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:2/2/2017)... YORK , Feb. 2, 2017  EyeLock LLC, ... released a new white paper " What You Should ... The problem of ensuring user authenticity is a growing ... the authentication of users. However, traditional authentication schemes such ... Biometric authentication offers an elegant solution ...
(Date:1/26/2017)... 26, 2017  Crossmatch, a leading provider of security ... aimed at combatting fraud, waste and abuse in assistance ... the Action on Disaster Relief conference in ... UN agencies and foreign assistance organizations throughout ... abuse are a largely unacknowledged problem in the foreign ...
(Date:1/23/2017)... , Jan. 23, 2017  The latest mobile ... smartphone prices have dropped dramatically. The quarterly average price ... 2013 to $276 in Q4 2016.  There are now ... price of $116, up from just 28 a year ... According to Maxine Most , Acuity Market ...
Breaking Biology News(10 mins):
(Date:2/24/2017)... , Feb. 24, 2017 Provectus ... or the "Company"), a clinical-stage oncology and dermatology ... the deadline to participate in its previously announced ... consisting of shares of common stock and Series ... holders of listed warrants. As ...
(Date:2/24/2017)... Island, NY (PRWEB) , ... February 24, 2017 , ... ... rate. Founded in late 2014, FireflySci had the goal of bringing their powerful ... that goal continues to shape the path that FireflySci is going on as they ...
(Date:2/23/2017)... SAN RAFAEL, Calif., Feb. 23, 2017 ... of U.S. dollars, except per share data, unaudited)Three Months ... ChangeTotal BioMarin Revenue $ ...     22832%$ 1,117$   89026%Aldurazyme Net Product Revenue ... 906538%34823946%Naglazyme Net Product Revenue  ...
(Date:2/23/2017)... Capitol Hill neighborhood, with its swanky shops, parks and cafés, might ... salon to set up shop. But there,s Hair Fairies ... on E Madison Ave, and CEO Maria Botham ... we pride ourselves on being a destination for parents and ... associated with lice. Everyone can get lice – it doesn,t ...
Breaking Biology Technology: