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Items: 1 to 20 of 94

1.

CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters.

Fenouil R, Cauchy P, Koch F, Descostes N, Cabeza JZ, Innocenti C, Ferrier P, Spicuglia S, Gut M, Gut I, Andrau JC.

Genome Res. 2012 Dec;22(12):2399-408. doi: 10.1101/gr.138776.112. Epub 2012 Oct 25.

2.

Transcription factor binding site positioning in yeast: proximal promoter motifs characterize TATA-less promoters.

Erb I, van Nimwegen E.

PLoS One. 2011;6(9):e24279. doi: 10.1371/journal.pone.0024279. Epub 2011 Sep 9.

3.

GPMiner: an integrated system for mining combinatorial cis-regulatory elements in mammalian gene group.

Lee TY, Chang WC, Hsu JB, Chang TH, Shien DM.

BMC Genomics. 2012;13 Suppl 1:S3. doi: 10.1186/1471-2164-13-S1-S3. Epub 2012 Jan 17.

4.
5.

Genome-wide chromatin remodeling identified at GC-rich long nucleosome-free regions.

Schwarzbauer K, Bodenhofer U, Hochreiter S.

PLoS One. 2012;7(11):e47924. doi: 10.1371/journal.pone.0047924. Epub 2012 Nov 5.

6.

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.

7.

Divergence of CpG island promoters: a consequence or cause of evolution?

Sharif J, Endo TA, Toyoda T, Koseki H.

Dev Growth Differ. 2010 Aug;52(6):545-54. doi: 10.1111/j.1440-169X.2010.01193.x.

PMID:
20646027
9.

Determinants of CpG islands: expression in early embryo and isochore structure.

Ponger L, Duret L, Mouchiroud D.

Genome Res. 2001 Nov;11(11):1854-60.

10.

Epigenetic regulation and nucleosome positioning in the human TATA-less IL-1 alpha promoter.

van Rietschoten JG, Gal-Yam EN, Jeong S, Cortez CC, Verweij CL, Jones PA.

Genes Immun. 2008 Oct;9(7):582-90. doi: 10.1038/gene.2008.53. Epub 2008 Jul 10.

PMID:
18615092
11.

Human transcription factor genes involved in neuronal development tend to have high GC content and CpG elements in the proximal promoter region.

Long YS, Qin JM, Su T, Zhao QH, Yi YH, Liao WP.

J Genet Genomics. 2011 Apr 20;38(4):157-63. doi: 10.1016/j.jgg.2011.03.003. Epub 2011 Apr 8.

PMID:
21530899
12.

Roles of transcription factor Mot3 and chromatin in repression of the hypoxic gene ANB1 in yeast.

Kastaniotis AJ, Mennella TA, Konrad C, Torres AM, Zitomer RS.

Mol Cell Biol. 2000 Oct;20(19):7088-98.

13.

A unifying model for the selective regulation of inducible transcription by CpG islands and nucleosome remodeling.

Ramirez-Carrozzi VR, Braas D, Bhatt DM, Cheng CS, Hong C, Doty KR, Black JC, Hoffmann A, Carey M, Smale ST.

Cell. 2009 Jul 10;138(1):114-28. doi: 10.1016/j.cell.2009.04.020.

14.
15.

Orphan CpG islands identify numerous conserved promoters in the mammalian genome.

Illingworth RS, Gruenewald-Schneider U, Webb S, Kerr AR, James KD, Turner DJ, Smith C, Harrison DJ, Andrews R, Bird AP.

PLoS Genet. 2010 Sep 23;6(9):e1001134. doi: 10.1371/journal.pgen.1001134.

16.

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.

17.

High nucleosome occupancy is encoded at human regulatory sequences.

Tillo D, Kaplan N, Moore IK, Fondufe-Mittendorf Y, Gossett AJ, Field Y, Lieb JD, Widom J, Segal E, Hughes TR.

PLoS One. 2010 Feb 9;5(2):e9129. doi: 10.1371/journal.pone.0009129.

18.

CpG islands and the regulation of transcription.

Deaton AM, Bird A.

Genes Dev. 2011 May 15;25(10):1010-22. doi: 10.1101/gad.2037511. Review.

19.

Unusual combinatorial involvement of poly-A/T tracts in organizing genes and chromatin in Dictyostelium.

Chang GS, Noegel AA, Mavrich TN, Müller R, Tomsho L, Ward E, Felder M, Jiang C, Eichinger L, Glöckner G, Schuster SC, Pugh BF.

Genome Res. 2012 Jun;22(6):1098-106. doi: 10.1101/gr.131649.111. Epub 2012 Mar 20.

20.

Diversity of core promoter elements comprising human bidirectional promoters.

Yang MQ, Elnitski LL.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S3. doi: 10.1186/1471-2164-9-S2-S3.

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