-
1
-
-
33750364981
-
Role of the transcription activator Ste12p as a repressor of PRY3 expression
-
Bickel KS, Morris DR. 2006. Role of the transcription activator Ste12p as a repressor of PRY3 expression. Mol Cell Biol 26: 7901-7912.
-
(2006)
Mol Cell Biol
, vol.26
, pp. 7901-7912
-
-
Bickel, K.S.1
Morris, D.R.2
-
2
-
-
0037316303
-
A compar- ison of normalization methods for high density oligonucleo- tide array data based on variance and bias
-
Bolstad BM, Irizarry RA, Astrand M, Speed TP. 2003. A compar- ison of normalization methods for high density oligonucleo- tide array data based on variance and bias. Bioinformatics 19: 185-193.
-
(2003)
Bioinformatics
, vol.19
, pp. 185-193
-
-
Bolstad, B.M.1
Irizarry, R.A.2
Astrand, M.3
Speed, T.P.4
-
3
-
-
27744577727
-
Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription
-
Carrozza MJ, Li B, Florens L, Suganuma T, Swanson SK, Lee KK, Shia WJ, Anderson S, Yates J, Washburn MP, et al. 2005. Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription. Cell 123: 581-592.
-
(2005)
Cell
, vol.123
, pp. 581-592
-
-
Carrozza, M.J.1
Li, B.2
Florens, L.3
Suganuma, T.4
Swanson, S.K.5
Lee, K.K.6
Shia, W.J.7
Anderson, S.8
Yates, J.9
Washburn, M.P.10
-
4
-
-
56849114880
-
Chromatin- and transcription- related factors repress transcription from within coding regions throughout the saccharomyces cerevisiae genome
-
10.1371/journal.pbio.0060277
-
Cheung V, Chua G, Batada NN, Landry CR, Michnick SW, Hughes TR, Winston F. 2008. Chromatin- and transcription- related factors repress transcription from within coding regions throughout the saccharomyces cerevisiae genome. PLoS Biol 6: e277. doi: 10.1371/journal.pbio.0060277.
-
(2008)
PLoS Biol
, vol.e277
, pp. 6
-
-
Cheung, V.1
Chua, G.2
Batada, N.N.3
Landry, C.R.4
Michnick, S.W.5
Hughes, T.R.6
Winston, F.7
-
5
-
-
0028047336
-
Purified yeast RNA polymerase II reads through intrinsic blocks to elongation in response to the yeast TFIIS analogue, P37
-
Christie KR, Awrey DE, Edwards AM, Kane CM. 1994. Purified yeast RNA polymerase II reads through intrinsic blocks to elongation in response to the yeast TFIIS analogue, P37. J Biol Chem 269: 936-943.
-
(1994)
J Biol Chem
, vol.269
, pp. 936-943
-
-
Christie, K.R.1
Awrey, D.E.2
Edwards, A.M.3
Kane, C.M.4
-
6
-
-
36248965214
-
Regulation of histone modification and cryptic transcription by the Bur1 and Paf1 complexes
-
Chu Y, Simic R, Warner MH, Arndt KM, Prelich G. 2007. Regulation of histone modification and cryptic transcription by the Bur1 and Paf1 complexes. EMBO J 26: 4646-4656.
-
(2007)
EMBO J
, vol.26
, pp. 4646-4656
-
-
Chu, Y.1
Simic, R.2
Warner, M.H.3
Arndt, K.M.4
Prelich, G.5
-
7
-
-
67650725820
-
The biology of chromatin remodeling complexes
-
Clapier CR, Cairns BR. 2009. The biology of chromatin remodeling complexes. Annu Rev Biochem 78: 273-304.
-
(2009)
Annu Rev Biochem
, vol.78
, pp. 273-304
-
-
Clapier, C.R.1
Cairns, B.R.2
-
8
-
-
51549087123
-
Probing nucleosome function: A highly versatile library of synthetic histone H3 and H4 mutants
-
Dai J, Hyland EM, Yuan DS, Huang H, Bader JS, Boeke JD. 2008. Probing nucleosome function: a highly versatile library of synthetic histone H3 and H4 mutants. Cell 134: 1066-1078.
-
(2008)
Cell
, vol.134
, pp. 1066-1078
-
-
Dai, J.1
Hyland, E.M.2
Yuan, D.S.3
Huang, H.4
Bader, J.S.5
Boeke, J.D.6
-
9
-
-
0025860626
-
A simplified formaldehyde fixation and immunoprecipitation technique for studying protein-DNA interactions
-
Dedon PC, Soults JA, Allis CD, Gorovsky MA. 1991. A simplified formaldehyde fixation and immunoprecipitation technique for studying protein-DNA interactions. Anal Biochem 197: 83-90.
-
(1991)
Anal Biochem
, vol.197
, pp. 83-90
-
-
Dedon, P.C.1
Soults, J.A.2
Allis, C.D.3
Gorovsky, M.A.4
-
10
-
-
0031473847
-
SWISS-MODEL and the swiss- PdbViewer: An environment for comparative protein model- ing
-
Guex N, Peitsch MC. 1997. SWISS-MODEL and the swiss- PdbViewer: an environment for comparative protein model- ing. Electrophoresis 18: 2714-2723.
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
11
-
-
59649112972
-
High-resolution dynamic mapping of histone- DNA interactions in a nucleosome
-
Hall MA, Shundrovsky A, Bai L, Fulbright RM, Lis JT, Wang MD. 2009. High-resolution dynamic mapping of histone- DNA interactions in a nucleosome. Nat Struct Mol Biol 16: 124-129.
-
(2009)
Nat Struct Mol Biol
, vol.16
, pp. 124-129
-
-
Hall, M.A.1
Shundrovsky, A.2
Bai, L.3
Fulbright, R.M.4
Lis, J.T.5
Wang, M.D.6
-
13
-
-
27644467857
-
Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae
-
Hyland EM, Cosgrove MS, Molina H, Wang D, Pandey A, Cottee RJ, Boeke JD. 2005. Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae. Mol Cell Biol 25: 10060-10070.
-
(2005)
Mol Cell Biol
, vol.25
, pp. 10060-10070
-
-
Hyland, E.M.1
Cosgrove, M.S.2
Molina, H.3
Wang, D.4
Pandey, A.5
Cottee, R.J.6
Boeke, J.D.7
-
14
-
-
0142121516
-
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
-
Irizarry RA, Hobbs B, Collin F, Beazer-Barclay YD, Antonellis KJ, Scherf U, Speed TP. 2003. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249-264.
-
(2003)
Biostatistics
, vol.4
, pp. 249-264
-
-
Irizarry, R.A.1
Hobbs, B.2
Collin, F.3
Beazer-Barclay, Y.D.4
Antonellis, K.J.5
Scherf, U.6
Speed, T.P.7
-
15
-
-
77953277032
-
The Paf1 complex: Platform or player in RNA polymerase II transcription?
-
Jaehning JA. 2010. The Paf1 complex: platform or player in RNA polymerase II transcription? Biochim Biophys Acta 1799: 379-388.
-
(2010)
Biochim Biophys Acta
, vol.1799
, pp. 379-388
-
-
Jaehning, J.A.1
-
16
-
-
29144468972
-
Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to pol II elongation
-
Joshi AA, Struhl K. 2005. Eaf3 chromodomain interaction with methylated H3-K36 links histone deacetylation to pol II elongation. Mol Cell 20: 971-978.
-
(2005)
Mol Cell
, vol.20
, pp. 971-978
-
-
Joshi, A.A.1
Struhl, K.2
-
17
-
-
0041828953
-
Transcription elongation factors repress transcription initiation from cryptic sites
-
Kaplan CD, Laprade L, Winston F. 2003. Transcription elongationfactors repress transcription initiation from cryptic sites. Science 301: 1096-1099.
-
(2003)
Science
, vol.301
, pp. 1096-1099
-
-
Kaplan, C.D.1
Laprade, L.2
Winston, F.3
-
18
-
-
0346888587
-
On parametric empirical bayes methods for comparing multiple groups using replicated gene expression profiles
-
Kendziorski CM, Newton MA, Lan H, Gould MN. 2003. On parametric empirical bayes methods for comparing multiple groups using replicated gene expression profiles. Stat Med 22: 3899-3914.
-
(2003)
Stat Med
, vol.22
, pp. 3899-3914
-
-
Kendziorski, C.M.1
Newton, M.A.2
Lan, H.3
Gould, M.N.4
-
19
-
-
27744587302
-
Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex
-
Keogh MC, Kurdistani SK, Morris SA, Ahn SH, Podolny V, Collins SR, Schuldiner M, Chin K, Punna T, Thompson NJ, et al. 2005. Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell 123: 593- 605.
-
(2005)
Cell
, vol.123
, pp. 593-605
-
-
Keogh, M.C.1
Kurdistani, S.K.2
Morris, S.A.3
Ahn, S.H.4
Podolny, V.5
Collins, S.R.6
Schuldiner, M.7
Chin, K.8
Punna, T.9
Thompson, N.J.10
-
20
-
-
0037524702
-
The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: Linking transcriptional elongation to histone methylation
-
Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, Johnston M, et al. 2003. The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation. Mol Cell 11: 721-729.
-
(2003)
Mol Cell
, vol.11
, pp. 721-729
-
-
Krogan, N.J.1
Dover, J.2
Wood, A.3
Schneider, J.4
Heidt, J.5
Boateng, M.A.6
Dean, K.7
Ryan, O.W.8
Golshani, A.9
Johnston, M.10
-
21
-
-
0028801404
-
Amino acid substitutions in the structured domains of histones H3 and H4 partially relieve the requirement of the yeast SWI/SNF complex for tran- scription
-
Kruger W, Peterson CL, Sil A, Coburn C, Arents G, Moudrianakis EN, Herskowitz I. 1995. Amino acid substitutions in the structured domains of histones H3 and H4 partially relieve the requirement of the yeast SWI/SNF complex for tran- scription. Genes Dev 9: 2770-2779.
-
(1995)
Genes Dev
, vol.9
, pp. 2770-2779
-
-
Kruger, W.1
Peterson, C.L.2
Sil, A.3
Coburn, C.4
Arents, G.5
Moudrianakis, E.N.6
Herskowitz, I.7
-
22
-
-
34147168036
-
Transcription through chromatin by RNA polymerase II: Histone displace- ment and exchange
-
Kulaeva OI, Gaykalova DA, Studitsky VM. 2007. Transcription through chromatin by RNA polymerase II: histone displace- ment and exchange. Mutat Res 618: 116-129.
-
(2007)
Mutat Res
, vol.618
, pp. 116-129
-
-
Kulaeva, O.I.1
Gaykalova, D.A.2
Studitsky, V.M.3
-
23
-
-
0034974850
-
TFIIS enhances transcriptional elon-gation through an artificial arrest site in vivo
-
Kulish D, Struhl K. 2001. TFIIS enhances transcriptional elon-gation through an artificial arrest site in vivo. Mol Cell Biol 21: 4162-4168.
-
(2001)
Mol Cell Biol
, vol.21
, pp. 4162-4168
-
-
Kulish, D.1
Struhl, K.2
-
24
-
-
0030699092
-
Sin mutations of histone H3: Influence on nucleosome core structure and function
-
Kurumizaka H, Wolffe AP. 1997. Sin mutations of histone H3: influence on nucleosome core structure and function. Mol Cell Biol 17: 6953-6969.
-
(1997)
Mol Cell Biol
, vol.17
, pp. 6953-6969
-
-
Kurumizaka, H.1
Wolffe, A.P.2
-
25
-
-
0034733591
-
Rapid and reliable protein extraction from yeast
-
Kushnirov VV. 2000. Rapid and reliable protein extraction from yeast. Yeast 16: 857-860.
-
(2000)
Yeast
, vol.16
, pp. 857-860
-
-
Kushnirov, V.V.1
-
26
-
-
33847070442
-
The role of chromatin during transcription
-
Li B, Carey M, Workman JL. 2007. The role of chromatin during transcription. Cell 128: 707-719.
-
(2007)
Cell
, vol.128
, pp. 707-719
-
-
Li, B.1
Carey, M.2
Workman, J.L.3
-
28
-
-
1842411320
-
Crystal structure of the nucleosome core particle at 2.8 A resolution
-
Luger K, Mader AW, Richmond RK, Sargent DF, Richmond TJ. 1997. Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature 389: 251-260.
-
(1997)
Nature
, vol.389
, pp. 251-260
-
-
Luger, K.1
Mader, A.W.2
Richmond, R.K.3
Sargent, D.F.4
Richmond, T.J.5
-
29
-
-
73549084505
-
Histone h3 exerts a key function in mitotic checkpoint control
-
Luo J, Xu X, Hall H, Hyland EM, Boeke JD, Hazbun T, Kuo MH. 2010. Histone h3 exerts a key function in mitotic checkpoint control. Mol Cell Biol 30: 537-549.
-
(2010)
Mol Cell Biol
, vol.30
, pp. 537-549
-
-
Luo, J.1
Xu, X.2
Hall, H.3
Hyland, E.M.4
Boeke, J.D.5
Hazbun, T.6
Kuo, M.H.7
-
30
-
-
49449118512
-
A comprehen- sive library of histone mutants identifies nucleosomal residues required for H3K4 methylation
-
Nakanishi S, Sanderson BW, Delventhal KM, Bradford WD, Staehling-Hampton K, Shilatifard A. 2008. A comprehen- sive library of histone mutants identifies nucleosomal residues required for H3K4 methylation. Nat Struct Mol Biol 15: 881-888.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 881-888
-
-
Nakanishi, S.1
Sanderson, B.W.2
Delventhal, K.M.3
Bradford, W.D.4
Staehling-Hampton, K.5
Shilatifard, A.6
-
31
-
-
0034923013
-
On differential variability of expression ratios: Improving statistical inference about gene expression changes from microarray data
-
Newton MA, Kendziorski CM, Richmond CS, Blattner FR, Tsui KW. 2001. On differential variability of expression ratios: improving statistical inference about gene expression changes from microarray data. J Comput Biol 8: 37-52.
-
(2001)
J Comput Biol
, vol.8
, pp. 37-52
-
-
Newton, M.A.1
Kendziorski, C.M.2
Richmond, C.S.3
Blattner, F.R.4
Tsui, K.W.5
-
32
-
-
25844513172
-
The Saccharomyces cerevisiae ESU1 gene, which is responsible for enhancement of termination suppression, corresponds to the 39-terminal half of GAL11
-
Ono B, Futase T, Honda W, Yoshida R, Nakano K, Yamamoto T, Nakajima E, Noskov VN, Negishi K, Chen B, et al. 2005. The Saccharomyces cerevisiae ESU1 gene, which is responsible for enhancement of termination suppression, corresponds to the 39-terminal half of GAL11. Yeast 22: 895-906.
-
(2005)
Yeast
, vol.22
, pp. 895-906
-
-
Ono, B.1
Futase, T.2
Honda, W.3
Yoshida, R.4
Nakano, K.5
Yamamoto, T.6
Nakajima, E.7
Noskov, V.N.8
Negishi, K.9
Chen, B.10
-
33
-
-
0036789523
-
A core nucleosome surface crucial for transcriptional silencing
-
Park JH, Cosgrove MS, Youngman E, Wolberger C, Boeke JD. 2002. A core nucleosome surface crucial for transcriptional silencing. Nat Genet 32: 273-279.
-
(2002)
Nat Genet
, vol.32
, pp. 273-279
-
-
Park, J.H.1
Cosgrove, M.S.2
Youngman, E.3
Wolberger, C.4
Boeke, J.D.5
-
34
-
-
0032548846
-
Growth-related changes in phosphorylation of yeast RNA polymerase II
-
Patturajan M, Schulte RJ, Sefton BM, Berezney R, Vincent M, Bensaude O, Warren SL, Corden JL. 1998. Growth-related changes in phosphorylation of yeast RNA polymerase II. J Biol Chem 273: 4689-4694.
-
(1998)
J Biol Chem
, vol.273
, pp. 4689-4694
-
-
Patturajan, M.1
Schulte, R.J.2
Sefton, B.M.3
Berezney, R.4
Vincent, M.5
Bensaude, O.6
Warren, S.L.7
Corden, J.L.8
-
35
-
-
26944435516
-
A posttranscriptional role for the yeast Paf1-RNA polymerase II complex is revealed by identification of pri- mary targets
-
Penheiter KL, Washburn TM, Porter SE, Hoffman MG, Jaehning JA. 2005. A posttranscriptional role for the yeast Paf1-RNA polymerase II complex is revealed by identification of pri- mary targets. Mol Cell 20: 213-223.
-
(2005)
Mol Cell
, vol.20
, pp. 213-223
-
-
Penheiter, K.L.1
Washburn, T.M.2
Porter, S.E.3
Hoffman, M.G.4
Jaehning, J.A.5
-
36
-
-
78650039586
-
RNA synthesis precision is regulated by preinitiation complex turnover
-
Poorey K, Sprouse RO, Wells MN, Viswanathan R, Bekiranov S, Auble DT. 2010. RNA synthesis precision is regulated by preinitiation complex turnover. Genome Res 20: 1679-1688.
-
(2010)
Genome Res
, vol.20
, pp. 1679-1688
-
-
Poorey, K.1
Sprouse, R.O.2
Wells, M.N.3
Viswanathan, R.4
Bekiranov, S.5
Auble, D.T.6
-
37
-
-
0033521569
-
Mutations in both the structured domain and N-terminus of histone H2B bypass the require- ment for swi-snf in yeast
-
Recht J, Osley MA. 1999. Mutations in both the structured domain and N-terminus of histone H2B bypass the require- ment for swi-snf in yeast. EMBO J 18: 229-240.
-
(1999)
EMBO J
, vol.18
, pp. 229-240
-
-
Recht, J.1
Osley, M.A.2
-
38
-
-
8644287437
-
Evidence for eviction and rapid deposition of histones upon transcriptional elongation by RNA polymerase II
-
Schwabish MA, Struhl K. 2004. Evidence for eviction and rapid deposition of histones upon transcriptional elongation by RNA polymerase II. Mol Cell Biol 24: 10111-10117.
-
(2004)
Mol Cell Biol
, vol.24
, pp. 10111-10117
-
-
Schwabish, M.A.1
Struhl, K.2
-
39
-
-
26944479278
-
A requirement for the Saccharomyces cerevisiae Paf1 complex in snoRNA 39 end formation
-
Sheldon KE, Mauger DM, Arndt KM. 2005. A requirement for the Saccharomyces cerevisiae Paf1 complex in snoRNA 39 end formation. Mol Cell 20: 225-236.
-
(2005)
Mol Cell
, vol.20
, pp. 225-236
-
-
Sheldon, K.E.1
Mauger, D.M.2
Arndt, K.M.3
-
40
-
-
1542328270
-
Transcriptional elongation control by RNA polymerase II: A new frontier
-
Shilatifard A. 2004. Transcriptional elongation control by RNA polymerase II: a new frontier. Biochim Biophys Acta 1677: 79-86.
-
(2004)
Biochim Biophys Acta
, vol.1677
, pp. 79-86
-
-
Shilatifard, A.1
-
41
-
-
65849197550
-
Mutations to the histone H3 a N region selectively alter the outcome of ATP-dependent nucleosome-remodelling reactions
-
Somers J, Owen-Hughes T. 2009. Mutations to the histone H3 a N region selectively alter the outcome of ATP-dependent nucleosome-remodelling reactions. Nucleic Acids Res 37: 2504-2513.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 2504-2513
-
-
Somers, J.1
Owen-Hughes, T.2
-
42
-
-
0018581187
-
Involvement of histone H1 in the organization of the nucleosome and of the salt- dependent superstructures of chromatin
-
Thoma F, Koller T, Klug A. 1979. Involvement of histone H1 in the organization of the nucleosome and of the salt- dependent superstructures of chromatin. J Cell Biol 83: 403-427.
-
(1979)
J Cell Biol
, vol.83
, pp. 403-427
-
-
Thoma, F.1
Koller, T.2
Klug, A.3
-
43
-
-
77953727152
-
Structural characterization of H3K56Q nucleosomes and nucleosomal arrays
-
Watanabe S, Resch M, Lilyestrom W, Clark N, Hansen JC, Peterson C, Luger K. 2010. Structural characterization of H3K56Q nucleosomes and nucleosomal arrays. Biochim Bio- phys Acta 1799: 480-486.
-
(2010)
Biochim Bio- Phys Acta
, vol.1799
, pp. 480-486
-
-
Watanabe, S.1
Resch, M.2
Lilyestrom, W.3
Clark, N.4
Hansen, J.C.5
Peterson, C.6
Luger, K.7
-
44
-
-
0035903534
-
Structure of the yeast nu- cleosome core particle reveals fundamental changes in inter- nucleosome interactions
-
White CL, Suto RK, Luger K. 2001. Structure of the yeast nu- cleosome core particle reveals fundamental changes in inter- nucleosome interactions. EMBO J 20: 5207-5218.
-
(2001)
EMBO J
, vol.20
, pp. 5207-5218
-
-
White, C.L.1
Suto, R.K.2
Luger, K.3
-
45
-
-
0042818412
-
The Paf1 complex is essential for histone monoubiquitina- tion by the Rad6-Bre1 complex, which signals for histone methylation by COMPASS and Dot1p
-
Wood A, Schneider J, Dover J, Johnston M, Shilatifard A. 2003. The Paf1 complex is essential for histone monoubiquitina- tion by the Rad6-Bre1 complex, which signals for histone methylation by COMPASS and Dot1p. J Biol Chem 278: 34739-34742.
-
(2003)
J Biol Chem
, vol.278
, pp. 34739-34742
-
-
Wood, A.1
Schneider, J.2
Dover, J.3
Johnston, M.4
Shilatifard, A.5
|