Navigation Links
New supercomputer to aid genomics research
Date:2/18/2013

The National Center for Supercomputing Applications (NCSA) has gifted the Institute for Genomic Biology (IGB) a highly parallel shared memory supercomputer named Ember. Originally funded by the NSF, Ember will be managed by the High-Performance Biological Computing (HPCBio) group.

"We've been using Ember for a while now through the NCSA, mainly in computational genomics," said Victor Jongeneel, Director of HPCBio. "It can perform a lot of tasks that our existing systems just can't. Having it under our own management will allow us better access and faster results."

The Ember computing system has become part of the IGB biocluster, adding 1536 cores and eight terabytes of memory spread across four nodes.

Ember was installed in the server room at the IGB after its October 1st decommission by the NCSA. It would cost two million to purchase today, and is only two years old. Ember will be available to anyone on campus for a service fee, which will be placed in a fund to replace the infrastructure as it becomes dated.

For ease of use, Ember runs a Linux operating system, and can be used in many applications including chemistry, fluid mechanics, and imaging. However, its most called for use at the IGB will likely be in genomics and transcriptomics research.

Currently, the Carver Biotechnology Center sequences DNA in short segments of around 250 base pairs. These thousands of segments, however, overlap and are distributed randomly, making it difficult to see the "big picture" of the genome. Ember's very large shared memory2 terabytes in a single systemwill enable the applications to run much more efficiently as they organize and connect these segments, and has already facilitated several projects.

"It will be a wonderful addition to our research community," said Jongeneel. "In the past, some projects like these were left incomplete, or spent thousands of dollars on computer time. This will enable larger projects that we've had trouble with in the past, and easier genome and transcriptome assemblies."


'/>"/>

Contact: Nicholas Vasi
nvasi@illinois.edu
Institute for Genomic Biology, University of Illinois at Urbana-Champaign
Source:Eurekalert

Related biology news :

1. New supercomputer coming to EMSL this summer, supplied by Atipa Technologies
2. 3-D motion of cold virus offers hope for improved drugs using Australias fastest supercomputer
3. Nurses at forefront of genomics in healthcare
4. The 2013 International Conference on Genomics in Europe will take place in Ghent, Belgium
5. Big genomics data, big scientific impact: New challenges for further development of life science
6. Bridging the gap between genomics and education
7. Ontario Genomics Institute invests in validation of a novel protein interaction technology at U of T
8. New genomics study shows ancestry could help solve disease riddles
9. Physiological Genomics journal announces a major restructuring
10. 2 pioneering plant genomics efforts given a funding boost by National Science Foundation
11. ShanghaiBio Corporation Partners with Ingenuity Systems to Address Challenges in Analysis and Interpretation of Genomics Data
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:4/26/2016)... 27, 2016 Research and ... Biometrics Market 2016-2020"  report to their offering.  , ... The analysts forecast the global multimodal biometrics ... during the period 2016-2020.  Multimodal biometrics ... such as the healthcare, BFSI, transportation, automotive, and ...
(Date:4/14/2016)... 14, 2016 BioCatch ™, ... today announced the appointment of Eyal Goldwerger ... Goldwerger,s leadership appointment comes at a time ... the deployment of its platform at several of the ... which discerns unique cognitive and physiological factors, is a ...
(Date:3/29/2016)... 29, 2016 LegacyXChange, Inc. (OTC: ... and SelectaDNA/CSI Protect are pleased to announce our successful ... a variety of writing instruments, ensuring athletes signatures against ... collectibles from athletes on LegacyXChange will be assured of ... DNA. Bill Bollander , CEO states, ...
Breaking Biology News(10 mins):
(Date:6/24/2016)... ... 2016 , ... Researchers at the Universita Politecnica delle Marche in Ancona combed ... pleural mesothelioma. Their findings are the subject of a new article on the Surviving ... signposts in the blood, lung fluid or tissue of mesothelioma patients that can help ...
(Date:6/23/2016)... CAMBRIDGE, Mass. , June 23, 2016 /PRNewswire/ ... the development of novel compounds designed to target ... compound, napabucasin, has been granted Orphan Drug Designation ... in the treatment of gastric cancer, including gastroesophageal ... cancer stemness inhibitor designed to inhibit cancer stemness ...
(Date:6/23/2016)... HOUSTON , June 23, 2016 ... agreement with the Cy-Fair Sports Association to serve ... of the agreement, Houston Methodist Willowbrook will provide ... education and connectivity with association coaches, volunteers, athletes ... partner with the Cy-Fair Sports Association and to ...
(Date:6/23/2016)...  The Biodesign Challenge (BDC), a university competition that ... living systems and biotechnology, announced its winning teams at ... New York City . The teams, ... at MoMA,s Celeste Bartos Theater during the daylong summit. ... curator of architecture and design, and Suzanne Lee ...
Breaking Biology Technology: