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The CAMERA Partnership

The CAMERA Partnership. Community C yberinfrastructure for A dvanced Marine M icrobial E cology R esearch and A nalysis. Marine Genome Sequencing Project Measuring the Genetic Diversity of Ocean Microbes. Genomic Data Is Growing Rapidly, But Metagenomics Will Vastly Increase The Scale….

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The CAMERA Partnership

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  1. The CAMERA Partnership Community Cyberinfrastructure for Advanced Marine Microbial Ecology Research and Analysis

  2. Marine Genome Sequencing ProjectMeasuring the Genetic Diversity of Ocean Microbes

  3. Genomic Data Is Growing Rapidly, But Metagenomics Will Vastly Increase The Scale… 100 Billion Bases! 35,000 Structures Total Data < 1TB Protein Data Bank GenBank www.rcsb.org/pdb/holdings.html www.ncbi.nlm.nih.gov/Genbank

  4. NASA Aqua-MODIS satellite data • Metadata: beyond data collected at sampling site MODIS Images covering GOS sites #8 – 12, mid November, 2003 Sea Surface Temp Chlorophyll

  5. The Future Home of the Moore Foundation Funded Marine Microbial Ecology Metagenomics Complex First Implementation of the CAMERA Complex Major Buildout of Calit2 Server Room Underway Public GOS Data Release: January 2007

  6. Calit2’s Direct Access Core Architecture Will Create Next Generation Metagenomics Server Dedicated Compute Farm (1000 CPUs) W E B PORTAL Data- Base Farm 10 GigE Fabric Local Environment Flat File Server Farm Direct Access Lambda Cnxns Web (other service) Local Cluster TeraGrid: Cyberinfrastructure Backplane (scheduled activities, e.g. all by all comparison) (10000s of CPUs) Sargasso Sea Data Sorcerer II Expedition (GOS) JGI Community Sequencing Project Moore Marine Microbial Project NASA Goddard Satellite Data Community Microbial Metagenomics Data Traditional User Request Response + Web Services Source: Phil Papadopoulos, SDSC, Calit2

  7. An OptIPuter Moment

  8. Use of OptIPortal to Interactively View Microbial Genome 15,000 x 15,000 Pixels Acidobacteria bacterium Ellin345 (NCBI)Soil Bacterium 5.6 Mb Source: Raj Singh, UCSD

  9. Use of OptIPortal to Interactively View Microbial Genome 15,000 x 15,000 Pixels

  10. Use of OptIPortal to Interactively View Microbial Genome 15,000 x 15,000 Pixels

  11. UIC/UCSD 10GE CAVEWave on the National LambdaRail Emerging OptIPortal Sites OptIPortals UW NEW! UIC EVL MIT NEW! JCVI UCI UCSD SIO SunLight SDSU CICESE CAVEWave Connects Chicago to Seattle to San Diego…and Washington D.C. as of 4/1/06 and JCVI as of 5/15/06

  12. CAMERA Day-to-day Issues • Collaboration / Conferencing • Early struggle to adopt video • HD (Lifesize) huge improvement • Phrase most often uttered: • “Can you hear me now?” • NLR • Mundane Need: Reliably transfer ~120G file on regular basis • Considerable testing and tuning • Down times • Running plan b (c,d,e,&f) tests now We are quickly moving to production level dependency on the OptIPuter infrastructure

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