Navigation Links
High-throughput analysis of gene regulation, DNA synthesis in Cold Spring Harbor Protocols
Date:2/1/2010

COLD SPRING HARBOR, N.Y. (Mon., Feb. 1, 2010) -- Mapping DNase I hypersensitive sites has long been the standard method for identifying genetic regulatory elements such as promoters, enhancers, silencers, insulators, and locus control regions. Sequences that are nucleosome-depleted, presumably to provide access for transcription factors, are selectively digested by DNase I. Traditional low-throughput methods use Southern blots to then identify these hypersensitive sites. In the February issue of Cold Spring Harbor Protocols (http://www.cshprotocols.org/TOCs/toc2_10.dtl), Gregory Crawford and colleagues from Duke University (http://www.genome.duke.edu/people/faculty/crawford/) present "DNase-seq: A High-Resolution Technique for Mapping Active Gene Regulatory Elements Across the Genome from Mammalian Cells." DNase-seq is a high-throughput method that identifies DNase I hypersensitive sites across the whole genome by capturing DNase-digested fragments and applying next-generation sequencing techniques. In a single experiment, DNase-seq can identify most active regulatory regions from potentially any cell type, from any species with a sequenced genome. As one of February's featured articles, it is freely available on the journal's website (http://cshprotocols.cshlp.org/cgi/content/full/2010/2/pdb.prot5384).

The incorporation of thymidine analogues, such as 5-bromo-2'-deoxyuridine (BrdU), into newly synthesized DNA is a powerful tool for analysis of DNA replication, repair and other aspects of DNA metabolism. In "Genome-Wide Analysis of DNA Synthesis by BrdU Immunoprecipitation on Tiling Microarrays (BrdU-IP-chip) in Saccharomyces cerevisiae," Oscar Aparicio and colleagues from the University of Southern California (http://www.usc.edu/programs/pibbs/site/faculty/aparicio_o.htm) couple BrdU immunoprecipitation with DNA microarrays to enable genome-wide identification of BrdU-labeled chromosomal DNA. BrdU-IP-chip has many potential applications and has already been used to identify replication origins, make quantitative comparisons of origin firing between strains, and examine replication fork progression. The article is featured in the February issue of Cold Spring Harbor Protocols (http://www.cshprotocols.org/TOCs/toc2_10.dtl) and is freely available on the journal's website (http://cshprotocols.cshlp.org/cgi/content/full/2010/2/pdb.prot5385).


'/>"/>

Contact: David Crotty
crotty@cshl.edu
516-422-4007
Cold Spring Harbor Laboratory
Source:Eurekalert

Related biology news :

1. NIH grants Phylonix Phase II SBIR to develop high-throughput in vivo zebrafish assays
2. New high-throughput screening technique makes probing puzzling proteins possible
3. High-throughput genotyping, protein purification featured in Cold Spring Harbor Protocols
4. Ginkgo SRMs: Tools for product analysis/quality
5. DNA analysis shows true dispersal of protozoa
6. Interacting protein theory awaits test from new neutron analysis tools
7. Analysis of breast and colon cancer genes finds many areas of differences between tumors
8. Tumor genome analysis unveils new insights into lung cancer
9. Powerful integration of lipid metabolic profiling with gene expression analysis
10. Human clones: New U.N. analysis lays out worlds choices
11. More comprehensive analysis of Klamath River basin needed to aid decision makers
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:6/2/2016)... June 2, 2016 Perimeter Surveillance ... Unmanned Systems, Physical Infrastructure, Support & Other Service  ... visiongain offers comprehensive analysis of the global ... will generate revenues of $17.98 billion in 2016. ... Inc, a leader in software and hardware technologies for ...
(Date:5/20/2016)...  VoiceIt is excited to announce its new ... By working together, VoiceIt and VoicePass will offer ... take slightly different approaches to voice biometrics, collaboration ... usability. Both ... "This marketing and technology partnership allows ...
(Date:5/9/2016)... , UAE, May 9, 2016 ... when it comes to expanding freedom for high net ... Even in today,s globally connected world, there is ... conferencing system could ever duplicate sealing your deal with ... obtaining second passports by taking advantage of citizenship via ...
Breaking Biology News(10 mins):
(Date:6/23/2016)... (PRWEB) , ... June 23, 2016 , ... ... is exhibiting at the Pennsylvania Convention Center and will showcase its product’s latest ... ClinCapture will also be presenting a scientific poster on Disrupting Clinical Trials in ...
(Date:6/23/2016)... 23, 2016 ReportsnReports.com adds ... to its pharmaceuticals section with historic and forecast ... much more. Complete report on the ... profiling 15 companies and supported with 261 tables ... . The Global Cell Culture ...
(Date:6/22/2016)... , June 22, 2016   StockNewsNow.com , The ... Interview with Dr. Nader Pourhassan , President & ... focused on the clinical development and potential commercialization of ... HIV infection, according to the company,s website (see here: ... Tuesday, June 7 th , 2016, at the LD ...
(Date:6/22/2016)... , ... June 22, 2016 , ... ... placing a spotlight on immigrant achievements and contributions to North Texas and the ... important contributors from the immigrant community to the civic and economic vitality of ...
Breaking Biology Technology: