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Primeur weekly 2012-10-08

The Cloud

ISC Cloud’12 shared new evolution images from HPC and big data in the Cloud ...

Bright Computing to present data aware Cloud bursting to the SLURM User Group ...

Oracle unveils expanded Oracle Cloud Services portfolio ...

Oracle extends Oracle Communications Billing and Revenue Management product family with innovative Oracle Communications Elastic Charging Engine ...

Oracle Enterprise Manager 12c introduces new tools and programmes for partners ...

Fujitsu Cloud solution bolsters Ritsumeikan Asia Pacific University's administrative information system ...

Lending Club selects Oracle ERP Cloud Service to help increase insight and efficiencies ...

Customers live on Oracle Fusion Human Capital Management ...

Oracle continues to extend industry's no. 1 business innovation platform for the enterprise and the Cloud ...

Kwality Dairy selects IBM Cloud to drive supply chain efficiencies ...

Oracle announces ISV integration with Oracle Sales and Marketing Cloud Service ...

Oracle unveils new partner Cloud programmes at Oracle OpenWorld 2012 ...

Fujitsu Cloud solution enhances Kansai University's educational research system platform ...

HP advances software-defined networks with integrated infrastructure, controller and application solutions ...

Oracle announces Oracle Solaris 11.1 at Oracle OpenWorld ...

VMware simplifies compliance for business-critical applications in the Cloud ...

Desktop Grids

OProject@Home has been launched ...

EuroFlash

Altair's latest Compute Manager offers built-in 3D and 2D visualization of high-performance computing simulations ...

Green Brain project to create an autonomous flying robot with a honey bee brain ...

Hi-fi single photons ...

USFlash

Indiana University develops tool to improve NASA polar ice mission ...

Launch of the USA's fastest Genomic Supercomputing Platform reduces cancer genome analysis from months to seconds - One patient every 47 seconds ...

South Australian Research Facility unleashes the Tizard supercomputer ...

Mellanox InfiniBand selected by Fujitsu to accelerate the Australian National University supercomputer ...

Oracle announces Oracle Exadata X3 Database In-Memory Machine ...

Virginia Tech to tackle the Big Data challenges of next-generation sequencing with HokieSpeed ...

Iowa State researchers developing Big Data toolbox to help genome researchers ...

IBM completes acquisition of Texas Memory Systems ...

Brown University awarded $1.5 million for new Big Data tools ...

Cognitech Inc. announces release of industry's fastest mobile and tower supercomputing Forensic Video Workstations ...

Dell Smart Grid Data Management Solution enables utility companies to improve efficiency ...

New Zealand Freight Service provider adopts IBM PureSystems for IT consolidation ...

IBM boosts security, Cloud and analytics capabilities with new Power systems, storage and mainframe technologies ...

Sandia builds Android-based network to study cyber disruptions ...

Sandia gains national recognition for sustainable energy management ...

NSF announces interagency progress on administration's Big Data initiative ...

National Science Foundation awards Rutgers $1.4 million to help create ways to analyze Big Data ...

Virginia Tech to tackle the Big Data challenges of next-generation sequencing with HokieSpeed

3 Oct 2012 Blacksburg - The US National Science Foundation (NSF) and the National Institutes of Health (NIH) have granted nearly $15 million in new big data fundamental research projects. These awards aim to develop new tools and methods to extract and use knowledge from collections of large data sets to accelerate progress in science and engineering research. Among the awards is a $2 million grant to Iowa State, Virginia Tech, and Stanford University to develop high-performance computing techniques on massively parallel heterogeneous computing resources for large-scale data analytics.

Such heterogeneous computing resources include the NSF Major Research Instrumentation (MRI) funded HokieSpeed supercomputing instrument with in-situ visualization. HokieSpeed was the highest-ranked commodity supercomputer in the U.S. on the Green500 when it debuted in November 2011.

Specifically, the three-university team intends to develop techniques that would enable researchers to innovatively leverage high-performance computing to analyze the data deluge of high-throughput DNA sequencing, also known as next generation sequencing (NGS).

The research will be conducted in the context of grand challenge problems in human genetics and metagenomics or the study of metagenomes, the genetic material received directly from environmental samples.

On this grant, working together are Srinivas Aluru, a chaired professor of computer engineering at Iowa State University and principal investigator; Patrick S. Schnable, a chaired professor of agronomy, also at Iowa State; Oyekunle A. Olukotun, a professor of electrical engineering and computer science at Stanford University; and Wu Feng, who holds the Turner Fellowship and who is an associate professor of computer science at Virginia Tech. Professors Olukotun and Feng are co-principal investigators.

In previous research Srinivas Aluru has advanced the assembly of plant genomes, comparative genomics, deep-sequencing data analysis, and parallel bioinformatics methods and tools. Srinivas Aluru and Patrick S. Schnable previously worked together on generating a reference genome for the complex stalk of corn genome that will help speed efforts to develop better crop varieties.

Wu Feng's relevant prior work lies at the synergistic intersection of life sciences and high-performance computing, particularly in the context of big data. For example, in 2007, Wu Feng and his colleagues created an ad-hoc environment called ParaMEDIC, short for Parallel Metadata Environment for Distributed I/O and Computing, to conduct a massive sequence search over a distributed ephemeral supercomputer that enabled bioinformaticists to "identify missing genes in genomes".

Wu Feng stated: "With apologies to the movie Willy Wonka and the Chocolate Factory, one can view ParaMEDIC as WonkaVision for Scientific Data - a way to intelligently teleport data using semantic-based cues. "

Wu Feng also recently studied how heterogeneous computing resources at the small scale and large scale, e.g., HokieSpeed, could be used for short-read mapping and alignment of genetic sequences in support of the philanthropic award that he received from NVIDIA Foundation as part of its "Compute the Cure" programme.

With this award, Wu Feng, the principal investigator, and his colleagues created a framework for faster genome analysis to make it easier for genomics researchers to identify mutations that are relevant to cancer.

In all, NSF and NIH announced a total of eight new projects in response to a call for proposals on "Core Techniques and Technologies for Advancing Big Data Science & Engineering", or "Big Data", in March of 2012. They run the gamut of scientific approaches with possible future applications in scientific disciplines, such as physics, psychology, economics, and medicine.

"I am delighted to provide such a positive progress report just six months after fellow federal agency heads joined the White House in launching the Big Data Initiative", stated NSF Director Subra Suresh. "By funding new types of collaborations - multi-disciplinary teams and communities enabled by new data access policies - and with the start of an exciting competition, we are realizing plans to advance the complex, science and engineering grand challenges of today and to fortify U.S. competitiveness for decades to come."

"To get the most value from the massive biological data sets we are now able to collect, we need better ways of managing and analyzing the information they contain", stated NIH Director Francis S. Collins. "The new awards that NIH is funding will help address these technological challenges - and ultimately help accelerate research to improve health - by developing methods for extracting important, biomedically relevant information from large amounts of complex data."

The TopCoder Open Innovation platform and process allows U.S. government agencies to conduct high risk/high reward challenges in an open and transparent environment with predictable cost, measurable outcomes-based results and the potential to move quickly into unanticipated directions and new areas of software technology.

Big data is a term applied to data sets whose size is beyond the ability of commonly used software tools to capture, manage and process the data within a tolerable elapsed time. Big data sizes are a constantly moving targets currently ranging from a few dozen terabytes to many petabytes of data in a single data set.
Source: Virginia Tech

Back to Table of contents

Primeur weekly 2012-10-08

The Cloud

ISC Cloud’12 shared new evolution images from HPC and big data in the Cloud ...

Bright Computing to present data aware Cloud bursting to the SLURM User Group ...

Oracle unveils expanded Oracle Cloud Services portfolio ...

Oracle extends Oracle Communications Billing and Revenue Management product family with innovative Oracle Communications Elastic Charging Engine ...

Oracle Enterprise Manager 12c introduces new tools and programmes for partners ...

Fujitsu Cloud solution bolsters Ritsumeikan Asia Pacific University's administrative information system ...

Lending Club selects Oracle ERP Cloud Service to help increase insight and efficiencies ...

Customers live on Oracle Fusion Human Capital Management ...

Oracle continues to extend industry's no. 1 business innovation platform for the enterprise and the Cloud ...

Kwality Dairy selects IBM Cloud to drive supply chain efficiencies ...

Oracle announces ISV integration with Oracle Sales and Marketing Cloud Service ...

Oracle unveils new partner Cloud programmes at Oracle OpenWorld 2012 ...

Fujitsu Cloud solution enhances Kansai University's educational research system platform ...

HP advances software-defined networks with integrated infrastructure, controller and application solutions ...

Oracle announces Oracle Solaris 11.1 at Oracle OpenWorld ...

VMware simplifies compliance for business-critical applications in the Cloud ...

Desktop Grids

OProject@Home has been launched ...

EuroFlash

Altair's latest Compute Manager offers built-in 3D and 2D visualization of high-performance computing simulations ...

Green Brain project to create an autonomous flying robot with a honey bee brain ...

Hi-fi single photons ...

USFlash

Indiana University develops tool to improve NASA polar ice mission ...

Launch of the USA's fastest Genomic Supercomputing Platform reduces cancer genome analysis from months to seconds - One patient every 47 seconds ...

South Australian Research Facility unleashes the Tizard supercomputer ...

Mellanox InfiniBand selected by Fujitsu to accelerate the Australian National University supercomputer ...

Oracle announces Oracle Exadata X3 Database In-Memory Machine ...

Virginia Tech to tackle the Big Data challenges of next-generation sequencing with HokieSpeed ...

Iowa State researchers developing Big Data toolbox to help genome researchers ...

IBM completes acquisition of Texas Memory Systems ...

Brown University awarded $1.5 million for new Big Data tools ...

Cognitech Inc. announces release of industry's fastest mobile and tower supercomputing Forensic Video Workstations ...

Dell Smart Grid Data Management Solution enables utility companies to improve efficiency ...

New Zealand Freight Service provider adopts IBM PureSystems for IT consolidation ...

IBM boosts security, Cloud and analytics capabilities with new Power systems, storage and mainframe technologies ...

Sandia builds Android-based network to study cyber disruptions ...

Sandia gains national recognition for sustainable energy management ...

NSF announces interagency progress on administration's Big Data initiative ...

National Science Foundation awards Rutgers $1.4 million to help create ways to analyze Big Data ...