-
1
-
-
34250357662
-
The double bromodomain-containing chromatin adaptor Brd4 and transcriptional regulation
-
Wu, S. Y.&Chiang, C. M. The double bromodomain-containing chromatin adaptor Brd4 and transcriptional regulation. J. Biol. Chem. 282, 13141-13145 (2007).
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 13141-13145
-
-
Wu, S.Y.1
Chiang, C.M.2
-
2
-
-
0033842522
-
A bromodomain protein, MCAP, associates with mitotic chromosomes and affects G2-to-M transition
-
Dey, A. et al. A bromodomain protein, MCAP, associates with mitotic chromosomes and affects G2-to-M transition. Mol. Cell. Biol. 20, 6537-6549 (2000).
-
(2000)
Mol. Cell. Biol.
, vol.20
, pp. 6537-6549
-
-
Dey, A.1
-
3
-
-
84878972552
-
The bromodomain protein Brd4 insulates chromatin from DNA damage signalling
-
Floyd, S. R. et al. The bromodomain protein Brd4 insulates chromatin from DNA damage signalling. Nature 498, 246-250 (2013).
-
(2013)
Nature
, vol.498
, pp. 246-250
-
-
Floyd, S.R.1
-
4
-
-
73949087197
-
Brd4 marks select genes on mitotic chromatin and directs postmitotic transcription
-
Dey, A., Nishiyama, A., Karpova, T., McNally, J.&Ozato, K. Brd4 marks select genes on mitotic chromatin and directs postmitotic transcription. Mol. Biol. Cell 20, 4899-4909 (2009).
-
(2009)
Mol. Biol. Cell
, vol.20
, pp. 4899-4909
-
-
Dey, A.1
Nishiyama, A.2
Karpova, T.3
McNally, J.4
Ozato, K.5
-
5
-
-
84875507786
-
Mitotic bookmarking by transcription factors
-
Kadauke, S.&Blobel, G. A. Mitotic bookmarking by transcription factors. Epigenetics Chromatin 6, 6 (2013).
-
(2013)
Epigenetics Chromatin
, vol.6
, pp. 6
-
-
Kadauke, S.1
Blobel, G.A.2
-
6
-
-
42049095157
-
The bromodomain protein Brd4 stimulates G1 gene transcription and promotes progression to S phase
-
Mochizuki, K. et al. The bromodomain protein Brd4 stimulates G1 gene transcription and promotes progression to S phase. J. Biol. Chem. 283, 9040-9048 (2008).
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 9040-9048
-
-
Mochizuki, K.1
-
7
-
-
84876855540
-
Phospho switch triggers Brd4 chromatin binding and activator recruitment for gene-specific targeting
-
Wu, S. Y., Lee, A. Y., Lai, H. T., Zhang, H.&Chiang, C. M. Phospho switch triggers Brd4 chromatin binding and activator recruitment for gene-specific targeting. Mol. Cell 49, 843-857 (2013).
-
(2013)
Mol. Cell
, vol.49
, pp. 843-857
-
-
Wu, S.Y.1
Lee, A.Y.2
Lai, H.T.3
Zhang, H.4
Chiang, C.M.5
-
8
-
-
70249141638
-
Regulation of aurora B expression by the bromodomain protein Brd4
-
You, J. et al. Regulation of aurora B expression by the bromodomain protein Brd4. Mol. Cell. Biol. 29, 5094-5103 (2009).
-
(2009)
Mol. Cell. Biol.
, vol.29
, pp. 5094-5103
-
-
You, J.1
-
9
-
-
84876222028
-
Selective inhibition of tumor oncogenes by disruption of super-enhancers
-
Lovén, J. et al. Selective inhibition of tumor oncogenes by disruption of super-enhancers. Cell 153, 320-334 (2013).
-
(2013)
Cell
, vol.153
, pp. 320-334
-
-
Lovén, J.1
-
10
-
-
77956392623
-
Brd4 engagement from chromatin targeting to transcriptional regulation: Selective contact with acetylated histone H3 and H4
-
Chiang, C. M. Brd4 engagement from chromatin targeting to transcriptional regulation: selective contact with acetylated histone H3 and H4. F1000 Biol. Rep. 1, 98 (2009).
-
(2009)
F1000 Biol. Rep.
, vol.1
, pp. 98
-
-
Chiang, C.M.1
-
11
-
-
84860832960
-
BRD4 is an atypical kinase that phosphorylates serine2 of the RNA polymerase II carboxy-terminal domain
-
Devaiah, B. N. et al. BRD4 is an atypical kinase that phosphorylates serine2 of the RNA polymerase II carboxy-terminal domain. Proc. Natl. Acad. Sci. USA 109, 6927-6932 (2012).
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 6927-6932
-
-
Devaiah, B.N.1
-
12
-
-
84869054253
-
Cross-talk among RNA polymerase II kinases modulates C-terminal domain phosphorylation
-
Devaiah, B. N.&Singer, D. S. Cross-talk among RNA polymerase II kinases modulates C-terminal domain phosphorylation. J. Biol. Chem. 287, 38755-38766 (2012).
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 38755-38766
-
-
Devaiah, B.N.1
Singer, D.S.2
-
13
-
-
0032030770
-
Histone acetylation and transcriptional regulatory mechanisms
-
Struhl, K. Histone acetylation and transcriptional regulatory mechanisms. Genes Dev. 12, 599-606 (1998).
-
(1998)
Genes Dev.
, vol.12
, pp. 599-606
-
-
Struhl, K.1
-
14
-
-
33947536338
-
Simple histone acetylation plays a complex role in the regulation of gene expression
-
Fukuda, H., Sano, N., Muto, S.&Horikoshi, M. Simple histone acetylation plays a complex role in the regulation of gene expression. Brief Funct. Genomic. Proteomic. 5, 190-208 (2006).
-
(2006)
Brief Funct. Genomic. Proteomic.
, vol.5
, pp. 190-208
-
-
Fukuda, H.1
Sano, N.2
Muto, S.3
Horikoshi, M.4
-
15
-
-
0034051227
-
Acetylation of histones and transcription-related factors
-
Sterner, D. E.&Berger, S. L. Acetylation of histones and transcription-related factors. Microbiol. Mol. Biol. Rev. 64, 435-459 (2000).
-
(2000)
Microbiol. Mol. Biol. Rev.
, vol.64
, pp. 435-459
-
-
Sterner, D.E.1
Berger, S.L.2
-
16
-
-
33847076849
-
Chromatin modifications and their function
-
Kouzarides, T. Chromatin modifications and their function. Cell 128, 693-705 (2007).
-
(2007)
Cell
, vol.128
, pp. 693-705
-
-
Kouzarides, T.1
-
17
-
-
0034610814
-
The language of covalent histone modifications
-
Strahl, B. D.&Allis, C. D. The language of covalent histone modifications. Nature 403, 41-45 (2000).
-
(2000)
Nature
, vol.403
, pp. 41-45
-
-
Strahl, B.D.1
Allis, C.D.2
-
18
-
-
0041806599
-
The double bromodomain protein Brd4 binds to acetylated chromatin during interphase and mitosis
-
Dey, A., Chitsaz, F., Abbasi, A., Misteli, T.&Ozato, K. The double bromodomain protein Brd4 binds to acetylated chromatin during interphase and mitosis. Proc. Natl. Acad. Sci. USA 100, 8758-8763 (2003).
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 8758-8763
-
-
Dey, A.1
Chitsaz, F.2
Abbasi, A.3
Misteli, T.4
Ozato, K.5
-
19
-
-
84878924943
-
Scratching the (lateral) surface of chromatin regulation by histone modifications
-
Tropberger, P.&Schneider, R. Scratching the (lateral) surface of chromatin regulation by histone modifications. Nat. Struct. Mol. Biol. 20, 657-661 (2013).
-
(2013)
Nat. Struct. Mol. Biol.
, vol.20
, pp. 657-661
-
-
Tropberger, P.1
Schneider, R.2
-
20
-
-
84874031676
-
Regulation of transcription through acetylation of H3K122 on the lateral surface of the histone octamer
-
Tropberger, P. et al. Regulation of transcription through acetylation of H3K122 on the lateral surface of the histone octamer. Cell 152, 859-872 (2013).
-
(2013)
Cell
, vol.152
, pp. 859-872
-
-
Tropberger, P.1
-
21
-
-
78650806593
-
Suppression of inflammation by a synthetic histone mimic
-
Nicodeme, E. et al. Suppression of inflammation by a synthetic histone mimic. Nature 468, 1119-1123 (2010).
-
(2010)
Nature
, vol.468
, pp. 1119-1123
-
-
Nicodeme, E.1
-
22
-
-
31944442800
-
Brd4 is required for recovery from antimicrotubule drug-induced mitotic arrest: Preservation of acetylated chromatin
-
Nishiyama, A., Dey, A., Miyazaki, J.&Ozato, K. Brd4 is required for recovery from antimicrotubule drug-induced mitotic arrest: preservation of acetylated chromatin. Mol. Biol. Cell 17, 814-823 (2006).
-
(2006)
Mol. Biol. Cell
, vol.17
, pp. 814-823
-
-
Nishiyama, A.1
Dey, A.2
Miyazaki, J.3
Ozato, K.4
-
23
-
-
0035851143
-
Regulation of global acetylation in mitosis through loss of histone acetyltransferases and deacetylases from chromatin
-
Kruhlak, M. J. et al. Regulation of global acetylation in mitosis through loss of histone acetyltransferases and deacetylases from chromatin. J. Biol. Chem. 276, 38307-38319 (2001).
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 38307-38319
-
-
Kruhlak, M.J.1
-
24
-
-
80455122751
-
Gene bookmarking accelerates the kinetics of post-mitotic transcriptional re-activation
-
Zhao, R., Nakamura, T., Fu, Y., Lazar, Z.&Spector, D. L. Gene bookmarking accelerates the kinetics of post-mitotic transcriptional re-activation. Nat. Cell Biol. 13, 1295-1304 (2011).
-
(2011)
Nat. Cell Biol.
, vol.13
, pp. 1295-1304
-
-
Zhao, R.1
Nakamura, T.2
Fu, Y.3
Lazar, Z.4
Spector, D.L.5
-
25
-
-
84921906969
-
Mechanistic analysis of the role of bromodomain-containing protein 4 (BRD4) in BRD4-NUT oncoprotein-induced transcriptional activation
-
Wang, R.&You, J. Mechanistic analysis of the role of bromodomain-containing protein 4 (BRD4) in BRD4-NUT oncoprotein-induced transcriptional activation. J. Biol. Chem. 290, 2744-2758 (2015).
-
(2015)
J. Biol. Chem.
, vol.290
, pp. 2744-2758
-
-
Wang, R.1
You, J.2
-
26
-
-
0032555689
-
Structure of the histone acetyltransferase Hat1: A paradigm for the GCN5-related N-acetyltransferase superfamily
-
Dutnall, R. N., Tafrov, S. T., Sternglanz, R.&Ramakrishnan, V. Structure of the histone acetyltransferase Hat1: A paradigm for the GCN5-related N-acetyltransferase superfamily. Cell 94, 427-438 (1998).
-
(1998)
Cell
, vol.94
, pp. 427-438
-
-
Dutnall, R.N.1
Tafrov, S.T.2
Sternglanz, R.3
Ramakrishnan, V.4
-
27
-
-
78650847770
-
Selective inhibition of BET bromodomains
-
Filippakopoulos, P. et al. Selective inhibition of BET bromodomains. Nature 468, 1067-1073 (2010).
-
(2010)
Nature
, vol.468
, pp. 1067-1073
-
-
Filippakopoulos, P.1
-
28
-
-
77953996284
-
Tuning acetylated chromatin with HAT inhibitors: A novel tool for therapy
-
Vernarecci, S., Tosi, F.&Filetici, P. Tuning acetylated chromatin with HAT inhibitors: A novel tool for therapy. Epigenetics 5, 105-111 (2010).
-
(2010)
Epigenetics
, vol.5
, pp. 105-111
-
-
Vernarecci, S.1
Tosi, F.2
Filetici, P.3
-
29
-
-
84872783461
-
Histone acetylation regulates intracellular pH
-
McBrian, M. A. et al. Histone acetylation regulates intracellular pH. Mol. Cell 49, 310-321 (2013).
-
(2013)
Mol. Cell
, vol.49
, pp. 310-321
-
-
McBrian, M.A.1
-
30
-
-
84881179223
-
Measurement of acetylation turnover at distinct lysines in human histones identifies long-lived acetylation sites
-
Zheng, Y., Thomas, P. M.&Kelleher, N. L. Measurement of acetylation turnover at distinct lysines in human histones identifies long-lived acetylation sites. Nat. Commun. 4, 2203 (2013).
-
(2013)
Nat. Commun.
, vol.4
, pp. 2203
-
-
Zheng, Y.1
Thomas, P.M.2
Kelleher, N.L.3
-
31
-
-
84872174424
-
Two faces of brd4: Mitotic bookmark and transcriptional lynchpin
-
Devaiah, B. N.&Singer, D. S. Two faces of brd4: mitotic bookmark and transcriptional lynchpin. Transcription 4, 13-17 (2013).
-
(2013)
Transcription
, vol.4
, pp. 13-17
-
-
Devaiah, B.N.1
Singer, D.S.2
-
32
-
-
84964063194
-
RNA Polymerase II regulates Topoisomerase 1 activity to favor efficient transcription
-
Baranello, L. et al. RNA Polymerase II regulates Topoisomerase 1 activity to favor efficient transcription. Cell 165, 357-371 (2016).
-
(2016)
Cell
, vol.165
, pp. 357-371
-
-
Baranello, L.1
-
33
-
-
80052955256
-
BET bromodomain inhibition as a therapeutic strategy to target c-Myc
-
Delmore, J. E. et al. BET bromodomain inhibition as a therapeutic strategy to target c-Myc. Cell 146, 904-917 (2011).
-
(2011)
Cell
, vol.146
, pp. 904-917
-
-
Delmore, J.E.1
-
34
-
-
84871160931
-
Bromodomain-containing protein 4 (BRD4) regulates RNA polymerase II serine 2 phosphorylation in human CD4+ T cells
-
Zhang, W. et al. Bromodomain-containing protein 4 (BRD4) regulates RNA polymerase II serine 2 phosphorylation in human CD4+ T cells. J. Biol. Chem. 287, 43137-43155 (2012).
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 43137-43155
-
-
Zhang, W.1
-
35
-
-
84859479811
-
Bromodomain protein Brd4 associated with acetylated chromatin is important for maintenance of higher-order chromatin structure
-
Wang, R., Li, Q., Helfer, C. M., Jiao, J.&You, J. Bromodomain protein Brd4 associated with acetylated chromatin is important for maintenance of higher-order chromatin structure. J. Biol. Chem. 287, 10738-10752 (2012).
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 10738-10752
-
-
Wang, R.1
Li, Q.2
Helfer, C.M.3
Jiao, J.4
You, J.5
-
36
-
-
84869065150
-
Chromothripsis: Chromosomes in crisis
-
Jones, M. J.&Jallepalli, P. V. Chromothripsis: chromosomes in crisis. Dev. Cell 23, 908-917 (2012).
-
(2012)
Dev. Cell
, vol.23
, pp. 908-917
-
-
Jones, M.J.1
Jallepalli, P.V.2
-
37
-
-
84894579192
-
Brd4 and JMJD6-associated anti-pause enhancers in regulation of transcriptional pause release
-
Liu, W. et al. Brd4 and JMJD6-associated anti-pause enhancers in regulation of transcriptional pause release. Cell 155, 1581-1595 (2013).
-
(2013)
Cell
, vol.155
, pp. 1581-1595
-
-
Liu, W.1
-
38
-
-
78649828790
-
Novel functions for TAF7, a regulator of TAF1-independent transcription
-
Devaiah, B. N. et al. Novel functions for TAF7, a regulator of TAF1-independent transcription. J. Biol. Chem. 285, 38772-38780 (2010).
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 38772-38780
-
-
Devaiah, B.N.1
-
39
-
-
23944525341
-
Assays for mechanistic investigations of protein/histone acetyltransferases
-
Berndsen, C. E.&Denu, J. M. Assays for mechanistic investigations of protein/histone acetyltransferases. Methods 36, 321-331 (2005).
-
(2005)
Methods
, vol.36
, pp. 321-331
-
-
Berndsen, C.E.1
Denu, J.M.2
-
40
-
-
0030447943
-
The TAF(II)250 subunit of TFIID has histone acetyltransferase activity
-
Mizzen, C. A. et al. The TAF(II)250 subunit of TFIID has histone acetyltransferase activity. Cell 87, 1261-1270 (1996).
-
(1996)
Cell
, vol.87
, pp. 1261-1270
-
-
Mizzen, C.A.1
-
41
-
-
57349162149
-
Histone modifications, but not nucleosomal positioning, correlate with major histocompatibility complex class i promoter activity in different tissues in vivo
-
Kotekar, A. S., Weissman, J. D., Gegonne, A., Cohen, H.&Singer, D. S. Histone modifications, but not nucleosomal positioning, correlate with major histocompatibility complex class I promoter activity in different tissues in vivo. Mol. Cell. Biol. 28, 7323-7336 (2008).
-
(2008)
Mol. Cell. Biol.
, vol.28
, pp. 7323-7336
-
-
Kotekar, A.S.1
Weissman, J.D.2
Gegonne, A.3
Cohen, H.4
Singer, D.S.5
-
42
-
-
84904811353
-
Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription
-
Nagarajan, S. et al. Bromodomain protein BRD4 is required for estrogen receptor-dependent enhancer activation and gene transcription. Cell Rep. 8, 460-469 (2014).
-
(2014)
Cell Rep.
, vol.8
, pp. 460-469
-
-
Nagarajan, S.1
-
43
-
-
84891953718
-
Discovery and characterization of super-enhancer-associated dependencies in diffuse large B cell lymphoma
-
Chapuy, B. et al. Discovery and characterization of super-enhancer-associated dependencies in diffuse large B cell lymphoma. Cancer Cell 24, 777-790 (2013).
-
(2013)
Cancer Cell
, vol.24
, pp. 777-790
-
-
Chapuy, B.1
-
44
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
Langmead, B.&Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357-359 (2012).
-
(2012)
Nat. Methods
, vol.9
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
45
-
-
84855866161
-
Genome-wide approaches to determining nucleosome occupancy in metazoans using MNase-Seq
-
Cui, K.&Zhao, K. Genome-wide approaches to determining nucleosome occupancy in metazoans using MNase-Seq. Methods Mol. Biol. 833, 413-419 (2012).
-
(2012)
Methods Mol. Biol.
, vol.833
, pp. 413-419
-
-
Cui, K.1
Zhao, K.2
-
46
-
-
84890081976
-
Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM
-
Li, H. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. Preprint at http://arxiv. org/abs/1303. 3997 (2013).
-
(2013)
Preprint at
-
-
Li, H.1
-
47
-
-
84873351389
-
DANPOS: Dynamic analysis of nucleosome position and occupancy by sequencing
-
Chen, K. et al. DANPOS: dynamic analysis of nucleosome position and occupancy by sequencing. Genome Res. 23, 341-351 (2013).
-
(2013)
Genome Res.
, vol.23
, pp. 341-351
-
-
Chen, K.1
-
48
-
-
84865508655
-
Genome-wide mapping of nucleosome occupancy, histone modifications, and gene expression using next-generation sequencing technology
-
Wei, G., Hu, G., Cui, K.&Zhao, K. Genome-wide mapping of nucleosome occupancy, histone modifications, and gene expression using next-generation sequencing technology. Methods Enzymol. 513, 297-313 (2012).
-
(2012)
Methods Enzymol.
, vol.513
, pp. 297-313
-
-
Wei, G.1
Hu, G.2
Cui, K.3
Zhao, K.4
-
49
-
-
65449136284
-
TopHat: Discovering splice junctions with RNA-Seq
-
Trapnell, C., Pachter, L.&Salzberg, S. L. TopHat: discovering splice junctions with RNA-Seq. Bioinformatics 25, 1105-1111 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
50
-
-
79959671356
-
SeqGene: A comprehensive software solution for mining exome-and transcriptome-sequencing data
-
Deng, X. SeqGene: A comprehensive software solution for mining exome-and transcriptome-sequencing data. BMC Bioinformatics 12, 267 (2011).
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 267
-
-
Deng, X.1
|