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Primeur weekly 2014-06-30

Special

Innovative HTC facilities needed to support computational genomics at the application and data level ...

HPC-assisted cell-based immunotherapy successful in curing melanoma ...

Restless hearts are simulated with real-time modelling at IBM Research in Zurich ...

A live report from the Adapteva A-1 "smallest supercomputer in the world" launch at ISC'14 ...

The Cloud

HP launches Helion Managed Services for optimizing Cloud storage workloads ...

Oracle unveils next generation Virtual Compute Appliance ...

Desktop Grids

ATLAS@Home crowd computing project launched at CERN ...

EuroFlash

a.s.r. uses ADVA Optical Networking's GNOC for critical network monitoring and maintenance ...

ADVA Optical Networking launches new era of data centre connectivity with Big Data transport solution ...

KTH wins from crystal clear insight into application performance with Allinea Performance Reports ...

Neurological simulation milestone reached after UCL embraces Allinea's tools on UK's largest supercomputer ...

Bright Computing is building on its success in data centres across Europe ...

UK Atomic Weapons Establishment launches SGI supercomputer ...

Spectra Logic tape library to archive the UK's fastest supercomputer ...

Physicists find way to boot up quantum computers 72 times faster than previously possible ...

In the fast lane: Mediatec uses Calibre UK LEDView530 scalers at FIA World Endurance Championships ...

The upcoming cybernetic age is one of intellectual capital ...

International Supercomputing Conference moves to Frankfurt, Germany in 2015 ...

USFlash

DataDirect Networks helps EMSL speed climate, energy and bioscience discoveries with high performance and massively scalable storage ...

Spectra and the Tandy Supercomputer shorten calculation rates from days to minutes, saving time and lives ...

New A*STAR-SMU centre combines high-powered computing and behavioural sciences to study people-centric issues ...

Scheduling algorithms based on game theory makes better use of computational resources ...

National Renewable Energy Laboratory supercomputer tackles power grid problems ...

Simulations helps scientists understand and control turbulence in humans and machines ...

Stampede supercomputer enables discoveries throughout science and engineering ...

Supercomputing simulations crucial to the study of Ras protein in determining anticancer drugs ...

Stampede supercomputer powers innovations in DNA sequencing technologies ...

Stampede supercomputer helps researchers design and test improved hurricane forecasting system ...

NSF-supported Stampede supercomputer powers innovations in materials science ...

D-Wave and predecessors: From simulated to quantum annealing ...

HPC server market shrinks -9.6% in the first quarter of 2014, according to IDC ...

University of Maryland's Deepthought2 debuts in global supercomputer rankings ...

Nine ways NSF-supported supercomputers help scientists understand and treat the disease ...

CAST releases wysiwyg R33 ...

Stampede supercomputer powers innovations in DNA sequencing technologies


Jejoong Yoo and Aleksei Aksimentiev, Department of Physics, University of Illinois
23 Jun 2014 Arlington - Aleksei Aksimentiev, a professor of physics at the University of Illinois-Urbana Champaign, used the National Science Foundation-supported Stampede supercomputer to explore a cutting-edge method of DNA sequencing. The method uses an electric field to drive a strand of DNA through a small hole, or "nanopore", either in silicon or a biological membrane.

By controlling this process precisely and measuring the change in ionic current as the DNA strands move through the pore of the membrane, the sequencer can read each base pair in order.

"Stampede is by far the best computer system my group has used over the past 10 years", Aleksei Aksimentiev stated. "Being able to routinely obtain 40-80 nanoseconds of molecular dynamic simulations in 24 hours, regardless of the systems' size, has been essential for us to make progress with rapidly evolving projects."

Aleksei Aksimentiev and his group showed that localized heating can be used to stretch DNA, which significantly increases the accuracy of nanopore DNA sequencing. In addition, he and his team used an all-atom molecular dynamics method to accurately describe DNA origami objects, making it possible to engineer materials for future applications in biosensing, drug delivery and nano-electronics. These results were published inACS Nanoand theProceedings of the National Academy of Sciences.
Source: National Science Foundation - NSF

Back to Table of contents

Primeur weekly 2014-06-30

Special

Innovative HTC facilities needed to support computational genomics at the application and data level ...

HPC-assisted cell-based immunotherapy successful in curing melanoma ...

Restless hearts are simulated with real-time modelling at IBM Research in Zurich ...

A live report from the Adapteva A-1 "smallest supercomputer in the world" launch at ISC'14 ...

The Cloud

HP launches Helion Managed Services for optimizing Cloud storage workloads ...

Oracle unveils next generation Virtual Compute Appliance ...

Desktop Grids

ATLAS@Home crowd computing project launched at CERN ...

EuroFlash

a.s.r. uses ADVA Optical Networking's GNOC for critical network monitoring and maintenance ...

ADVA Optical Networking launches new era of data centre connectivity with Big Data transport solution ...

KTH wins from crystal clear insight into application performance with Allinea Performance Reports ...

Neurological simulation milestone reached after UCL embraces Allinea's tools on UK's largest supercomputer ...

Bright Computing is building on its success in data centres across Europe ...

UK Atomic Weapons Establishment launches SGI supercomputer ...

Spectra Logic tape library to archive the UK's fastest supercomputer ...

Physicists find way to boot up quantum computers 72 times faster than previously possible ...

In the fast lane: Mediatec uses Calibre UK LEDView530 scalers at FIA World Endurance Championships ...

The upcoming cybernetic age is one of intellectual capital ...

International Supercomputing Conference moves to Frankfurt, Germany in 2015 ...

USFlash

DataDirect Networks helps EMSL speed climate, energy and bioscience discoveries with high performance and massively scalable storage ...

Spectra and the Tandy Supercomputer shorten calculation rates from days to minutes, saving time and lives ...

New A*STAR-SMU centre combines high-powered computing and behavioural sciences to study people-centric issues ...

Scheduling algorithms based on game theory makes better use of computational resources ...

National Renewable Energy Laboratory supercomputer tackles power grid problems ...

Simulations helps scientists understand and control turbulence in humans and machines ...

Stampede supercomputer enables discoveries throughout science and engineering ...

Supercomputing simulations crucial to the study of Ras protein in determining anticancer drugs ...

Stampede supercomputer powers innovations in DNA sequencing technologies ...

Stampede supercomputer helps researchers design and test improved hurricane forecasting system ...

NSF-supported Stampede supercomputer powers innovations in materials science ...

D-Wave and predecessors: From simulated to quantum annealing ...

HPC server market shrinks -9.6% in the first quarter of 2014, according to IDC ...

University of Maryland's Deepthought2 debuts in global supercomputer rankings ...

Nine ways NSF-supported supercomputers help scientists understand and treat the disease ...

CAST releases wysiwyg R33 ...