HPCwire: Case Studies Driving HPC in the Life Sciences

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Accelerating Life Science and Bioinformatics Applications…As if Our Lives Depended on IT

Mar 11, 2009 | Integrating the latest breakthroughs in biochemistry, high performance computing, optical processing, and storage is enabling remarkable advances in the fields of healthcare, drug discovery, and genomic research. Together, they are creating exciting personal therapeutic strategies for living longer, healthier lifestyles that were unimaginable until now.
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Of Unknown Origin: Diagnosing Cancer in the Cloud

Feb 25, 2009 | Cloud computing is finding new friends every day. Biotech firm Pathwork Diagnostics is now using Amazon's EC2 platform to perform sophisticated gene expression analytics for cancer classification.
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Complete Genomics Takes Off

Oct 15, 2008 | Last week, San-Francisco-based Complete Genomics came out of stealth mode to become the first provider of large-scale human genome sequencing services. HPCwire recently asked company representatives a few questions about their new offering.
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HPC Simulations Help Researchers Develop Artificial Sniffer Technology

Aug 27, 2008 | From law enforcement to cancer detection, the uncanny ability of dogs to sniff out the earliest signs of danger and disease is receiving ever-increasing attention by researchers. Despite tremendous advances in law enforcement technology, there is still no man-made tool that can detect the presence of explosives quite like a canine's sophisticated sniffing system.
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GPGPUs Make Headway in Bioscience

Jun 25, 2008 | Few user organizations have had more hands-on experience with accelerators than the National Cancer Institute's Advanced Biomedical Computing Center (ABCC). We asked Jack Collins, manager of the ABCC's Scientific Computation and Program Development group, for his take on accelerator appropriateness.
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CFD Simulations Take Cancer Research to a New Dimension

Jun 04, 2008 | Sixteen milliseconds -- one-fifth the speed of the blink of an eye -- can mean the difference between life and death for millions of people. How can such a miniscule amount of time have such a profound effect on so many? That's about how long it takes for one infinitesimal cancer cell to adhere to a new location within the body. In as little as a day, a new tumor is born in a phenomenon known as metastasizing.
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Life Sciences >>Top Headlines

Cloudy With a Chance of HPC

Jul 01, 2009 | GenomeWeb Daily News | The popularity of cloud computing in the life sciences community was on full display at April's Bio-IT World conference.
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Inside the Swine Flu Virus

Jun 08, 2009 | Texas Advanced Computing Center | Researchers are using TACC's Ranger supercomputer to discover how viral mutations lead to drug resistance.
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Models’ Projections for Flu Miss Mark by Wide Margin

Jun 02, 2009 | The New York Times | Bad data makes for bad predictions.
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Create an AI on Your Computer

May 28, 2009 | Singularity Hub | If many hands make light work, then maybe many computers can make an artificial brain.
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The New Computing Pioneers

May 25, 2009 | Chemical & Engineering News | The drug industry is putting cloud computing to the test.
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The Top Five UK Supercomputing Projects

May 19, 2009 | Silicon.com | From probing the Big Bang to decoding DNA.
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Life Sciences >> Off the Wire

CLC bio Expands Next Generation Sequencing Solutions

Jul 02, 2009 | CLC bio today announced the release of new versions of the desktop application CLC Genomics Workbench, version 3.6 and the award-winning enterprise platform CLC Genomics Server, version 1.6.
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CLC bio Reveals Biocomputing Solution at ISMB

Jun 29, 2009 | Today, at the 17th international conference on Intelligent Systems for Molecular Biology (ISMB) and 8th European Conference on Computational Biology (ECCB) in Stockholm, Sweden, CLC bio has revealed its first turnkey biocomputing solution for analyzing and visualizing Next Generation Sequencing data, called CLC Genomics Machine.
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CLC bio to Unveil CLC Genomics Machine

Jun 23, 2009 | CLC bio will unveil its first turnkey solution for analyzing and visualizing Next Generation Sequencing data, called CLC Genomics Machine, at the the upcoming 17th international conference on Intelligent Systems for Molecular Biology (ISMB) and 8th European Conference on Computational Biology (ECCB).
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PearlDiver to Use IU's Big Red Supercomputer

Jun 22, 2009 | PearlDiver Technologies Inc., creator of what is believed to be the largest fully HIPAA-compliant, publicly available and searchable database of patient records in the nation, will use IU's Big Red supercomputer for advanced data analysis.
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Penguin Partners w/ Applied Biosystems

May 27, 2009 | Penguin Computing today announced it has formed an OEM agreement with Applied Biosystems, a division of Life Technologies Corporation.
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TACC's Ranger Used in Hearing Research

May 22, 2009 | On behalf of the Air Force, researchers at the Texas Advanced Computing Center (TACC) study bone-conducted hearing using computer simulations.
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Feature Articles

Book Review: Petascale Computing: Algorithms and Applications

Petascale Computing: Algorithms and Applications, edited by David A. Bader, is the first book in CRC's Computational Science Series, edited by Horst Simon. Although the book is a collection of papers, Bader has done an excellent job of creating a compilation that holds together and covers a broad topic very well.
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The Week in Review

Cilk++ used in parallelization of the FP-tree algorithm for pattern mining; Istanbul benchmark results posted; and the latest on the NVIDIA Tesla shortage. John West recaps those stories and more in our weekly wrap-up.
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A Trio of HPC Offerings Unveiled at ISC

Last week's International Supercomputing Conference (ISC'09) was a convenient excuse for vendors to announce a raft of new products, but three, in particular, stood out.
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Top Headlines

Cloudy With a Chance of HPC

Jul 01 | GenomeWeb Daily News | The popularity of cloud computing in the life sciences community was on full display at April's Bio-IT World conference. Read more...

HPC From the Beach

Jul 01 | Linux Magazine | How can getting to the ocean help with HPC computing? Read more...

DARPA Investigates Extreme Supercomputing

Jun 29 | GCN.com | Agency issues RFI for "Ubiquitous High Performance Computing" systems. Read more...

Supercomputers Go From Biggest to Cheapest

Jun 29 | Computerworld | The bottom of the TOP500 reveals the coming revolution in truly accessible high-end computing. Read more...

CPUs Gear Up For -- and Some Avoid -- Hot Chips

Jun 18 | EE Times | Parallel software also takes spotlight at Stanford confab. Read more...

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Featured Whitepapers

Building High Performance Computing in a Green and Modular Solution Building Block

Apr 14 | | Many HPC IT departments are feeling the rising pressure to deliver more capacity computing and performance while trying to reduce the total cost of ownership. This white paper discusses how an environmentally-friendly and open-standards HPC building block based computing system using flexible interconnect options helps address capacity computing needs.

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Multimedia

Webcast: Dell Expands HPC Access and Adoption with Intel Cluster Ready Program

Source: Addison Snell, GM/VP, Tabor Research; sponsored by Dell

Many organizations that could benefit from the use of HPC clusters find that it is complicated to get the systems up and running because of limited IT resources or the complexities of the clusters themselves. Learn how the Intel Cluster Ready program, for which Dell was an original partner, seeks to address this challenge for entry level and mid-range HPC users.

Video White Paper: Architecting a Better Network Storage Solution

BlueArc's Titan architecture represents an evolutionary step in file servers by creating a hardware-based file system that can scale bandwidth, IOPS, and overall data capacity well beyond conventional software-based devices. With its ability to virtualize a massive storage pool of up to four usable petabytes of tiered storage, Titan can scale with growing data requirements, offering a competitive advantage for businesses, researchers, or other enterprises seeking to better manage data growth while still ensuring optimal performance.

Webcast: HPC Development Solutions: Sun Studio & Sun HPC ClusterTools

Sun Studio Compilers and Tools and Sun HPC ClusterTools allow you to create high performance parallel applications for OpenSolaris, Solaris and Linux. Sun Studio Express 11/08 includes MPI performance analysis capabilities and full OpenMP 3.0 compiler support. Learn about all this and the latest in Sun HPC ClusterTools 8.1.