Literature DB >> 19451110

Real science at the petascale.

Radhika S Saksena1, Bruce Boghosian, Luis Fazendeiro, Owain A Kenway, Steven Manos, Marco D Mazzeo, S Kashif Sadiq, James L Suter, David Wright, Peter V Coveney.   

Abstract

We describe computational science research that uses petascale resources to achieve scientific results at unprecedented scales and resolution. The applications span a wide range of domains, from investigation of fundamental problems in turbulence through computational materials science research to biomedical applications at the forefront of HIV/AIDS research and cerebrovascular haemodynamics. This work was mainly performed on the US TeraGrid 'petascale' resource, Ranger, at Texas Advanced Computing Center, in the first half of 2008 when it was the largest computing system in the world available for open scientific research. We have sought to use this petascale supercomputer optimally across application domains and scales, exploiting the excellent parallel scaling performance found on up to at least 32 768 cores for certain of our codes in the so-called 'capability computing' category as well as high-throughput intermediate-scale jobs for ensemble simulations in the 32-512 core range. Furthermore, this activity provides evidence that conventional parallel programming with MPI should be successful at the petascale in the short to medium term. We also report on the parallel performance of some of our codes on up to 65 636 cores on the IBM Blue Gene/P system at the Argonne Leadership Computing Facility, which has recently been named the fastest supercomputer in the world for open science.

Entities:  

Year:  2009        PMID: 19451110     DOI: 10.1098/rsta.2009.0049

Source DB:  PubMed          Journal:  Philos Trans A Math Phys Eng Sci        ISSN: 1364-503X            Impact factor:   4.226


  3 in total

1.  Rapid and accurate ranking of binding affinities of epidermal growth factor receptor sequences with selected lung cancer drugs.

Authors:  Shunzhou Wan; Peter V Coveney
Journal:  J R Soc Interface       Date:  2011-01-12       Impact factor: 4.118

2.  T-cell epitope prediction and immune complex simulation using molecular dynamics: state of the art and persisting challenges.

Authors:  Matthew N Davies; Darren R Flower; Kanchan Phadwal; Isabel K Macdonald; Peter V Coveney; Shunzhou Wan
Journal:  Immunome Res       Date:  2010-11-03

3.  Elucidating the fundamental forces in protein crystal formation: the case of crambin.

Authors:  Massimo Delle Piane; Marta Corno; Roberto Orlando; Roberto Dovesi; Piero Ugliengo
Journal:  Chem Sci       Date:  2015-11-24       Impact factor: 9.825

  3 in total

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