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Publications

2014

Chen T, Dent SYR. Chromatin modifiers and remodellers: regulators of cellular differentiation. Nat Rev Genet 15(2):93-106, 2014.

2013

Chen K, Wilson MA, Hirsch C, Watson A, Liang S, Lu Y, Li W, Dent SY. Stabilization of the promoter nucleosomes in nucleosome free regions by the yeast Cyc8-Tup1 corepressor. Genome Res 23(2):312-22, 2013. 

Polak U, McIvor E, Dent SY, Wells RD, Napierala M. Expanded complexity of unstable repeat diseases. Biofactors 39(2):164-75, 2013.

Butler JS, Dent SY. The role of chromatin modifiers in normal and malignant hematopoiesis. Blood 121(16):3076-84, 2013.

Ravnskjaer K, Hogan MF, Lackey D, Tora L, Dent SY, Olefsky J, Montminy M. Glucagon regulates gluconeogenesis through KAT2B- and WDR5-mediated epigenetic effects. J Clin Invest 123(10):4318-28, 2013.

Chen K, Xi Y, Pan X, Li Z, Kaestner K, Tyler J, Dent S, He X, Li W. DANPOS: Dynamic analysis of nucleosome position and occupancy by sequencing. Genome Res 23(2):341-51, 2013.

Johnson DG, Dent SY. Chromatin: Receiver and quarterback for cellular signals. Cell 152(4):685-9, 2013.

Dent SY, Chandra J. The lasting influence of LSD1 in the blood. Elife 2:e00963, 2013.

2012

Chen YC, Gatchel JR, Lewis RW, Mao CA, Grant PA, Zoghbi HY, Dent SY. Gcn5 loss-of-function accelerates cerebellar and retinal degeneration in a SCA7 mouse model. Hum Mol Genet 21(2):394-405, 2012.

McCullough SD, Xu X, Dent SY, Bekiranov S, Roeder RG, Grant PA. Reelin is a target of polyglutamine expanded ataxin-7 in human SCA7 astrocytes. Proc Natl Acad Sci USA 109(52):21319-24, 2012.

Martinez-Cerdeno V, Lemen JM, Chan V, Wey A, Lin W, Dent SR, Knoepfler PS. N-Myc and GCN5 regulate significantly overlapping transcriptional programs in neural stem cells. PLoS One 7(6):e39456, 2012.

Polak U, Hirsch C, Ku S, Gottesfeld J, Dent SY, Napierala M. Selecting and isolating colonies of human induced pluripotent stem cells reprogrammed from adult fibroblasts. J Vis Exp 20(60), 2012.

Butler JS, Dent SY. Chromatin 'resetting' during transcription elongation: a central role for methylated H3K36. Nat Struct Mol Biol 19(9):863-4, 2012.

Butler JS, Koutelou E, Schibler AC, Dent SY. Histone-modifying enzymes: regulators of developmental decisions and drivers of human disease. Epigenomics 4(2):163-77, 2012.

 2011

Atanassov BS, Dent SY. USP22 regulates cell proliferation by deubiquitinating the transcriptional regulator FBP1. EMBO Rep 12(9):924-30, 2011.

Atanassov BS, Koutelou E, Dent SY. The role of deubiquitinating enzymes in chromatin regulation. FEBS Lett 585(13):2016-23, 2011.

Butler JS, Zurita-Lopez CI, Clarke SG, Bedford MT, Dent SY. Protein-arginine methyltransferase 1 (PRMT1) methylates Ash2L, a shared component of mammalian histone H3K4 methyltransferase complexes. J Biol Chem 286(14):12234-44, 2011.

Jin Q, Yu LR, Wang L, Zhang Z, Kasper LH, Lee JE, Wang C, Brindle PK, Dent SY, Ge K. Distinct roles of GCN5/PCAF-mediated H3K9ac and CBP/p300-mediated H3K18/27ac in nuclear receptor transactivation. EMBO J 30(2):249-62, 2011.

Kim E, Napierala M, Dent SY. Hyperexpansion of GAA repeats affects post-initiation steps of FXN transcription in Friedreich's ataxia. Nucleic Acids Res 39(19):1-12, 2011.

Latham JA, Chosed RJ, Wang S, Dent SY. Chromatin Signaling to Kinetochores: Transregulation of Dam1 Methylation by Histone H2B Ubiquitination. Cell 146(5):709-19, 2011.

Wilson MA, Koutelou E, Hirsch C, Akdemir K, Schibler A, Barton MC, Dent SY. Ubp8 and SAGA Regulate Snf1 AMP Kinase Activity. Mol Cell Biol 31(15):3126-35, 2011. 

Xu CR, Cole PA, Meyers DJ, Kormish J, Dent S, Zaret KS. Chromatin "prepattern" and histone modifiers in a fate choice for liver and pancreas. Science 332(6032):963-6, 2011.

2010

Koutelou E, Hirsch CL, Dent SY. Multiple faces of the SAGA complex. Curr Opin Cell Biol 22(3):374-82, 2010.

Lin Y, Dent SY, Wilson JH, Wells RD, Napierala M. R loops stimulate genetic instability of CTG.CAG repeats. Proc Natl Acad Sci U S A. 107(2):692-7, 2010.

Sinha KM, Yasuda H, Coombes MM, Dent SY, de Crombrugghe B. Regulation of the osteoblast-specific transcription factor Osterix by NO66, a Jumonji family histone demethylase. EMBO J 29(1):68-79, 2010.

2009

Latham JA, Dent SYR. The H2BK123Rgument. JCB 186(3):313-315, 2010.

Atanassov BS, Evrard YA, Multani AS, Zhang Z, Tora L, Devys D, Chang S, Dent, SYR. Gcn5 and SAGA regulate shelterin protein turnover and telomere maintenance. Mol Cell 14 35(3):352-64, 2009.

Loyola A, Tagami H, Bonaldi T, Roche D, Quivy JP, Imhof A, Nakatani Y, Dent SYR, Almouzni G. The HP1α-CAF1-SetDB1-containing complex provides H3K9me1 for Suv39-mediated K9me3 in pericentric heterochromatin. EMBO Reports 10(7):769-75, 2009.

2008

Lin W, Zhang Z, Chen C-H, Behringer RR, Dent SYR. Proper Gcn5 histone acetyltransferase expression is required for proper anteroposterior patterning of the mouse skeleton. Dev Growth and Diff 50(5):321-30, 2008.

Lin W, Zhang Z, Srajer G, Chen YC, Huang M, Phan HM, Dent SYR. Proper expression of the Gcn5 histone acetyltransferase is required for neural tube closure in mouse embryos. Dev Dyn 10;237(4)928-40, 2008.

Riefler GM, Dent SYR, Schumacher JM. Tousled-mediated activation of the Aurora B kinase does not require touseled kinase activity in vivo. J Biol Chem 383(19):12763-8, 2008.

Soragni E, Herman D, Dent SY, Gottesfeld JM, Wells RD, Napierala M. Long intronic GAA*TTC repeats induce epigenetic changes and reporter gene silencing in a molecular model of Friedreich ataxia. Nuc Acid Res 36(19) 6056-65, 2008.

2007

Allis CD, Berger SL, Cote J, Dent S, Jenuwien T, Kouzarides T, Pillus L, Reinberg D, Shi Y, Shiekhatter R, Shilatifard A, Workman J, Zhang Y. New nomenclature for chromatin-modifying enzymes. Cell 131:633-6, 2007.

Bu P, Evrard YA, Lozano G, Dent SYR. Loss of Gcn5 acetyltransferase activity leads to neural tube closure defects and exencephaly in mouse embryos. Mol Cell Biol. 27(9):3405-16, 2007.

Chosed R, Dent SYR. A two-way street: LSD1 regulates chromatin boundary formation in S. pombe and Drosophila. Mol Cell  26(2):160-2. Review, 2007.

Latham JA, Dent SYR. Cross-regulation of histone modifications. Nat Struct Mol Biol 14(11):1017-1024, 2007.

Lin W, Srajer G, Evrard YA, Phan HM, Furuta Y, Dent SYR. Developmental potential of Gcn5(-/-) embryonic stem cells in vivo and in vitro. Dev Dyn 236(6):1547-57, 2007.

Zhang X, Yuan Z, Zhang Y, Yong S, Salas-Burgos A, Koomen J, Olashaw N, Parsons JT, Yang X-J, Dent SYR, Yao T-P, Lane WS, Seto E. HDAC6 modulates cell motility by altering the acetylation level of cortactin. Mol Cell  26:197-213, 2007.

2006

Davie JK, Dent SYR. No Spt6, no nucleosomes, no activator required. Mol Cell  21(4)452-3, 2006.

Lin W, Dent SYR. Functions of histone-modifying enzymes in development. Curr Opin Genet Dev 16(2):137-42, 2006.

Malavé TM, Dent SYR. Transcriptional repression by Tup1-Ssn6. Biochem Cell Biol. 84(4):437-43. Review, 2006.

Tripic T, Edmondson DG, Davie JK, Strahl BD, Dent SYR. The Set2 methyltransferase associates with Ssn6 yet Tup1-Ssn6 repression is independent of histone methylation. Biochem Biophys Res Commun 339(3):905-14, 2006.

2005

Phan HM, Xu AW, Coco C, Srajer G, Wyszomierski S, Evrard YA, Eckner R, Dent SYR. GCN5 and p300 share essential functions during early embryogenesis. Dev Dyn 233(4):1337-47, 2005.

Zhang K, Dent SYR. Histone modifying enzymes and cancer: going beyond histones. J Cell Biochem. 96(6):1137-48. Review, 2005. 

Zhang K, Lin W, Latham JA, Riefler GM, Schumacher JM, Chan C, Tatchell K, Hawke DH, Kobayashi R, Dent SYR. The Set1 methyltransferase opposes Ipl1 aurora kinase functions in chromosome segregation. Cell 122(5):723-34, 2005.

Earlier Publications

Davie JK, Dent SYR. Histone modification in corepressor functions. Cur Top Dev Biol 59:145-63, 2004.

Yu Y, Fujii S, Yuan J, Luo RZ, Wang L, Bao J, Kadota M, Oshimura M, Dent SR, Issa JP, Bast RC. Epigenetic regulation of ARHI in breast and ovarian cancer cells. Ann N Y Acad Sci 983:268-77, 2003.

Coombes MM, Briggs KL, Bone JR, Clayman GL, El-Naggar AK, Dent SYR. Resetting the histone code at CDKN2A in HNSCC by inhibition of DNA methylation. Oncogene 22(55):8902-11, 2003.

Fujii S, Luo RZ, Yuan J, Kadota M, Oshimura M, Dent SYR, Kondo Y, Issa J-P J, Bast RC, Yu Y. Reactivation of the silenced and imprinted alleles of ARH1 is associated with increased H3 acetylation and decreased H3 lysine 9 methylation. Hum Mol Gene 12:1791-1800, 2003.

Davie JK, Edmondson DG, Coco CB, Dent SY. Tup1-Ssn6 interacts with multiple class I histone deacetylases in vivo. J Biol Chem 278(50):50158-62, 2003. Oligo information for this publication (pdf)

Liu X, Tesfai J, Evrard YA, Dent SY, Martinez E. c-Myc transformation domain recruits the human STAGA complex and requires TRRAP and GCN5 acetylase activity for transcription activation. J Biol Chem 278(22):20405-12, 2003.

Mukai Y, Davie JK, Dent SY. Physical and functional interaction of the yeast corepressor Tup1 with mRNA 5'-triphosphatase. J Biol Chem 278(21):18895-901, 2003. 

Davie JK, Trumbly RJ, Dent SY. Histone-dependent association of Tup1-Ssn6 with repressed genes in vivo. Mol Cell Biol 22(3):693-703, 2002.

Edmondson DG, Davie JK, Zhou J, Mirnikjoo B, Tatchell K, Dent SY. Site-specific loss of acetylation upon phosphorylation of histone H3. J Biol Chem 277(33):29496-502, 2002.

Davie JK, Dent SY. Transcriptional control: an activating role for arginine methylation. Curr Biol 12(2):R59-61, 2002.

Bone JR, Roth SY. Recruitment of the yeast Tup1p-Ssn6p repressor is associated with localized decreases in histone acetylation. J Biol Chem 276:1808-13, 2001.

Briggs SD, Bryk M, Strahl BD, Cheung WL, Davie JK, Dent SY, Winston F, Allis CD. Histone H3 lysine 4 methylation is mediated by Set1 and required for cell growth and rDNA silencing in Saccharomyces cerevisiae. Genes Dev 15:3286-95, 2001.

Roth SY, Denu JM, Allis CD. Histone acetyltransferases. Annu Rev Biochem 70:81-120, 2001.

Wu, W-S, Vallian, S, Seto, E, Yang, W-M, Edmondson, DG, Roth, SY, Chang K-S. The growth suppressor PML represses transcription by functionally and physically interacting with histone deacetylases. Mol. Cell. Biol. 21:2259-2268, 2001.

Marmorstein R, Roth SY. Histone acetyltransferases: function, structure, and catalysis. Curr Opin Genet Dev 11:155-61, 2001.

Bone JR, Roth SY. Corepressor proteins and control of transcription in yeast. Curr Top Microbiol Immunol 254:59-78, 2001.

Xu W, Edmondson DG, Evrard YA, Wakamiya M, Behringer RR, Roth SY. Loss of Gcn5l2 leads to increased apoptosis and mesodermal defects during mouse development. Nat Genet 26:229-32, 2000.

Watson AD, Edmondson DG, Bone JR, Mukai Y, Yu Y, Du W, Stillman DJ, Roth SY. Ssn6-Tup1 interacts with class I histone deacetylases required for repression. Genes Dev 14:2737-44, 2000.

Roth DB, Roth SY. Unequal access: regulating V(D)J recombination through chromatin remodeling. Cell 103:699-702, 2000.

Mukai Y, Matsuo E, Roth SY, Harashima S. Conservation of histone binding and transcriptional repressor functions in a Schizosaccharomyces pombe Tup1p homolog. Mol Cell Biol 19:8461-8, 1999

Zhang W, Bone JR, Edmondson DG, Turner BM, Roth SY. Essential and redundant functions of histone acetylation revealed by mutation of target lysines and loss of the Gcn5p acetyltransferase. Embo J 17:3155-67, 1998.

Edmondson DG, Roth SY. Interactions of transcriptional regulators with histones. Methods 15:355-64, 1998.

Xu W, Edmondson DG, Roth SY. Mammalian GCN5 and P/CAF acetyltransferases have homologous amino-terminal domains important for recognition of nucleosomal substrates. Mol Cell Biol 18:5659-69, 1998.

Edmondson DG, Zhang W, Watson A, Xu W, Bone JR, Yu Y, Stillman D, Roth SY. In vivo functions of histone acetylation/deacetylation in Tup1p repression and Gcn5p activation. Cold Spring Harb Symp Quant Biol 63:459-68, 1998.

Macatee T, Jiang YW, Stillman DJ, Roth SY. Global alterations in chromatin accessibility associated with loss of SIN4 function. Nucleic Acids Res 25:1240-7, 1997.

Huang L, Zhang W, Roth SY. Amino termini of histones H3 and H4 are required for a1-alpha2 repression in yeast. Mol Cell Biol 17:6555-62, 11/1997.

Brownell JE, Zhou J, Ranalli T, Kobayashi R, Edmondson DG, Roth SY, Allis CD. Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation. Cell 84:843-51, 1996.

Edmondson DG, Smith MM, Roth SY. Repression domain of the yeast global repressor Tup1 interacts directly with histones H3 and H4. Genes Dev 10:1247-59, 1996.

Kuo MH, Brownell JE, Sobel RE, Ranalli TA, Cook RG, Edmondson DG, Roth SY, Allis CD. Transcription-linked acetylation by Gcn5p of histones H3 and H4 at specific lysines. Nature 383:269-72, 1996.

Edmondson DG, Roth SY. Chromatin and transcription. Faseb J 10:1173-82, 1996.

Roth SY. Something about silencing. Nat Genet 14:3-4, 1996.

Roth SY, Allis CD. Histone acetylation and chromatin assembly: a single escort, multiple dances? Cell 87:5-8, 1996.

Roth SY, Allis CD. The subunit-exchange model of histone acetylation. Trends Cell Biol 6:371-5, 10/1996.

Roth SY. Chromatin-mediated transcriptional repression in yeast. Curr Opin Genet Dev 5:168-73, 4/1995.

Cooper JP, Roth SY, Simpson RT. The global transcriptional regulators, SSN6 and TUP1, play distinct roles in the establishment of a repressive chromatin structure. Genes Dev 8:1400-10, 1994.

Murphy MR, Shimizu M, Roth SY, Dranginis AM, Simpson RT. DNA-protein interactions at the S.cerevisiae alpha 2 operator in vivo. Nucleic Acids Res 21:3295-300, 1993.

Simpson RT, Roth SY, Morse RH, Patterton HG, Cooper JP, Murphy M, Kladde MP, Shimizu M. Nucleosome positioning and transcription. Cold Spring Harb Symp Quant Biol 58:237-45, 1993.

Roth SY, Shimizu M, Johnson L, Grunstein M, Simpson RT. Stable nucleosome positioning and complete repression by the yeast alpha 2 repressor are disrupted by amino-terminal mutations in histone H4. Genes Dev 6:411-25, 1992.

Roth SY, Allis CD. Chromatin condensation: does histone H1 dephosphorylation play a role? Trends Biochem Sci 17:93-8, 1992.

Morse RH, Roth SY, Simpson RT. A transcriptionally active tRNA gene interferes with nucleosome positioning in vivo. Mol Cell Biol 12:4015-25, 1992.

Roth SY, Collini MP, Draetta G, Beach D, Allis CD. A cdc2-like kinase phosphorylates histone H1 in the amitotic macronucleus of Tetrahymena. Embo J 10:2069-75, 1991.

Shimizu M, Roth SY, Szent-Gyorgyi C, Simpson RT. Nucleosomes are positioned with base pair precision adjacent to the alpha 2 operator in Saccharomyces cerevisiae. Embo J 10:3033-41, 1991.

Roth, SY, Simpson, RT. Yeast minichromosomes. Meth. Cell Biol. 35:289-314, 1991.

Roth SY, Dean A, Simpson RT. Yeast alpha 2 repressor positions nucleosomes in TRP1/ARS1 chromatin. Mol Cell Biol 10:2247-60, 1990.

Roth SY, Schulman IG, Richman R, Cook RG, Allis CD. Characterization of phosphorylation sites in histone H1 in the amitotic macronucleus of Tetrahymena during different physiological states. J Cell Biol 107:2473-82, 1988.

Nickel BE, Roth SY, Cook RG, Allis CD, Davie JR. Changes in the histone H2A variant H2A.Z and polyubiquitinated histone species in developing trout testis. Biochemistry 26:4417-21, 1987.

Roth SY, Schulman IG, Cook RG, Allis CD. The complete amino acid sequence of an HMG-like protein isolated from the macronucleus of Tetrahymena. Nucleic Acids Res 15:8112, 1987.

Yoder SS, Berget SM. Role of adenovirus type 2 early region 4 in the early-to-late switch during productive infection. J Virol 60:779-81, 1986.

Yoder SS, Berget SM. Posttranscriptional control of DHFR gene expression during adenovirus 2 infection. J Virol 54:72-7, 4/1985.

Yoder SS, Robberson BL, Leys EJ, Hook AG, Al-Ubaidi M, Yeung CY, Kellems RE, Berget SM. Control of cellular gene expression during adenovirus infection: induction and shut-off of dihydrofolate reductase gene expression by adenovirus type 2. Mol Cell Biol 3:819-28, 1983.

Jacobson MK, Barton RA, Yoder SS, Sigh S, Lyle RE. Mutagenicity of the non-carcinogenic dibenzylnitrosamine and an alpha-acetoxy derivative. Cancer Lett 6:83-7, 1979.


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