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:5/16/2017)... TEANECK, N.J. , May 16, 2017  Veratad ... leading provider of online age and identity verification solutions, ... the K(NO)W Identity Conference 2017, May 15 thru May ... Ronald Regan Building and International Trade Center. ... across the globe and in today,s quickly evolving digital ...
(Date:4/24/2017)... , April 24, 2017 ... and partner with  Identity Strategy Partners, LLP (IdSP) ... "With or without President Trump,s March 6, 2017 ... Terrorist Entry , refugee vetting can be instilled with ... resettlement. (Right now, all refugee applications are suspended ...
(Date:4/17/2017)... 17, 2017 NXT-ID, Inc. (NASDAQ: NXTD ... filing of its 2016 Annual Report on Form 10-K on Thursday ... ... available in the Investor Relations section of the Company,s website at ... website at http://www.sec.gov . 2016 Year Highlights: ...
Breaking Biology News(10 mins):
(Date:10/10/2017)... SANTA CRUZ, Calif. , Oct. 10, 2017 /PRNewswire/ ... SBIR grant from the NIH to develop RealSeq®-SC (Single ... preparation kit for profiling small RNAs (including microRNAs) from ... Cell Analysis Program highlights the need to accelerate development ... "New techniques for ...
(Date:10/9/2017)... ... ... The award-winning American Farmer television series will feature 3 Bar Biologics in an ... on RFD-TV. , With global population estimates nearing ten billion people by 2050, ... a growing nation. At the same time, many of our valuable resources are becoming ...
(Date:10/7/2017)... Phoenix, Arizona (PRWEB) , ... ... ... than 15 years’ experience providing advanced instruments and applications consulting for microscopy ... the in-house expertise in application consulting, Nanoscience Analytical offers a broad range ...
(Date:10/6/2017)... ... October 06, 2017 , ... On Tuesday, October 24th, ABC² ... the first-ever adaptive clinical trial for glioblastoma (GBM). The featured speaker will be ... and open to the public, but registration is required. , WHAT: ABC² ...
Breaking Biology Technology: