Using Supercomputers and Supernetworks to Explore the Ocean of Life

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Using Supercomputers and Supernetworks to Explore the Ocean of Life Director's Colloquium Los Alamos National Laboratory L...

Abstract Calit2, in partnership with J. Craig Venter Institute in Rockville, MD, and UCSD's SDSC and Scripps Institution o...

Calit2--A Systems Approach to the Future of the Internet and its Transformation of Our Society www.calit2.net Calit2 Has A...

Two New Calit2 Buildings Provide New Laboratories for “Living in the Future” <ul><li>“ Convergence” Laboratory Facilities...

Calit2 Brings Computer Scientists and Engineers Together with Biomedical Researchers <ul><li>Some Areas of Concentration:...

Calit2 Facilitated Formation of the Center for Algorithmic and Systems Biology http://casb.ucsd.edu/

Most of Evolutionary Time Was in the Microbial World Source: Carl Woese, et al Tree of Life Derived from 16S rRNA Sequenc...

Joint Genome Institute is a Leading Microbial Genomic Source

Moore Microbial Genome Sequencing Project Selected Microbes Throughout the World’s Oceans www.moore.org/microgenome/worldm...

Moore Foundation Funded the Venter Institute to Provide the Full Genome Sequence of 155 Marine Microbes Phylogenetic Trees...

Moore 155 Marine Microbial Genomes Gives Broad Coverage of Microbial “Tree of Life” www.moore.org/microgenome/alpha-prote...

Full Genome Sequencing is Exploding: Most Sequenced Genomes are Bacterial www.genomesonline.org 90 Metagenomes First Genom...

Metagenomic Data Sets Are Rapidly Being Accumulated <ul><li>“ A majority of the bacterial sequences corresponded to uncult...

Microbial Metagenomics is a Rapidly Emerging Field of Research “ Despite their ubiquity, relatively little is known about...

Enormous Increase in Scale of Known Genes Over Last Decade 3 Billion Bases 30,000 Genes 6.3 Billion Bases 5.6 Million Gen...

Microbial Genomics Allow Us to Look Back Nearly 4 Billion Years In the Evolution of Life Falkowski and Vargas Science 3...

The Sargasso Sea Experiment The Power of Environmental Metagenomics <ul><li>Yielded a Total of Over 1 Billion Base Pairs...

Marine Genome Sequencing Project – Measuring the Genetic Diversity of Ocean Microbes Sorcerer II Data Will Double Number ...

Environmental Metadata: Beyond Data Collected at Sampling Site NASA AQUA-MODIS Images covering GOS sites #8 – 12, mid No...

GOS Predicted Proteins are Largely Bacterial Source: Shibu Yooseph, et al. (PLOS Biology March 2007) ~3 Million Previousl...

Current Universe of Medium/ Large Protein Families Source: Shibu Yooseph, et al. (PLOS Biology March 2007) Protein Famili...

GOS Analysis -- Protein Families in Nature Have Been Poorly Explored Thus Far <ul><li>Novel Sequence Similarity Clusterin...

Enormous Biodiversity: Very little of GOS Metagenomic Data Assembles Well <ul><li>Use Reference Genomes to Recruit Fragmen...

Self Organizing Maps Identifies Species Using Japanese Earth Simulator Human Fugu Arabidopsis Rice C. Elegans Drosophilia ...

Using SOM, Sargasso Sea Metagenomic Data Yields 92 Microbial Genera ! Eukaryotes Prokaryotes Viruses Mitochondria Chlorop...

The Human Kinome: A Protein Family Implicated In Many Human Diseases Crystal Structures EPKs Manning, et al (2002) Scienc...

From Microbial Genomes To Human Disease <ul><li>Microbes Have a Much Simpler Genome Than Humans </li></ul><ul><li>However...

The OptIPuter Project: Creating High Resolution Portals Over Dedicated Optical Channels to Global Science Data Picture So...

Dedicated Optical Channels Makes High Performance Cyberinfrastructure Possible Parallel Lambdas are Driving Optical Netwo...

National Lambda Rail (NLR) and TeraGrid Provides Cyberinfrastructure Backbone for U.S. Researchers San Francisco Pittsbur...

OptIPortal–Termination Device for the Dedicated Gigabit/sec Lightpaths Photo Source: David Lee, Mark Ellisman NCMIR, UCS...

My OptIPortal TM – Affordable Termination Device for the OptIPuter Global Backplane <ul><li>20 Dual CPU Nodes, 20 24” Mon...

PI Larry Smarr Paul Gilna Ex. Dir. Announced January 17, 2006 $24.5M Over Seven Years

The Calit2 CAMERA Microbial Metagenomics Server is Open to the Community PLOS Biology March 2007

CAMERA Builds on Cyberinfrastructure Grid, Workflow, and Portal Projects in a Service Oriented Architecture Cyberinfrastru...

Calit2’s Direct Access Core Architecture Will Create Next Generation Metagenomics Server Traditional User Response Reques...

Calit2 CAMERA Production Compute and Storage Complex 512 Processors ~5 Teraflops ~ 200 Terabytes Storage

The Calit2 CAMERA Metagenomics Site is Now Active http://camera.calit2.net/

CAMERA Research Tools and Data

Distribution of CAMERA User Registrations Nearly 1000 Registered Users From 45 Countries

Use of Tiled Display Wall OptIPortal to Interactively View Microbial Genome Acidobacteria bacterium Ellin345 Soil Bacteri...

Use of Tiled Display Wall OptIPortal to Interactively View Microbial Genome Source: Raj Singh, UCSD

Use of Tiled Display Wall OptIPortal to Interactively View Microbial Genome Source: Raj Singh, UCSD

Interactive Exploration of Marine Genomes Using 100 Million Pixels Ginger Armburst (UW), Terry Gaasterland (UCSD SIO)

Calit2 is Now OptIPuter Connecting Remote OptIPortals for Moore-Funded Microbial Researchers via NLR NW! CICESE UW JCVI M...

Countries are Aggressively Creating Gigabit Services: Interactive Access to CAMERA Data System www.glif.is Created in Reyk...

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