Navigation Links
Cells use mix-and-match approach to tailor regulation of genes

Scientists eager to help develop a new generation of pharmaceuticals are studying cellular proteins called transcription factors, which bind to upstream sequences of genes to turn the expression of those genes on or off. Some pharmaceutical companies are also hoping to develop drugs that selectively block the binding of transcription factors as a way to short-circuit the harmful effects of diseases, and researchers at the University of California, San Diego on June 16 reported new findings that could aid that effort.

Bioengineering researchers at UCSD and two research institutes in Germany report in the June 16 issue of PLoS Computational Biology that transcription factors act not only in isolation, but also in pairs, trios, and combinations of up to 13 to regulate distinct sets of genes. The researchers, led by UCSD bioengineering professor Trey Ideker, reported a list with 363 combinations of 91 central transcription factors that regulate a large proportion of genes in the yeast genome. The team used rigorous statistical tests to discover active combinations of transcription factors, as if the cells were mixing and matching parts of its regulatory-protein wardrobe to respond to different environmental conditions. The researchers expect that human cells use a similar system of transcription-factor combinations, but on a larger scale.

"A cell's surprising ability to mix and match so many different combinations of these factors to achieve a high degree of complexity and specificity in the expression of its genes is impossible for even the most experienced cell biologists to conceptualize," said Andreas Beyer, a post-doctoral fellow at the UCSD Jacobs School of Engineering's Department of Bioengineering. "That's why we have computers."

The researchers combined the results of their laboratory with other large-scale measurements of transcription factor-gene binding, such as those reported earlier by MIT biology professor Richard A. Young and his collaborators.

Ideker's team was able to identify new transcription factor binding patterns by borrowing a concept from computer science. The team considered the binding of one transcription factor to one gene as analogous to one "hop" of a data packet from one Internet router to another.

In the case of gene regulation, Ideker's team identified "2hop" relationships by first focusing on single transcription factor-gene associations, plus other experimental evidence that indicates that that gene regulates a second gene.

To enlarge the scope of the model further, Ideker's group also incorporated other previously discovered transcription-factor interactions and related genetic results. They relied on a total of eight types of direct and indirect evidence to create a model. That model predicts 980 as-yet-undiscovered transcription factor-gene binding interactions.

"This 'systems biology' approach, using so many different lines of evidence, has given us a much more revealing and detailed picture of how cells orchestrate gene regulation to cope with different environments," said Ideker. "We're far from understanding the full picture of gene regulation in a cell, but this new information should give scientists who are interested in blocking transcription factors a powerful new tool to narrow their search to the most promising candidates."


'"/>

Source:University of California - San Diego


Related biology news :

1. Jump-starting T Cells In Skin Cancer
2. Emory Study Tests Bone Marrow Stem Cells to Improve Circulation in Legs
3. Transplantation Of Monkey Embryonic Stem Cells Reverses Parkinson Disease In Primates
4. Fundamental Finding Yields Insight into Stem Cells, Cancer; Opens Door to Drug Discovery
5. Weill Cornell Research Reveals Secrets Of Trafficking Within Cells
6. First-ever Compounds To Target Only Metastatic Cells Are Highly Effective Against Breast, Prostate, And Colon Cancers
7. Placenta Is A Rich Source Of Blood Stem Cells
8. UCSD Discovery Shows How Embryonic Stem Cells Perform Quality Control Inspections
9. Estrogen-like Component of Plastic Stimulates Growth of Certain Prostate Cancer Cells
10. Protein That Promotes Survival Of Stem Cells Might Be Key To Poor Leukemia Prognosis
11. Infants With Rare Genetic Disease Saved by Cord Blood Stem Cells
Post Your Comments:
*Name:
*Comment:
*Email:


(Date:4/14/2016)... 14, 2016 BioCatch ™, ... today announced the appointment of Eyal Goldwerger ... Goldwerger,s leadership appointment comes at a time ... the deployment of its platform at several of the ... which discerns unique cognitive and physiological factors, is a ...
(Date:3/31/2016)... 2016  Genomics firm Nabsys has completed a financial ... Bready , M.D., who returned to the company in ... leadership team, including Chief Technology Officer, John Oliver ... Nurnberg and Vice President of Software and Informatics, ... Dr. Bready served as CEO of Nabsys from ...
(Date:3/22/2016)... 2016 According to ... for Consumer Industry by Type (Image, Motion, Pressure, ... & IT, Entertainment, Home Appliances, & Wearable ... 2022", published by MarketsandMarkets, the market for ... USD 26.76 Billion by 2022, at a ...
Breaking Biology News(10 mins):
(Date:6/27/2016)... 27, 2016  Liquid Biotech USA ... of a Sponsored Research Agreement with The University ... (CTCs) from cancer patients.  The funding will be ... correlate with clinical outcomes in cancer patients undergoing ... then be employed to support the design of ...
(Date:6/24/2016)... (PRWEB) , ... June 24, 2016 , ... While the ... such as the Cary 5000 and the 6000i models are higher end machines that ... the height of the spectrophotometer’s light beam from the bottom of the cuvette holder. ...
(Date:6/23/2016)... , June 23, 2016   Boston Biomedical ... novel compounds designed to target cancer stemness pathways, ... been granted Orphan Drug Designation from the U.S. ... of gastric cancer, including gastroesophageal junction (GEJ) cancer. ... designed to inhibit cancer stemness pathways by targeting ...
(Date:6/23/2016)... ... June 23, 2016 , ... ... and Mold) microbial test has received AOAC Research Institute approval 061601. , “This ... introduced last year,” stated Bob Salter, Vice President of Regulatory and Industrial Affairs. ...
Breaking Biology Technology: