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Items: 1 to 20 of 186

1.

High-resolution nucleosome mapping reveals transcription-dependent promoter packaging.

Weiner A, Hughes A, Yassour M, Rando OJ, Friedman N.

Genome Res. 2010 Jan;20(1):90-100. doi: 10.1101/gr.098509.109. Epub 2009 Oct 21.

2.

Nucleosome free regions in yeast promoters result from competitive binding of transcription factors that interact with chromatin modifiers.

Ozonov EA, van Nimwegen E.

PLoS Comput Biol. 2013;9(8):e1003181. doi: 10.1371/journal.pcbi.1003181. Epub 2013 Aug 22.

3.

A map of nucleosome positions in yeast at base-pair resolution.

Brogaard K, Xi L, Wang JP, Widom J.

Nature. 2012 Jun 28;486(7404):496-501. doi: 10.1038/nature11142.

4.

Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions.

Schep AN, Buenrostro JD, Denny SK, Schwartz K, Sherlock G, Greenleaf WJ.

Genome Res. 2015 Nov;25(11):1757-70. doi: 10.1101/gr.192294.115. Epub 2015 Aug 27.

5.

Chromatin remodelers clear nucleosomes from intrinsically unfavorable sites to establish nucleosome-depleted regions at promoters.

Tolkunov D, Zawadzki KA, Singer C, Elfving N, Morozov AV, Broach JR.

Mol Biol Cell. 2011 Jun 15;22(12):2106-18. doi: 10.1091/mbc.E10-10-0826. Epub 2011 Apr 20.

6.

Diversity of eukaryotic DNA replication origins revealed by genome-wide analysis of chromatin structure.

Berbenetz NM, Nislow C, Brown GW.

PLoS Genet. 2010 Sep 2;6(9):e1001092. doi: 10.1371/journal.pgen.1001092.

7.

Nucleosome positioning, nucleosome spacing and the nucleosome code.

Clark DJ.

J Biomol Struct Dyn. 2010 Jun;27(6):781-93.

8.

Nucleosome positioning in yeasts: methods, maps, and mechanisms.

Lieleg C, Krietenstein N, Walker M, Korber P.

Chromosoma. 2015 Jun;124(2):131-51. doi: 10.1007/s00412-014-0501-x. Epub 2014 Dec 23. Review.

PMID:
25529773
9.

Single-cell nucleosome mapping reveals the molecular basis of gene expression heterogeneity.

Small EC, Xi L, Wang JP, Widom J, Licht JD.

Proc Natl Acad Sci U S A. 2014 Jun 17;111(24):E2462-71. doi: 10.1073/pnas.1400517111. Epub 2014 Jun 2.

10.

Weakly positioned nucleosomes enhance the transcriptional competency of chromatin.

Belch Y, Yang J, Liu Y, Malkaram SA, Liu R, Riethoven JJ, Ladunga I.

PLoS One. 2010 Sep 24;5(9):e12984. doi: 10.1371/journal.pone.0012984.

11.

Z curve theory-based analysis of the dynamic nature of nucleosome positioning in Saccharomyces cerevisiae.

Wu X, Liu H, Liu H, Su J, Lv J, Cui Y, Wang F, Zhang Y.

Gene. 2013 Nov 1;530(1):8-18. doi: 10.1016/j.gene.2013.08.018. Epub 2013 Aug 16.

PMID:
23958656
12.
13.

Chromatin remodelling at promoters suppresses antisense transcription.

Whitehouse I, Rando OJ, Delrow J, Tsukiyama T.

Nature. 2007 Dec 13;450(7172):1031-5.

PMID:
18075583
14.

High-throughput mapping of the chromatin structure of human promoters.

Ozsolak F, Song JS, Liu XS, Fisher DE.

Nat Biotechnol. 2007 Feb;25(2):244-8. Epub 2007 Jan 14.

PMID:
17220878
15.

New insights into two distinct nucleosome distributions: comparison of cross-platform positioning datasets in the yeast genome.

Feng J, Dai X, Xiang Q, Dai Z, Wang J, Deng Y, He C.

BMC Genomics. 2010 Jan 15;11:33. doi: 10.1186/1471-2164-11-33.

16.

Nucleosome positioning in Saccharomyces cerevisiae.

Jansen A, Verstrepen KJ.

Microbiol Mol Biol Rev. 2011 Jun;75(2):301-20. doi: 10.1128/MMBR.00046-10. Review.

17.

Topoisomerase II binds nucleosome-free DNA and acts redundantly with topoisomerase I to enhance recruitment of RNA Pol II in budding yeast.

Sperling AS, Jeong KS, Kitada T, Grunstein M.

Proc Natl Acad Sci U S A. 2011 Aug 2;108(31):12693-8. doi: 10.1073/pnas.1106834108. Epub 2011 Jul 19.

18.

Genome-wide mapping of nucleosomes in yeast using paired-end sequencing.

Cole HA, Howard BH, Clark DJ.

Methods Enzymol. 2012;513:145-68. doi: 10.1016/B978-0-12-391938-0.00006-9.

PMID:
22929768
19.

Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation.

Shivaswamy S, Bhinge A, Zhao Y, Jones S, Hirst M, Iyer VR.

PLoS Biol. 2008 Mar 18;6(3):e65. doi: 10.1371/journal.pbio.0060065.

20.

A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome.

Mavrich TN, Ioshikhes IP, Venters BJ, Jiang C, Tomsho LP, Qi J, Schuster SC, Albert I, Pugh BF.

Genome Res. 2008 Jul;18(7):1073-83. doi: 10.1101/gr.078261.108. Epub 2008 Jun 12.

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