Back to Table of contents

Primeur monthly 2011-05-

Industry

Cisco announces intent to acquire newScale ...

GigaSpaces announces new product for enterprise PaaS & ISV SaaS enablement ...

HP accelerates channel partner Cloud opportunities ...

Coca-Cola FEMSA signs $100 million technology services agreement with HP to support growth ...

HP defines go-to-market strategy for Connected World at Americas Partners Conference ...

HP opens new research facility to advance sustainable data centre technologies ...

U.S. Special Operations Command selects HP for worldwide data centre services ...

IBM launches Power Development Lab in Taiwan ...

IBM Watson goes to school to engage next generation of innovators ...

Cameroon Ministry of Finance selects IBM mainframe system ...

Microsoft survey reveals 39 percent of SMEs to pay for Cloud services within three years ...

Platform Computing Announces Support for MapReduce ...

Red Hat reports fourth quarter and fiscal year 2011 results ...

Antarctic icebergs play a key role in the carbon cycle ...

SDSC's CIPRES Gateway provides window to the past - and fast ...

SGI Channel Network Programme receives CRN's Five-Star Partner rating designation for second year in a row ...

Researchers in Taiwan to use volunteer computing to visualise earthquakes ...

University of Westminster launches new DIY supercomputer saving hundreds of thousands of pounds ...

Ian Foster to receive IEEE Computer Society's Tsutomu Kanai Award ...

Digital infrastructure, Cloud computing transforming fragmented manufacturing industry value chain, according to Microsoft study ...

Presentations from the 27th ORAP Forum now available ...

University of Texas at Austin dedicates Lonestar 4 supercomputer for open science community ...

UK Atomic Weapons Establishment accelerates engineering efforts with SGI Altix UV ...

SGI offers free technical computing Cloud services in Japan to help customers in affected areas ...

Hewlett-Packard/American Chemical Society Award given for computational chemistry ...

Yale purchases world-class supercomputer ...

Calculations with 14 quantum bits ...

Cycle Computing creates a 10,000 core cluster in the Cloud ...

Breakthrough study confirms cause of short gamma-ray bursts ...

OSU chemist developing solution to nerve agent exposure ...

University of Minnesota Supercomputing Institute expands resources with addition of new supercomputer ...

Cray CX1000 supercomputer to feature the new Intel Xeon processor E7 family ...

Xerox chooses bullion to virtualize its critical business applications ...

IBM's MRSA infection-fighting nanotechnology caps century of health care innovation ...

Version 3.1 of BOINC LCS now available ...

TThrottle version 3.41 has been released ...

Dell invests $1 billion in technology solutions and services to help customers drive business results today and in the future ...

"Lonestar 4" supercomputer deployed for science community ...

SDSC to open large-scale data systems research centre ...

PRACE Research Infrastructure grants 400 million compute hours on Tier-0 systems to seventeen European research projects ...

Industry leaders worldwide embrace IBM Clouds to transform business processes ...

IBM joins forces with over 45 organisations to launch Cloud Standards Customer Council for Open Cloud Computing ...

Bird Hosting expands Cloud service offerings powered by CA 3Tera AppLogic software and signs multi-year license agreement ...

Elsevier special issue on "Models and Algorithms for High-Performance Distributed Data Mining" to issue Call for Papers ...

IBM sets performance records with new eX5 servers ...

CA Technologies acquires IT consulting firm, Base Technologies ...

EMC helps Blue Diamond Solutions deliver Cloud based back-up ...

SAS to offer high-performance analytics on EMC Greenplum database appliance ...

IBM unveils next generation SmartCloud platform for business ...

SAS High-Performance Analytics on Teradata appliance extends analytic innovation to customers ...

Microsoft and Toyota announce strategic partnership on next-generation telematics ...

IBM unveils smart Cloud services and technologies for the enterprise ...

Latest CA Workload Automation release enables dynamic service and application automation across physical, virtual and Cloud infrastructures ...

Dell ups the performance bar on Powerhouse servers for mission critical workloads and applications ...

Electric Yellowstone - Conductivity image hints volcano plume is bigger than thought ...

Savtira Corporation selects Emerson Network Power for data centre infrastructure solution ...

New IBM software helps clients accelerate adoption and realize the benefits of Cloud computing ...

Intel Xeon processor E7 family delivers record-breaking performance, new security, reliability and energy efficiency features ...

PSSC Labs to showcase bionformatics supercomputer and other life science compute & storage solutions at BIO IT World ...

SAS OnDemand for Academics to be available at no cost for research ...

Altair Engineering announces the release of MindManager through the HyperWorks Partner Alliance ...

Joint European DCI Summer School to issue Call for Participation ...

EDGI demonstrates how to submit 10,000 jobs to a Volunteer Desktop Grid from within the European Grid Infrastructure ...

Blood vessel simulation probes secrets of brain ...

International research on controlled nuclear fusion: Bull is selected to provide the supercomputer to be installed in Rokkasho, Japan ...

EGI Technical Forum 2011 to be held in September in Lyon ...

Bull TrustWay Hardware Security Module now integrates with Oracle Advanced Security for Oracle Database 11g ...

4th IEEE International Conference on Utility and Cloud Computing to issue Call for Papers ...

EMC Isilon delivers breakthrough performance for big data ...

IBM teams with Akamai to accelerate applications across the web, and from the Cloud to the enterprise ...

IBM offers new opportunities to jump start Cloud computing for business partners and start-ups ...

IBM to deliver new optimized POWER7 products, inspired by Watson technology ...

Tate & Lyle Sugar's refining operations step into the Cloud with Virtustream and IBM ...

IBM and Sybase harness POWER7 for new mCommerce Appliance ...

Networking

HP helps VIVACOM integrate fixed and mobile networks for better services ...

Europe

e-IRG welcomes public comment on the e-IRG White Paper 2011 ...

Blood vessel simulation probes secrets of brain

13 Apr 2011 Argonne - Zoom down to one artery in your body, and the commotion is constant: blood cells hurtle down the passage with hundreds of their kin, bumping against other cells and the walls as they go. The many variables - and the sheer immensity of the human circulatory system - have kept scientists from closely documenting the rough-and-tumble life inside blood vessels.

This is an area of science called "biophysics", for the forces that govern red blood cells' movements at this level are best described by the laws of physics and can be mapped with mathematics. That's exactly what a team of scientists from Brown University led by G. E. Karniadakis and the U.S. Department of Energy's (DOE) Argonne National Laboratory are doing on the lab's supercomputer, hoping that a better map will lead to better diagnoses and treatments for patients with blood flow complications.

Though we've come a long way from the ancient Greeks, who believed blood came from the liver, there's a surprising amount that we don't know about blood. Newer, faster supercomputers have allowed scientists to create detailed models of blood flow that help doctors understand what happens at the molecular level and, consequently, how heart and blood diseases can be treated.

Argonne's Blue Gene/P supercomputer, housed at the Argonne Leadership Computing Facility (ALCF), allows scientists to tackle these immense problems with the power of 500 trillion calculations per second.

One part of the study is mapping exactly how red blood cells move through the brain. For example, last year the team used similar modelling to discover that the malaria parasite makes its victims' red blood cells 50 times stiffer than normal.

Healthy red blood cells are smooth and elastic; they need to squeeze and bend through tiny capillaries to deliver blood to all areas of the brain. But malaria-infected cells stiffen and stick to the walls, creating blockages in arteries and vessels. Malaria victims die because their brain tissues are deprived of oxygen. A more complete picture of how blood moves through the brain would allow doctors to understand the progression of diseases that affect blood flow, like malaria, diabetes and HIV.

"Previous computer models haven't been able to accurately account for, say, the motion of the blood cells bending or buckling as they ricochet off the walls", stated Joe Insley, a principal software developer at Argonne who is working with the team. "This simulation is powerful enough to incorporate that extra level of detail."

Another part of the study seeks to understand the relationship between cerebrospinal fluid and blood flow in the brain. "Blood vessels expand if blood pressure is high; and since they are located between brain tissues, this can put dangerous pressure on the brain", stated Leopold Grinberg, a Brown University scientist on the team. In healthy people, spinal fluid can drain to relieve pressure on brain tissues, but occasionally the system breaks down - leaving the brain vulnerable to damage.

"Understanding how the system interacts will allow us to more accurately treat the problem", Leopold Grinberg stated.

But before the simulations are even run, there's a hurdle that researchers must face. It is a peculiarity of large computers that code for one computer doesn't always work well on another. A code written for a computer with two cores - what's probably in your home computer - doesn't translate well into a computer that has 160,000 cores, as Argonne's Blue Gene/P does.

"I liken it to driving the family car on the Daytona 500 racetrack", explained Michael Papka, deputy associate laboratory director for Computing, Environment and Life Sciences at Argonne. "What may be suitable for driving around town isn't designed for high-speed racing. The ALCF staff helps the researchers rework their code for optimal performance on the big machines."

For example, each core, performing its own small slice of the work, has to transmit its data to other cores once it finishes a particular task. If the work isn't equally distributed, some cores might finish earlier than others and sit idle as they wait for the others to catch up. Or if the network connecting them isn't well managed, the transmission of data might slow down the whole process.

Because each supercomputer is individually designed, the Blue Gene/P's architecture is different from other supercomputers.

"For example, one of the Blue Gene/P's strengths is good interconnects", stated Vitali Morozov, a computational scientist at the ALCF. "The cores are beautifully arranged, and if you know how to use them it's very efficient - but it's tricky." Thus, to get the best performance out of the machine, the code has to be tuned to fit the computer.

The team was allotted 50 million processor-hours on the Blue Gene/P through DOE's Innovative and Novel Computational Impact on Theory and Experiment (INCITE) programme. INCITE is a DOE programme supported by the Office of Science's Office of Advanced Scientific Computing Research that provides access to computing power and resources to support computationally intensive, large-scale research projects to researchers from industry, academia and government research facilities.

Source: Argonne National Laboratory

Back to Table of contents

Primeur monthly 2011-05-

Industry

Cisco announces intent to acquire newScale ...

GigaSpaces announces new product for enterprise PaaS & ISV SaaS enablement ...

HP accelerates channel partner Cloud opportunities ...

Coca-Cola FEMSA signs $100 million technology services agreement with HP to support growth ...

HP defines go-to-market strategy for Connected World at Americas Partners Conference ...

HP opens new research facility to advance sustainable data centre technologies ...

U.S. Special Operations Command selects HP for worldwide data centre services ...

IBM launches Power Development Lab in Taiwan ...

IBM Watson goes to school to engage next generation of innovators ...

Cameroon Ministry of Finance selects IBM mainframe system ...

Microsoft survey reveals 39 percent of SMEs to pay for Cloud services within three years ...

Platform Computing Announces Support for MapReduce ...

Red Hat reports fourth quarter and fiscal year 2011 results ...

Antarctic icebergs play a key role in the carbon cycle ...

SDSC's CIPRES Gateway provides window to the past - and fast ...

SGI Channel Network Programme receives CRN's Five-Star Partner rating designation for second year in a row ...

Researchers in Taiwan to use volunteer computing to visualise earthquakes ...

University of Westminster launches new DIY supercomputer saving hundreds of thousands of pounds ...

Ian Foster to receive IEEE Computer Society's Tsutomu Kanai Award ...

Digital infrastructure, Cloud computing transforming fragmented manufacturing industry value chain, according to Microsoft study ...

Presentations from the 27th ORAP Forum now available ...

University of Texas at Austin dedicates Lonestar 4 supercomputer for open science community ...

UK Atomic Weapons Establishment accelerates engineering efforts with SGI Altix UV ...

SGI offers free technical computing Cloud services in Japan to help customers in affected areas ...

Hewlett-Packard/American Chemical Society Award given for computational chemistry ...

Yale purchases world-class supercomputer ...

Calculations with 14 quantum bits ...

Cycle Computing creates a 10,000 core cluster in the Cloud ...

Breakthrough study confirms cause of short gamma-ray bursts ...

OSU chemist developing solution to nerve agent exposure ...

University of Minnesota Supercomputing Institute expands resources with addition of new supercomputer ...

Cray CX1000 supercomputer to feature the new Intel Xeon processor E7 family ...

Xerox chooses bullion to virtualize its critical business applications ...

IBM's MRSA infection-fighting nanotechnology caps century of health care innovation ...

Version 3.1 of BOINC LCS now available ...

TThrottle version 3.41 has been released ...

Dell invests $1 billion in technology solutions and services to help customers drive business results today and in the future ...

"Lonestar 4" supercomputer deployed for science community ...

SDSC to open large-scale data systems research centre ...

PRACE Research Infrastructure grants 400 million compute hours on Tier-0 systems to seventeen European research projects ...

Industry leaders worldwide embrace IBM Clouds to transform business processes ...

IBM joins forces with over 45 organisations to launch Cloud Standards Customer Council for Open Cloud Computing ...

Bird Hosting expands Cloud service offerings powered by CA 3Tera AppLogic software and signs multi-year license agreement ...

Elsevier special issue on "Models and Algorithms for High-Performance Distributed Data Mining" to issue Call for Papers ...

IBM sets performance records with new eX5 servers ...

CA Technologies acquires IT consulting firm, Base Technologies ...

EMC helps Blue Diamond Solutions deliver Cloud based back-up ...

SAS to offer high-performance analytics on EMC Greenplum database appliance ...

IBM unveils next generation SmartCloud platform for business ...

SAS High-Performance Analytics on Teradata appliance extends analytic innovation to customers ...

Microsoft and Toyota announce strategic partnership on next-generation telematics ...

IBM unveils smart Cloud services and technologies for the enterprise ...

Latest CA Workload Automation release enables dynamic service and application automation across physical, virtual and Cloud infrastructures ...

Dell ups the performance bar on Powerhouse servers for mission critical workloads and applications ...

Electric Yellowstone - Conductivity image hints volcano plume is bigger than thought ...

Savtira Corporation selects Emerson Network Power for data centre infrastructure solution ...

New IBM software helps clients accelerate adoption and realize the benefits of Cloud computing ...

Intel Xeon processor E7 family delivers record-breaking performance, new security, reliability and energy efficiency features ...

PSSC Labs to showcase bionformatics supercomputer and other life science compute & storage solutions at BIO IT World ...

SAS OnDemand for Academics to be available at no cost for research ...

Altair Engineering announces the release of MindManager through the HyperWorks Partner Alliance ...

Joint European DCI Summer School to issue Call for Participation ...

EDGI demonstrates how to submit 10,000 jobs to a Volunteer Desktop Grid from within the European Grid Infrastructure ...

Blood vessel simulation probes secrets of brain ...

International research on controlled nuclear fusion: Bull is selected to provide the supercomputer to be installed in Rokkasho, Japan ...

EGI Technical Forum 2011 to be held in September in Lyon ...

Bull TrustWay Hardware Security Module now integrates with Oracle Advanced Security for Oracle Database 11g ...

4th IEEE International Conference on Utility and Cloud Computing to issue Call for Papers ...

EMC Isilon delivers breakthrough performance for big data ...

IBM teams with Akamai to accelerate applications across the web, and from the Cloud to the enterprise ...

IBM offers new opportunities to jump start Cloud computing for business partners and start-ups ...

IBM to deliver new optimized POWER7 products, inspired by Watson technology ...

Tate & Lyle Sugar's refining operations step into the Cloud with Virtustream and IBM ...

IBM and Sybase harness POWER7 for new mCommerce Appliance ...

Networking

HP helps VIVACOM integrate fixed and mobile networks for better services ...

Europe

e-IRG welcomes public comment on the e-IRG White Paper 2011 ...