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:11/4/2014)... – (Nov. 4, 2014) – A majority of Madagascar,s ... that could have serious consequences for the rainforests they ... shows the positive impacts lemurs can have on rainforest ... their disappearance could have on the region,s rich biodiversity. ... have fruits eaten by lemurs. Lemurs in turn ...
(Date:11/3/2014)... Colorado Cancer Center study published in this ... describes the activity of a recently discovered communication ... IL-37. It has been known to limit inflammation and ... immune system: IL-37 inhibits the ability of the immune ... this mechanism that underlies IL-37,s effect on the immune ...
(Date:11/2/2014)... In this month,s issue of Physics World , ... bridging the "valley of death" to take their innovations ... argues that the gruelling challenge facing all start-up companies ... harder for physicists because of two main factors: physics-based ... and they often turn out to be a lot ...
Breaking Biology News(10 mins):Gardeners of Madagascar rainforest at risk 2Gardeners of Madagascar rainforest at risk 3PNAS: From HIV to cancer, IL-37 regulates immune system 2The 'valley of death' facing physics start-ups 2
... A new species of monkey flower, created by the ... bank of a stream in Scotland. Genetic changes in this attractive ... a rare example of a brand new species that has originated ... species and some crops are thought to have originated in this ...
... Calif.) Despite the ever-louder drumbeat for sustainability and ... a collision course with "unprecedented levels of damage and ... assessment that includes UC Santa Barbara researchers among its ... Global Environmental Outlook report commonly known as GEO-5 ...
... occurring protein called TLR1 plays a critical role in ... pork or drinking contaminated water, according to new research ... discovery may help create more effective oral vaccines for ... has launched an examination of how TLR1 is linked ...
Cached Biology News:Rare glimpse into the origin of species 2UC Santa Barbara researchers play key role in UN Environmental Assessment 2UC Santa Barbara researchers play key role in UN Environmental Assessment 3TLR1 protein drives immune response to certain food-borne illness in mice 2
(Date:11/26/2014)... 25, 2014 Silicon Valley Electronic Data ... RPM Alliance , provider of clinical research and ... the latest addition to its CRO Partnership Program, Clinovo ... system to India. , “We have found Clinovo’s ... customizable EDC platform which is both user friendly and ...
(Date:11/26/2014)... SoundConnect , an award winning ... announce that Darren Suders has joined the team as ... drive the partner program through innovative offerings, ... , Darren brings more than 10-years of channel telecommunication ... channel operations, from policy development, to partner education and ...
(Date:11/26/2014)... novembre 2014 /PRNewswrie/ -- Theravalues Corporation annuncia con orgoglio ... in occasione di Hi Europe 2014 (dal 2 al ... Si tratta della curcumina con la maggiore biodisponibilità di ... e ingredienti approvati dalle norme europee. La ... pianta curcumina ( Curcuma longa ) che è stata ...
(Date:11/24/2014)... , Belgium , Nov. 24, 2014 ... sciences company focused on developing diagnostic tests for cancer and ... cancer study will be presented at the Science for Business ... Belgium . The data come from VolitionRx,s ... at the Pneumology department of the Centre Hospitalier Universitaire (CHU) ...
Breaking Biology Technology:RPM Alliance Joins Clinovo’s CRO Partnership Program, Further Strengthening Its Presence in Southern California and India 2SoundConnect Appoints Director of Channel Development & Sales 2La curcumina con la maggiore biodisponibilità di sempre farà il suo debutto in Europa 2La curcumina con la maggiore biodisponibilità di sempre farà il suo debutto in Europa 3VolitionRx to Present Positive Data from Pilot Lung Cancer Study at BioWin Day 2014 2VolitionRx to Present Positive Data from Pilot Lung Cancer Study at BioWin Day 2014 3VolitionRx to Present Positive Data from Pilot Lung Cancer Study at BioWin Day 2014 4VolitionRx to Present Positive Data from Pilot Lung Cancer Study at BioWin Day 2014 5VolitionRx to Present Positive Data from Pilot Lung Cancer Study at BioWin Day 2014 6
... millions of Americans whose vision is slowly ebbing due to degenerative ... riding to the rescue. , ,In a study in rats, neural ... to protect the vision of animals with degenerative eye disease similar ... appears in the journal Public Library of Science (PLoS) ...
... the launch of a new laptop-sized ultrasound system, ... in the compact ultrasound industry in 2006, according to ... Consultants . , ,Klein Biomedical, which tracks ultrasound market ... of the compact ultrasound market, with annual sales of ...
... Madison, Wis. - Gov. Jim Doyle has announced the allocation ... new ethanol plant in the Juneau County village of Necedah. , ... help Necedah construct a new well and water main that will ... will produce 50 million gallons of ethanol annually and employ between ...
Cached Biology Technology:Stem cell therapy shows visionary promise 2Stem cell therapy shows visionary promise 3GE Healthcare leads compact ultrasound market 2
... and temperature control for microbiology and cell ... and is suitable for DASGIP bioreactors from ... Its temperature ranges from approximately 10 °C ... equipped with an individual electrical heating element ...
... records analyzes and reports the data from any ... the a chart recorder. The final data is ... The end-point selection is automatic for Systolic, Mean, ... computed. The user is always in the position ...
... Custom DNA microarrays designed for your ... and powerful Paraflo microfluidic synthesis platform. Thousands ... on-chip and LC Sciences can provide assistance ... available as part of our comprehensive Custom ...
... aptamer screening and binding optimization and built ... on-chip synthesis platform. These microarrays are available ... Microarray Service. Probe Content ... greater than 1500 known aptamer sequences. Add ...
Biology Products: