Bibliography
Carrozza, M. J., Li, B., Florens, L., Suganuma, T., Swanson, S. K., Lee, K. K., Shia, W.-J., Anderson, S., Yates, J., Washburn, M. P., & Workman, J. L. (2005). Histone H3 Methylation by Set2 Directs Deacetylation of Coding Regions by Rpd3S to Suppress Spurious Intragenic Transcription. Cell, 123(4), 581â592.
Authors
11
- Michael J. Carrozza (first)
- Bing Li (additional)
- Laurence Florens (additional)
- Tamaki Suganuma (additional)
- Selene K. Swanson (additional)
- Kenneth K. Lee (additional)
- Wei-Jong Shia (additional)
- Scott Anderson (additional)
- John Yates (additional)
- Michael P. Washburn (additional)
- Jerry L. Workman (additional)
References
68
Referenced
1,121
10.1038/35065138
/ Nature / Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain by Bannister (2001)10.1126/science.1085703
/ Science / FACT facilitates transcription-dependent nucleosome alteration by Belotserkovskaya (2003)10.1128/MCB.19.2.1479
/ Mol. Cell. Biol. / Identification of a gene that reverses the immortal phenotype of a subset of cells and is a member of a novel family of transcription factor-like genes by Bertram (1999)10.1126/science.272.5267.1473
/ Science / Evidence that Spt6p controls chromatin structure by a direct interaction with histones by Bortvin (1996)10.1038/nature00970
/ Nature / Gene silencing: trans-histone regulatory pathway in chromatin by Briggs (2002)-
Carrozza, M.J., Florens, L., Swanson, S.K., Shia, W.-J., Anderson, S., Yates, J., Washburn, M.P., and Workman, J.L. (2005). Stable incorporation of sequence specific repressors Ash1 and Ume6 into the Rpd3L complex. BBA — Gene Structure and Expression. in press.
(
10.1016/j.bbaexp.2005.09.005
) 10.1038/nature02258
/ Nature / The MAPK Hog1 recruits Rpd3 histone deacetylase to activate osmoresponsive genes by De Nadal (2004)10.1074/jbc.M008159200
/ J. Biol. Chem. / The yeast NuA4 and Drosophila MSL complexes contain homologous subunits important for transcription regulation by Eisen (2001)10.1016/1044-0305(94)80016-2
/ J. Am. Soc. Mass Spectrom. / An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database by Eng (1994)10.1038/415141a
/ Nature / Functional organization of the yeast proteome by systematic analysis of protein complexes by Gavin (2002){'key': '10.1016/j.cell.2005.10.023_bib11', 'series-title': 'Guide to yeast genetics and molecular biology', 'author': 'Guthrie', 'year': '1991'}
/ Guide to yeast genetics and molecular biology by Guthrie (1991)10.1016/S0076-6879(99)04024-0
/ Methods Enzymol. / Mapping DNA interaction sites of chromosomal proteins using immunoprecipitation and polymerase chain reaction by Hecht (1999)10.1038/415180a
/ Nature / Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry by Ho (2002)10.1016/S0092-8674(00)80217-2
/ Cell / Repression by Ume6 involves recruitment of a complex containing Sin3 corepressor and Rpd3 histone deacetylase to target promoters by Kadosh (1997)10.1128/MCB.18.9.5121
/ Mol. Cell. Biol. / Targeted recruitment of the Sin3-Rpd3 histone deacetylase complex generates a highly localized domain of repressed chromatin in vivo by Kadosh (1998)10.1126/science.1087374
/ Science / Transcription elongation factors repress transcription initiation from cryptic sites by Kaplan (2003)10.1128/MCB.17.8.4852
/ Mol. Cell. Biol. / A large protein complex containing the yeast Sin3p and Rpd3p transcriptional regulators by Kasten (1997)10.1128/MCB.25.8.3305-3316.2005
/ Mol. Cell. Biol. / A novel domain in Set2 mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation by Kizer (2005)10.1038/sj.emboj.7600433
/ EMBO J. / Evidence for distinct mechanisms facilitating transcript elongation through chromatin in vivo by Kristjuhan (2004)10.1016/S1097-2765(02)00647-0
/ Mol. Cell / Transcriptional inhibition of genes with severe histone h3 hypoacetylation in the coding region by Kristjuhan (2002)10.1074/jbc.C200023200
/ J. Biol. Chem. / COMPASS, a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression by Krogan (2002)10.1016/S1097-2765(03)00091-1
/ Mol. Cell / The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation by Krogan (2003)10.1128/MCB.23.12.4207-4218.2003
/ Mol. Cell. Biol. / Methylation of histone H3 by Set2 in Saccharomyces cerevisiae is linked to transcriptional elongation by RNA polymerase II by Krogan (2003)10.1038/nrm1075
/ Nat. Rev. Mol. Cell Biol. / Histone acetylation and deacetylation in yeast by Kurdistani (2003)10.1038/ng907
/ Nat. Genet. / Genome-wide binding map of the histone deacetylase Rpd3 in yeast by Kurdistani (2002)10.1126/science.1103455
/ Science / Acetylation by Tip60 is required for selective histone variant exchange at DNA lesions by Kusch (2004)10.1038/35065132
/ Nature / Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins by Lachner (2001)10.1074/jbc.M005730200
/ J. Biol. Chem. / Sds3 (suppressor of defective silencing 3) is an integral component of the yeast Sin3[middle dot]Rpd3 histone deacetylase complex and is required for histone deacetylase activity by Lechner (2000)10.1074/jbc.M212134200
/ J. Biol. Chem. / The Set2 histone methyltransferase functions through the phosphorylated carboxyl-terminal domain of RNA polymerase II by Li (2003)10.1074/jbc.M104220200
/ J. Biol. Chem. / Ssn6-Tup1 regulates RNR3 by positioning nucleosomes and affecting the chromatin structure at the upstream repression sequence by Li (2001)10.1021/ac0498563
/ Anal. Chem. / A model for random sampling and estimation of relative protein abundance in shotgun proteomics by Liu (2004)10.1074/jbc.M102176200
/ J. Biol. Chem. / Pho23 is associated with the Rpd3 histone deacetylase and is required for its normal function in regulation of gene expression and silencing in Saccharomyces cerevisiae by Loewith (2001)10.1128/MCB.23.22.8323-8333.2003
/ Mol. Cell. Biol. / The FACT complex travels with elongating RNA polymerase II and is important for the fidelity of transcriptional initiation in vivo by Mason (2003)10.1016/S1387-3806(02)00563-8
/ Int. J. Mass Spectrom. / Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: single-dimension LCMS/MS, 2-phase MudPIT, and 3-phase MudPIT by McDonald (2002)10.1016/j.molcel.2005.05.009
/ Mol. Cell / Dynamic lysine methylation on histone H3 defines the regulatory phase of gene transcription by Morillon (2005)10.1073/pnas.221596698
/ Proc. Natl. Acad. Sci. USA / A trithorax-group complex purified from Saccharomyces cerevisiae is required for methylation of histone H3 by Nagy (2002)10.1016/S1097-2765(03)00092-3
/ Mol. Cell / Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity by Ng (2003)10.1074/jbc.C200433200
/ J. Biol. Chem. / Ubiquitination of histone H2B by Rad6 is required for efficient Dot1-mediated methylation of histone H3 lysine 79 by Ng (2002)10.1016/j.cell.2005.06.026
/ Cell / Genome-wide map of nucleosome acetylation and methylation in yeast by Pokholok (2005)10.1038/nature03242
/ Nature / Chd1 chromodomain links histone H3 methylation with SAGA- and SLIK-dependent acetylation by Pray-Grant (2005)10.1006/meth.2001.1183
/ Methods / The tandem affinity purification (TAP) method: a general procedure of protein complex purification by Puig (2001)10.1074/jbc.M313463200
/ J. Biol. Chem. / Cti6 is an Rpd3-Sin3 histone deacetylase-associated protein required for growth under iron-limiting conditions in Saccharomyces cerevisiae by Puig (2004)10.1016/S1097-2765(02)00526-9
/ Mol. Cell / HIRA is critical for a nucleosome assembly pathway independent of DNA synthesis by Ray-Gallet (2002)10.1128/MCB.24.2.757-764.2004
/ Mol. Cell. Biol. / Eaf3 regulates the global pattern of histone acetylation in Saccharomyces cerevisiae by Reid (2004)10.1016/S0092-8674(02)00746-8
/ Cell / Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases by Robyr (2002)10.1093/emboj/20.24.7137
/ EMBO J. / The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4 by Roguev (2001)10.1073/pnas.93.25.14503
/ Proc. Natl. Acad. Sci. USA / HDA1 and RPD3 are members of distinct yeast histone deacetylase complexes that regulate silencing and transcription by Rundlett (1996)10.1038/33952
/ Nature / Transcriptional repression by UME6 involves deacetylation of lysine 5 of histone H4 by RPD3 by Rundlett (1998)10.1021/pr015514r
/ J. Proteome Res. / Code developments to improve the efficiency of automated MS/MS spectra interpretation by Sadygov (2002)10.1126/science.1085712
/ Science / Tracking FACT and the RNA polymerase II elongation complex through chromatin in vivo by Saunders (2003)10.1093/nar/gkg372
/ Nucleic Acids Res. / The histone 3 lysine 36 methyltransferase, SET2, is involved in transcriptional elongation by Schaft (2003)10.1101/gad.1259805
/ Genes Dev. / Transcriptional activation triggers deposition and removal of the histone variant H3.3 by Schwartz (2005)10.1073/pnas.2036296100
/ Proc. Natl. Acad. Sci. USA / Chromosomal site-specific double-strand breaks are efficiently targeted for repair by oligonucleotides in yeast by Storici (2003)10.1038/nature00883
/ Nature / Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast by Sun (2002)10.1021/pr015504q
/ J. Proteome Res. / DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics by Tabb (2002)10.1016/S0092-8674(03)01064-X
/ Cell / Histone H3.1 and H3.3 complexes mediate nucleosome assembly pathways dependent or independent of DNA synthesis by Tagami (2004)10.1128/MCB.25.8.2924-2937.2005
/ Mol. Cell. Biol. / MRG15 regulates embryonic development and cell proliferation by Tominaga (2005)10.1016/S0092-8674(00)81326-4
/ Cell / Nucleosome assembly by a complex of CAF-1 and acetylated histones H3/H4 by Verreault (1996)10.1128/MCB.11.12.6317
/ Mol. Cell. Biol. / RPD3 encodes a second factor required to achieve maximum positive and negative transcriptional states in Saccharomyces cerevisiae by Vidal (1991)10.1038/35044127
/ Nature / Global histone acetylation and deacetylation in yeast by Vogelauer (2000)10.1038/85686
/ Nat. Biotechnol. / Large-scale analysis of the yeast proteome by multidimensional protein identification technology by Washburn (2001)10.1016/S1097-2765(00)80194-X
/ Mol. Cell / A novel histone acetyltransferase is an integral subunit of elongating RNA polymerase II holoenzyme by Wittschieben (1999)10.1021/ac010617e
/ Anal. Chem. / An automated multidimensional protein identification technology for shotgun proteomics by Wolters (2001)10.1074/jbc.C300269200
/ J. Biol. Chem. / The Paf1 complex is essential for histone monoubiquitination by the Rad6-Bre1 complex, which signals for histone methylation by COMPASS and Dot1p by Wood (2003)10.1128/MCB.22.15.5367-5379.2002
/ Mol. Cell. Biol. / Analysis of Spt7 function in the Saccharomyces cerevisiae SAGA coactivator complex by Wu (2002)10.1101/gad.1055503
/ Genes Dev. / Phosphorylation of RNA polymerase II CTD regulates H3 methylation in yeast by Xiao (2003)10.1128/MCB.22.22.7868-7876.2002
/ Mol. Cell. Biol. / Role for the mortality factors MORF4, MRGX, and MRG15 in transcriptional repression via associations with Pf1, mSin3A, and Transducin-Like Enhancer of Split by Yochum (2002)10.1016/S1097-2765(00)80102-1
/ Mol. Cell / SAP30, a novel protein conserved between human and yeast, is a component of a histone deacetylase complex by Zhang (1998)
Dates
Type | When |
---|---|
Created | 19 years, 9 months ago (Nov. 18, 2005, 2:15 a.m.) |
Deposited | 6 years, 7 months ago (Jan. 20, 2019, 1:21 p.m.) |
Indexed | 4 hours, 23 minutes ago (Aug. 25, 2025, 2:23 a.m.) |
Issued | 19 years, 9 months ago (Nov. 1, 2005) |
Published | 19 years, 9 months ago (Nov. 1, 2005) |
Published Print | 19 years, 9 months ago (Nov. 1, 2005) |
@article{Carrozza_2005, title={Histone H3 Methylation by Set2 Directs Deacetylation of Coding Regions by Rpd3S to Suppress Spurious Intragenic Transcription}, volume={123}, ISSN={0092-8674}, url={http://dx.doi.org/10.1016/j.cell.2005.10.023}, DOI={10.1016/j.cell.2005.10.023}, number={4}, journal={Cell}, publisher={Elsevier BV}, author={Carrozza, Michael J. and Li, Bing and Florens, Laurence and Suganuma, Tamaki and Swanson, Selene K. and Lee, Kenneth K. and Shia, Wei-Jong and Anderson, Scott and Yates, John and Washburn, Michael P. and Workman, Jerry L.}, year={2005}, month=nov, pages={581–592} }