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Dynamic changes in nucleosome occupancy are not predictive of gene expression dynamics but are linked to transcription and chromatin regulators.

Huebert DJ, Kuan PF, Keleş S, Gasch AP.

Mol Cell Biol. 2012 May;32(9):1645-53. doi: 10.1128/MCB.06170-11. Epub 2012 Feb 21.


In vivo effects of histone H3 depletion on nucleosome occupancy and position in Saccharomyces cerevisiae.

Gossett AJ, Lieb JD.

PLoS Genet. 2012;8(6):e1002771. doi: 10.1371/journal.pgen.1002771. Epub 2012 Jun 21.


Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome.

Koerber RT, Rhee HS, Jiang C, Pugh BF.

Mol Cell. 2009 Sep 24;35(6):889-902. doi: 10.1016/j.molcel.2009.09.011.


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.


Functional role of histone variant Htz1 in the stress response to oleate in Saccharomyces cerevisiae.

Liu H, Li G, Liu L, Wan Y.

Biosci Rep. 2015 May 20;35(4). pii: e00224. doi: 10.1042/BSR20150114.


Nucleosome repositioning underlies dynamic gene expression.

Nocetti N, Whitehouse I.

Genes Dev. 2016 Mar 15;30(6):660-72. doi: 10.1101/gad.274910.115. Epub 2016 Mar 10.


Activation of Saccharomyces cerevisiae HIS3 results in Gcn4p-dependent, SWI/SNF-dependent mobilization of nucleosomes over the entire gene.

Kim Y, McLaughlin N, Lindstrom K, Tsukiyama T, Clark DJ.

Mol Cell Biol. 2006 Nov;26(22):8607-22. Epub 2006 Sep 18.


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.


Nucleosomes Are Essential for Proper Regulation of a Multigated Promoter in Saccharomyces cerevisiae.

Yarrington RM, Goodrum JM, Stillman DJ.

Genetics. 2016 Feb;202(2):551-63. doi: 10.1534/genetics.115.183715. Epub 2015 Dec 1.


A dynamic interplay of nucleosome and Msn2 binding regulates kinetics of gene activation and repression following stress.

Elfving N, Chereji RV, Bharatula V, Björklund S, Morozov AV, Broach JR.

Nucleic Acids Res. 2014 May;42(9):5468-82. doi: 10.1093/nar/gku176. Epub 2014 Mar 5.


Stress-dependent dynamics of global chromatin remodeling in yeast: dual role for SWI/SNF in the heat shock stress response.

Shivaswamy S, Iyer VR.

Mol Cell Biol. 2008 Apr;28(7):2221-34. doi: 10.1128/MCB.01659-07. Epub 2008 Jan 22.


Evidence of association between nucleosome occupancy and the evolution of transcription factor binding sites in yeast.

Swamy KB, Chu WY, Wang CY, Tsai HK, Wang D.

BMC Evol Biol. 2011 May 31;11:150. doi: 10.1186/1471-2148-11-150.


Activator control of nucleosome occupancy in activation and repression of transcription.

Bryant GO, Prabhu V, Floer M, Wang X, Spagna D, Schreiber D, Ptashne M.

PLoS Biol. 2008 Dec 23;6(12):2928-39. doi: 10.1371/journal.pbio.0060317.


Nucleosome alterations caused by mutations at modifiable histone residues in Saccharomyces cerevisiae.

Liu H, Wang P, Liu L, Min Z, Luo K, Wan Y.

Sci Rep. 2015 Oct 26;5:15583. doi: 10.1038/srep15583.


Global nucleosome occupancy in yeast.

Bernstein BE, Liu CL, Humphrey EL, Perlstein EO, Schreiber SL.

Genome Biol. 2004;5(9):R62. Epub 2004 Aug 20.


The effect of an intervening promoter nucleosome on gene expression.

Parikh RY, Kim HD.

PLoS One. 2013 May 20;8(5):e63072. doi: 10.1371/journal.pone.0063072. Print 2013.


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.


Different roles for abf1p and a T-rich promoter element in nucleosome organization of the yeast RPS28A gene.

Lascaris RF, Groot E, Hoen PB, Mager WH, Planta RJ.

Nucleic Acids Res. 2000 Mar 15;28(6):1390-6.


Sequence-targeted nucleosome sliding in vivo by a hybrid Chd1 chromatin remodeler.

McKnight JN, Tsukiyama T, Bowman GD.

Genome Res. 2016 May;26(5):693-704. doi: 10.1101/gr.199919.115. Epub 2016 Mar 18.

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