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Primeur weekly 2015-10-26

Special

DZ Bank believes in Cloud computing but has to move with caution ...

Peter Coveney's views on the Virtual Human, the Human Brain Project, the medical practice and curriculum, and the interrelation of supercomputing and data storage ...

Focus

Exascale: not simply a matter of re-writing the applications and more parallelism ...

Exascale supercomputing

New report on energy-efficient computing ...

Photons open the gateway for quantum networks ...

Quantum computing

Loophole-free Bell test TU Delft crowns 80-years-old debate on nature of reality: Einsteins "spooky action" is real ...

Focus on Europe

IBM, UK STFC Hartree Centre, NVIDIA and Mellanox launch high performance computing POWER Acceleration and Design Center for business ...

Middleware

Bright Computing's Panos Labropoulos to speak at Amsterdam Spark Summit ...

Rogue Wave Software acquires enterprise PHP expert Zend ...

SGI exceeds 200 Terabyte milestone in total systems running SAP HANA ...

Hardware

Nor-Tech innovates ruggedized portable custom supercomputer for CAE and other applications ...

Comet: A supercomputer for the 'long tail' of science ...

U.S. Army unveils Excalibur, one of the world's top 20 supercomputers ...

Supermicro's new X11 UP solutions with highest performance and efficiency support latest Intel Xeon processor E3-1200 v5 family ...

New custom-designed storage system by DDN boosts Intel Omni-Path fabric speed in HPC, web and Cloud workflows by 100 percent ...

Department of Energy’s National Nuclear Security Administration selects Penguin Computing's Tundra extreme scale solution for National Labs ...

Applications

IBM expands data discovery and Q&A power of Watson Analytics ...

Cray's high-density GPU system sets new performance standard for ECHELON reservoir simulation software ...

New SDSC award provides easy path to supercomputing for neuroscientists ...

UC San Diego/SDSC study uncovers mechanism to block a cancer pathway ...

Utah researchers develop software to better understand brain's network of neurons ...

DrugDiscovery@TACC portal helps researchers worldwide with drug therapeutics ...

Supercomputing helps ecologists overturn popular theory ...

The Cloud

EMC and VMware reveal new Cloud services business ...

Dell introduces industry-first hybrid Cloud system with bold payment structure to simplify and minimize risks of Cloud adoption ...

New SDSC award provides easy path to supercomputing for neuroscientists

Visualization of 3D Cerebellar Cortex model generated by researchers Angus Silver and Padraig Gleeson from University College London. The NeuroScience Gateway was used for simulations.19 Oct 2015 San Diego - The National Science Foundation (NSF) and the United Kingdom's Biotechnology and Biological Sciences Research Council (BBSRC) have awarded funding for the Neuroscience Gateways project led by the San Diego Supercomputer Center at the University of California, San Diego. The project will contribute to the national BRAIN initiative announced by the Obama administration in 2013 to advance researchers' understanding of the human brain.

The project builds upon the Neuroscience Gateway (NSG), first funded by the NSF in 2012, to develop a science gateway for the computational neuroscience community thereby increasing access to high-performance computing (HPC) viewed an essential resource to advancing research. Science gateways provide easy access through web based portal to advanced cyberinfrastructure tools and resources that can significantly improve the productivity of researchers. They successfully hide the administrative and technical complexities associated with accessing HPC resources.

The collaborative project, funded under three separate awards, is between UC San Diego, with Amit Majumdar as the Principal Investigator (PI) and Subhashini Sivagnanam as co-PI; Yale University, with Ted Carnevale as PI; and University College London, with Angus Silver as PI.

"Back in 2010 it was already clear that neuroscience research would soon require computational modelling and data analysis that exceeded the resources that were available to most neuroscientists, and that's why we wrote the proposal that funded NSG's initial development", stated Ted Carnevale, a computational neurobiologist at Yale. "NSG is the first and only resource that provides convenient access to HPC for large-scale neuroscience modelling projects, and the NSG-R project is the logical next step in expanding this access. The NSG portal has caught on quickly with neuroscientists, and we expect that NSG-R will help it meet the growing need for HPC in neuroscience."

The project, based on a proposal called "Seamless Integration of Neuroscience Models and Tools with HPC - Easy Path to Supercomputing for Neuroscience" and funded under the NSF's Advances in Biological Informatics programme, will use REpresentational State Transfer (REST) services to provide programmatic access to HPC for the computational neuroscience community. This will allow users of neuroscience community projects such as Open Source Brain (OSB), NeuroInformatics Framework (NIF), OpenWorm, ModelDB, and others to readily access advanced computational resources from their respective websites.

Now called NSG-R to include REST, the project will be a free and open neuroscience gateway infrastructure that will enable greater research productivity and wider use of large-scale computational modelling by scientists and students. NSG-R also will enable large-scale neuronal modelling using XSEDE's - eXtreme Science and Engineering Discovery Environment - HPC resources such as the Comet supercomputer at SDSC and Stampede at the Texas Advanced Computing Center.

"Open Source Brain is building a platform for sharing and collaboratively developing neuronal models", stated Angus Silver, the PI from University College London. "Getting access to high performance computing resources via NSG-R will make it easier for our users to simulate models of increased complexity and biological realism, all through the existing OSB web interface."

"There has been robust interest in NSG since its inception in early 2013 and based on community feedback, we realized the need for providing programmatic access to HPC resources especially from community projects such as OSB, NIF, and OpenWorm", stated Amit Majumdar, SDSC's division director for the Center's Data Enabled Scientific Computing division.

"Currently, NSG users must still upload models, launch simulations, and download results - a process that involves many time-consuming, and potentially error-prone steps", stated Amit Majumdar, who is also an associate professor with UC San Diego's Department of Radiation Medicine and Applied Sciences. "We plan to eliminate these steps by enabling on-demand, automated communication between the gateway and researchers' familiar working environments."

"NSG-R has the potential to accelerate progress in brain science, and have far-reaching beneficial effects on related fields such as robotics and engineering of adaptive and learning systems", stated Subhashini Sivagnanam, the software architect for the NSG. "We also view it as increasing opportunities for educational and career advancement in neuroscience and engineering by serving as an entry point for students and researchers from historically underrepresented schools and colleges."

NSG-R workshops have been hosted at the Society for Neuroscience (SFN) and Computational Neuroscience annual meetings since 2013 and at minority serving institutions (MSI). Students from MSI and other institutions will be able to do internships with the NSG-R team at UC San Diego.

The NSF part of the grant is funded through the foundation's Directorate for Biological Sciences. Project abstracts can be viewed at:

Source: San Diego Supercomputer Center - SDSC

Back to Table of contents

Primeur weekly 2015-10-26

Special

DZ Bank believes in Cloud computing but has to move with caution ...

Peter Coveney's views on the Virtual Human, the Human Brain Project, the medical practice and curriculum, and the interrelation of supercomputing and data storage ...

Focus

Exascale: not simply a matter of re-writing the applications and more parallelism ...

Exascale supercomputing

New report on energy-efficient computing ...

Photons open the gateway for quantum networks ...

Quantum computing

Loophole-free Bell test TU Delft crowns 80-years-old debate on nature of reality: Einsteins "spooky action" is real ...

Focus on Europe

IBM, UK STFC Hartree Centre, NVIDIA and Mellanox launch high performance computing POWER Acceleration and Design Center for business ...

Middleware

Bright Computing's Panos Labropoulos to speak at Amsterdam Spark Summit ...

Rogue Wave Software acquires enterprise PHP expert Zend ...

SGI exceeds 200 Terabyte milestone in total systems running SAP HANA ...

Hardware

Nor-Tech innovates ruggedized portable custom supercomputer for CAE and other applications ...

Comet: A supercomputer for the 'long tail' of science ...

U.S. Army unveils Excalibur, one of the world's top 20 supercomputers ...

Supermicro's new X11 UP solutions with highest performance and efficiency support latest Intel Xeon processor E3-1200 v5 family ...

New custom-designed storage system by DDN boosts Intel Omni-Path fabric speed in HPC, web and Cloud workflows by 100 percent ...

Department of Energy’s National Nuclear Security Administration selects Penguin Computing's Tundra extreme scale solution for National Labs ...

Applications

IBM expands data discovery and Q&A power of Watson Analytics ...

Cray's high-density GPU system sets new performance standard for ECHELON reservoir simulation software ...

New SDSC award provides easy path to supercomputing for neuroscientists ...

UC San Diego/SDSC study uncovers mechanism to block a cancer pathway ...

Utah researchers develop software to better understand brain's network of neurons ...

DrugDiscovery@TACC portal helps researchers worldwide with drug therapeutics ...

Supercomputing helps ecologists overturn popular theory ...

The Cloud

EMC and VMware reveal new Cloud services business ...

Dell introduces industry-first hybrid Cloud system with bold payment structure to simplify and minimize risks of Cloud adoption ...