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Items: 1 to 20 of 94

1.

Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins.

Teytelman L, Thurtle DM, Rine J, van Oudenaarden A.

Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):18602-7. doi: 10.1073/pnas.1316064110. Epub 2013 Oct 30.

2.

Widespread misinterpretable ChIP-seq bias in yeast.

Park D, Lee Y, Bhupindersingh G, Iyer VR.

PLoS One. 2013 Dec 9;8(12):e83506. doi: 10.1371/journal.pone.0083506. eCollection 2013.

3.

Immediate chromatin immunoprecipitation and on-bead quantitative PCR analysis: a versatile and rapid ChIP procedure.

Harmeyer KM, South PF, Bishop B, Ogas J, Briggs SD.

Nucleic Acids Res. 2015 Mar 31;43(6):e38. doi: 10.1093/nar/gku1347. Epub 2014 Dec 24.

4.

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing.

Lefrançois P, Euskirchen GM, Auerbach RK, Rozowsky J, Gibson T, Yellman CM, Gerstein M, Snyder M.

BMC Genomics. 2009 Jan 21;10:37. doi: 10.1186/1471-2164-10-37.

5.

Active promoters give rise to false positive 'Phantom Peaks' in ChIP-seq experiments.

Jain D, Baldi S, Zabel A, Straub T, Becker PB.

Nucleic Acids Res. 2015 Aug 18;43(14):6959-68. doi: 10.1093/nar/gkv637. Epub 2015 Jun 27.

6.

The Ku complex in silencing the cryptic mating-type loci of Saccharomyces cerevisiae.

Patterson EE, Fox CA.

Genetics. 2008 Oct;180(2):771-83. doi: 10.1534/genetics.108.091710. Epub 2008 Aug 20.

7.

Changes in the genome-wide localization pattern of Sir3 in Saccharomyces cerevisiae during different growth stages.

Tung SY, Lee KW, Hong JY, Lee SP, Shen HH, Liou GG.

Comput Struct Biotechnol J. 2013 Jun 19;7:e201304001. doi: 10.5936/csbj.201304001. eCollection 2013.

8.

ChIP-Seq using high-throughput DNA sequencing for genome-wide identification of transcription factor binding sites.

Lefrançois P, Zheng W, Snyder M.

Methods Enzymol. 2010;470:77-104. doi: 10.1016/S0076-6879(10)70004-5. Epub 2010 Mar 1.

PMID:
20946807
9.

Structural analyses of Sum1-1p-dependent transcriptionally silent chromatin in Saccharomyces cerevisiae.

Yu Q, Elizondo S, Bi X.

J Mol Biol. 2006 Mar 10;356(5):1082-92. Epub 2005 Dec 20.

PMID:
16406069
10.

Chromatin immunoprecipitation analysis of Xenopus embryos.

Akkers RC, Jacobi UG, Veenstra GJ.

Methods Mol Biol. 2012;917:279-92. doi: 10.1007/978-1-61779-992-1_17.

PMID:
22956095
11.

A nonhistone protein-protein interaction required for assembly of the SIR complex and silent chromatin.

Rudner AD, Hall BE, Ellenberger T, Moazed D.

Mol Cell Biol. 2005 Jun;25(11):4514-28.

12.

Histone H2B ubiquitylation and H3 lysine 4 methylation prevent ectopic silencing of euchromatic loci important for the cellular response to heat.

Leung A, Cajigas I, Jia P, Ezhkova E, Brickner JH, Zhao Z, Geng F, Tansey WP.

Mol Biol Cell. 2011 Aug 1;22(15):2741-53. doi: 10.1091/mbc.E11-05-0426. Epub 2011 Jun 16.

13.

Non-canonical protein-DNA interactions identified by ChIP are not artifacts.

Bonocora RP, Fitzgerald DM, Stringer AM, Wade JT.

BMC Genomics. 2013 Apr 15;14:254. doi: 10.1186/1471-2164-14-254.

14.

Mapping protein-DNA interactions using ChIP-sequencing.

Massie CE, Mills IG.

Methods Mol Biol. 2012;809:157-73. doi: 10.1007/978-1-61779-376-9_11.

PMID:
22113275
15.

Sir2 is involved in the transcriptional modulation of NHP6A in Saccharomyces cerevisiae.

Ciuffetta A, Salerno D, Camilloni G, Venditti S.

Biochem Biophys Res Commun. 2015 May 22;461(1):42-6. doi: 10.1016/j.bbrc.2015.03.165. Epub 2015 Apr 7.

PMID:
25858320
16.

DNA-Binding Factor Target Identification by Chromatin Immunoprecipitation (ChIP) in Plants.

Posé D, Yant L.

Methods Mol Biol. 2016;1363:25-35. doi: 10.1007/978-1-4939-3115-6_3.

PMID:
26577778
17.

Sir2 silences gene transcription by targeting the transition between RNA polymerase II initiation and elongation.

Gao L, Gross DS.

Mol Cell Biol. 2008 Jun;28(12):3979-94. doi: 10.1128/MCB.00019-08. Epub 2008 Apr 7.

18.
20.

Characterization of genome-wide binding of NF-κB in TNFα-stimulated HeLa cells.

Xing Y, Yang Y, Zhou F, Wang J.

Gene. 2013 Sep 10;526(2):142-9. doi: 10.1016/j.gene.2013.05.001. Epub 2013 May 17.

PMID:
23688556

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