Building an OptIPlanet collaboratory to support microbial metagenomics

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• 作者：Larry Smarr ; Paul Gilna ; Phil Papadopoulos ; Thomas A. DeFanti ; Greg Hidley ; John Wooley ; E. Virginia Armbrust ; Forest Rohwer ; Eric Frost
• 关键词：Metagenomics ; Microbial ; CAMERA ; OptIPuter ; OptIPortal
• 刊名：Future Generation Computer Systems
• 出版年：2009
• 出版时间：February 2009
• 年：2009
• 卷：25
• 期：2
• 页码：124-131
• 全文大小：3855 K

文摘

We describe early experiments in the adoption of the OptIPuter architecture to provide data-intensive capabilities to several remote users of a large-scale, multi-year effort to organize and make publicly available data describing a wide variety of marine microbial ecologies, their genomic content, and the local environments in which they live—marine microbial metagenomics. Microbial genomes are millions of base pairs in length, requiring both a global view of the genome and the ability to zoom into detail interactively, enabled by the OptIPortal. We describe the design of a scientific data and compute server, enhanced by OptIPuter technologies, and early examples of its use in support of high performance science applications in this emerging scientific field.