In the News
Over the Sun Attends SuperComputing 2011 with Acellera
PENGUIN COMPUTING SHOWCASES ACELLERA'S ACEMD AT SC2011
LONDON, UK – 14 November 2011 – Acellera today announced that Penguin Computing will showcase Acellera's ACEMD at Supercomputing 2011 in Seattle, Washington, booth 643. ACEMD is the world's fastest and most efficient bio-molecular dynamics engine for multi-core computer nodes and workstations. Specifically optimized to run on NVIDIA graphics cards, ACEMD enables performance equivalent to more than 100 CPUs while maintaining microsecond trajectories.
Matt Jacobs, Sr. Vice President of Corporate Development for Penguin Computing states, "As we approachximate the clock cycle limits on traditional CPU architectures, multicore and GPU technologies are moving to the forefront to reshape the way our customers conceptualize their research they can conduct. Acellera's ACEMD package demonstrates the true capabilities that this new level of parallelism offers and Penguin Computing is pleased to be able to showcase this package on our POD environment at this year's Supercomputing conference."
Molecular Dynamics (MD) simulation is a powerful technique for investigating biological systems at atomic resolution. Prior to the introduction of Acellera's ACEMD, the cost of bio-MD simulations for R&D was prohibitive, requiring hundreds of CPU cores for a single run on dedicated HPC clusters. ACEMD transformed the bio-MD field by introducing highly optimized bio-MD simulation on comparatively low-cost GPUs, enabling supercomputing class simulations on a small GPU cluster.
ACEMD on one Fermi GPU outperforms NAMD2.7b1 on 128 cores, while running on three Fermi GPUs, ACEMD outperforms DESMOND and GROMACS4 on 128 cores. Furthermore, ACEMD enables new kinds of analyses, such as the complete reconstruction of protein–ligand interactions in terms of thermodynamics and kinetics. This type of study opens new avenues in pharma research, and illuminates the role that specific kinetic signatures have in the quality of small molecules during drug development.
“We are pleased to have this opportunity to work with such a reputable provider of world-class HPC solutions. Penguin's POD technology combined with Acellera's ACEMD provides an unbeatable platform for on-demand, highly-efficiency bio-MD simulation for all scientists, from those just beginning to explore its huge potential to established MD users” states Gianni De Fabritiis, Founder and Chief Science Officert at Acellera.
ACEMD is the engine behind GPUGRID, one of the largest distributed computing projects worldwide. It is stable, scalable, robust, and can handle thousands of highly demanding MD simulations daily. ACEMD simulations have helped researchers push our understanding of protein-ligand interactions, ion channel dynamics, membrane protein behavior, and mechanisms for drug resistance.
Penguin Computing will soon provide turn-key solutions which integrate Acellera's ACEMD onto Penguin hardware, marking Penguin Computing as the first U.S. Value Added Reseller and provider of L1 system support for Acellera's ACEMD.
To experience a demonstration of ACEMD at SC2011, visit Penguin Computing booth 643 Wednesday, November 15 or Thursday, November 16 where ACEMD simulations will use Penguin's on Demand Platform (POD), an HPC cloud that provides instant availability on-demand. Interested parties will be offered the opportunity during those same dates to challenge ACEMD with their on systems on POD. Contact David Soriano at info@acellera.com for more information.
Learn more about ACEMD: www.acellera.com
Download a free version of ACEMD: www.acellera.com/getacemd
Learn more about PODs: www.penguincomputing.com/POD
Learn more about GPUGRID: www.gpugrid.net
Learn more about SC2011: sc11.supercomputing.org
About Penguin Computing
For well over a decade Penguin Computing has been dedicated to delivering complete, integrated High Performance Computing (HPC) solutions that are innovative, cost effective and easy to use. Penguin offers a complete end-to-end portfolio of products and solutions ranging from Linux servers and workstations to integrated, turn-key HPC clusters and cluster management software. For users that want to use supercomputing capabilities on-demand and pay as they go, Penguin offers ‘Penguin on Demand’ (POD) , a public HPC cloud that is available instantly and as needed. With its broad portfolio of solutions Penguin is the one-stop shop for HPC and enterprise customers and counts some of the world's most demanding HPC users as its customers, including Caterpillar, Life Technologies, Dolby, Lockheed Martin, the U.S. Air Force, and the U.S. Navy.
To learn more, visit www.penguincomputing.com
About Acellera
Acellera is a London-based technology company focused on delivering services and solutions to companies and academic institutions on computing intensive, mission critical applications. By exploiting heavily optimized molecular simulations and the outstanding computational capabilities of new accelerator processors, we help to achieve otherwise unreachable results using current standard technology. We work in a growing number of application areas in biotechnology. Our team consists of people with strong scientific, computational and technological background and is led by a management team with strong scientific credentials.
To learn more, visit www.aellera.com
Penguin Computing is a registered trademark of Penguin Computing, Inc. Penguin on Demand is a pending trademark in the U.S. ACEMD is a trademark of Acellera. All other trademarks are property of their respective owners. Other product or company names mentioned may be trademarks or trade names of their respective companies.