the new internet and biomedical research briefing to the deans advisory board school of medicine,...
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The New Internet andBiomedical Research
Briefing to the
Dean’s Advisory Board
School of Medicine, UCSD
San Diego, CA
March 1, 2001
www.soe.uiuc.edu/~lsmarr
• Wireless Access--Anywhere, Anytime
• Broadband to the Home and Small Businesses
• Vast Increase in Internet End Points– Embedded Processors
– Sensors and Actuators
– Information Appliances
• A Core of Optical Fiber Carrying Parallel Light Waves
• Emergence of a Distributed Planetary Computer– Storage everywhere
– Scalable computing power
The Emerging Global Information GridA Mobile Internet Powered by a Planetary Computer
Complex Problems Require a New Research and Education Framework
www.calit2.net
220 UCSD & UCI FacultyWorking in Multidisciplinary Teams
With Students, Industry, and the Community
A Broad Partnership Response from the Private Sector
Akamai Boeing
BroadcomAMCC CAIMISCompaq
Conexant Copper Mountain
EmulexEnterprise Partners VC
EntropiaEricsson
Global PhotonIBM
IdeaEdge VenturesIntersil
Irvine SensorsLeap Wireless
Litton IndustriesMedExpert
Merck Microsoft
Mission VenturesNCR
Newport CorporationOrincon
Panoram Technologies Printronix
QUALCOMMQuantum
R.W. Johnson Pharmaceutical RISAIC
SciFrameSeagate Storage
Silicon Wave Sony
STMicroelectronicsSun Microsystems
TeraBurst Networks Texas InstrumentsUCSD Healthcare The Unwired Fund
WebEx
ComputersCommunications
SoftwareSensors
BiomedicalStartups
Venture Firms
$140 M Match From Industry
Elements of the Cal -(IT)2 Industrial Partnerships
• Endowed Chairs for Professors
• Start-Up Support for Young Faculty
• Graduate Student Fellowships
• Research and Academic Professionals
• Sponsored Research Programs
• Equipment Donations for Cal-(IT)2 and Campus
• Named Laboratories in new Institute Buildings
• Pro Bono Services and Software
Wireless “Pad” Web Interface
Developing the Grid Cyber ArchitectureTo Support Medical Imaging Retrieval
DukeUCLA
Cal Tech
StanfordU. Of MN
Harvard
NCRR Imaging and Computing Resources UCSD
Cal-(IT)2SDSC
Deep Web
Surface Web
Method-Form a National Scale Testbed for Federating Large DatabasesUsing NIH High Field NMR Centers
Source: Mark Ellisman, UCSD
Cellular Signaling Pathway Database, Analysis Tools and User Interface
Shankar Subramaniam, UCSD, Director, Data Coordination & Bioinformatics Lab,
Alliance for Cell Signaling
M o tifL ib r a r ie s
S equenceA n n o ta t io nI n te r a c t io n s
Q u e r y T o o ls A n a ly s is T o o ls
D a ta b a s e T e m p o r a r yS to r a g e
D a ta S tr u c tu r e
E d it in gT o o l
C o m p a r is o nT o o l
P a th w a yG U I
L e g a c yP a th w a y s
S ig n a lin gN e tw o r k s
D a ta S to r e B u lle t inB o a r d
A n n o ta t io n sS y s te m
O th e rA n a ly s is
T o o ls
S ig n a lin gP a th w a y s
O r g a n is m
E x p r e s s io nP r o f ile s
P r o te o m ic sP r o f ile s
I n te r a c t io nP r o f ile s
C e ll & T is s u eS p e c if ic it y
M o le c u la rD is e a s e s
G e n e s(P r o te in s )
I n te r a c t io nM o d u le s
The Perfect Storm: Convergence of Engineering with BioMed, Physics, & IT
5 nanometersHuman Rhinovirus
IBM Quantum CorralIron Atoms on Copper400x
Magnification
From MEMS to Nanotech
VCSELaser
500x Magnification 2 mm
Nanogen MicroArray
As Our Bodies Move On-LineBioengineering and Bioinformatics Merge
• New Sensors—Israeli Video Pill– Battery, Light, & Video Camera– Images Stored on Hip Device
• Next Step—Putting You On-Line!– Key Metabolic and Physical Variables– Wireless Internet Transmission– Model -- Dozens of 25 Processors and 60
Sensors / Actuators Inside of our Cars
• Post-Genomic Individualized Medicine– Combine Your Genetic Code &
Noninvasive Imaging Techniques, with Your Body’s Data Flow
– Use Powerful AI Data Mining Techniques
www.givenimaging.com
The UCSD Cal-(IT)2 BuildingThe Capstone of the Engineering Quad
Occupancy 2004220,000 Gross SF
Integrate Cross-Cutting TeamsSDSC / Faculty Joint ProjectsNanofabrication Clean Rooms Telecommunications LaboratoriesAdvanced VisualizationAntenna Farm
From Telephone Conference Calls to Access Grid International Video Meetings
Access Grid Lead-ArgonneNSF STARTAP Lead-UIC’s Elec. Vis. Lab
Linking Researchers with IP Multicast
½ Mile
•Commodity Internet, Internet2•High-speed WAN (OC48+)•Remote Wireless Data Ingestion
• Campus Wireless
The UCSD “Living Grid Laboratory”—Fiber, Wireless, Compute, Data, Software
SIO
SDSC
CS
ChemMed
Eng. / Cal-(IT)2
Hosp
• High-speed optical core• 8 Gigabit now• 80 Gigabit in 18 months• 1 Terabit in 36 Months
Source: Phil Papadopoulos, SDSC
Extending the Grid to Planetary Dimensions Using Distributed Computing and Storage
AutoDock Application Software Has Been Downloaded to Over 12,000 PCsNearly 1.5 Million CPU-Hours Computed
In SilicoDrug Design
Art Olson, TSRI
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