DOE ANNOUNCES R&D AGREEMENT BETWEEN SANDIA, CELERA, COMPAQ

January 26, 2001

SCIENCE AND ENGINEERING NEWS

Washington, DC, — The U.S. Department of Energy (DOE) announced today that Sandia National Laboratories and Celera Genomics (NYSE:CRA), an Applera Corporation business, have signed a Cooperative Research and Development Agreement. Compaq Computer Corporation (NYSE:CPQ) will provide the project technology. The goal of the project is to develop the next generation software and computer hardware solutions that will be specifically designed for the demands of computational biology as well as a full range of life sciences applications.

Celera and Sandia signed the agreement in a ceremony at the Department of Energy with Secretary of Energy Bill Richardson presiding. Celera, Sandia and Compaq will work together to increase computing capability with the goal of achieving 100 trillion operations per second (100 TeraOPS). By sharing some computing technology developed by Sandia, Celera and Compaq may ultimately reach the “petacruncher” (1,000 TeraOPS) level. This level of cooperation is necessary to meet the dramatic increases in performance required for emerging genomics and proteomics applications at affordable prices, and brings together the capabilities of three leaders in the fields of bioinformatics, high performance computing, and massively parallel systems.

Proteomics is the study of the function, structure and interactions of proteins in cells, including humans and other organisms. “The next stage of the biotechnology revolution that was started by the Human Genome Program will be fueled by the successful marriage of molecular biology with high performance computing science,” said Secretary Richardson. “The Department of Energy, as it helped develop the technology that made the human genome project possible, once again, is forging ahead to provide the tools to bring the genome to life.”

“The key aspect of this R&D relationship is the simultaneous provision of algorithmic support, design of actual application software, and development of the system platform by three organizations with world-class competence in their respective areas,” said Bill Blake, Vice President of High Performance Technical Computing at Compaq. “This effort is a direct response to the challenge by Celera’s president, J. Craig Venter, who said that even the most powerful of today’s supercomputers do not meet the needs of his company’s work in the genomic era. Our intent with this alliance is to apply the same full system modeling approach to bioscience that has been so successfully applied to physical sciences in the DOE/NNSA Stockpile Stewardship program.”

J. Craig Venter, Celera’s president and chief scientific officer, said, “Just three years ago, the computational needs of biology were thought to be minor and irrelevant to the computing industry. Today, biologists are setting the pace of development for the industry. At Celera, we take pride in excelling in the application of computers to biology and the new era in medicine that is developing as a result. As Compaq and the Department of Energy move toward creation of the next generation of supercomputers for defense purposes, we look forward to helping both groups develop the new machines, software and algorithms to advance life sciences.”

Said Bill Camp, Sandia director of computation, computers and mathematics, “Delivering affordable and scalable computer architectures is the foundation of modern supercomputing and has been the focus of Sandia research for more than a decade. Our knowledge will be useful because understanding the complexity of the human genome requires manipulating ever vaster amounts of information, using more advanced computing technologies than was required even for the assembly of the human genome itself. So we view this relationship as strategic for our continuing missions as a DOE/NNSA national security laboratory, look forward to providing world-class expertise in parallel algorithms and systems software in the cause of human health, and welcome the opportunity to play a role in developing what may be some of the most exciting science in recent human history.”

The alliance will use Compaq Alpha processors connected in massively parallel configuration with extremely high bandwidth, and low latency mesh interconnects. Compaq and Sandia will collaborate on the development of system hardware and software. Both have extensive experience with supercomputers based on Alpha.

Compaq already manufactures a line of supercomputers, the AlphaServer SC series, that was recently selected by the DOE’s National Nuclear Security Administration (NNSA) as the architecture for the world’s most powerful computer, the ASCI Q system, that will deliver 30 trillion operations per second when delivered in 2002. ASCI, the Accelerated Strategic Computing Initiative, is a key component of the Stockpile Stewardship program to ensure the safety and reliability of the nation’s nuclear weapons stockpile in the absence of nuclear testing.

Sandia currently operates the most powerful Linux-based supercomputer in existence, CplantTM, which employs more than 1600 Alpha processors. Sandia also is home to ASCI Red, the first TeraOp supercomputer, until very recently the fastest supercomputer in the world. The alliance will focus on future generations of the AlphaServer SC series, and the goal is to create a prototype in the 2004 time frame.

Celera and Sandia will concentrate on creation of advanced algorithms for biology research, and on new visualization technologies for analyzing the massive quantities of experimental data from high-throughput instruments. All three groups will contribute to integrating the system hardware and software and on optimizing performance.

Driving the design for this next-generation supercomputer are anticipated computational and data management requirements for proteomics. These requirements are expected to be vastly more complicated than the pattern recognition and assembly operations required to sequence the human genome. Researchers are counting on proteomics to take advantage of genomic databases in developing new medicines, crops, materials and solutions to challenges in energy development and environmental cleanup.

About Compaq

Compaq Computer Corporation, a Fortune Global 100 company, is the largest supplier of computing systems in the world. Compaq designs, develops, manufactures and markets hardware, software, solutions, and services, including industry-leading enterprise computing solutions, fault-tolerant business-critical solutions, and communications products, commercial desktop and portable products, and consumer PCs.

Compaq products and services are sold in more than 200 countries directly to businesses, through a network of authorized Compaq marketing partners, and directly to businesses and consumers through Compaq’s e-commerce Web site at http://www.compaq.com . Compaq markets its products and services primarily to customers from the business, home, government, and education sectors.

About Celera

Applera Corporation, formerly PE Corporation, comprises two operating groups. The Celera Genomics Group, headquartered in Rockville, MD, intends to be the definitive source of genomic and related medical information. Celera has developed three business units: the On-line Information Business, Discovery Sciences, and Discovery Services, all of which build upon Celera’s generation, integration, and analysis of biological information. Celera intends to enable therapeutic discoveries both through its own application of its scientific capabilities and in partnership with pharmaceutical and biotechnology companies. The Applied Biosystems Group (NYSE:ABI) develops and markets instrument-based systems, reagents, software, and contract services to the life science industry and research community. Customers use these tools to analyze nucleic acids (DNA and RNA) and proteins in order to make scientific discoveries, develop new pharmaceuticals, and conduct standardized testing. Applied Biosystems is headquartered in Foster City, CA, and reported sales of $1.4 billion during fiscal 2000.

About Sandia National Laboratories

Sandia is a multiprogram DOE laboratory, operated by a subsidiary of Lockheed Martin Corp. With main facilities in Albuquerque, N.M., and Livermore, Calif., Sandia has major research and development responsibilities in national security, energy, and environmental technologies.

Web site: http://www.sandia.gov

Web site: http://www.compaq.com

Web site: http://www.applera.com

============================================================

Subscribe to HPCwire's Weekly Update!

Be the most informed person in the room! Stay ahead of the tech trends with industy updates delivered to you every week!

What’s New in Computing vs. COVID-19: Fugaku, Congress, De Novo Design & More

July 2, 2020

Supercomputing, big data and artificial intelligence are crucial tools in the fight against the coronavirus pandemic. Around the world, researchers, corporations and governments are urgently devoting their computing reso Read more…

By Oliver Peckham

OpenPOWER Reboot – New Director, New Silicon Partners, Leveraging Linux Foundation Connections

July 2, 2020

Earlier this week the OpenPOWER Foundation announced the contribution of IBM’s A21 Power processor core design to the open source community. Roughly this time last year, IBM announced open sourcing its Power instructio Read more…

By John Russell

HPC Career Notes: July 2020 Edition

July 1, 2020

In this monthly feature, we'll keep you up-to-date on the latest career developments for individuals in the high-performance computing community. Whether it's a promotion, new company hire, or even an accolade, we've got Read more…

By Mariana Iriarte

Supercomputers Enable Radical, Promising New COVID-19 Drug Development Approach

July 1, 2020

Around the world, innumerable supercomputers are sifting through billions of molecules in a desperate search for a viable therapeutic to treat COVID-19. Those molecules are pulled from enormous databases of known compoun Read more…

By Oliver Peckham

HPC-Powered Simulations Reveal a Looming Climatic Threat to Vital Monsoon Seasons

June 30, 2020

As June draws to a close, eyes are turning to the latter half of the year – and with it, the monsoon and hurricane seasons that can prove vital or devastating for many of the world’s coastal communities. Now, climate Read more…

By Oliver Peckham

AWS Solution Channel

Maxar Builds HPC on AWS to Deliver Forecasts 58% Faster Than Weather Supercomputer

When weather threatens drilling rigs, refineries, and other energy facilities, oil and gas companies want to move fast to protect personnel and equipment. And for firms that trade commodity shares in oil, precious metals, crops, and livestock, the weather can significantly impact their buy-sell decisions. Read more…

Intel® HPC + AI Pavilion

Supercomputing the Pandemic: Scientific Community Tackles COVID-19 from Multiple Perspectives

Since their inception, supercomputers have taken on the biggest, most complex, and most data-intensive computing challenges—from confirming Einstein’s theories about gravitational waves to predicting the impacts of climate change. Read more…

Hyperion Forecast – Headwinds in 2020 Won’t Stifle Cloud HPC Adoption or Arm’s Rise

June 30, 2020

The semiannual taking of HPC’s pulse by Hyperion Research – late fall at SC and early summer at ISC – is a much-watched indicator of things come. This year is no different though the conversion of ISC to a digital Read more…

By John Russell

OpenPOWER Reboot – New Director, New Silicon Partners, Leveraging Linux Foundation Connections

July 2, 2020

Earlier this week the OpenPOWER Foundation announced the contribution of IBM’s A21 Power processor core design to the open source community. Roughly this time Read more…

By John Russell

Hyperion Forecast – Headwinds in 2020 Won’t Stifle Cloud HPC Adoption or Arm’s Rise

June 30, 2020

The semiannual taking of HPC’s pulse by Hyperion Research – late fall at SC and early summer at ISC – is a much-watched indicator of things come. This yea Read more…

By John Russell

Racism and HPC: a Special Podcast

June 29, 2020

Promoting greater diversity in HPC is a much-discussed goal and ostensibly a long-sought goal in HPC. Yet it seems clear HPC is far from achieving this goal. Re Read more…

Top500 Trends: Movement on Top, but Record Low Turnover

June 25, 2020

The 55th installment of the Top500 list saw strong activity in the leadership segment with four new systems in the top ten and a crowning achievement from the f Read more…

By Tiffany Trader

ISC 2020 Keynote: Hope for the Future, Praise for Fugaku and HPC’s Pandemic Response

June 24, 2020

In stark contrast to past years Thomas Sterling’s ISC20 keynote today struck a more somber note with the COVID-19 pandemic as the central character in Sterling’s annual review of worldwide trends in HPC. Better known for his engaging manner and occasional willingness to poke prickly egos, Sterling instead strode through the numbing statistics associated... Read more…

By John Russell

ISC 2020’s Student Cluster Competition Winners Announced

June 24, 2020

Normally, the Student Cluster Competition involves teams of students building real computing clusters on the show floors of major supercomputer conferences and Read more…

By Oliver Peckham

Hoefler’s Whirlwind ISC20 Virtual Tour of ML Trends in 9 Slides

June 23, 2020

The ISC20 experience this year via livestreaming and pre-recordings is interesting and perhaps a bit odd. That said presenters’ efforts to condense their comments makes for economic use of your time. Torsten Hoefler’s whirlwind 12-minute tour of ML is a great example. Hoefler, leader of the planned ISC20 Machine Learning... Read more…

By John Russell

At ISC, the Fight Against COVID-19 Took the Stage – and Yes, Fugaku Was There

June 23, 2020

With over nine million infected and nearly half a million dead, the COVID-19 pandemic has seized the world’s attention for several months. It has also dominat Read more…

By Oliver Peckham

Supercomputer Modeling Tests How COVID-19 Spreads in Grocery Stores

April 8, 2020

In the COVID-19 era, many people are treating simple activities like getting gas or groceries with caution as they try to heed social distancing mandates and protect their own health. Still, significant uncertainty surrounds the relative risk of different activities, and conflicting information is prevalent. A team of Finnish researchers set out to address some of these uncertainties by... Read more…

By Oliver Peckham

[email protected] Turns Its Massive Crowdsourced Computer Network Against COVID-19

March 16, 2020

For gamers, fighting against a global crisis is usually pure fantasy – but now, it’s looking more like a reality. As supercomputers around the world spin up Read more…

By Oliver Peckham

[email protected] Rallies a Legion of Computers Against the Coronavirus

March 24, 2020

Last week, we highlighted [email protected], a massive, crowdsourced computer network that has turned its resources against the coronavirus pandemic sweeping the globe – but [email protected] isn’t the only game in town. The internet is buzzing with crowdsourced computing... Read more…

By Oliver Peckham

Global Supercomputing Is Mobilizing Against COVID-19

March 12, 2020

Tech has been taking some heavy losses from the coronavirus pandemic. Global supply chains have been disrupted, virtually every major tech conference taking place over the next few months has been canceled... Read more…

By Oliver Peckham

Supercomputer Simulations Reveal the Fate of the Neanderthals

May 25, 2020

For hundreds of thousands of years, neanderthals roamed the planet, eventually (almost 50,000 years ago) giving way to homo sapiens, which quickly became the do Read more…

By Oliver Peckham

DoE Expands on Role of COVID-19 Supercomputing Consortium

March 25, 2020

After announcing the launch of the COVID-19 High Performance Computing Consortium on Sunday, the Department of Energy yesterday provided more details on its sco Read more…

By John Russell

Steve Scott Lays Out HPE-Cray Blended Product Roadmap

March 11, 2020

Last week, the day before the El Capitan processor disclosures were made at HPE's new headquarters in San Jose, Steve Scott (CTO for HPC & AI at HPE, and former Cray CTO) was on-hand at the Rice Oil & Gas HPC conference in Houston. He was there to discuss the HPE-Cray transition and blended roadmap, as well as his favorite topic, Cray's eighth-gen networking technology, Slingshot. Read more…

By Tiffany Trader

Honeywell’s Big Bet on Trapped Ion Quantum Computing

April 7, 2020

Honeywell doesn’t spring to mind when thinking of quantum computing pioneers, but a decade ago the high-tech conglomerate better known for its control systems waded deliberately into the then calmer quantum computing (QC) waters. Fast forward to March when Honeywell announced plans to introduce an ion trap-based quantum computer whose ‘performance’ would... Read more…

By John Russell

Leading Solution Providers

Contributors

Neocortex Will Be First-of-Its-Kind 800,000-Core AI Supercomputer

June 9, 2020

Pittsburgh Supercomputing Center (PSC - a joint research organization of Carnegie Mellon University and the University of Pittsburgh) has won a $5 million award Read more…

By Tiffany Trader

‘Billion Molecules Against COVID-19’ Challenge to Launch with Massive Supercomputing Support

April 22, 2020

Around the world, supercomputing centers have spun up and opened their doors for COVID-19 research in what may be the most unified supercomputing effort in hist Read more…

By Oliver Peckham

Australian Researchers Break All-Time Internet Speed Record

May 26, 2020

If you’ve been stuck at home for the last few months, you’ve probably become more attuned to the quality (or lack thereof) of your internet connection. Even Read more…

By Oliver Peckham

15 Slides on Programming Aurora and Exascale Systems

May 7, 2020

Sometime in 2021, Aurora, the first planned U.S. exascale system, is scheduled to be fired up at Argonne National Laboratory. Cray (now HPE) and Intel are the k Read more…

By John Russell

Nvidia’s Ampere A100 GPU: Up to 2.5X the HPC, 20X the AI

May 14, 2020

Nvidia's first Ampere-based graphics card, the A100 GPU, packs a whopping 54 billion transistors on 826mm2 of silicon, making it the world's largest seven-nanom Read more…

By Tiffany Trader

10nm, 7nm, 5nm…. Should the Chip Nanometer Metric Be Replaced?

June 1, 2020

The biggest cool factor in server chips is the nanometer. AMD beating Intel to a CPU built on a 7nm process node* – with 5nm and 3nm on the way – has been i Read more…

By Doug Black

Summit Supercomputer is Already Making its Mark on Science

September 20, 2018

Summit, now the fastest supercomputer in the world, is quickly making its mark in science – five of the six finalists just announced for the prestigious 2018 Read more…

By John Russell

TACC Supercomputers Run Simulations Illuminating COVID-19, DNA Replication

March 19, 2020

As supercomputers around the world spin up to combat the coronavirus, the Texas Advanced Computing Center (TACC) is announcing results that may help to illumina Read more…

By Staff report

  • arrow
  • Click Here for More Headlines
  • arrow
Do NOT follow this link or you will be banned from the site!
Share This