-
1
-
-
46249112085
-
Combinatorial patterns of histone acetylations and methylations in the human genome
-
Wang, Z., et al. Combinatorial patterns of histone acetylations and methylations in the human genome. Nat. Genet. 40, 897-903 (2008
-
(2008)
Nat. Genet
, vol.40
, pp. 897-903
-
-
Wang, Z.1
-
2
-
-
84937628573
-
Ctbp2 modulates NuRD-mediated deacetylation of H3K27 and facilitates PRC2-mediated H3K27me3 in active embryonic stem cell genes during exit from pluripotency
-
Kim, T.W., et al. Ctbp2 modulates NuRD-mediated deacetylation of H3K27 and facilitates PRC2-mediated H3K27me3 in active embryonic stem cell genes during exit from pluripotency. Stem Cells 33, 2442-2455 (2015
-
(2015)
Stem Cells
, vol.33
, pp. 2442-2455
-
-
Kim, T.W.1
-
3
-
-
78650758676
-
Histone H3K27ac separates active from poised enhancers and predicts developmental state
-
Creyghton, M.P., et al. Histone H3K27ac separates active from poised enhancers and predicts developmental state. Proc. Natl. Acad. Sci. USA 107, 21931-21936 (2010
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 21931-21936
-
-
Creyghton, M.P.1
-
4
-
-
79951516056
-
A unique chromatin signature uncovers early developmental enhancers in humans
-
Rada-Iglesias, A., et al. A unique chromatin signature uncovers early developmental enhancers in humans. Nature 470, 279-283 (2011
-
(2011)
Nature
, vol.470
, pp. 279-283
-
-
Rada-Iglesias, A.1
-
5
-
-
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
-
6
-
-
70349765673
-
A method for genetically installing site-specific acetylation in recombinant histones defines the effects of H3 K56 acetylation
-
Neumann, H., et al. A method for genetically installing site-specific acetylation in recombinant histones defines the effects of H3 K56 acetylation. Mol. Cell 36, 153-163 (2009
-
(2009)
Mol. Cell
, vol.36
, pp. 153-163
-
-
Neumann, H.1
-
7
-
-
84898765622
-
Acetylation of histone H3 at lysine 64 regulates nucleosome dynamics and facilitates transcription
-
Di Cerbo, V., et al. Acetylation of histone H3 at lysine 64 regulates nucleosome dynamics and facilitates transcription. eLife 3, e01632 (2014
-
(2014)
Elife
, vol.3
, pp. e01632
-
-
Di Cerbo, V.1
-
8
-
-
67650293314
-
H3K64 trimethylation marks heterochromatin and is dynamically remodeled during developmental reprogramming
-
Daujat, S., et al. H3K64 trimethylation marks heterochromatin and is dynamically remodeled during developmental reprogramming. Nat. Struct. Mol. Biol. 16, 777-781 (2009
-
(2009)
Nat. Struct. Mol. Biol
, vol.16
, pp. 777-781
-
-
Daujat, S.1
-
9
-
-
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
-
10
-
-
79961217626
-
Histone fold modifications control nucleosome unwrapping and disassembly
-
Simon, M., et al. Histone fold modifications control nucleosome unwrapping and disassembly. Proc. Natl. Acad. Sci. USA 108, 12711-12716 (2011
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 12711-12716
-
-
Simon, M.1
-
11
-
-
33847334699
-
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
-
Heintzman, N.D., et al. Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome. Nat. Genet. 39, 311-318 (2007
-
(2007)
Nat. Genet
, vol.39
, pp. 311-318
-
-
Heintzman, N.D.1
-
12
-
-
79955583542
-
Mapping and analysis of chromatin state dynamics in nine human cell types
-
Ernst, J., et al. Mapping and analysis of chromatin state dynamics in nine human cell types. Nature 473, 43-49 (2011
-
(2011)
Nature
, vol.473
, pp. 43-49
-
-
Ernst, J.1
-
13
-
-
84961200188
-
Chromatin and RNA maps reveal regulatory long noncoding RNAs in mouse
-
Bogu, G.K., et al. Chromatin and RNA maps reveal regulatory long noncoding RNAs in mouse. Mol. Cell. Biol. 36, 809-819 (2015
-
(2015)
Mol. Cell. Biol
, vol.36
, pp. 809-819
-
-
Bogu, G.K.1
-
14
-
-
77954738659
-
Roles for H2A.Z and its acetylation in GAL1 transcription and gene induction, but not GAL1-transcriptional memory
-
Halley, J.E., Kaplan, T., Wang, A.Y., Kobor, M.S., & Rine, J. Roles for H2A.Z and its acetylation in GAL1 transcription and gene induction, but not GAL1-transcriptional memory. PLoS Biol. 8, e1000401 (2010
-
(2010)
PLoS Biol
, vol.8
, pp. e1000401
-
-
Halley, J.E.1
Kaplan, T.2
Wang, A.Y.3
Kobor, M.S.4
Rine, J.5
-
15
-
-
84894066697
-
Trithorax monomethylates histone H3K4 and interacts directly with CBP to promote H3K27 acetylation and antagonize polycomb silencing
-
Tie, F., et al. Trithorax monomethylates histone H3K4 and interacts directly with CBP to promote H3K27 acetylation and antagonize Polycomb silencing. Development 141, 1129-1139 (2014
-
(2014)
Development
, vol.141
, pp. 1129-1139
-
-
Tie, F.1
-
16
-
-
84876216563
-
Master transcription factors and Mediator establish super-enhancers at key cell identity genes
-
Whyte, W.A., et al. Master transcription factors and Mediator establish super-enhancers at key cell identity genes. Cell 153, 307-319 (2013
-
(2013)
Cell
, vol.153
, pp. 307-319
-
-
Whyte, W.A.1
-
17
-
-
80051564877
-
Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions
-
Zentner, G.E., Tesar, P.J., & Scacheri, P.C. Epigenetic signatures distinguish multiple classes of enhancers with distinct cellular functions. Genome Res. 21, 1273-1283 (2011
-
(2011)
Genome Res
, vol.21
, pp. 1273-1283
-
-
Zentner, G.E.1
Tesar, P.J.2
Scacheri, P.C.3
-
18
-
-
84879260661
-
A double take on bivalent promoters
-
Voigt, P., Tee, W.W., & Reinberg, D. A double take on bivalent promoters. Genes Dev. 27, 1318-1338 (2013
-
(2013)
Genes Dev
, vol.27
, pp. 1318-1338
-
-
Voigt, P.1
Tee, W.W.2
Reinberg, D.3
-
19
-
-
84879049092
-
Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates
-
Long, H.K., et al. Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates. eLife 2, e00348 (2013
-
(2013)
Elife
, vol.2
, pp. e00348
-
-
Long, H.K.1
-
20
-
-
84897459814
-
An atlas of active enhancers across human cell types and tissues
-
Andersson, R., et al. An atlas of active enhancers across human cell types and tissues. Nature 507, 455-461 (2014
-
(2014)
Nature
, vol.507
, pp. 455-461
-
-
Andersson, R.1
-
21
-
-
84928942103
-
RNA exosome-regulated long non-coding RNA transcription controls super-enhancer activity
-
Pefanis, E., et al. RNA exosome-regulated long non-coding RNA transcription controls super-enhancer activity. Cell 161, 774-789 (2015
-
(2015)
Cell
, vol.161
, pp. 774-789
-
-
Pefanis, E.1
-
22
-
-
40249093059
-
A core Klf circuitry regulates self-renewal of embryonic stem cells
-
Jiang, J., et al. A core Klf circuitry regulates self-renewal of embryonic stem cells. Nat. Cell Biol. 10, 353-360 (2008
-
(2008)
Nat. Cell Biol
, vol.10
, pp. 353-360
-
-
Jiang, J.1
-
23
-
-
84873734105
-
RNA-guided human genome engineering via Cas9
-
Mali, P., et al. RNA-guided human genome engineering via Cas9. Science 339, 823-826 (2013
-
(2013)
Science
, vol.339
, pp. 823-826
-
-
Mali, P.1
-
24
-
-
84882976110
-
Optical control of mammalian endogenous transcription and epigenetic states
-
Konermann, S., et al. Optical control of mammalian endogenous transcription and epigenetic states. Nature 500, 472-476 (2013
-
(2013)
Nature
, vol.500
, pp. 472-476
-
-
Konermann, S.1
-
25
-
-
84890899433
-
H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction
-
Taylor, G.C., Eskeland, R., Hekimoglu-Balkan, B., Pradeepa, M.M., & Bickmore, W.A. H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compaction. Genome Res. 23, 2053-2065 (2013
-
(2013)
Genome Res
, vol.23
, pp. 2053-2065
-
-
Taylor, G.C.1
Eskeland, R.2
Hekimoglu-Balkan, B.3
Pradeepa, M.M.4
Bickmore, W.A.5
-
26
-
-
27144546434
-
A human protein complex homologous to the Drosophila MSL complex is responsible for the majority of histone H4 acetylation at lysine 16
-
Smith, E.R., et al. A human protein complex homologous to the Drosophila MSL complex is responsible for the majority of histone H4 acetylation at lysine 16. Mol. Cell. Biol. 25, 9175-9188 (2005
-
(2005)
Mol. Cell. Biol
, vol.25
, pp. 9175-9188
-
-
Smith, E.R.1
-
27
-
-
84864601941
-
The histone acetyltransferase MOF is a key regulator of the embryonic stem cell core transcriptional network
-
Li, X., et al. The histone acetyltransferase MOF is a key regulator of the embryonic stem cell core transcriptional network. Cell Stem Cell 11, 163-178 (2012
-
(2012)
Cell Stem Cell
, vol.11
, pp. 163-178
-
-
Li, X.1
-
28
-
-
84902652180
-
Mof-associated complexes have overlapping and unique roles in regulating pluripotency in embryonic stem cells and during differentiation
-
Ravens, S., et al. Mof-associated complexes have overlapping and unique roles in regulating pluripotency in embryonic stem cells and during differentiation. eLife 3, 1-23 (2014
-
(2014)
Elife
, vol.3
, pp. 1-23
-
-
Ravens, S.1
-
29
-
-
32444434989
-
Histone H4-K16 acetylation controls chromatin structure and protein interactions
-
Shogren-Knaak, M., et al. Histone H4-K16 acetylation controls chromatin structure and protein interactions. Science 311, 844-847 (2006
-
(2006)
Science
, vol.311
, pp. 844-847
-
-
Shogren-Knaak, M.1
-
30
-
-
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
-
31
-
-
0037313844
-
Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture
-
Ying, Q.-L., Stavridis, M., Griffiths, D., Li, M., & Smith, A. Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture. Nat. Biotechnol. 21, 183-186 (2003
-
(2003)
Nat. Biotechnol
, vol.21
, pp. 183-186
-
-
Ying, Q.-L.1
Stavridis, M.2
Griffiths, D.3
Li, M.4
Smith, A.5
-
32
-
-
84906244937
-
Psip1/Ledgf p75 restrains Hox gene expression by recruiting both trithorax and polycomb group proteins
-
Pradeepa, M.M., Grimes, G.R., Taylor, G.C., Sutherland, H.G., & Bickmore, W.A. Psip1/Ledgf p75 restrains Hox gene expression by recruiting both trithorax and polycomb group proteins. Nucleic Acids Res. 42, 9021-9032 (2014
-
(2014)
Nucleic Acids Res
, vol.42
, pp. 9021-9032
-
-
Pradeepa, M.M.1
Grimes, G.R.2
Taylor, G.C.3
Sutherland, H.G.4
Bickmore, W.A.5
-
33
-
-
84880018266
-
Multiplexed Illumina sequencing libraries from picogram quantities of DNA
-
Bowman, S.K., et al. Multiplexed Illumina sequencing libraries from picogram quantities of DNA. BMC Genomics 14, 466 (2013
-
(2013)
BMC Genomics
, vol.14
, pp. 466
-
-
Bowman, S.K.1
-
34
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
Langmead, B., Trapnell, C., Pop, M., & Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009
-
(2009)
Genome Biol
, vol.10
, pp. R25
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
35
-
-
67650711619
-
A clustering approach for identification of enriched domains from histone modification ChIP-Seq data
-
Zang, C., et al. A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics 25, 1952-1958 (2009
-
(2009)
Bioinformatics
, vol.25
, pp. 1952-1958
-
-
Zang, C.1
-
36
-
-
77952567987
-
Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
-
Heinz, S., et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38, 576-589 (2010
-
(2010)
Mol. Cell
, vol.38
, pp. 576-589
-
-
Heinz, S.1
-
37
-
-
84899493057
-
Ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases
-
Shen, L., Shao, N., Liu, X., & Nestler, E. ngs.plot: quick mining and visualization of next-generation sequencing data by integrating genomic databases. BMC Genomics 15, 284 (2014
-
(2014)
BMC Genomics
, vol.15
, pp. 284
-
-
Shen, L.1
Shao, N.2
Liu, X.3
Nestler, E.4
-
38
-
-
55449105221
-
Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains
-
Ku, M., et al. Genomewide analysis of PRC1 and PRC2 occupancy identifies two classes of bivalent domains. PLoS Genet. 4, e1000242 (2008
-
(2008)
PLoS Genet
, vol.4
, pp. e1000242
-
-
Ku, M.1
-
39
-
-
84900988020
-
Deep tools: A flexible platform for exploring deep-sequencing data
-
Ramírez, F., Dündar, F., Diehl, S., Grüning, B.A., & Manke, T. deepTools: a flexible platform for exploring deep-sequencing data. Nucleic Acids Res. 42, W187-W191 (2014
-
(2014)
Nucleic Acids Res
, vol.42
, pp. W187-W191
-
-
Ramírez, F.1
Dündar, F.2
Diehl, S.3
Grüning, B.A.4
Manke, T.5
-
40
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
ENCODE Project Consortium
-
ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57-74 (2012
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
-
41
-
-
77951770756
-
BEDTools: A flexible suite of utilities for comparing genomic features
-
Quinlan, A.R., & Hall, I.M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841-842 (2010
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
42
-
-
53849146020
-
Model-based analysis of chip-seq (macs
-
Zhang, Y., et al. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 9, R137 (2008
-
(2008)
Genome Biol
, vol.9
, pp. R137
-
-
Zhang, Y.1
-
43
-
-
77952214662
-
GREAT improves functional interpretation of cis-regulatory regions
-
McLean, C.Y., et al. GREAT improves functional interpretation of cis-regulatory regions. Nat. Biotechnol. 28, 495-501 (2010
-
(2010)
Nat. Biotechnol
, vol.28
, pp. 495-501
-
-
McLean, C.Y.1
-
44
-
-
84887010498
-
Genome engineering using the CRISPR-Cas9 system
-
Ran, F.A., et al. Genome engineering using the CRISPR-Cas9 system. Nat. Protoc. 8, 2281-2308 (2013
-
(2013)
Nat. Protoc
, vol.8
, pp. 2281-2308
-
-
Ran, F.A.1
-
45
-
-
84885180675
-
Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system
-
Cheng, A.W., et al. Multiplexed activation of endogenous genes by CRISPR-on, an RNA-guided transcriptional activator system. Cell Res. 23, 1163-1171 (2013
-
(2013)
Cell Res
, vol.23
, pp. 1163-1171
-
-
Cheng, A.W.1
-
46
-
-
84894063115
-
Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system
-
Chen, B., et al. Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system. Cell 155, 1479-1491 (2013
-
(2013)
Cell
, vol.155
, pp. 1479-1491
-
-
Chen, B.1
|