 0-7695-2585-7

	ASCII Text	x
	Wilfred W. Li, Sriram Krishnan, Kurt Mueller, Kohei Ichikawa, Susumu Date, Sargis Dallakyan, Michel Sanner, Chris Misleh, Zhaohui Ding, Xiaohui Wei, Osamu Tatebe, Peter W. Arzberger, "Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture," Cluster Computing and the Grid, IEEE International Symposium on, vol. 2, pp. 39, Sixth IEEE International Symposium on Cluster Computing and the Grid Workshops (CCGRIDW'06), 2006.

	BibTex	x
	@article{ 10.1109/CCGRID.2006.124, author = {Wilfred W. Li and Sriram Krishnan and Kurt Mueller and Kohei Ichikawa and Susumu Date and Sargis Dallakyan and Michel Sanner and Chris Misleh and Zhaohui Ding and Xiaohui Wei and Osamu Tatebe and Peter W. Arzberger}, title = {Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture}, journal ={Cluster Computing and the Grid, IEEE International Symposium on}, volume = {2}, year = {2006}, isbn = {0-7695-2585-7}, pages = {39}, doi = {http://doi.ieeecomputersociety.org/10.1109/CCGRID.2006.124}, publisher = {IEEE Computer Society}, address = {Los Alamitos, CA, USA}, }

	RefWorks Procite/RefMan/Endnote	x
	TY - CONF JO - Cluster Computing and the Grid, IEEE International Symposium on TI - Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture SN - 0-7695-2585-7 SP EP A1 - Wilfred W. Li, A1 - Sriram Krishnan, A1 - Kurt Mueller, A1 - Kohei Ichikawa, A1 - Susumu Date, A1 - Sargis Dallakyan, A1 - Michel Sanner, A1 - Chris Misleh, A1 - Zhaohui Ding, A1 - Xiaohui Wei, A1 - Osamu Tatebe, A1 - Peter W. Arzberger, PY - 2006 KW - grid KW - bioinformatics KW - deployment KW - workflows KW - portals KW - metascheduler. VL - 2 JA - Cluster Computing and the Grid, IEEE International Symposium on ER -

Wilfred W. Li, University of California, San Diego, USA

Sriram Krishnan, University of California, San Diego, USA

Kurt Mueller, University of California, San Diego

Kohei Ichikawa, Osaka University, Japan

Susumu Date, Osaka University, Japan

Sargis Dallakyan, Scripps Research Institute

Michel Sanner, Scripps Research Institute

Chris Misleh, University of California, San Diego, USA

Zhaohui Ding, Jilin University, China

Xiaohui Wei, Jilin University, China

Osamu Tatebe, AIST, Japan

Peter W. Arzberger, University of California, San Diego, USA

DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/CCGRID.2006.124

Cyberinfrastructure makes the development and deployment of bioinformatics applications easier by providing the framework and components that may be loosely coupled using service oriented architecture. Here we describe an end to end prototype environment that allows existing applications to run on the grid, taking advantage of open source software that provides a portal interface using GridSphere, with transparent GSI authentication using GAMA, a web service wrapper using Opal, a metascheduler using CSF4, a virtual filesystem using Gfarm, and a grid-enabled cluster environment using Rocks. Solutions to complex problems may be developed using workflow tools such as Kepler that coordinate different interoperable services. The availability of this type of cyberinfrastructure suggests that new applications should be designed with the grid in mind, using service oriented architecture for interoperability and efficiency. This approach may enable bioinformaticians to focus on their problems of interest, and make use of the emerging cyberinfrastructure through virtually "drag and drop" deployment.

Index Terms:

grid, bioinformatics, deployment, workflows, portals, metascheduler.

Citation:

Wilfred W. Li, Sriram Krishnan, Kurt Mueller, Kohei Ichikawa, Susumu Date, Sargis Dallakyan, Michel Sanner, Chris Misleh, Zhaohui Ding, Xiaohui Wei, Osamu Tatebe, Peter W. Arzberger, "Building Cyberinfrastructure for Bioinformatics Using Service Oriented Architecture," ccgrid, vol. 2, pp.39, Sixth IEEE International Symposium on Cluster Computing and the Grid Workshops (CCGRIDW'06), 2006

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