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!

China’s Tencent Server Design Will Use AMD Rome

November 13, 2019

Tencent, the Chinese cloud giant, said it would use AMD’s newest Epyc processor in its internally-designed server. The design win adds further momentum to AMD’s bid to erode rival Intel Corp.’s dominance of the glo Read more…

By George Leopold

NCSA Industry Conference Recap – Part 1

November 13, 2019

Industry Program Director Brendan McGinty welcomed guests to the annual National Center for Supercomputing Applications (NCSA) Industry Conference, October 8-10, on the University of Illinois campus in Urbana (UIUC). On Read more…

By Elizabeth Leake, STEM-Trek

Cray, Fujitsu Both Bringing Fujitsu A64FX-based Supercomputers to Market in 2020

November 12, 2019

The number of top-tier HPC systems makers has shrunk due to a steady march of M&A activity, but there is increased diversity and choice of processing components with Intel Xeon, AMD Epyc, IBM Power, and Arm server ch Read more…

By Tiffany Trader

Intel AI Summit: New ‘Keem Bay’ Edge VPU, AI Product Roadmap

November 12, 2019

At its AI Summit today in San Francisco, Intel touted a raft of AI training and inference hardware for deployments ranging from cloud to edge and designed to support organizations at various points of their AI journeys. Read more…

By Doug Black

SIA Recognizes Robert Dennard with 2019 Noyce Award

November 12, 2019

If you don’t know what Dennard Scaling is, the chances are strong you don’t labor in electronics. Robert Dennard, longtime IBM researcher, inventor of the DRAM and the fellow for whom Dennard Scaling was named, is th Read more…

By John Russell

AWS Solution Channel

Making High Performance Computing Affordable and Accessible for Small and Medium Businesses with HPC on AWS

High performance computing (HPC) brings a powerful set of tools to a broad range of industries, helping to drive innovation and boost revenue in finance, genomics, oil and gas extraction, and other fields. Read more…

IBM Accelerated Insights

Leveraging Exaflops Performance to Remediate Nuclear Waste

November 12, 2019

Nuclear waste storage sites are a subject of intense controversy and debate; nobody wants the radioactive remnants in their backyard. Now, a collaboration between Berkeley Lab, Pacific Northwest National University (PNNL Read more…

By Oliver Peckham

Cray, Fujitsu Both Bringing Fujitsu A64FX-based Supercomputers to Market in 2020

November 12, 2019

The number of top-tier HPC systems makers has shrunk due to a steady march of M&A activity, but there is increased diversity and choice of processing compon Read more…

By Tiffany Trader

IBM Adds Support for Ion Trap Quantum Technology to Qiskit

November 11, 2019

After years of percolating in the shadow of quantum computing research based on superconducting semiconductors – think IBM, Rigetti, Google, and D-Wave (quant Read more…

By John Russell

Tackling HPC’s Memory and I/O Bottlenecks with On-Node, Non-Volatile RAM

November 8, 2019

On-node, non-volatile memory (NVRAM) is a game-changing technology that can remove many I/O and memory bottlenecks and provide a key enabler for exascale. Th Read more…

By Jan Rowell

MLPerf Releases First Inference Benchmark Results; Nvidia Touts its Showing

November 6, 2019

MLPerf.org, the young AI-benchmarking consortium, today issued the first round of results for its inference test suite. Among organizations with submissions wer Read more…

By John Russell

Azure Cloud First with AMD Epyc Rome Processors

November 6, 2019

At Ignite 2019 this week, Microsoft's Azure cloud team and AMD announced an expansion of their partnership that began in 2017 when Azure debuted Epyc-backed ins Read more…

By Tiffany Trader

Nvidia Launches Credit Card-Sized 21 TOPS Jetson System for Edge Devices

November 6, 2019

Nvidia has launched a new addition to its Jetson product line: a credit card-sized (70x45mm) form factor delivering up to 21 trillion operations/second (TOPS) o Read more…

By Doug Black

In Memoriam: Steve Tuecke, Globus Co-founder

November 4, 2019

HPCwire is deeply saddened to report that Steve Tuecke, longtime scientist at Argonne National Lab and University of Chicago, has passed away at age 52. Tuecke Read more…

By Tiffany Trader

Spending Spree: Hyperscalers Bought $57B of IT in 2018, $10B+ by Google – But Is Cloud on Horizon?

October 31, 2019

Hyperscalers are the masters of the IT universe, gravitational centers of increasing pull in the emerging age of data-driven compute and AI.  In the high-stake Read more…

By Doug Black

Supercomputer-Powered AI Tackles a Key Fusion Energy Challenge

August 7, 2019

Fusion energy is the Holy Grail of the energy world: low-radioactivity, low-waste, zero-carbon, high-output nuclear power that can run on hydrogen or lithium. T Read more…

By Oliver Peckham

Using AI to Solve One of the Most Prevailing Problems in CFD

October 17, 2019

How can artificial intelligence (AI) and high-performance computing (HPC) solve mesh generation, one of the most commonly referenced problems in computational engineering? A new study has set out to answer this question and create an industry-first AI-mesh application... Read more…

By James Sharpe

Cray Wins NNSA-Livermore ‘El Capitan’ Exascale Contract

August 13, 2019

Cray has won the bid to build the first exascale supercomputer for the National Nuclear Security Administration (NNSA) and Lawrence Livermore National Laborator Read more…

By Tiffany Trader

DARPA Looks to Propel Parallelism

September 4, 2019

As Moore’s law runs out of steam, new programming approaches are being pursued with the goal of greater hardware performance with less coding. The Defense Advanced Projects Research Agency is launching a new programming effort aimed at leveraging the benefits of massive distributed parallelism with less sweat. Read more…

By George Leopold

AMD Launches Epyc Rome, First 7nm CPU

August 8, 2019

From a gala event at the Palace of Fine Arts in San Francisco yesterday (Aug. 7), AMD launched its second-generation Epyc Rome x86 chips, based on its 7nm proce Read more…

By Tiffany Trader

D-Wave’s Path to 5000 Qubits; Google’s Quantum Supremacy Claim

September 24, 2019

On the heels of IBM’s quantum news last week come two more quantum items. D-Wave Systems today announced the name of its forthcoming 5000-qubit system, Advantage (yes the name choice isn’t serendipity), at its user conference being held this week in Newport, RI. Read more…

By John Russell

Ayar Labs to Demo Photonics Chiplet in FPGA Package at Hot Chips

August 19, 2019

Silicon startup Ayar Labs continues to gain momentum with its DARPA-backed optical chiplet technology that puts advanced electronics and optics on the same chip Read more…

By Tiffany Trader

Crystal Ball Gazing: IBM’s Vision for the Future of Computing

October 14, 2019

Dario Gil, IBM’s relatively new director of research, painted a intriguing portrait of the future of computing along with a rough idea of how IBM thinks we’ Read more…

By John Russell

Leading Solution Providers

ISC 2019 Virtual Booth Video Tour

CRAY
CRAY
DDN
DDN
DELL EMC
DELL EMC
GOOGLE
GOOGLE
ONE STOP SYSTEMS
ONE STOP SYSTEMS
PANASAS
PANASAS
VERNE GLOBAL
VERNE GLOBAL

Intel Confirms Retreat on Omni-Path

August 1, 2019

Intel Corp.’s plans to make a big splash in the network fabric market for linking HPC and other workloads has apparently belly-flopped. The chipmaker confirmed to us the outlines of an earlier report by the website CRN that it has jettisoned plans for a second-generation version of its Omni-Path interconnect... Read more…

By Staff report

Kubernetes, Containers and HPC

September 19, 2019

Software containers and Kubernetes are important tools for building, deploying, running and managing modern enterprise applications at scale and delivering enterprise software faster and more reliably to the end user — while using resources more efficiently and reducing costs. Read more…

By Daniel Gruber, Burak Yenier and Wolfgang Gentzsch, UberCloud

Dell Ramps Up HPC Testing of AMD Rome Processors

October 21, 2019

Dell Technologies is wading deeper into the AMD-based systems market with a growing evaluation program for the latest Epyc (Rome) microprocessors from AMD. In a Read more…

By John Russell

Rise of NIH’s Biowulf Mirrors the Rise of Computational Biology

July 29, 2019

The story of NIH’s supercomputer Biowulf is fascinating, important, and in many ways representative of the transformation of life sciences and biomedical res Read more…

By John Russell

Intel Debuts Pohoiki Beach, Its 8M Neuron Neuromorphic Development System

July 17, 2019

Neuromorphic computing has received less fanfare of late than quantum computing whose mystery has captured public attention and which seems to have generated mo Read more…

By John Russell

Xilinx vs. Intel: FPGA Market Leaders Launch Server Accelerator Cards

August 6, 2019

The two FPGA market leaders, Intel and Xilinx, both announced new accelerator cards this week designed to handle specialized, compute-intensive workloads and un Read more…

By Doug Black

When Dense Matrix Representations Beat Sparse

September 9, 2019

In our world filled with unintended consequences, it turns out that saving memory space to help deal with GPU limitations, knowing it introduces performance pen Read more…

By James Reinders

With the Help of HPC, Astronomers Prepare to Deflect a Real Asteroid

September 26, 2019

For years, NASA has been running simulations of asteroid impacts to understand the risks (and likelihoods) of asteroids colliding with Earth. Now, NASA and the European Space Agency (ESA) are preparing for the next, crucial step in planetary defense against asteroid impacts: physically deflecting a real asteroid. Read more…

By Oliver Peckham

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