Navigation Links
New method provides panoramic view of protein-RNA interactions in living cells
Date:11/2/2008

ddress the issue, Darnell and his team used a trick from test-tube biochemistry that molecularly cements these regulatory proteins to RNA at the moment they touch. The technique, when applied to high throughput sequencing, is called high throughput sequencing-cross linking immunoprecipitation, or HITS-CLIP for short.

Since the RNA and RNA-binding protein are fused together, the researchers can really beat up the extract and rigorously purify the protein without fear of losing the RNA. At the end of the day, they are left with the RNA sequence to which the protein was bound. They can then take these sequences to Rockefeller's high throughput sequence facility, and with the help of Research Support Specialist Scott Dewell, overlay them onto the genome and see where they match. What they get is a map of every position on every transcribed RNA where the RNA binding protein is binding.

When DNA is transcribed into RNA, the primary transcript is divided into many blocks called exons, which are separated by empty spaces. In order to convert the transcript into some sort of message, all the spaces need to be removed; but if an exon is dropped, a different version of that protein, which could carry a very different message, is created. "That's RNA splicing," says first author Donny Licatalosi, a postdoctoral associate in the lab. "It is what gives rise to this massive pool of diverse and complex tissues with a relatively small number of genes."

In the past, the group used a sophisticated process of evidence and inference to make predictions of the points of regulation along the transcript. "Now, we have direct biochemical validation that these interactions occur in the brain to regulate splicing," says Licatalosi.

And as it turns out, "The observed map -- and this was amazing -- looked just like our predicted map," says Darnell.

Darnell, Licatalosi and their colleagues Aldo Mele, a research assistant, John Fak, a research assist
'/>"/>

Contact: Thania Benios
tbenios@rockefeller.edu
212-327-7146
Rockefeller University
Source:Eurekalert

Page: 1 2 3

Related biology news :

1. Iowa State researcher develops new treatment method for canine eye diseases
2. Fingerprinting method tracks mercury emissions from coal
3. Deep biosphere research points to new methods for recovering petroleum
4. New lab manual focuses on essential methods for purifying and characterizing proteins
5. UC Riverside biochemists devise method for bypassing aluminum toxicity effects in plants
6. Commercial aquatic plants offer cost-effective method for treating wastewater
7. Radioactivity: Discover the lowest amounts with new methods
8. New method identifies meth hot spots
9. Scientists develop new method to investigate origin of life
10. Biophysical method may help to recover hearing
11. LSUHSC research reports new method to protect brain cells from diseases like Alzheimers
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:9/30/2014)... each year, but its deep-blue waters host the ... alien species, including fish, crustaceans, and algae are ... In the open-access journal Frontiers in Marine ... data from a new information system developed by ... of alien species has changed the native biodiversity ...
(Date:9/30/2014)... comprehensive assessment conducted by the Ocean Health Index ... 100 in overall health. In addition, for the ... the 15 ocean regions beyond national jurisdiction (high-seas ... healthy climate, safeguarding biodiversity and providing sustainable food ... the index, a partnership led by scientists from ...
(Date:9/30/2014)... a Salk professor and Howard Hughes Medical Institute ... been named recipients in the 2014 round of ... through the BRAIN (Brain Research through Advancing Innovative ... grant, announced September 30, provides more than $3 ... three years. , The BRAIN Initiative, launched last ...
Breaking Biology News(10 mins):Biodiversity in the Mediterranean is threatened by alien species 2Rating the planet's oceans 2Rating the planet's oceans 3Salk scientists receive $3 million for BRAIN Initiative grant 2
... 2012 A paper to be published on January 3, ... by NHM entomologist Dr. Brian Brown, reveals a new threat ... bees, well-publicized Colony Collapse Disorder (CCD), a syndrome characterized by ... but dangerous phorid fly, which may pose an emerging threat ...
... Unique E. coli Protein May Be Not After ... unique mechanism for utilizing iron may not be after all. ... Genomes, the University of Oklahoma and the University of Utah School ... online journal mBio . The ability to acquire iron ...
... Hydrogen sulfide, a gas notorious for its rotten-egg smell, may ... of scarring proteins in kidney cells, researchers from The University ... Journal of Biological Chemistry. The paper is scheduled ... manufacture of scarring proteins , "There is interest in ...
Cached Biology News:NHM entomologist co-authors new research on parasitic phorid fly, a new threat to honey bees 2News tips from the journal mBio 2News tips from the journal mBio 3Hydrogen sulfide reduces glucose-induced injury in kidney cells 2
(Date:10/1/2014)... 2014 The U.S. Department of Labor ... University Edwardsville as part of the Trade Adjustment Assistance ... is co-administered by the Department of Labor and Department ... Labor Thomas E. Perez and Secretary of Education Arne ... training grants to nearly 270 colleges across the country. ...
(Date:10/1/2014)... , October 1, 2014 ... to software invited to engage around the theme, ,Commercial ...     Elsevier , ... products and services, will host a gathering of some ... issues and trends impacting healthcare today and in the ...
(Date:9/30/2014)... Applying a well-known optical phenomenon called thin-film ... has demonstrated the ability to "paint" ultra-thin coatings ... promise for making future, flexible electronic devices, creating ... next-gen rocket ships and spacecraft with extremely lightweight ... in water, it becomes iridescent, revealing a myriad ...
(Date:9/30/2014)... Mass. Using a bio-mimicking analog of one ... grass, an international research team led by Alejandro ... taken a major step in developing long-sought polymer ... electricity for use in electronic devices. , ... Amherst and others at Stanford University and Dresden ...
Breaking Biology Technology:U.S. Dept. of Labor Awards SIUE Nearly $10-Million Grant 2U.S. Dept. of Labor Awards SIUE Nearly $10-Million Grant 3U.S. Dept. of Labor Awards SIUE Nearly $10-Million Grant 4Elsevier Healthcare and Pharmaceutical Economics Conference 2014 To Convene Industry Leaders to Discuss Top Healthcare Business Issues 2Elsevier Healthcare and Pharmaceutical Economics Conference 2014 To Convene Industry Leaders to Discuss Top Healthcare Business Issues 3Taking thin films to the extreme 2Blades of grass inspire advance in organic solar cells 2Blades of grass inspire advance in organic solar cells 3
... plans to give $120,000 worth of server support a ... run by former Wisconsin governor Scott McCallum. , ,McCallum ... release that the support would help Aidmatrix deal with ... responding to, including the series of hurricanes that hit ...
... five states with headquarters in Madison, said it has agreed ... Minnesota. , ,In exchange for acquiring most of the customers ... hand over Fargo and Grand Forks in North Dakota, and ... federal and state approval, the deal is expected to close ...
... was ranked 51st in the nation, 80th in the ... the London Financial Times this week. It didn't make ... on alumni careers and salary, diversity, and research capabilities. ... and a survey of students enrolled between 2000 and ...
Cached Biology Technology:
... cDNA Library Panels were designed for full-length ... of PCRs to identify the desired cDNA ... in a 96-well "Master Plate," where each ... Having identified the positive well(s) by gel ...
... cDNA Library Panels were designed for full-length ... of PCRs to identify the desired cDNA ... in a 96-well "Master Plate," where each ... Having identified the positive well(s) by gel ...
... 435 is an affordable, compact benchtop ... slides, providing a broad array of ... acquires high-resolution images with high-performance laser ... excitation and emission filter changers, and ...
... Contents include: Microarray hybridization chamber ... chamber top, clamp, thumbscrew) Microarray chamber user ... and are intended to be cleaned and ... with Agilents Catalog Oligo Microarray kits and ...
Biology Products: