Navigation Links
New tool for genome-wide association studies
Date:2/25/2009

Modern genotyping technologies offer new opportunities to explore how genes influence health and disease, but also present the challenge of analyzing huge amounts of genetic and clinical data. With this in mind, investigators at the Lausanne Branch of the international Ludwig Institute for Cancer Research (LICR), the Swiss Institute of Bioinformatics (SIB) and the University Hospital of Lausanne have developed AssociationViewer, a computational tool that displays genetic differences between individuals on a large scale. Presented in the March 1st (Vol. 25/5) issue of Bioinformatics, the software is a public resource that will help scientists and physicians discover new genetic markers for diseases and other conditions.

Less than 0.5% of the human genome differs between individuals, but this small fraction holds clues that can reveal how each person will respond to a particular disease, therapy or environmental factor. In the past years, genome-wide association (GWA) studiescomprehensive surveys that look for differences in people's DNA codehave uncovered millions of small genetic variations known as single-nucleotide polymorphisms (SNPs). By sharing GWA data, scientists have gained insight into the genetic basis of many complex diseases including cancer and heart disease, and embarked on developing personalized therapeutics.

According to Dr. Nicolas Guex, a senior bioinformatician at the SIB, those who carry out GWA studies need simple ways to integrate datasets from different sources. They also rely on tools that help them visualize SNPs across the entire map of the genome. "AssociationViewer provides an elegant solution to efficiently mine the wealth of data to generate hypotheses," he says. Another user, Dr. Sam Deutsch at the U.S. Department of Energy Joint Genome Institute, USA, also considers the software to be a powerful tool for computational genetics. "Compared to other tools out there, AssociationViewer brings more flexible integration of external data sources and incorporates novel functionalities for comparing results across different studies." He adds that special features allow users to quickly zoom into relevant regions the genome. "Visualizing significant SNPs in their genomic context is very intuitive," he says.

Dr. Ioannis Xenarios, co-author of the article and Director of the Vital-IT group at the SIB, comments that data sharing remains a challenge for GWA studies, since many scientists still are reluctant to upload their unpublished data on public genome browsers. "AssociationViewer is a way to alleviate data transfer problems and allows people to perform their analyses by tapping into essential external resources. We hope that this tool will deliver new ways to mine complex genomic features."

"The software was developed on the principle that a picture is worth a thousand words," says the study's senior author, Dr. Brian Stevenson at the LICR Lausanne Branch. "It stems from a very successful collaboration between the LICR Computational Genomics Group, the SIB Vital-IT group and researchers who generate association data at the University Hospital of Lausanne, and should prove popular among clinicians, biologists and computer scientists."


'/>"/>

Contact: Sarah L. White, Ph.D.
swhite@licr.org
212-450-1543
Ludwig Institute for Cancer Research
Source:Eurekalert

Related biology news :

1. News from the February 2009 Journal of the American Dietetic Association
2. American Association for Cancer Research hosts Science of Cancer Health Disparities conference
3. American Association for Cancer Research hosts Science of Health Care Disparities Meeting
4. News from the January 2009 Journal of the American Dietetic Association
5. UT faculty members win American Heart Association awards for advancing research
6. 13 UCR faculty members recognized by American Association for the Advancement of Science
7. American Association for the Advancement of Science honors four Iowa Staters
8. American Library Association names NJIT prof’s Whale Music book a top ten
9. News from the December 2008 Journal of the American Dietetic Association
10. American Dietetic Association releases 2008 nutrition trends survey
11. News from the November 2008 Journal of the American Dietetic Association
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:4/26/2016)... DUBLIN , April 27, 2016 ... of the  "Global Multi-modal Biometrics Market 2016-2020"  report ... ) , The analysts forecast ... a CAGR of 15.49% during the period 2016-2020.  ... a number of sectors such as the healthcare, ...
(Date:4/14/2016)... , April 14, 2016 ... and Malware Detection, today announced the appointment of ... the new role. Goldwerger,s leadership appointment comes ... the heels of the deployment of its platform at ... behavioral biometric technology, which discerns unique cognitive and physiological ...
(Date:3/29/2016)... LegacyXChange, Inc. (OTC: LEGX ... Protect are pleased to announce our successful effort to ... of writing instruments, ensuring athletes signatures against counterfeiting and ... athletes on LegacyXChange will be assured of ongoing proof ... Bill Bollander , CEO states, "By inserting ...
Breaking Biology News(10 mins):
(Date:6/23/2016)... ... June 23, 2016 , ... In a new case report ... detail how a patient who developed lymphedema after being treated for breast cancer benefitted ... change the paradigm for dealing with this debilitating, frequent side effect of cancer treatment. ...
(Date:6/23/2016)... 2016 Andrew D ... http://doi.org/10.17925/OHR.2016.12.01.22 Published recently in ... from touchONCOLOGY, Andrew D Zelenetz , discusses ... care is placing an increasing burden on healthcare ... therapies. With the patents on many biologics expiring, ...
(Date:6/23/2016)... WI (PRWEB) , ... June 23, 2016 , ... ... focused on quality, regulatory and technical consulting, provides a free webinar ... presented on July 13, 2016 at 12pm CT at no charge. , Incomplete ...
(Date:6/23/2016)... India , June 23, 2016 ... media market research report to its pharmaceuticals section ... profiles, product details and much more. ... spread across 151 pages, profiling 15 companies and ... available at http://www.reportsnreports.com/reports/601420-global-cell-culture-media-industry-2016-market-research-report.html . ...
Breaking Biology Technology: