[ged] Journal Club June 14th 3PM

[Likit Preeyanon]

Just a friendly reminder, QP will be presenting the paper below on Monday 14. See you all at 3pm.

Begin forwarded message:

> From: Qingpeng <qingpeng at gmail.com>
> Date: June 4, 2010 6:41:30 PM EDT
> To: Likit Preeyanon <preeyano at msu.edu>
> Subject: Fwd: Journal Club June 14th 3PM
> 
> Hi Likit,
> Have you received this messenger?
> 
> qingpeng
> 
> 
> 
> 
> ---------- Forwarded message ----------
> From: Qingpeng <qingpeng at gmail.com>
> Date: Fri, Jun 4, 2010 at 6:40 PM
> Subject: Journal Club June 14th 3PM
> To: ged-jclub at lists.idyll.org
> 
> 
> I will talk about this paper about variation of TF binding  in the JC.
> See you then.
> 
> http://www.ncbi.nlm.nih.gov/pubmed/20299548
> 
> Science. 2010 Apr 9;328(5975):232-5. Epub 2010 Mar 18.
> Variation in transcription factor binding among humans.
> Kasowski M, Grubert F, Heffelfinger C, Hariharan M, Asabere A, Waszak
> SM, Habegger L, Rozowsky J, Shi M, Urban AE, Hong MY, Karczewski KJ,
> Huber W, Weissman SM, Gerstein MB, Korbel JO, Snyder M.
> 
> Department of Molecular, Cellular, and Developmental Biology, Yale
> University, New Haven, CT 06520, USA.
> Abstract
> Differences in gene expression may play a major role in speciation and
> phenotypic diversity. We examined genome-wide differences in
> transcription factor (TF) binding in several humans and a single
> chimpanzee by using chromatin immunoprecipitation followed by
> sequencing. The binding sites of RNA polymerase II (PolII) and a key
> regulator of immune responses, nuclear factor kappaB (p65), were
> mapped in 10 lymphoblastoid cell lines, and 25 and 7.5% of the
> respective binding regions were found to differ between individuals.
> Binding differences were frequently associated with single-nucleotide
> polymorphisms and genomic structural variants, and these differences
> were often correlated with differences in gene expression, suggesting
> functional consequences of binding variation. Furthermore, comparing
> PolII binding between humans and chimpanzee suggests extensive
> divergence in TF binding. Our results indicate that many differences
> in individuals and species occur at the level of TF binding, and they
> provide insight into the genetic events responsible for these
> differences.
> 
> 
> 
> Sincerely yours,
> 
> Qingpeng Zhang
> Graduate Student
> Department of Computer Science and Engineering
> GED Lab in 316/318 Giltner
> Michigan State University
> East Lansing, MI 48824
> 

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