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Items: 1 to 20 of 137

1.
2.

cis Determinants of Promoter Threshold and Activation Timescale.

Hansen AS, O'Shea EK.

Cell Rep. 2015 Aug 25;12(8):1226-33. doi: 10.1016/j.celrep.2015.07.035. Epub 2015 Aug 13.

3.

Signal-dependent dynamics of transcription factor translocation controls gene expression.

Hao N, O'Shea EK.

Nat Struct Mol Biol. 2011 Dec 18;19(1):31-9. doi: 10.1038/nsmb.2192.

4.
5.

A quantitative model of transcription factor-activated gene expression.

Kim HD, O'Shea EK.

Nat Struct Mol Biol. 2008 Nov;15(11):1192-8. doi: 10.1038/nsmb.1500. Epub 2008 Oct 12.

6.

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.

7.

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.

8.

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.

9.

Mediator, TATA-binding protein, and RNA polymerase II contribute to low histone occupancy at active gene promoters in yeast.

Ansari SA, Paul E, Sommer S, Lieleg C, He Q, Daly AZ, Rode KA, Barber WT, Ellis LC, LaPorta E, Orzechowski AM, Taylor E, Reeb T, Wong J, Korber P, Morse RH.

J Biol Chem. 2014 May 23;289(21):14981-95. doi: 10.1074/jbc.M113.529354. Epub 2014 Apr 11. Erratum in: J Biol Chem. 2016 May 6;291(19):9938.

10.

Noise-mean relationship in mutated promoters.

Hornung G, Bar-Ziv R, Rosin D, Tokuriki N, Tawfik DS, Oren M, Barkai N.

Genome Res. 2012 Dec;22(12):2409-17. doi: 10.1101/gr.139378.112. Epub 2012 Jul 20.

11.

Promoter decoding of transcription factor dynamics.

Moody AD, Batchelor E.

Mol Syst Biol. 2013 Nov 5;9:703. doi: 10.1038/msb.2013.63. No abstract available.

12.

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.

13.

Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription.

Knight B, Kubik S, Ghosh B, Bruzzone MJ, Geertz M, Martin V, Dénervaud N, Jacquet P, Ozkan B, Rougemont J, Maerkl SJ, Naef F, Shore D.

Genes Dev. 2014 Aug 1;28(15):1695-709. doi: 10.1101/gad.244434.114. Erratum in: Genes Dev. 2014 Oct 1;28(19):2188.

14.

Systematic Investigation of Transcription Factor Activity in the Context of Chromatin Using Massively Parallel Binding and Expression Assays.

Levo M, Avnit-Sagi T, Lotan-Pompan M, Kalma Y, Weinberger A, Yakhini Z, Segal E.

Mol Cell. 2017 Feb 16;65(4):604-617.e6. doi: 10.1016/j.molcel.2017.01.007.

PMID:
28212748
15.

Opening windows to the genome.

Whitehouse I, Tsukiyama T.

Cell. 2009 May 1;137(3):400-2. doi: 10.1016/j.cell.2009.04.026.

16.

The AMP-activated protein kinase Snf1 regulates transcription factor binding, RNA polymerase II activity, and mRNA stability of glucose-repressed genes in Saccharomyces cerevisiae.

Young ET, Zhang C, Shokat KM, Parua PK, Braun KA.

J Biol Chem. 2012 Aug 17;287(34):29021-34. doi: 10.1074/jbc.M112.380147. Epub 2012 Jul 2.

17.

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.

18.

Nucleosomal context of binding sites influences transcription factor binding affinity and gene regulation.

Dai Z, Dai X, Xiang Q, Feng J.

Genomics Proteomics Bioinformatics. 2009 Dec;7(4):155-62. doi: 10.1016/S1672-0229(08)60045-5.

19.
20.

Noise can induce bimodality in positive transcriptional feedback loops without bistability.

To TL, Maheshri N.

Science. 2010 Feb 26;327(5969):1142-5. doi: 10.1126/science.1178962.

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