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The high-stakes task of designing new drugs relies on high-tech tools, especially computerized predictions of the 3-D structure of proteins. Researchers at the San Diego Supercomputer Center (SDSC) at UC San Diego, contributing their massive computational capabilities to a collaboration with colleagues at the University of Washington (UW) and IBM, have helped to achieve the largest-ever protein structure prediction and completed the complex simulation in less than three hours, a task that previously took weeks.
Published November 1, 2006
The August 2006 issue of <em>CTWatch Quarterly</em> is now available. In this issue, entitled "Trends and Tools in Bioinformatics and Computational Biology," guest editor Rick Stevens has assembled a collection of articles that will give readers an outline of the current broad trends and corresponding tool development strategies in the bioinformatics and computational biology community.
Published September 15, 2006
The San Diego Supercomputer Center (SDSC) and the National Center for Atmospheric Research (NCAR) have entered a new collaboration for data preservation.
Published August 8, 2006
Firefighters facing fast-spreading wildfires, especially in remote areas where communications and other resources are scarce, can now add "cyberinfrastructure" to their firefighting arsenals. Such combined hardware and software proved useful in the recent "Horse Fire" in California's Cleveland National Forest, when experts from the San Diego Supercomputer Center (SDSC) at the University of California, San Diego, responded to the urgent request of state firefighters for quick and reliable wireless communication among widespread teams.
Published August 8, 2006
The most true-to-life computer simulation ever made of our sun's multimillion-degree outer atmosphere, the corona, successfully predicted its actual appearance during the total solar eclipse of March 29, 2006, scientists have announced. The demanding calculations required four days running on more than 600 processors of the DataStar system at the San Diego Supercomputer Center (SDSC) at UC San Diego.
Published August 3, 2006
Published August 3, 2006
SDSC's Phil Bourne is chairing the scientific program committee of the 14 th Annual Conference on Intelligent Systems for Molecular Biology (ISMB 2006) in Fortaleza , Brazil, August 6-10, with S?ren Brunak of the University of Denmark serving as co-chair. ISMB is the annual conference of the International Society for Computational Biology (ISCB), a worldwide membership society of bioinformaticians that moved its headquarters from Stanford University to SDSC under Bourne's leadership as ISCB President in 2002.
Published July 7, 2006
The NOAO Science Archive, based on the SDSC Storage Resource Broker (SRB), manages some 14.5 terabytes of astronomical data in more than 800,000 files. This mosaic of images of the Large Magellanic Cloud, part of the MCELS study of the glowing interstellar medium -- the breeding ground for new stars and cemetery for dead stars -- will form part of the archive. C. Smith, S. Points, the MCELS Team and NOAO/AURA/NSF.
Published July 5, 2006
The National Center for Atmospheric Research (NCAR) has joined the TeraGrid, the nation's most comprehensive and advanced infrastructure for open scientific research. The announcement was made by National Science Foundation director Arden L. Bement, Jr. today at the TeraGrid '06 conference.
Published June 13, 2006
In the June 12 edition, Newsweek Magazine gathered a team of experts to look at how the U.S. can remain competitive in the changing global environment in "15 Ideas to Recharge America". Leaders from the fields of science, technology, education and business were asked to assess the challenges we face and to offer solutions. SDSC Director Dr. Fran Berman offered ideas on developing national-scale solutions for the deluge of data.
Published June 9, 2006
On June 8, University of California, San Diego (UCSD) Chancellor Marye Anne Fox and San Diego Supercomputer Center (SDSC) Director Fran Berman broke ground on the Center's 80,000 square foot building expansion. SDSC's building extension will double the size of the national science, engineering and technology center, adding needed room for trillions of bytes of data, powerful supercomputers and more than 400 professional multidisciplinary staff. The building extension marks SDSC's 21st year and an era of expanded national leadership for the Center.
Published June 8, 2006
SDSC researcher Lynn Ten Eyck was recently awarded the Science Foundation of Ireland's Walton Visitor Award from University College in Dublin (UCD). Under the sponsorship of Jens Erik Nielsen from UCD's School of Biomolecular and Biomedical Science, Ten Eyck will establish a collaborative research project 'Modeling Protein Structural Variability'.
Published June 5, 2006
The European Bioinformatics Institute (EBI) will conduct a two day hands-on training at the San Diego Supercomputer Center <br/>at UCSD, June 15-16, 2006, covering the use of EMBL-EBI databases <br/>and tools. Courses and tutorials will be given on the effective use of protein, microarray and genomic databases and open source software, including Uniprot, InterPro, IntAct, <br/>PRIDE, Ensemble, ArrayExpress, BioMart and EMBOSS.
Published May 23, 2006
SDSC will host its 12th Annual Summer Institute "Taking Your Science to the Next Level: On the Path to Petascale Computing" July 17 - 21, 2006. The curriculum will focus on common limitations scientists face as extreme datasets push the high-performance computing ceiling towards petascale computing.
Published May 23, 2006
<p>On Friday, May 19, SDSC employees showed their support for alternate methods of transportation by participating in The League of American Bicyclists' National Bike to Work Day. Pictured from left to right are: Kevin Walsh, Wayne Schroeder, Dong Ju Choi, Yifeng Cui, Bob Sinkovits, Tim Kaiser, Leesa Brieger, and Tim McNew.</p>
Published May 19, 2006
The May issue of CTWatch quarterly has been issued by guest editors Fran Berman, Director of the San Diego Supercomputer Center and Thom Dunning, the Director of the National Center for Supercomputing Applications. The issue is entitled Designing and Supporting Science and Engineering-Driven Infrastructure and offers a behind the scenes look at what is required to develop and deploy successful cyberinfrastructure for compute, data, software and grids.
Published May 15, 2006
In a recently published paper in Geophysical Research Letters, earthquake researchers from the Southern California Earthquake Center (SCEC) Community Modeling Environment (CME) report on large-scale earthquake simulations known as TeraShake that produced important insights into how a massive earthquake can be expected to impact the region. The paper was written by Kim Olsen and Steve Day of San Diego State University (SDSU); Jean-Bernard Minster of the Institute of Geophysics and Planetary Physics (IGPP) at UC San Diego; Yifeng Cui, Amit Chourasia, Marcio Faerman, and Reagan Moore of the San Diego Supercomputer Center (SDSC) at UCSD; and Philip Maechling and Tom Jordan of the University of Southern California.
Published May 12, 2006
SDSC is now accepting applications to attend its 12th Annual Summer Institute. This year, the Summer Institute will focus on providing solutions for the common limitations faced by our high-end users. The week-long program includes lectures and hands-on laboratory sessions led by experts from SDSC's staff as well as from other institutions who will introduce researchers to technologies that can help them reach their goals faster and more efficiently.
Published May 10, 2006
We are pleased to announce that the Geoinformatics 2006 meeting will be webcast live, beginning at 8:30 a.m. (Eastern Time) on Thursday, May 11 and again on Friday, May 12. This webcast will include the keynote speakers and oral abstracts being presented during this two day meeting.
Published May 10, 2006
SDSC researchers who helped organize and manage missing persons data during Hurricane Katrina were honored with a special plaque by The American Red Cross San Diego/Imperial Counties Chapter.
Published May 2, 2006
Dr. paul gilna, an experienced genomics science program administrator has been recruited to direct a $24.5-million effort to develop an innovative cyberinfrastructure that will allow scientists to organize and analyze a vast amount of data on the genomes and community ecologies of ocean-dwelling microbes.
Published May 2, 2006
Internet2 today recognized the work done by the San Diego Supercomputer Center (SDSC) Storage Resource Broker team in collaboration with the National Archives and Records Administration (NARA) and the University of Maryland. The collaborators' work received the First Annual Internet2 Driving Exemplary Applications (IDEA) Award held at the 2006 Spring Member Meeting in Washington, DC. The award recognizes leading innovators who have created and deployed advanced network applications that have utilized advanced networking to enable transformational progress in research, teaching and learning, and promise to increase the impact of next-generation networks around the world.
Published April 26, 2006
This spring break, more than 20 San Diego-area students decided to forego the surf and sand to learn more about web site design and development at StudentTECH 2006 hosted by the San Diego Supercomputer Center (SDSC). The week-long program, held April 10-14, gave students step-by-step instruction on how to create a visually appealing and effective webpage or website for their teachers, for their sports team or for another education purpose.
Published April 21, 2006
Published April 18, 2006
<p>"When you need to get something done and there's no one else to turn to, who are you going to call -- Mary Hart." These were the words of praise for Mary Hart, Division Director of Administration and Operations at the San Diego Supercomputer Center (SDSC), as she received the 2006 Betsy Faught Award at the Chancellor's Complex on the University of California, San Diego (UCSD) campus. The Betsy Faught Award recognizes university individuals for outstanding achievement in the management of campus academic units.</p>
Published April 7, 2006
Scientists and engineers from the San Diego Supercomputer Center (SDSC) as well as students form the surrouding Universities and Junior colleges will attend the eleventh annual Maria Goeppert-Mayer Interdisciplinary Symposium (MGM) held April 7 and 8, 2006 on the University of San Diego campus. The event will feature keynote presentations from women in science and technology representing a variety of scientific fields including optical sciences, pharmaceuticals, chemistry and neuroendocrinology.
Published April 6, 2006
As of April 1, users requesting high-performance computing resources from the National Science Foundation have seamless access to all computational resources at the San Diego Supercomputer Center (SDSC) and the National Center for Supercomputing Applications (NCSA) within the TeraGrid environment. TeraGrid now provides the nation's scientists and engineers with access to NCSA's Tungsten, Radium and Copper systems (in addition to the previously available Mercury and Cobalt) and SDSC's DataStar and Blue Gene systems. Combined with systems in Texas, Indiana, Tennessee, and Pittsburgh, these additions bring the TeraGrid's total computational performance to a peak of 102 trillion calculations per second.
Published March 30, 2006
Using San Diego Supercomputer Center's (SDSC) high-performance computing tools, scientists from the Solar Physics Group at SAIC (Science Applications International Corporation) were able to model with improved accuracy the energy flow of an upcoming total solar eclipse. The simulation used photospheric magnetic field data collected weeks before the actual event to predict the state of the solar corona when the moon moves directly between the sun and the Earth on March 29, 2006.
Published March 29, 2006
Published March 23, 2006
Today, SDSC Director Fran Berman delivered the keynote addresses at "Your Connection to the World," the annual networking conference held by the Corporation for Education Network Initiatives in California (CENIC) at the Marriott Oakland City Center Hotel in Oakland, CA.
Published March 14, 2006
In geology and microscopy, Grid users are showing interest in a new GSI credential management and integration solution that "makes Grid security as easy to use as any commercial web site, while maintaining the security and delegation capabilities of GSI." This month, the GCJ caught up with Kurt Mueller, the lead developer behind the GAMA ( Grid Account Management Architecture ) project, and Abel Lin, the lead developer of the Telescience Portal, to learn more.
Published March 13, 2006
<p>National Science Foundation Director Dr. Arden Bement will be the conference keynote speaker and Dr. Kelvin Droegemeier will be an invited keynote speaker for the first annual TeraGrid Conference -- TeraGrid '06, Advancing Scientific Discovery -- to be held in Indianapolis, Ind., June 12-15, 2006.</p>
Published March 6, 2006
The San Diego Supercomputer Center (SDSC) will host the next Cyberinfrastructure Seminar Series on Tuesday, March 7 from 11 a.m. to 12:30 p.m. (Pacific Time). Nancy Wilkins-Diehr, SDSC director of consulting, training and documentation as well as TeraGrid area director for Science Gateways, will discuss "TeraGrid Science Gateways" and highlight work from four groups. Then presenters from each group will describe the science that the gateway enables using TeraGrid resources and will talk briefly about gateway design and TeraGrid integration.
Published February 28, 2006
The San Diego Supercomputer Center (SDSC) announced today that it will host regular video teleconferencing (VTC) sessions connecting San Diego military families with loved ones currently serving their country in Iraq. Utilizing existing satellite uplink technology and staffed by SDSC volunteers, the center will open its doors each Saturday to give families the opportunity to spend about 30 minutes virtually face-to-face with their loved ones.
Published February 23, 2006
A distinguished panel of national leaders, including San Diego Supercomputer Center (SDSC) director and Professor Fran Berman, discussed the expanding universe of digital collections at the Annual Meeting of the AAAS (American Association for the Advancement of Science) on February 19 in St. Louis, Missouri. Dr. Berman was joined by Dr. Anita Jones, Professor and former Director of the U.S. Office of Defense Research and Engineering, Dr. Ray Ohrbach, Director of the Office of Science at DOE, Dr. Warren Washington, Chair of the National Science Board, Dr. Bruce Schatz, Director of the Community Architectures for Network Information Systems Laboratory, Dr. Jeff Dozier, Professor and former Senior Scientist for NASA's Earth Observing System and Dr. Helen Berman, Director of the Protein Data Bank (PDB ).
Published February 20, 2006
Published February 13, 2006
<p>The San Diego Supercomputer Center's (SDSC) TeraShake 2 earthquake dataset, which was converted into a visualization to help the Southern California Earthquake Center (SCEC) show how parts of Southern California could shake like a bowl full of jelly if it was hit by a 7.0+ earthquake, will serve as the data template for IEEE's 2006 Visualization Design Contest. In addition, SDSC will be hosting the visualization design contest data.</p>
Published February 9, 2006
The National Science Foundation (NSF) has named distinguished computer scientist Dr. Daniel E. Atkins to head its newly created Office of Cyberinfrastructure (OCI).
Published February 8, 2006
Published February 2, 2006
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Published February 2, 2006
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Published February 2, 2006
Organizers of Geoinformatics 2006 announced today that they are now accepting registration and abstract submissions. The meeting, co-hosted by GEON (the Geosciences Network) and the USGS (the U.S. Geological Survey) as well as co-sponsored by the National Science Foundation (NSF), NASA (National Aeronautics and Space Administration), and the Geological Society of America. This meeting will be held May 11-12, 2006, at the USGS Headquarters located in Reston, Virginia, and is designed to encourage and stimulate the exchange of current research results that advance the broad goals of Geoinformatics.
Published January 23, 2006
no summary
Published January 17, 2006
<p>Starting in 2006, users requesting high-performance computing resources from the National Science Foundation will have seamless access to all computational resources at the San Diego Supercomputer Center (SDSC) and the National Center for Supercomputing Applications (NCSA) within the TeraGrid environment. TeraGrid will provide the national user community access to the Tungsten, Radium and Copper systems at NCSA and SDSC's DataStar and Blue Gene systems in addition to TeraGrid systems in Texas, Indiana, Tennessee and Pittsburgh. Access to the SDSC and NCSA systems will bring the TeraGrid's total computational performance to a peak of about 102 trillion calculations per second.</p>
Published January 6, 2006