Navigation Links
Search tool for gene expression databases could uncover therapeutic targets, biological processes
Date:10/1/2013

PITTSBURGHA new computational tool developed by U.S. and Israeli scientists will help scientists exploit the massive databases of gene expression experimental results that have been created over the past decade. Researchers say it could uncover new links between diseases and treatments and provide new insights into biological processes.

The team, headed by Ziv Bar-Joseph of Carnegie Mellon University, reports in the October issue of the journal Nature Methods that the tool, called ExpressionBlast, enables searches based directly on experimental values, rather than keywords.

The researchers already have used ExpressionBlast to uncover intriguing clues about SIRT6, the first gene shown to extend lifespan in mice and thus a potentially important drug target. By mining experimental data stored in a public repository called the Gene Expression Omnibus (GEO) maintained by the National Center for Biotechnology Information, they found that SIRT6 may be involved with functions that include immune response, metabolism and the regulation of gender-specific genes.

"Because so little is known about SIRT6, it would be difficult to search the hundreds of thousands of GEO datasets using keywords and, without other guidance, it would be practically impossible to find other experiments with gene expression patterns similar to SIRT6," said Bar-Joseph, an associate professor of computational biology and machine learning. "ExpressionBlast enabled us to take SIRT6 gene expression data from just two mouse experiments and find other experimental data in GEO with similar expression patterns."

The tool is available online, http://www.expression.cs.cmu.edu/. The search engine enables researchers to search for expression patterns that are similar or opposite to their own results and can search within and across species. Guy Zinman, Shoshana Naiman, Yariv Kanfi and Haim Cohen of Bar-Ilan Universi
'/>"/>

Contact: Byron Spice
bspice@cs.cmu.edu
412-268-9068
Carnegie Mellon University
Source:Eurekalert

Page: 1 2

Related biology news :

1. Rensselaer researchers propose new theory to explain seeds of life in asteroids
2. Parkinsons Surgery Research wins NSF Grant
3. UT Dallas researchers find early success in new treatment for stroke recovery
4. LSUHSCS OCHOA 1 of 10 chosen by NIH director for Transformative Research Award
5. Biomedical Advanced Research and Development Authority (BARDA) Exercises Option with Pfenex Inc. To Extend Contract and Increase Funding for the Development of a Recombinant Protective Antigen (rPA) Based Anthrax Vaccine
6. University of Utah researchers receive NIH Directors New Innovator Award
7. $1.5 million NCI Grant to aid Huntsman Cancer Institute researcher study melanoma, sun damage link
8. UC Davis researchers discover a biological link between diabetes and heart disease
9. Research shows how aspirin may act on blood platelets to improve survival in colon cancer patients
10. Latest research suggests moderate coffee consumption is not associated with increased CVD risk
11. U.Va. researcher: Methane out, carbon dioxide in?
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:9/30/2014)... What do seedless watermelon, salmon, and strawberries all have ... have two sets of chromosomes and are diploid, these ... more sets of chromosomesseedless watermelon and salmon have 3 ... 10! While this might seem surprising, in fact ... was first discovered over a century ago, but only ...
(Date:9/30/2014)... (PCE) in drinking water may increase the risk ... new study led by a Boston University School ... in the journal Environmental Health , compared ... 1,766 women in Cape Cod, Ma., where water ... early 1980s by the installation of vinyl-lined asbestos ...
(Date:9/30/2014)... to using marijuana, new research, involving mice and published ... Journal of Leukocyte Biology , suggests that just ... should. That,s because a team of Italian scientists have ... long-term damage to the immune system. This damage may ... as multiple sclerosis, inflammatory bowel disease and rheumatoid arthritis ...
Breaking Biology News(10 mins):Gene doubling shapes the world: Instant speciation, biodiversity, and the root of our existence 2Gene doubling shapes the world: Instant speciation, biodiversity, and the root of our existence 3Gene doubling shapes the world: Instant speciation, biodiversity, and the root of our existence 4Contaminated water linked to pregnancy complications, BU study finds 2Adolescent exposure to thc may cause immune systems to go up in smoke 2
... 6, 2007) - The American Society of Plant Biologists (ASPB) ... awards were presented at the societys annual meeting that was ... as the American Fern Society and the American Society of ... a list of the 2007 award winners in 10 different ...
... each cell, a little engine called RNA polymerase II does ... nucleus that get carried to production units in the rest ... at the University of Michigan Medical School have shown that ... damage. When certain types of damage in DNA halt the ...
... Moray eels have a unique way of feeding reminiscent of ... After seizing prey in its jaws, a second set of ... mouth, grabs the food and carries it back to the ... for feeding behavior for fishes in general," said Rita Mehta, ...
Cached Biology News:The American Society of Plant Biologists announces 2007 awards 2The American Society of Plant Biologists announces 2007 awards 3The American Society of Plant Biologists announces 2007 awards 4The American Society of Plant Biologists announces 2007 awards 5Enzyme alerts cell's powerful army to repair DNA damage 2Enzyme alerts cell's powerful army to repair DNA damage 3'Alien' jaws help moray eels feed 2
(Date:9/30/2014)... German . , The ... a semiconductor layer. Quantum dots are small structures that spontaneously ... short laser pulse is fired at the photonic crystal, its ... change in the electromagnetic field around it. This change can ... the dot. As soon as the refractive index recovers its ...
(Date:9/30/2014)... Sept. 30, 2014 Pacific Northwest Biotechnology, ... Summary Global Markets Direct,s, ,Pacific Northwest Biotechnology, ... an overview of the Pacific Northwest Biotechnology, LLC,s ... provides comprehensive information on the current therapeutic developmental ... comparative analysis at various stages, therapeutics assessment by ...
(Date:9/30/2014)... (PRWEB) September 30, 2014 Over the ... primarily due to rising R&D budgets and increased acceptance ... fast growing pharmaceutical and biotechnology industries are also catalyzing ... laboratory filtration market is expected to grow at a ... is estimated to be worth $2,532.6 million by 2019. ...
(Date:9/30/2014)... 30, 2014 CORD:USE Cord Blood Bank – ... it has entered into an Equity and Exclusive Services ... licensed a series of patented technologies for the isolation of ... applications.  Tianhe is performing Phase I/II clinical trials in ... using Tianhe,s Stem Cell Educator Therapy showing ...
Breaking Biology Technology:Ultrafast remote switching of light emission 2Pacific Northwest Biotechnology, LLC - Product Pipeline Review - 2014 2Pacific Northwest Biotechnology, LLC - Product Pipeline Review - 2014 3Global Laboratory Filtration Market To See 7.0% CAGR to 2019 Says a Research Report Available at ReportsnReports.com 2Global Laboratory Filtration Market To See 7.0% CAGR to 2019 Says a Research Report Available at ReportsnReports.com 3Global Laboratory Filtration Market To See 7.0% CAGR to 2019 Says a Research Report Available at ReportsnReports.com 4Global Laboratory Filtration Market To See 7.0% CAGR to 2019 Says a Research Report Available at ReportsnReports.com 5CORD:USE is Pleased to Announce it has Partnered with Tianhe Stem Cell Biotechnologies, Developer of Cord Blood Stem Cell Therapy Showing Promising Results in Clinical Trials for the Treatment of Diabetes and Autoimmune Diseases 2CORD:USE is Pleased to Announce it has Partnered with Tianhe Stem Cell Biotechnologies, Developer of Cord Blood Stem Cell Therapy Showing Promising Results in Clinical Trials for the Treatment of Diabetes and Autoimmune Diseases 3CORD:USE is Pleased to Announce it has Partnered with Tianhe Stem Cell Biotechnologies, Developer of Cord Blood Stem Cell Therapy Showing Promising Results in Clinical Trials for the Treatment of Diabetes and Autoimmune Diseases 4
... online today in Genome Research ( www.genome.org ... the genes and pathways associated with aging. This ... simple model organisms that may lead to the characterization ... and age-associated diseases. , While nearly all organisms experience ...
... to the electronics industrys rallying cry of smaller and ... are likely to come from microchips and data storage ... molecules and polymers. With innovative measurement techniques and new ... the March Meeting of the American Physical Society how ...
... GPRO ) announced today that the Company will present ... Miami Beach on March,18, 2008 at approximately 3:15 p.m. ... Healthcare Conference in Boston on March 19, 2008 at,approximately ... webcast live and may be accessed through a link ...
Cached Biology Technology:Growing old together: Yeast, worms and people may age by similar mechanisms 2Copolymers block out new approaches to microelectronics at NIST 2Gen-Probe to Webcast Presentations at Lehman and Cowen Healthcare Conferences 2
...
... With increasing age, the autofluorescent pigment ... many cell types, including neurons. The ... the use of fluorescence microscopy in ... its broad excitation and emission spectra, ...
Purified anti-LAT...
Polyclonal Antibody to AHI1 / Jouberin...
Biology Products: