Navigation Links
New Stanford tool enables wider analyses of genome 'deep sequencing'
Date:5/2/2010

nter a list of all the binding sites they've found throughout the genome for their transcription factor of interest. No prescreening is necessary, and the list can be hundreds or thousands of items long. Some will be biologically meaningful, and some will be experimental flukes. The software program will then provide an analysis revealing not only which genes that transcription factor is likely to moderate, both near and far, but also in which developmental or molecular pathways it is likely to function.

"The analysis gets pushed back into the hands of the person who did the experiment," said Bejerano. "Now you will start to see the kinds of results that we had expected with this much data." He and his collaborators found that test runs with well-known transcription factors verified the factors' association with the expression of particular genes, but also identified new, previously unsuspected alliances between binding sites and genes separated on the DNA by up to 1 million nucleotides.

"We've been asking the right questions, but using the wrong interpretation tools to answer them," said Bejerano. "We don't expect that this tool will help three labs. We expect that it will help 3,000 labs. GREAT can look at thousands of binding sites and tell you things that your transcription factor is doing that have never been reported before."


'/>"/>

Contact: Krista Conger
kristac@stanford.edu
650-725-5371
Stanford University Medical Center
Source:Eurekalert

Page: 1 2 3

Related biology news :

1. Americans remain pessimistic about the environment, Stanford-AP survey finds
2. Stanford/Packard researchers find disease genes hidden in discarded data
3. Stanford researchers say climate change will significantly increase impending bird extinctions
4. Stanfords nanowire battery holds 10 times the charge of existing ones
5. Stanford researchers publish review of US medical device regulation
6. Stanford researchers make first direct observation of 3-D molecule folding in real time
7. Stanford researchers say living corals thousands of years old hold clues to past climate changes
8. Group led by Stanford physicist says theres an urgent need for nuclear detectives
9. Stanford researchers developing 3-D camera with 12,616 lenses
10. Clues to ancestral origin of placenta emerge in Stanford study
11. Inflammation triggers cell fusions that could protect neurons, Stanford research shows
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:9/19/2014)... species which over thousands of years has adapted to the ... that makes the cold dangerous for you. , This is ... and the cold provoking substance, called nonylphenol, comes from the ... suspected of being a endocrine disruptor, but when entering the ... ability to protect the cells in its body from cold ...
(Date:9/18/2014)... State University researchers have developed a unique method to ... cleanup in rural areas. , The first microbe-powered, ... and quick way to clean up waste from large ... pollution. , Professor Haluk Beyenal and graduate student ... Architecture discuss the system in the online edition of ...
(Date:9/18/2014)... USA Miranda, a small, icy moon of Uranus, ... bodies in the solar system. Despite its relatively small ... intense resurfacing that resulted in the formation of at ... regions called coronae. , These coronae are visible ... least 200 km across. Arden corona, the largest, has ...
Breaking Biology News(10 mins):Environmental pollutants make worms susceptible to cold 2Environmental pollutants make worms susceptible to cold 3Researchers develop unique waste cleanup for rural areas 2Miranda: An icy moon deformed by tidal heating 2Miranda: An icy moon deformed by tidal heating 3Miranda: An icy moon deformed by tidal heating 4Miranda: An icy moon deformed by tidal heating 5Miranda: An icy moon deformed by tidal heating 6Miranda: An icy moon deformed by tidal heating 7
... gadgetry to monitor the ever-evolving landscape of our planet and ... a new knowledge exchange network being led by The University ... Dr Paul Aplin in the University,s School of Geography, is ... Research Council (NERC). It will focus on technology that ...
... October 2010 Elsevier congratulates Cambridge scientist and Editor ... G. Edwards, who has been awarded with the 2010 ... fertilisation (IVF), a breakthrough that has helped millions of ... started working on IVF, a procedure in which egg ...
... Washington, D.C. (October 5, 2010) -- Carbon nanotubes -- ... in diameter -- have many potential uses in nanotechnology, ... of nanotubes depend on their structure, and scientists as ... determined during the initial formation -- or growth -- ...
Cached Biology News:Keeping a watch on the world 2Keeping a watch on the world 3Nobel Prize for Professor Robert G. Edwards, Editor Emeritus of Reproductive BioMedicine Online 2The effects of hydrogen on growing carbon nanotubes 2
(Date:9/22/2014)... Follow us on LinkedIn ... has groomed and nurtured anti-aging products and technologies ... on appearance maintenance is benefitting the market for ... obtained from the bacterium, Clostridium Botulinum, which arrests ... With cosmetic indications for botulinum toxin ranging from ...
(Date:9/22/2014)... (Nasdaq: NEOG ) announced today that net ... year, which ended Aug. 31, was $8,883,000 — a ... the first quarter of last year. Adjusted for a ... share in the current quarter were $0.24, compared to ... increased 15% to $67,599,000, from the previous year,s first ...
(Date:9/22/2014)... Olso, Norway (PRWEB) September 22, 2014 ... convenient new parcel and pallet measuring device ... ScanTape™ eliminates manual data entry, offering greater ease ... time savings that result can significantly enhance productivity—an ... in industries where processing volume equals profits. ...
(Date:9/21/2014)... For the first time, scientists have discovered how to ... strength and stiffness greater than that of today,s strongest ... a research team led by John V. Badding, a ... published in the 21 September 2014 issue of the ... point of view, our discovery is intriguing because the ...
Breaking Biology Technology:Strong Demand for Non-Invasive Cosmetic Procedures Drives the Global Botulinum Toxin Market, According to New Report by Global Industry Analysts, Inc. 2Strong Demand for Non-Invasive Cosmetic Procedures Drives the Global Botulinum Toxin Market, According to New Report by Global Industry Analysts, Inc. 3Neogen reports 13% net income increase 2Neogen reports 13% net income increase 3Neogen reports 13% net income increase 4Neogen reports 13% net income increase 5Neogen reports 13% net income increase 6Neogen reports 13% net income increase 7ScanTape™ Handheld Dimensioner Increases Processing Volume 2Smallest possible diamonds form ultra-thin nanothreads 2Smallest possible diamonds form ultra-thin nanothreads 3Smallest possible diamonds form ultra-thin nanothreads 4
... (NYSE: BRL ) today announced that the U.S. ... in favor of its subsidiary, Barr,Laboratories, Inc., in the ... in connection with Bayer Schering,s Yasmin(R) (drospirenone and,ethinyl estradiol) ... that the patent at issue was invalid, because it ...
... VRML ) (the "Company"), a high-value molecular diagnostics ... filed its Third,Amended and Restated Certificate of Incorporation, which ... common stock. The reverse,stock split will be effective with ... today, March 3, 2008., The common stock will ...
... Human Genome,Sciences, Inc. (Nasdaq: HGSI ) ... the Susquehanna Financial Group Second Annual SIGnificant,Investment Options ... be,accessed at http://www.hgsi.com ., (Logo: ... Human Genome Sciences, clinical management team will,participate in ...
Cached Biology Technology:Barr Announces Favorable Ruling in Yasmin(R) Patent Challenge 2Barr Announces Favorable Ruling in Yasmin(R) Patent Challenge 3Barr Announces Favorable Ruling in Yasmin(R) Patent Challenge 4Vermillion Announces Effectiveness of Reverse Stock Split 2
Rat Cardiac Fibroblasts (RCF) (>500,000 cells)...
... Buffer is a concentrated formulation of a ... capillary action technology, as well as for ... with David Brigati M.D., Department of Pathology, ... buffer is recommended for all the rinsing ...
...
... for users requiring mass detection but ... MALDI TOF Mass spectrometer is ideally ... and for high performance mass analysis. ... SNP analysis, protein detection, micro-satellite DNA ...
Biology Products: