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The C-Terminal Domain of RNA Polymerase II Is a Multivalent Targeting Sequence that Supports Drosophila Development with Only Consensus Heptads.

Lu F, Portz B, Gilmour DS.

Mol Cell. 2019 Mar 21;73(6):1232-1242.e4. doi: 10.1016/j.molcel.2019.01.008. Epub 2019 Feb 11.


Genetic analysis of the RNA polymerase II CTD in Drosophila.

Lu F, Gilmour DS.

Methods. 2019 Apr 15;159-160:129-137. doi: 10.1016/j.ymeth.2019.01.010. Epub 2019 Jan 24.


GFZF, a Glutathione S-Transferase Protein Implicated in Cell Cycle Regulation and Hybrid Inviability, Is a Transcriptional Coactivator.

Baumann DG, Dai MS, Lu H, Gilmour DS.

Mol Cell Biol. 2018 Jan 29;38(4). pii: e00476-17. doi: 10.1128/MCB.00476-17. Print 2018 Feb 15.


A sequence-specific core promoter-binding transcription factor recruits TRF2 to coordinately transcribe ribosomal protein genes.

Baumann DG, Gilmour DS.

Nucleic Acids Res. 2017 Oct 13;45(18):10481-10491. doi: 10.1093/nar/gkx676.


Phosphorylation induces sequence-specific conformational switches in the RNA polymerase II C-terminal domain.

Gibbs EB, Lu F, Portz B, Fisher MJ, Medellin BP, Laremore TN, Zhang YJ, Gilmour DS, Showalter SA.

Nat Commun. 2017 May 12;8:15233. doi: 10.1038/ncomms15233.


Structural heterogeneity in the intrinsically disordered RNA polymerase II C-terminal domain.

Portz B, Lu F, Gibbs EB, Mayfield JE, Rachel Mehaffey M, Zhang YJ, Brodbelt JS, Showalter SA, Gilmour DS.

Nat Commun. 2017 May 12;8:15231. doi: 10.1038/ncomms15231.


Identification of Regions in the Spt5 Subunit of DRB Sensitivity-inducing Factor (DSIF) That Are Involved in Promoter-proximal Pausing.

Qiu Y, Gilmour DS.

J Biol Chem. 2017 Mar 31;292(13):5555-5570. doi: 10.1074/jbc.M116.760751. Epub 2017 Feb 17.


Mapping the Phosphorylation Pattern of Drosophila melanogaster RNA Polymerase II Carboxyl-Terminal Domain Using Ultraviolet Photodissociation Mass Spectrometry.

Mayfield JE, Robinson MR, Cotham VC, Irani S, Matthews WL, Ram A, Gilmour DS, Cannon JR, Zhang YJ, Brodbelt JS.

ACS Chem Biol. 2017 Jan 20;12(1):153-162. doi: 10.1021/acschembio.6b00729. Epub 2016 Dec 1.


Reconstitution of factor-dependent, promoter proximal pausing in Drosophila nuclear extracts.

Li J, Gilmour DS.

Methods Mol Biol. 2015;1276:133-52. doi: 10.1007/978-1-4939-2392-2_7.


RNAi screen in Drosophila larvae identifies histone deacetylase 3 as a positive regulator of the hsp70 heat shock gene expression during heat shock.

Achary BG, Campbell KM, Co IS, Gilmour DS.

Biochim Biophys Acta. 2014 May;1839(5):355-63. doi: 10.1016/j.bbagrm.2014.02.018. Epub 2014 Mar 6.


Negative elongation factor (NELF) coordinates RNA polymerase II pausing, premature termination, and chromatin remodeling to regulate HIV transcription.

Natarajan M, Schiralli Lester GM, Lee C, Missra A, Wasserman GA, Steffen M, Gilmour DS, Henderson AJ.

J Biol Chem. 2013 Sep 6;288(36):25995-6003. doi: 10.1074/jbc.M113.496489. Epub 2013 Jul 24.


Kinetic competition between elongation rate and binding of NELF controls promoter-proximal pausing.

Li J, Liu Y, Rhee HS, Ghosh SK, Bai L, Pugh BF, Gilmour DS.

Mol Cell. 2013 Jun 6;50(5):711-22. doi: 10.1016/j.molcel.2013.05.016.


Distinct mechanisms of transcriptional pausing orchestrated by GAGA factor and M1BP, a novel transcription factor.

Li J, Gilmour DS.

EMBO J. 2013 Jul 3;32(13):1829-41. doi: 10.1038/emboj.2013.111. Epub 2013 May 24.


Paused Pol II coordinates tissue morphogenesis in the Drosophila embryo.

Lagha M, Bothma JP, Esposito E, Ng S, Stefanik L, Tsui C, Johnston J, Chen K, Gilmour DS, Zeitlinger J, Levine MS.

Cell. 2013 May 23;153(5):976-87. doi: 10.1016/j.cell.2013.04.045.


Chromatin-associated RNA interference components contribute to transcriptional regulation in Drosophila.

Cernilogar FM, Onorati MC, Kothe GO, Burroughs AM, Parsi KM, Breiling A, Lo Sardo F, Saxena A, Miyoshi K, Siomi H, Siomi MC, Carninci P, Gilmour DS, Corona DF, Orlando V.

Nature. 2011 Nov 6;480(7377):391-5. doi: 10.1038/nature10492.


Cohesin selectively binds and regulates genes with paused RNA polymerase.

Fay A, Misulovin Z, Li J, Schaaf CA, Gause M, Gilmour DS, Dorsett D.

Curr Biol. 2011 Oct 11;21(19):1624-34. doi: 10.1016/j.cub.2011.08.036. Epub 2011 Sep 29.


Negative elongation factor accelerates the rate at which heat shock genes are shut off by facilitating dissociation of heat shock factor.

Ghosh SK, Missra A, Gilmour DS.

Mol Cell Biol. 2011 Oct;31(20):4232-43. doi: 10.1128/MCB.05930-11. Epub 2011 Aug 22.


The multifunctional Ccr4-Not complex directly promotes transcription elongation.

Kruk JA, Dutta A, Fu J, Gilmour DS, Reese JC.

Genes Dev. 2011 Mar 15;25(6):581-93. doi: 10.1101/gad.2020911.


Promoter proximal pausing and the control of gene expression.

Li J, Gilmour DS.

Curr Opin Genet Dev. 2011 Apr;21(2):231-5. doi: 10.1016/j.gde.2011.01.010. Epub 2011 Feb 14. Review.


Interactions between DSIF (DRB sensitivity inducing factor), NELF (negative elongation factor), and the Drosophila RNA polymerase II transcription elongation complex.

Missra A, Gilmour DS.

Proc Natl Acad Sci U S A. 2010 Jun 22;107(25):11301-6. doi: 10.1073/pnas.1000681107. Epub 2010 Jun 4.


Detecting transcriptionally engaged RNA polymerase in eukaryotic cells with permanganate genomic footprinting.

Gilmour DS, Fan R.

Methods. 2009 Aug;48(4):368-74. doi: 10.1016/j.ymeth.2009.02.020. Epub 2009 Mar 9.


Promoter proximal pausing on genes in metazoans.

Gilmour DS.

Chromosoma. 2009 Feb;118(1):1-10. doi: 10.1007/s00412-008-0182-4. Epub 2008 Oct 2. Review.


NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly.

Gilchrist DA, Nechaev S, Lee C, Ghosh SK, Collins JB, Li L, Gilmour DS, Adelman K.

Genes Dev. 2008 Jul 15;22(14):1921-33. doi: 10.1101/gad.1643208.


Regulation of p53 target gene expression by peptidylarginine deiminase 4.

Li P, Yao H, Zhang Z, Li M, Luo Y, Thompson PR, Gilmour DS, Wang Y.

Mol Cell Biol. 2008 Aug;28(15):4745-58. doi: 10.1128/MCB.01747-07. Epub 2008 May 27.


Nucleosome organization in the Drosophila genome.

Mavrich TN, Jiang C, Ioshikhes IP, Li X, Venters BJ, Zanton SJ, Tomsho LP, Qi J, Glaser RL, Schuster SC, Gilmour DS, Albert I, Pugh BF.

Nature. 2008 May 15;453(7193):358-62. doi: 10.1038/nature06929. Epub 2008 Apr 13.


NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila.

Lee C, Li X, Hechmer A, Eisen M, Biggin MD, Venters BJ, Jiang C, Li J, Pugh BF, Gilmour DS.

Mol Cell Biol. 2008 May;28(10):3290-300. doi: 10.1128/MCB.02224-07. Epub 2008 Mar 10.


The receptor tyrosine kinase RON represses HIV-1 transcription by targeting RNA polymerase II processivity.

Klatt A, Zhang Z, Kalantari P, Hankey PA, Gilmour DS, Henderson AJ.

J Immunol. 2008 Feb 1;180(3):1670-7.


Derailing the locomotive: transcription termination.

Gilmour DS, Fan R.

J Biol Chem. 2008 Jan 11;283(2):661-4. Epub 2007 Nov 12. No abstract available.


Transcription elongation controls cell fate specification in the Drosophila embryo.

Wang X, Lee C, Gilmour DS, Gergen JP.

Genes Dev. 2007 May 1;21(9):1031-6.


Negative elongation factor NELF represses human immunodeficiency virus transcription by pausing the RNA polymerase II complex.

Zhang Z, Klatt A, Gilmour DS, Henderson AJ.

J Biol Chem. 2007 Jun 8;282(23):16981-8. Epub 2007 Apr 18.


Molecular characterization of Drosophila NELF.

Wu CH, Lee C, Fan R, Smith MJ, Yamaguchi Y, Handa H, Gilmour DS.

Nucleic Acids Res. 2005 Mar 1;33(4):1269-79. Print 2005.


GAGA factor and the TFIID complex collaborate in generating an open chromatin structure at the Drosophila melanogaster hsp26 promoter.

Leibovitch BA, Lu Q, Benjamin LR, Liu Y, Gilmour DS, Elgin SC.

Mol Cell Biol. 2002 Sep;22(17):6148-57.


Genome-wide analysis of protein-DNA interactions in living cells.

Pugh BF, Gilmour DS.

Genome Biol. 2001;2(4):REVIEWS1013. Epub 2001 Apr 4. Review.


Analysis of core promoter sequences located downstream from the TATA element in the hsp70 promoter from Drosophila melanogaster.

Wu CH, Madabusi L, Nishioka H, Emanuel P, Sypes M, Arkhipova I, Gilmour DS.

Mol Cell Biol. 2001 Mar;21(5):1593-602.


Heterochromatic silencing of Drosophila heat shock genes acts at the level of promoter potentiation.

Cryderman DE, Tang H, Bell C, Gilmour DS, Wallrath LL.

Nucleic Acids Res. 1999 Aug 15;27(16):3364-70.


Analysis of Drosophila chromatin structure in vivo.

Cartwright IL, Cryderman DE, Gilmour DS, Pile LA, Wallrath LL, Weber JA, Elgin SC.

Methods Enzymol. 1999;304:462-96. No abstract available.


Insensitivity of the present hsp26 chromatin structure to a TATA box mutation in Drosophila.

Lu Q, Wallrath LL, Emanuel PA, Elgin SC, Gilmour DS.

J Biol Chem. 1994 Jun 3;269(22):15906-11.


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