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InTheLoop | 09.03.2013

September 3, 2013

CS Communications to Support DOE’s “Supercomputing September” Campaign

The Department of Energy’s Public Affairs Office is rolling out a campaign to raise the visibility of the national laboratories by focusing on a specific theme each month. The campaign aims to inform lay audiences about the work done at the labs and how that work benefits the nation. The theme for September is supercomputing and the Computing Sciences Communications Group will support the effort in the following ways

Each Monday (but not Labor Day), we will post a feature about how supercomputing is advancing science that is central (yet probably not apparent) to our lives—the return on DOE's investment in HPC. Topics include better batteries, cleaner combustion, better understanding of climate change and future energy sources.

On many social media sites, Thursdays are “Throwback Thursday” and feature blasts from the past. We have four cool images from NERSC's 39-year history and will post one a week with brief captions.

Each Friday we will post “Five Questions” with Berkeley Lab experts on computational science, supercomputing, high-performance networking and applied math.

Items will be posted on the NERSC and CS websites, but staff can also follow all of this on the NERSC social media channels:

Computing Sciences



Katie Antypas Named New Head of NERSC User Services Department

Katie Antypas, who has led NERSC’s User Services Group since October 2010, has been named as the new User Services Department Head, effective September 23. Antypas succeeds Francesca Verdier, who will serve as Allocations Manager until her planned retirement in June 2014. Antypas is also the project lead for the NERSC-8 system procurement, a project to deploy NERSC's next generation system in the 2015 timeframe.

“Katie’s leadership in ensuring that NERSC users are able to maximize their use of both our current and future systems has positioned her well to help lead NERSC users and staff into the next era of extreme scale computing,” said NERSC Division Director Sudip Dosanjh. »Read more.

Sang-Yun Oh is First Simons Institute Fellow at LBNL: He'll Work with Future Technologies

As the first Simons Institute Research Fellow (Theoretical Foundations of Big Data Analysis) at Berkeley Lab, Sang-Yun Oh will be working with the Computational Research Division’s Future Technologies Group to develop large-scale data analysis methodologies and algorithms. His research interests include graphical models estimation and correlation structure recovery for high dimensional data, as well as applying these methods for analyzing real datasets from biology, finance and other scientific disciplines.

Born in Korea and raised in Southern California, Oh came to the Bay Area in the late 1990s to attend UC Berkeley, where he earned a degree in physics. He then worked more than three years as a scientific engineer in the Berkeley Lab’s Life Sciences Division before joining the world of Internet advertising. Eventually, he went back to school and earned a doctorate in computational and mathematical engineering at Stanford University. »Read the story.

Video of ESnet, Globus Online Webinar on Managing Scientific Data Now Available

Researchers who missed the Aug. 22 webinar on managing scientific data can now watch a video of the event, which was sponsored by ESnet and Globus Online. The session covered tools for cutting-edge data transfer and best practices for managing data, and included presentations by two scientists who have used these technologies to accelerate their science workflow and discovery. Globus Online is used by both ESnet and NERSC and provides easy-to-use services and tools for research data management.

»View video recording of the webinar or an audio version and slides.

OpenMSI: A Science Gateway to Sort through Bioimaging’s Big Datasets

Using cutting-edge mass spectrometry imaging (MSI) technology, scientists can study tissues, cell cultures and bacterial colonies in unprecedented detail at the molecular level. This information is already helping doctors better diagnose diseases, pharmaceutical researchers develop more effective drugs, and leading to the creation of energy efficient and renewable biofuels. 

Despite the advances, researchers envision these areas of science progressing much faster—if only they had a standard set of computational tools to easily process, analyze and share these massive datasets. Now, they do—it’s called OpenMSI.

“We’ve incorporated advanced computational tools into OpenMSI, which allow scientists to easily visualize, analyze, manage and share MSI data with other researchers, all over the world via the web,” says Oliver Ruebel, a computational scientist at Lawrence Berkeley National Laboratory.

This work is part of a larger effort at Berkeley Lab to extend advanced computational techniques to science areas (and scientists) that haven’t benefited from them in the past. OpenMSI was born from the Lab's Integrated Bioimaging Initiative, and is an interdisciplinary collaboration between biologists and computational researchers at Berkeley Lab and the National Energy Research Scientific Computing Center (NERSC). »Read more.