[san-tech][02282] US NIGMS: D.E. Shaw Anton (512-node) 導入

Date: Mon, 10 May 2010 08:30:34 +0900
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例の American Recovery and Reinvestment Actで US National
Institutes of Health (NIH) の National Institute of General Medical
Sciences (NIGMS) に、D.E. Shaw Researchが開発した分子動力学専用
HPC Antonが 512ノード導入されるそうです：

"Stimulus funds bring supercomputer to Pittsburgh area"
 May 05, 2010
  http://www.post-gazette.com/pg/10125/1055589-455.stm

  "Starting next fall, the Pittsburgh area will be home to a
   groundbreaking supercomputer that could help scientists across
   the country unlock some of the mysteries of life at the molecular
   level, ultimately helping produce better drugs to treat diseases"

  "The Anton computer, made by D.E. Shaw Research in New York, is so
    powerful that the molecular dynamics simulations it can do in a day
    would take weeks or months on the most powerful supercomputers
    available today."

"Anton is a massively parallel, 512-node supercomputer, which means
   it has 512 processors that operate simultaneously, running a seemingly
   endless series of novel algorithms to project how all the thousands
   of parts of a protein interact."

  "Once it is installed over the summer, Anton will be housed at
   the Supercomputing Center's machine room in Monroeville thanks to
   a $2.7 million grant from the National Institute of General Medical
   Sciences, a part of the National Institutes of Health. It was one
   of 14 Grand Opportunities grants made by NIGMS in 2009 under the
   American Recovery and Reinvestment Act."

注目すべきは
  "The $2.7 million grant will not only pay for people to oversee Anton,
   but to set up a data storage center to store the reams and reams of
   data that will be generated by the various molecular dynamic
   simulations."

D. E. Shaw Research
  http://www.deshawresearch.com/
※プレスリリースは無さそうです
David E. Shaw, Chief Scientist
  http://deshawresearch.com/chiefscientist.html
D. E. Shaw & Co., L.P. (The D. E. Shaw group)
  http://www.deshaw.com/

D. E. Shaw Research, From Wikipedia, the free encyclopedia
  http://en.wikipedia.org/wiki/D._E._Shaw_Research
Anton (computer), From Wikipedia, the free encyclopedia
  http://en.wikipedia.org/wiki/Anton_%28computer%29

日本語だと、例えば
"【SC09】科学技術計算の最前線 - Gordon Bell賞", 2009/12/01
  http://journal.mycom.co.jp/articles/2009/12/01/sc09_gordonbell/001.html

IBMの論文とD.E.Shaw研究所の論文が特別賞を受賞
  "D.E Shaw研究所はAntonと呼ぶ分子動力学(Molecular Dynamics:MD)計算専用
   のスパコンを開発し、その最初のシステムでのシミュレーション結果を発表
   した。"

  "D.E.Shaw氏が創立したD.E.Shaw & Coは運用資産2.5兆円の世界最大規模の
   ヘッジファンドであるが、現在は、Shaw氏はヘッジファンドの日常の
   マネジメントには携わらず、 D.E.Shaw Researchのチーフサイエンティスト
   として、MDのアルゴリズムやAntonシステムの開発を行っているという。
   そして、同研究所の運用費用は Shaw氏のポケットマネーで賄われていると
   言われている。"

"Millisecond-scale molecular dynamics simulations on Anton"
 Conference on High Performance Networking and Computing 2009
 David E. Shaw, et al.
  http://doi.acm.org/10.1145/1654059.1654099

National Institute of General Medical Sciences (NIGMS)
  http://www.nigms.nih.gov/
※こちらには Antonについてのプレスリリースは見あたりません。


システムをホスト (管理？) する Pittsburgh Supercomputing Center (PSC)
にプレスリリースがありました：
"Pittsburgh Supercomputing Center Will Host Specialized Machine for
 Biomolecular Research", May 5, 2010
  http://www.psc.edu/publicinfo/news/2010/050510_pscanton.php

  "The National Institute of General Medical Sciences (NIGMS), part of
   the National Institutes of Health (NIH), has awarded a two-year,
   $2.7 million grant to the National Resource for Biomedical
   Supercomputing (NRBSC) at the Pittsburgh Supercomputing Center (PSC)
   to host a specialized supercomputer for biomolecular simulation
   designed by D. E. Shaw Research (DESRES)."

National Resource for Biomedical Supercomputing (NRBSC)
  http://www.nrbsc.org/
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2011/07/22

"Protein Research Leaps Forward with Anton at Pittsburgh Supercomputing
 Center"
 Special-purpose supercomputer's stay is extended, with new round of time
 allocations
 July 21, 2011
  http://www.psc.edu/publicinfo/news/2011/072111_AntonResearch.php

  "Using a special-purpose supercomputer for biomolecular simulation,
   U.S. scientists have made significant advances in the understanding of
   protein function. The supercomputer, called Anton, designed by
   D. E. Shaw Research (DESRES), was made available to researchers through
   the National Resource for Biomedical Supercomputing (NRBSC) at
   the Pittsburgh Supercomputing Center (PSC).

   Although DESRES has used Anton machines in internal research since
   late 2008, the NRBSC program marked the first time outside researchers
   used Anton. DESRES provided one of the machines without cost for
   non-commercial research by scientists at universities and other
   not-for-profit institutions. Motivated in large part by research advances
   in the first round of allocations, NRBSC and DESRES extended access
   to this resource beyond the scheduled end date of August 31, 2011.

   In the first round of awards, announced in September 2010, a panel of
   experts convened by the National Research Council (NRC) of the National
   Academies of Science allocated time on Anton to 47 research groups.
   A $2.7 million "Grand Opportunities" grant to NRBSC from the National
   Institute of General Medical Sciences of the National Institutes of
   Health funded operation of the DESRES machine. The NRC panel will
   allocate a second-round of projects to both new and first-round awardees."