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Items: 1 to 20 of 23

1.

GAGA factor, a positive regulator of global gene expression, modulates transcriptional pausing and organization of upstream nucleosomes.

Tsai SY, Chang YL, Swamy KB, Chiang RL, Huang DH.

Epigenetics Chromatin. 2016 Jul 27;9:32. doi: 10.1186/s13072-016-0082-4. eCollection 2016.

2.

The FMRP/GRK4 mRNA interaction uncovers a new mode of binding of the Fragile X mental retardation protein in cerebellum.

Maurin T, Melko M, Abekhoukh S, Khalfallah O, Davidovic L, Jarjat M, D'Antoni S, Catania MV, Moine H, Bechara E, Bardoni B.

Nucleic Acids Res. 2015 Sep 30;43(17):8540-50. doi: 10.1093/nar/gkv801. Epub 2015 Aug 6.

3.

Genome-wide ChIP-seq analysis of TCF4 binding regions in colorectal cancer cells.

Chen C, Lu Y, Liu J, Li L, Zhao N, Lin B.

Int J Clin Exp Med. 2014 Nov 15;7(11):4253-9. eCollection 2014.

4.

Yeast DEAD box protein Mss116p is a transcription elongation factor that modulates the activity of mitochondrial RNA polymerase.

Markov DA, Wojtas ID, Tessitore K, Henderson S, McAllister WT.

Mol Cell Biol. 2014 Jul;34(13):2360-9. doi: 10.1128/MCB.00160-14. Epub 2014 Apr 14.

5.

Acetylation of RNA polymerase II regulates growth-factor-induced gene transcription in mammalian cells.

Schröder S, Herker E, Itzen F, He D, Thomas S, Gilchrist DA, Kaehlcke K, Cho S, Pollard KS, Capra JA, Schnölzer M, Cole PA, Geyer M, Bruneau BG, Adelman K, Ott M.

Mol Cell. 2013 Nov 7;52(3):314-24. doi: 10.1016/j.molcel.2013.10.009.

6.

Detection of regulatory SNPs in human genome using ChIP-seq ENCODE data.

Bryzgalov LO, Antontseva EV, Matveeva MY, Shilov AG, Kashina EV, Mordvinov VA, Merkulova TI.

PLoS One. 2013 Oct 29;8(10):e78833. doi: 10.1371/journal.pone.0078833. eCollection 2013.

7.

Genome-wide control of RNA polymerase II activity by cohesin.

Schaaf CA, Kwak H, Koenig A, Misulovin Z, Gohara DW, Watson A, Zhou Y, Lis JT, Dorsett D.

PLoS Genet. 2013 Mar;9(3):e1003382. doi: 10.1371/journal.pgen.1003382. Epub 2013 Mar 21.

8.

Transcriptional elongation and mRNA export are coregulated processes.

Molina-Navarro MM, Martinez-Jimenez CP, Rodriguez-Navarro S.

Genet Res Int. 2011;2011:652461. doi: 10.4061/2011/652461. Epub 2011 Oct 5.

9.

Experimental approaches to identify cellular G-quadruplex structures and functions.

Di Antonio M, Rodriguez R, Balasubramanian S.

Methods. 2012 May;57(1):84-92. doi: 10.1016/j.ymeth.2012.01.008. Epub 2012 Feb 11.

10.

Genome-wide analysis of OCT4 binding sites in glioblastoma cancer cells.

Fang XF, Zhang WY, Zhao N, Yu W, Ding D, Hong X, Li LS, Zhang HR, Zheng S, Lin BY.

J Zhejiang Univ Sci B. 2011 Oct;12(10):812-9. doi: 10.1631/jzus.B1100059.

11.

Allele-specific distribution of RNA polymerase II on female X chromosomes.

Kucera KS, Reddy TE, Pauli F, Gertz J, Logan JE, Myers RM, Willard HF.

Hum Mol Genet. 2011 Oct 15;20(20):3964-73. doi: 10.1093/hmg/ddr315. Epub 2011 Jul 26.

12.

STEME: efficient EM to find motifs in large data sets.

Reid JE, Wernisch L.

Nucleic Acids Res. 2011 Oct;39(18):e126. doi: 10.1093/nar/gkr574. Epub 2011 Jul 23.

13.

Integration of genome-wide computation DRE search, AhR ChIP-chip and gene expression analyses of TCDD-elicited responses in the mouse liver.

Dere E, Lo R, Celius T, Matthews J, Zacharewski TR.

BMC Genomics. 2011 Jul 15;12:365. doi: 10.1186/1471-2164-12-365.

14.

Technologies and approaches to elucidate and model the virulence program of salmonella.

McDermott JE, Yoon H, Nakayasu ES, Metz TO, Hyduke DR, Kidwai AS, Palsson BO, Adkins JN, Heffron F.

Front Microbiol. 2011 Jun 2;2:121. doi: 10.3389/fmicb.2011.00121. eCollection 2011.

15.

KAP1 protein: an enigmatic master regulator of the genome.

Iyengar S, Farnham PJ.

J Biol Chem. 2011 Jul 29;286(30):26267-76. doi: 10.1074/jbc.R111.252569. Epub 2011 Jun 7. Review.

16.

Paused RNA polymerase II as a developmental checkpoint.

Levine M.

Cell. 2011 May 13;145(4):502-11. doi: 10.1016/j.cell.2011.04.021. Review.

17.

The mouse RANKL gene locus is defined by a broad pattern of histone H4 acetylation and regulated through distinct distal enhancers.

Martowicz ML, Meyer MB, Pike JW.

J Cell Biochem. 2011 Aug;112(8):2030-45. doi: 10.1002/jcb.23123.

18.

TF-centered downstream gene set enrichment analysis: Inference of causal regulators by integrating TF-DNA interactions and protein post-translational modifications information.

Liu Q, Tan Y, Huang T, Ding G, Tu Z, Liu L, Li Y, Dai H, Xie L.

BMC Bioinformatics. 2010 Dec 14;11 Suppl 11:S5. doi: 10.1186/1471-2105-11-S11-S5.

19.

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.

20.

Mapping chromatin conformation.

Shaw PJ.

F1000 Biol Rep. 2010 Mar 15;2. pii: 18. doi: 10.3410/B2-18.

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