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Items: 1 to 20 of 66

1.

A user's guide to the encyclopedia of DNA elements (ENCODE).

ENCODE Project Consortium..

PLoS Biol. 2011 Apr;9(4):e1001046. doi: 10.1371/journal.pbio.1001046. Epub 2011 Apr 19.

2.

Diverse roles and interactions of the SWI/SNF chromatin remodeling complex revealed using global approaches.

Euskirchen GM, Auerbach RK, Davidov E, Gianoulis TA, Zhong G, Rozowsky J, Bhardwaj N, Gerstein MB, Snyder M.

PLoS Genet. 2011 Mar;7(3):e1002008. doi: 10.1371/journal.pgen.1002008. Epub 2011 Mar 3.

3.

The in vivo kinetics of RNA polymerase II elongation during co-transcriptional splicing.

Brody Y, Neufeld N, Bieberstein N, Causse SZ, Böhnlein EM, Neugebauer KM, Darzacq X, Shav-Tal Y.

PLoS Biol. 2011 Jan 11;9(1):e1000573. doi: 10.1371/journal.pbio.1000573.

4.

Wide-ranging functions of E2F4 in transcriptional activation and repression revealed by genome-wide analysis.

Lee BK, Bhinge AA, Iyer VR.

Nucleic Acids Res. 2011 May;39(9):3558-73. doi: 10.1093/nar/gkq1313. Epub 2011 Jan 18.

5.

Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation.

Ip JY, Schmidt D, Pan Q, Ramani AK, Fraser AG, Odom DT, Blencowe BJ.

Genome Res. 2011 Mar;21(3):390-401. doi: 10.1101/gr.111070.110. Epub 2010 Dec 16.

6.

A unique chromatin signature uncovers early developmental enhancers in humans.

Rada-Iglesias A, Bajpai R, Swigut T, Brugmann SA, Flynn RA, Wysocka J.

Nature. 2011 Feb 10;470(7333):279-83. doi: 10.1038/nature09692. Epub 2010 Dec 15.

7.

High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells.

Boyle AP, Song L, Lee BK, London D, Keefe D, Birney E, Iyer VR, Crawford GE, Furey TS.

Genome Res. 2011 Mar;21(3):456-64. doi: 10.1101/gr.112656.110. Epub 2010 Nov 24.

8.

Splicing-dependent RNA polymerase pausing in yeast.

Alexander RD, Innocente SA, Barrass JD, Beggs JD.

Mol Cell. 2010 Nov 24;40(4):582-93. doi: 10.1016/j.molcel.2010.11.005.

9.

Pausing of RNA polymerase II disrupts DNA-specified nucleosome organization to enable precise gene regulation.

Gilchrist DA, Dos Santos G, Fargo DC, Xie B, Gao Y, Li L, Adelman K.

Cell. 2010 Nov 12;143(4):540-51. doi: 10.1016/j.cell.2010.10.004.

10.

Reciprocal intronic and exonic histone modification regions in humans.

Huff JT, Plocik AM, Guthrie C, Yamamoto KR.

Nat Struct Mol Biol. 2010 Dec;17(12):1495-9. doi: 10.1038/nsmb.1924. Epub 2010 Nov 7.

11.

Relationship between nucleosome positioning and DNA methylation.

Chodavarapu RK, Feng S, Bernatavichute YV, Chen PY, Stroud H, Yu Y, Hetzel JA, Kuo F, Kim J, Cokus SJ, Casero D, Bernal M, Huijser P, Clark AT, Krämer U, Merchant SS, Zhang X, Jacobsen SE, Pellegrini M.

Nature. 2010 Jul 15;466(7304):388-92. doi: 10.1038/nature09147. Epub 2010 May 30.

12.

A large fraction of extragenic RNA pol II transcription sites overlap enhancers.

De Santa F, Barozzi I, Mietton F, Ghisletti S, Polletti S, Tusi BK, Muller H, Ragoussis J, Wei CL, Natoli G.

PLoS Biol. 2010 May 11;8(5):e1000384. doi: 10.1371/journal.pbio.1000384.

13.

GREAT improves functional interpretation of cis-regulatory regions.

McLean CY, Bristor D, Hiller M, Clarke SL, Schaar BT, Lowe CB, Wenger AM, Bejerano G.

Nat Biotechnol. 2010 May;28(5):495-501. doi: 10.1038/nbt.1630. Epub 2010 May 2.

14.

c-Myc regulates transcriptional pause release.

Rahl PB, Lin CY, Seila AC, Flynn RA, McCuine S, Burge CB, Sharp PA, Young RA.

Cell. 2010 Apr 30;141(3):432-45. doi: 10.1016/j.cell.2010.03.030.

15.

Genomic binding profiles of functionally distinct RNA polymerase III transcription complexes in human cells.

Moqtaderi Z, Wang J, Raha D, White RJ, Snyder M, Weng Z, Struhl K.

Nat Struct Mol Biol. 2010 May;17(5):635-40. doi: 10.1038/nsmb.1794. Epub 2010 Apr 25.

16.

Widespread transcription at neuronal activity-regulated enhancers.

Kim TK, Hemberg M, Gray JM, Costa AM, Bear DM, Wu J, Harmin DA, Laptewicz M, Barbara-Haley K, Kuersten S, Markenscoff-Papadimitriou E, Kuhl D, Bito H, Worley PF, Kreiman G, Greenberg ME.

Nature. 2010 May 13;465(7295):182-7. doi: 10.1038/nature09033. Epub 2010 Apr 14.

17.

MYC as a regulator of ribosome biogenesis and protein synthesis.

van Riggelen J, Yetil A, Felsher DW.

Nat Rev Cancer. 2010 Apr;10(4):301-9. doi: 10.1038/nrc2819. Review.

PMID:
20332779
18.

Heritable individual-specific and allele-specific chromatin signatures in humans.

McDaniell R, Lee BK, Song L, Liu Z, Boyle AP, Erdos MR, Scott LJ, Morken MA, Kucera KS, Battenhouse A, Keefe D, Collins FS, Willard HF, Lieb JD, Furey TS, Crawford GE, Iyer VR, Birney E.

Science. 2010 Apr 9;328(5975):235-9. doi: 10.1126/science.1184655. Epub 2010 Mar 18.

19.

A CTCF-independent role for cohesin in tissue-specific transcription.

Schmidt D, Schwalie PC, Ross-Innes CS, Hurtado A, Brown GD, Carroll JS, Flicek P, Odom DT.

Genome Res. 2010 May;20(5):578-88. doi: 10.1101/gr.100479.109. Epub 2010 Mar 10.

20.

Close association of RNA polymerase II and many transcription factors with Pol III genes.

Raha D, Wang Z, Moqtaderi Z, Wu L, Zhong G, Gerstein M, Struhl K, Snyder M.

Proc Natl Acad Sci U S A. 2010 Feb 23;107(8):3639-44. doi: 10.1073/pnas.0911315106. Epub 2010 Feb 5.

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